Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold498
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: 1804022
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
File 5 of 17
Found at i:412080 original size:20 final size:21
Alignment explanation
Indices: 412035--412082 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
412025 TATAAATTTT
412035 TAATATATTAAAATTAATATA
1 TAATATATTAAAATTAATATA
* *
412056 AAATAT-TTTAAATATAAT-TA
1 TAATATATTAAAAT-TAATATA
412076 TAATATA
1 TAATATA
412083 ATATAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAATATATTAAAATTAATATA
Found at i:412293 original size:18 final size:18
Alignment explanation
Indices: 412272--412424 Score: 77
Period size: 18 Copynumber: 8.3 Consensus size: 18
412262 ATGTAATATT
412272 TAATATTTAATAAAATTA
1 TAATATTTAATAAAATTA
412290 TAATATTTAATAAAAAATTA
1 TAATATTTAAT--AAAATTA
* * *
412310 CATTATTATATTAAAATTA
1 TAATATT-TAATAAAATTA
* *
412329 TTACATTTTATAATTAAATTA
1 -TA-ATATT-TAATAAAATTA
* **
412350 -AATATTAAATATTA-TA
1 TAATATTTAATAAAATTA
*
412366 TTAATATTTATTTAATAA-TA
1 -TAATATTTA-ATAA-AATTA
*
412386 TTAATA--TAA-AAATTTA
1 -TAATATTTAATAAAATTA
412402 T-ATATTTAATAAAATTA
1 TAATATTTAATAAAATTA
412419 TAATAT
1 TAATAT
412425 AAATCTATTT
Statistics
Matches: 101, Mismatches: 20, Indels: 28
0.68 0.13 0.19
Matches are distributed among these distances:
14 3 0.03
15 2 0.02
16 9 0.09
17 11 0.11
18 28 0.28
19 10 0.10
20 22 0.22
21 16 0.16
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATATTTAATAAAATTA
Found at i:412356 original size:39 final size:39
Alignment explanation
Indices: 412273--412360 Score: 92
Period size: 39 Copynumber: 2.3 Consensus size: 39
412263 TGTAATATTT
*
412273 AATATT-TAATAAAATTATAATATTTAATAAAAAATTAC
1 AATATTATAATAAAATTATAACATTTAATAAAAAATTAC
* * * * *
412311 ATTATTATATTAAAATTATTACATTTTATAATTAAATTA-
1 AATATTATAATAAAATTATAACATTTAATAA-AAAATTAC
412350 AATATTA-AATA
1 AATATTATAATA
412361 TTATATTAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
38 8 0.20
39 26 0.65
40 6 0.15
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (39 bp):
AATATTATAATAAAATTATAACATTTAATAAAAAATTAC
Found at i:412702 original size:48 final size:47
Alignment explanation
Indices: 412634--412741 Score: 171
Period size: 48 Copynumber: 2.3 Consensus size: 47
412624 ACAATTTAAG
* *
412634 AAAAAAAAAGAAAAAAAGAATCCTTAGTAAATTAAAAATTAAAAACGA
1 AAAAAAAAAGAAAAAAAGAATCCTGAGGAAATTAAAAATTAAAAAC-A
412682 AAAAAAAAAGAAAAAAAGAATCCTGAGGAAATTAAAAATTAAAAACA
1 AAAAAAAAAGAAAAAAAGAATCCTGAGGAAATTAAAAATTAAAAACA
* *
412729 AAATAAAAGGAAA
1 AAAAAAAAAGAAA
412742 TTCAAAGTCT
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
47 12 0.21
48 44 0.79
ACGTcount: A:0.70, C:0.06, G:0.10, T:0.14
Consensus pattern (47 bp):
AAAAAAAAAGAAAAAAAGAATCCTGAGGAAATTAAAAATTAAAAACA
Found at i:413022 original size:5 final size:5
Alignment explanation
Indices: 413012--413071 Score: 59
Period size: 5 Copynumber: 11.4 Consensus size: 5
413002 ACTCAGATAT
* *
413012 TTTAA TTTAA TTTGAA TTTAA TTTAA TTATTAA -TAAA TTAAA TTTTAA
1 TTTAA TTTAA TTT-AA TTTAA TTTAA -T-TTAA TTTAA TTTAA -TTTAA
413060 TTTAA TTTAA TT
1 TTTAA TTTAA TT
413072 ATTAAATAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
4 3 0.06
5 31 0.65
6 10 0.21
7 4 0.08
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (5 bp):
TTTAA
Found at i:413029 original size:11 final size:10
Alignment explanation
Indices: 413012--413071 Score: 59
Period size: 11 Copynumber: 5.7 Consensus size: 10
413002 ACTCAGATAT
413012 TTTAATTTAA
1 TTTAATTTAA
413022 TTTGAATTTAA
1 TTT-AATTTAA
413033 TTTAATTATTAA
1 TTTAA-T-TTAA
* *
413045 -TAAATTAAA
1 TTTAATTTAA
413054 TTTTAATTTAA
1 -TTTAATTTAA
413065 TTTAATT
1 TTTAATT
413072 ATTAAATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
9 3 0.07
10 13 0.32
11 21 0.51
12 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (10 bp):
TTTAATTTAA
Found at i:413031 original size:16 final size:16
Alignment explanation
Indices: 413012--413076 Score: 78
Period size: 16 Copynumber: 4.0 Consensus size: 16
413002 ACTCAGATAT
*
413012 TTTAATTTAATTTGAA
1 TTTAATTTAATTTTAA
413028 TTTAATTTAATTATTAA
1 TTTAATTTAATT-TTAA
* *
413045 -TAAATTAAATTTTAA
1 TTTAATTTAATTTTAA
413060 TTTAATTTAATTATTAA
1 TTTAATTTAATT-TTAA
413077 ATAAATTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
15 4 0.10
16 30 0.73
17 7 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
TTTAATTTAATTTTAA
Found at i:413056 original size:32 final size:33
Alignment explanation
Indices: 413015--413089 Score: 125
Period size: 32 Copynumber: 2.3 Consensus size: 33
413005 CAGATATTTT
*
413015 AATTTAATTTGAATTTAATTTAATTATT-AATA
1 AATTAAATTTGAATTTAATTTAATTATTAAATA
*
413047 AATTAAATTTTAATTTAATTTAATTATTAAATA
1 AATTAAATTTGAATTTAATTTAATTATTAAATA
413080 AATTAAATTT
1 AATTAAATTT
413090 AAATATTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 26 0.65
33 14 0.35
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (33 bp):
AATTAAATTTGAATTTAATTTAATTATTAAATA
Found at i:413088 original size:22 final size:22
Alignment explanation
Indices: 413058--413101 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
413048 ATTAAATTTT
* *
413058 AATTTAATTTAATTATTAAATA
1 AATTAAATTTAAATATTAAATA
*
413080 AATTAAATTTAAATATTTAATA
1 AATTAAATTTAAATATTAAATA
413102 TTTAACTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATTAAATTTAAATATTAAATA
Found at i:413741 original size:2 final size:2
Alignment explanation
Indices: 413734--413772 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
413724 CCTGGAAAAC
*
413734 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
413773 ATTTGAAGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:414196 original size:2 final size:2
Alignment explanation
Indices: 414189--414218 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
414179 TTAAAAATTC
414189 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
414219 AAACATTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:414339 original size:2 final size:2
Alignment explanation
Indices: 414328--414373 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
414318 ACCTAAGAGT
414328 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
414369 TA TA T
1 TA TA T
414374 TATTACAAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:417678 original size:2 final size:2
Alignment explanation
Indices: 417671--417695 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
417661 ACTTCCTAGG
417671 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
417696 GGGAAGGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:417839 original size:111 final size:107
Alignment explanation
Indices: 417641--417859 Score: 323
Period size: 111 Copynumber: 2.0 Consensus size: 107
417631 TAAGAGAGCA
*
417641 GTTTTACCTGCAAACATTTGACTTCCTAGGGAGAGAGAGAGAGAGAGAGAGAGAGGGGAAGGGAA
1 GTTTTACCTGCAAACATTTGACTTCCTAGAGAGAGAGAGAGAGAGAGAGAGAGAGGGGAAGGGAA
* *
417706 GGGAAGGAATGCAAAGCAAAACAGTAAGATGTCACCTATGTT
66 GGGAAGGAATGCAAAGCAAAACAATAAGATGCCACCTATGTT
* *
417748 GTTTTACCTGCAAACATTTTAGACTTCTTAGAGAGAGAGAGATAGAGAGAGAGAGAGGAGG-AGG
1 GTTTTACCTGCAAACA-TTT-GACTTCCTAGAGAGAGAGAGAGAGAGAGAGAGAGAGG-GGAAGG
* *
417812 AGGAGGAGAAGGAATGCAAAGCAAAACAATAAGATGCCAGCTATGTT
63 -GAAGG-GAAGGAATGCAAAGCAAAACAATAAGATGCCACCTATGTT
417859 G
1 G
417860 ATTCTTTATT
Statistics
Matches: 100, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
107 16 0.16
108 3 0.03
109 37 0.37
110 6 0.06
111 38 0.38
ACGTcount: A:0.38, C:0.11, G:0.32, T:0.18
Consensus pattern (107 bp):
GTTTTACCTGCAAACATTTGACTTCCTAGAGAGAGAGAGAGAGAGAGAGAGAGAGGGGAAGGGAA
GGGAAGGAATGCAAAGCAAAACAATAAGATGCCACCTATGTT
Found at i:420818 original size:32 final size:31
Alignment explanation
Indices: 420777--420855 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 31
420767 ATTAGGTGAA
420777 TTAAA-TTAAATTAATTTGAGTTTTTAAAT-TT
1 TTAAATTTAAATTAATTTGA--TTTTAAATATT
* * * *
420808 TTAAGTTTAAATTATTTTTATTTTAATTGATT
1 TTAAATTTAAATTAATTTGATTTTAAAT-ATT
420840 TTAAATTTAAATTAAT
1 TTAAATTTAAATTAAT
420856 AAAATTTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
30 7 0.18
31 4 0.10
32 28 0.72
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (31 bp):
TTAAATTTAAATTAATTTGATTTTAAATATT
Found at i:420825 original size:16 final size:15
Alignment explanation
Indices: 420806--420853 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
420796 GTTTTTAAAT
420806 TTTTAAGTTTAAATTA
1 TTTTAA-TTTAAATTA
* *
420822 TTTTTATTTTAATTGA
1 TTTTAATTTAAATT-A
420838 TTTTAAATTTAAATTA
1 TTTT-AATTTAAATTA
420854 ATAAAATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 7 0.27
16 11 0.42
17 8 0.31
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (15 bp):
TTTTAATTTAAATTA
Found at i:420826 original size:17 final size:16
Alignment explanation
Indices: 420804--420853 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
420794 GAGTTTTTAA
420804 ATTTTTAAGTTTAAATT
1 ATTTTTAA-TTTAAATT
*
420821 ATTTTT-ATTTTAATT
1 ATTTTTAATTTAAATT
*
420836 GATTTTAAATTTAAATT
1 -ATTTTTAATTTAAATT
420853 A
1 A
420854 ATAAAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 7 0.25
16 7 0.25
17 14 0.50
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (16 bp):
ATTTTTAATTTAAATT
Found at i:420896 original size:24 final size:24
Alignment explanation
Indices: 420798--420897 Score: 66
Period size: 24 Copynumber: 4.2 Consensus size: 24
420788 TAATTTGAGT
*
420798 TTTTAAATTT-TTAAGTTTAAATTA
1 TTTTAAATTTATTAAATTT-AATTA
* * * *
420822 TTTTTATTTTAATTGATTTTAA--A
1 TTTTAAATTT-ATTAAATTTAATTA
* * *
420845 -TTTAAATTAATAAAATTTATACTA
1 TTTTAAATTTATTAAATTTA-ATTA
420869 -TTTAAATTTATTAAATTTAATTA
1 TTTTAAATTTATTAAATTTAATTA
420892 TTTTAA
1 TTTTAA
420898 GTTAAAATTA
Statistics
Matches: 57, Mismatches: 13, Indels: 12
0.70 0.16 0.15
Matches are distributed among these distances:
21 7 0.12
22 7 0.12
23 4 0.07
24 31 0.54
25 2 0.04
26 6 0.11
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTTAAATTTATTAAATTTAATTA
Found at i:420955 original size:11 final size:11
Alignment explanation
Indices: 420939--420964 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
420929 TTGTTTTTGA
420939 TCAAATTGGAT
1 TCAAATTGGAT
420950 TCAAATTGGAT
1 TCAAATTGGAT
420961 TCAA
1 TCAA
420965 GACAATTGAA
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:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (11 bp):
TCAAATTGGAT
Found at i:421464 original size:19 final size:18
Alignment explanation
Indices: 421430--421479 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
421420 TATATTATAT
421430 TTATATTT-ATATTTTT-
1 TTATATTTAATATTTTTA
421446 TATATATTTAATAATTTTTA
1 T-TATATTTAAT-ATTTTTA
421466 TTATATTT-ATATTT
1 TTATATTTAATATTT
421480 ACATGATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.03
17 11 0.37
18 4 0.13
19 13 0.43
20 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATATTTAATATTTTTA
Found at i:424225 original size:29 final size:28
Alignment explanation
Indices: 424181--424262 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 28
424171 AATAATTTAT
*
424181 ATTATATAAATTTTAATATATTTATATG
1 ATTATATTAATTTTAATATATTTATATG
* *
424209 ATTATATTATATTTTAATCAT-TTTTTATT
1 ATTATATTA-ATTTTAAT-ATATTTATATG
* *
424238 TTTATATTAATTTTATATTTATTTA
1 ATTATATTAATTTTA-ATATATTTA
424263 AATTTATTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
28 15 0.34
29 27 0.61
30 2 0.05
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (28 bp):
ATTATATTAATTTTAATATATTTATATG
Found at i:424251 original size:17 final size:16
Alignment explanation
Indices: 424231--424270 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
424221 TTTAATCATT
424231 TTTTATTTTTATATTAA
1 TTTTATTTTTAT-TTAA
*
424248 TTTTATATTTATTTAA
1 TTTTATTTTTATTTAA
*
424264 ATTTATT
1 TTTTATT
424271 AAATTTAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTATTTTTATTTAA
Found at i:424256 original size:19 final size:19
Alignment explanation
Indices: 424182--424257 Score: 52
Period size: 19 Copynumber: 4.0 Consensus size: 19
424172 ATAATTTATA
*
424182 TTATATAAATTTTAATATATT
1 TTATATTAATTTT-ATAT-TT
*
424203 TATATGATT-ATATTATA-TT
1 T-TAT-ATTAATTTTATATTT
* *
424222 TTA-A-TCATTTTTTATTT
1 TTATATTAATTTTATATTT
424239 TTATATTAATTTTATATTT
1 TTATATTAATTTTATATTT
424258 ATTTAAATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 14
0.68 0.10 0.22
Matches are distributed among these distances:
15 1 0.02
16 7 0.16
17 5 0.12
18 3 0.07
19 14 0.33
21 4 0.09
22 7 0.16
23 2 0.05
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (19 bp):
TTATATTAATTTTATATTT
Found at i:426026 original size:48 final size:49
Alignment explanation
Indices: 425948--426049 Score: 152
Period size: 48 Copynumber: 2.1 Consensus size: 49
425938 TTTACTATTT
* * * *
425948 TAAAAAATATTATTTTTATTTAATATTTATATAAATTTATAATTAAATG
1 TAAATAATAATATATTTATTTAATATTTATATAAATTTATAATTAAATA
*
425997 TAAATAATAATATATTTA-TTAATATTTATATAATTTTATAATTAAATA
1 TAAATAATAATATATTTATTTAATATTTATATAAATTTATAATTAAATA
426045 TAAAT
1 TAAAT
426050 TAATTCAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 33 0.69
49 15 0.31
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (49 bp):
TAAATAATAATATATTTATTTAATATTTATATAAATTTATAATTAAATA
Found at i:426069 original size:48 final size:47
Alignment explanation
Indices: 425967--426080 Score: 133
Period size: 48 Copynumber: 2.4 Consensus size: 47
425957 TTATTTTTAT
* *
425967 TTAATATTTATATAAATTTATAATTAAATGTAAATAATAATATATTTA
1 TTAATATTTATATAAATTTATAATTAAATATAAATAAT-ATATAATTA
*
426015 TTAATATTTATATAATTTTATAATTAAATATAAATTAAT-TCA-AATTA
1 TTAATATTTATATAAATTTATAATTAAATATAAA-TAATAT-ATAATTA
*
426062 TTAAATATTATATCTAAAT
1 TT-AATATT-TATATAAAT
426081 CCGAATTAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
47 7 0.12
48 39 0.68
49 11 0.19
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (47 bp):
TTAATATTTATATAAATTTATAATTAAATATAAATAATATATAATTA
Found at i:426548 original size:13 final size:15
Alignment explanation
Indices: 426525--426574 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 15
426515 TTAATTTAAA
426525 ATTTAATATAATT-T
1 ATTTAATATAATTAT
426539 ATTT-ATATAATTAT
1 ATTTAATATAATTAT
*
426553 ATTTTAA-AT-ATAAT
1 A-TTTAATATAATTAT
426567 ATTTAATA
1 ATTTAATA
426575 ATTTTAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
13 13 0.42
14 12 0.39
15 5 0.16
16 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTTAATATAATTAT
Found at i:426555 original size:14 final size:14
Alignment explanation
Indices: 426525--426577 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
426515 TTAATTTAAA
426525 ATTTAATATAATT-T
1 ATTT-ATATAATTAT
426539 ATTTATATAATTAT
1 ATTTATATAATTAT
426553 ATTT-TA-AATATAAT
1 ATTTATATAAT-T-AT
426567 ATTTA-ATAATT
1 ATTTATATAATT
426578 TTAAAATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
12 3 0.09
13 11 0.32
14 17 0.50
15 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTATATAATTAT
Found at i:426593 original size:23 final size:22
Alignment explanation
Indices: 426553--426597 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
426543 ATATAATTAT
*
426553 ATTTTAAATATAATATTTAATA
1 ATTTTAAATATAAAATTTAATA
*
426575 ATTTTAAAATTTAAAATTTAATA
1 ATTTT-AAATATAAAATTTAATA
426598 TTTATAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTTAAATATAAAATTTAATA
Found at i:426821 original size:34 final size:35
Alignment explanation
Indices: 426783--426855 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
426773 AATTATATTT
** *
426783 TATTTAATTTTT-ATAAATTTACAATTAAAATATA
1 TATTTAATTTTTAATAAATAAAAAATTAAAATATA
* *
426817 TATTTTATTTTTAATTAATAAAAAATTAAAATATA
1 TATTTAATTTTTAATAAATAAAAAATTAAAATATA
426852 -ATTT
1 TATTT
426856 TTAAAATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
34 15 0.45
35 18 0.55
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (35 bp):
TATTTAATTTTTAATAAATAAAAAATTAAAATATA
Found at i:427683 original size:25 final size:25
Alignment explanation
Indices: 427642--427711 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 25
427632 TTAAAAACAC
*
427642 TTTTAATAAAATAAAAATCTCAACT
1 TTTTTATAAAATAAAAATCTCAACT
* *
427667 TTTTTATAAGAATAAAAATGTCAATT
1 TTTTTATAA-AATAAAAATCTCAACT
427693 TTTTTATAAAAATAAAAAT
1 TTTTTAT-AAAATAAAAAT
427712 TATATTTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
25 8 0.20
26 30 0.75
27 2 0.05
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (25 bp):
TTTTTATAAAATAAAAATCTCAACT
Found at i:427724 original size:14 final size:14
Alignment explanation
Indices: 427705--427734 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
427695 TTTATAAAAA
427705 TAAAAATTATATTT
1 TAAAAATTATATTT
*
427719 TAAAAATTATTTTT
1 TAAAAATTATATTT
427733 TA
1 TA
427735 CGAAATTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAAAAATTATATTT
Found at i:427964 original size:27 final size:28
Alignment explanation
Indices: 427934--428071 Score: 94
Period size: 27 Copynumber: 4.9 Consensus size: 28
427924 ATGGTTATAT
*
427934 AAATATAATATATATATAAATTA-ATTA
1 AAATATAATATAAATATAAATTATATTA
*
427961 AAATATTAA-AT-AA-ATAAA-TATTTTA
1 AAATA-TAATATAAATATAAATTATATTA
*
427986 AAATTTTATAATATAAAT-TATTATTATATTA
1 AAA---TATAATATAAATATA-AATTATATTA
* *
428017 AAAT-TAATATAAATATAAAATAT-TTT
1 AAATATAATATAAATATAAATTATATTA
*
428043 AAATATAATTATAATATAATAAAATATAT
1 AAATATAA-TATAA-AT-ATAAATTATAT
428072 AAATTATTAA
Statistics
Matches: 88, Mismatches: 7, Indels: 28
0.72 0.06 0.23
Matches are distributed among these distances:
24 2 0.02
25 11 0.12
26 7 0.08
27 27 0.31
28 15 0.17
29 6 0.07
30 10 0.11
31 10 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
AAATATAATATAAATATAAATTATATTA
Found at i:427979 original size:25 final size:25
Alignment explanation
Indices: 427949--428101 Score: 63
Period size: 25 Copynumber: 6.0 Consensus size: 25
427939 TAATATATAT
427949 ATAAATTAATTAAAATATTAAATAA
1 ATAAATTAATTAAAATATTAAATAA
* *
427974 ATAAA-TATTTTAAAAT-TT-TATAA
1 ATAAATTA-ATTAAAATATTAAATAA
**
427997 TATAAATT-ATTATTATATTAAAATTAA
1 -ATAAATTAATTAAAATATT-AAA-TAA
428024 TATAAA-T-A-TAAAATATTTTAAATATA
1 -ATAAATTAATTAAAATA--TTAAATA-A
*
428050 ATTATAATATAA-TAAAATATATAAATTA
1 A-TA-AAT-TAATTAAAATAT-TAAATAA
* *
428078 TTAAATTTAATTATAAT-TTAAATA
1 ATAAA-TTAATTAAAATATTAAATA
428102 TATTTTTATT
Statistics
Matches: 98, Mismatches: 12, Indels: 36
0.67 0.08 0.25
Matches are distributed among these distances:
23 9 0.09
24 11 0.11
25 26 0.27
26 15 0.15
27 21 0.21
28 2 0.02
29 6 0.06
30 8 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
ATAAATTAATTAAAATATTAAATAA
Found at i:428047 original size:16 final size:16
Alignment explanation
Indices: 427988--428050 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
427978 ATATTTTAAA
*
427988 ATTTTATAATATAAATT
1 ATTTTA-AATATAAAAT
*
428005 ATTATTATAT-TAAAATT
1 ATT-TTAAATATAAAA-T
* *
428022 AATATAAATATAAAAT
1 ATTTTAAATATAAAAT
428038 ATTTTAAATATAA
1 ATTTTAAATATAA
428051 TTATAATATA
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
16 20 0.56
17 13 0.36
18 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTTTAAATATAAAAT
Found at i:428082 original size:37 final size:37
Alignment explanation
Indices: 427996--428095 Score: 118
Period size: 37 Copynumber: 2.8 Consensus size: 37
427986 AAATTTTATA
* *
427996 ATATAAATTATT-ATTAT-ATTAAAATTAATATAAAT
1 ATATAAATTATTAAATATAATTATAATTAATATAAAT
*
428031 ATA-AAATATTTTAAATATAATTATAATATAATA-AAAT
1 ATATAAAT-TATTAAATATAATTATAAT-TAATATAAAT
*
428068 ATATAAATTATTAAATTTAATTATAATT
1 ATATAAATTATTAAATATAATTATAATT
428096 TAAATATATT
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
34 4 0.07
35 6 0.11
36 5 0.09
37 31 0.56
38 9 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (37 bp):
ATATAAATTATTAAATATAATTATAATTAATATAAAT
Found at i:428115 original size:32 final size:31
Alignment explanation
Indices: 427992--428115 Score: 110
Period size: 32 Copynumber: 3.9 Consensus size: 31
427982 TTTAAAATTT
*
427992 TATAATATAAAT-TATTATTATATTAAAATTAA
1 TATAATATAAATATATT-TT-TATTAAATTTAA
* *
428024 TATAAATATAAA-ATATTTTAAATATAATTATAA
1 TAT-AATATAAATATATTTTTATTA-AATT-TAA
**
428057 TATAATA-AAATATATAAATTATTAAATTTAA
1 TATAATATAAATATAT-TTTTATTAAATTTAA
*
428088 TTATAATTTAAATATATTTTTATTAAAT
1 -TATAATATAAATATATTTTTATTAAAT
428116 CAAATGATCA
Statistics
Matches: 74, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
31 9 0.12
32 35 0.47
33 30 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
TATAATATAAATATATTTTTATTAAATTTAA
Found at i:428391 original size:23 final size:23
Alignment explanation
Indices: 428365--428428 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
428355 TTTTATTTAA
428365 TAATTAAAATATATTTTTAAA-AT
1 TAATTAAAA-ATATTTTTAAATAT
* *
428388 TAATTATAAAA-ATATTTAAATTT
1 TAATTA-AAAATATTTTTAAATAT
428411 TAATATAAAAATATTTTT
1 TAAT-TAAAAATATTTTT
428429 TATAATTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
22 8 0.24
23 16 0.47
24 10 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TAATTAAAAATATTTTTAAATAT
Found at i:428407 original size:22 final size:22
Alignment explanation
Indices: 428380--428426 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
428370 AAAATATATT
428380 TTTAAA-ATTAATTATAAAAATA
1 TTTAAATATTAA-TATAAAAATA
*
428402 TTTAAATTTTAATATAAAAATA
1 TTTAAATATTAATATAAAAATA
428424 TTT
1 TTT
428427 TTTATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TTTAAATATTAATATAAAAATA
Found at i:428451 original size:25 final size:25
Alignment explanation
Indices: 428360--428449 Score: 73
Period size: 26 Copynumber: 3.6 Consensus size: 25
428350 TGAATTTTTA
*
428360 TTTAATAATTAAAATATATTTTTAAA-
1 TTTAAT-ATAAAAATAT-TTTTTAAAT
*
428386 ATTAATTATAAAAATA---TTTAAAT
1 TTTAA-TATAAAAATATTTTTTAAAT
428409 TTTAATATAAAAATATTTTTTATAAT
1 TTTAATATAAAAATATTTTTTA-AAT
428435 TTATAA-ATAATAAAT
1 TT-TAATATAA-AAAT
428450 TTAAAAATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
22 16 0.30
23 4 0.08
25 4 0.08
26 21 0.40
27 8 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTAATATAAAAATATTTTTTAAAT
Found at i:428452 original size:47 final size:49
Alignment explanation
Indices: 428360--428454 Score: 115
Period size: 47 Copynumber: 2.0 Consensus size: 49
428350 TGAATTTTTA
* *
428360 TTTAATAATTAAAATATATTTTTAAAATTAATTATAAAAATATTTAAAT
1 TTTAATAATAAAAATATATTTTTAAAATTAATAATAAAAATATTTAAAT
* * *
428409 TTTAAT-ATAAAAATAT-TTTTTATAATTTATAAATAATAA-ATTTAAA
1 TTTAATAATAAAAATATATTTTTAAAATTAAT-AATAAAAATATTTAAA
428455 AATTTTAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
47 19 0.47
48 15 0.38
49 6 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (49 bp):
TTTAATAATAAAAATATATTTTTAAAATTAATAATAAAAATATTTAAAT
Found at i:428750 original size:13 final size:13
Alignment explanation
Indices: 428734--428765 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
428724 TATCTAATAT
428734 ATATTTATATTTA
1 ATATTTATATTTA
428747 ATATTTATATTTA
1 ATATTTATATTTA
428760 A-ATTTA
1 ATATTTA
428766 AATAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATTTATATTTA
Found at i:428774 original size:19 final size:19
Alignment explanation
Indices: 428730--428775 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
428720 TATATATCTA
*
428730 ATATATATTTATATTTAAT
1 ATATATATTTAAATTTAAT
*
428749 ATTTATATTTAAATTTAA-
1 ATATATATTTAAATTTAAT
428767 ATAATATAT
1 AT-ATATAT
428776 AGCTATAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATATATTTAAATTTAAT
Found at i:429759 original size:13 final size:13
Alignment explanation
Indices: 429741--429765 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
429731 TGCCAAAAAA
429741 TGTATCGATACAT
1 TGTATCGATACAT
429754 TGTATCGATACA
1 TGTATCGATACA
429766 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:429832 original size:52 final size:52
Alignment explanation
Indices: 429774--429898 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
429764 CACTGATCTT
* * *
429774 TGTATCGATACATGCAGGCAAATTTGTCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
*
429826 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
429878 TGTATCGATACATGCAGGCAA
1 TGTATCGATACATGCAGGCAA
429899 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
Found at i:434754 original size:64 final size:65
Alignment explanation
Indices: 434621--434756 Score: 145
Period size: 64 Copynumber: 2.1 Consensus size: 65
434611 TTTTTAAAAT
* * ** * **
434621 TTATTTATTTAAATTATTATATTTTTATATTTACATTACATATATATATTAAATTTTTAATTTTT
1 TTATATATTTAAATAATTATATTTTTATATTTACATTACATATATATATTAAATAATAAATTTAA
*
434686 TTATATATTTAAA-AATTATATTTTTATATTTATATTTA-A-ATATATATTAAA-AATAAATATT
1 TTATATATTTAAATAATTATATTTTTATATTTACA-TTACATATATATATTAAATAATAAAT-TT
434747 AAA
64 -AA
434750 TTATATA
1 TTATATA
434757 ATATATTTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
62 4 0.07
63 14 0.23
64 27 0.45
65 15 0.25
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (65 bp):
TTATATATTTAAATAATTATATTTTTATATTTACATTACATATATATATTAAATAATAAATTTAA
Found at i:434846 original size:19 final size:20
Alignment explanation
Indices: 434796--434847 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
434786 CATTAATATG
434796 ATTATAAAATATATTTAAAAA
1 ATTAT-AAATATATTTAAAAA
* *
434817 ATTATATATAT-TTTAATAA
1 ATTATAAATATATTTAAAAA
434836 A-TATCAAATATA
1 ATTAT-AAATATA
434848 AATATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 3 0.12
19 13 0.50
20 5 0.19
21 5 0.19
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTATAAATATATTTAAAAA
Found at i:435074 original size:25 final size:24
Alignment explanation
Indices: 435029--435088 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 24
435019 TTTTTTAAAT
435029 TTTAATCAAT-TTAATTTAATTTTAA
1 TTTAAT-AATATTAATTTAA-TTTAA
435054 TTTAATAATATT-ATTTAAATTTAA
1 TTTAATAATATTAATTT-AATTTAA
*
435078 TTATAAAAATA
1 TT-TAATAATA
435089 AATAAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 14 0.45
25 17 0.55
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTAATAATATTAATTTAATTTAA
Found at i:435115 original size:32 final size:31
Alignment explanation
Indices: 435079--435138 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
435069 TAAATTTAAT
435079 TATAA-AAATAAATAAAATAAATATTTTAATAA
1 TATAATAAAT-AATAAAATAAAT-TTTTAATAA
435111 TATAATAAATAATAAAATAAATTTTTAA
1 TATAATAAATAATAAAATAAATTTTTAA
435139 CTTAATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 6 0.22
32 17 0.63
33 4 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (31 bp):
TATAATAAATAATAAAATAAATTTTTAATAA
Found at i:435129 original size:20 final size:20
Alignment explanation
Indices: 435083--435130 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
435073 TTTAATTATA
*
435083 AAAATAAATAAAATAAATATT
1 AAAAT-AATAAAATAAATAAT
** *
435104 TTAATAATATAATAAATAAT
1 AAAATAATAAAATAAATAAT
435124 AAAATAA
1 AAAATAA
435131 ATTTTTAACT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATAATAAAATAAATAAT
Found at i:435825 original size:16 final size:16
Alignment explanation
Indices: 435790--435831 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
435780 ATAATGGTTA
*
435790 AATTTATGTAATATTAT
1 AATTTAT-TAATAATAT
*
435807 AATTTATTGATAATAT
1 AATTTATTAATAATAT
435823 AATTTATTA
1 AATTTATTA
435832 GTATATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (16 bp):
AATTTATTAATAATAT
Found at i:435841 original size:19 final size:17
Alignment explanation
Indices: 435790--435840 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
435780 ATAATGGTTA
*
435790 AATTTATGTAATAT-TAT
1 AATTTAT-TGATATATAT
435807 AATTTATTGATA-ATAT
1 AATTTATTGATATATAT
435823 AATTTATT-AGTATATAT
1 AATTTATTGA-TATATAT
435840 A
1 A
435841 TTAAAAAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 1 0.03
16 17 0.57
17 12 0.40
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (17 bp):
AATTTATTGATATATAT
Found at i:436609 original size:18 final size:16
Alignment explanation
Indices: 436586--436675 Score: 60
Period size: 16 Copynumber: 5.2 Consensus size: 16
436576 TATGACATAC
436586 ATATTTTAAAAGTTATA
1 ATATTTTAAAA-TTATA
436603 A-ATATTTAAAATTATA
1 ATAT-TTTAAAATTATA
436619 ATATTTAATGTAAATATT-TA
1 ATA-TT--T-TAAA-ATTATA
*
436639 ATATTTTAAAATTTTAAA
1 ATATTTTAAAA--TTATA
436657 ATATTTTTAAAATT-TA
1 ATA-TTTTAAAATTATA
436673 ATA
1 ATA
436676 AATTATTATT
Statistics
Matches: 60, Mismatches: 2, Indels: 23
0.71 0.02 0.27
Matches are distributed among these distances:
15 1 0.02
16 16 0.27
17 15 0.25
18 5 0.08
19 11 0.18
20 9 0.15
21 3 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATATTTTAAAATTATA
Found at i:436623 original size:15 final size:17
Alignment explanation
Indices: 436590--436626 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
436580 ACATACATAT
436590 TTTAAAAGTTATAAATA
1 TTTAAAAGTTATAAATA
436607 TTTAAAA-TTAT-AATA
1 TTTAAAAGTTATAAATA
436622 TTTAA
1 TTTAA
436627 TGTAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 9 0.45
16 4 0.20
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
TTTAAAAGTTATAAATA
Found at i:436652 original size:28 final size:25
Alignment explanation
Indices: 436586--436662 Score: 75
Period size: 28 Copynumber: 3.0 Consensus size: 25
436576 TATGACATAC
*
436586 ATATTTTAAAAGTTATAAATATTTA
1 ATATTTTAAAATTTATAAATATTTA
* * *
436611 AAATTATAATATTTAATGTAAATATTTA
1 ATATTTTAAAATTT-A--TAAATATTTA
436639 ATATTTTAAAATTT-TAAAATATTT
1 ATATTTTAAAATTTAT-AAATATTT
436663 TTAAAATTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
24 1 0.02
25 18 0.44
26 1 0.02
28 21 0.51
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (25 bp):
ATATTTTAAAATTTATAAATATTTA
Found at i:436768 original size:7 final size:7
Alignment explanation
Indices: 436740--436796 Score: 64
Period size: 7 Copynumber: 8.0 Consensus size: 7
436730 AAATATTATT
436740 ATTAAAA
1 ATTAAAA
436747 ATTAAGATA
1 ATTAA-A-A
436756 A-T-AAA
1 ATTAAAA
436761 ATTAAAA
1 ATTAAAA
436768 ATTAAAGA
1 ATTAAA-A
*
436776 AATAAAA
1 ATTAAAA
436783 ATTAAAA
1 ATTAAAA
436790 ATTAAAA
1 ATTAAAA
436797 TTTATATAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
5 2 0.05
6 2 0.05
7 29 0.67
8 8 0.19
9 2 0.05
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (7 bp):
ATTAAAA
Found at i:436775 original size:22 final size:22
Alignment explanation
Indices: 436740--436795 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
436730 AAATATTATT
436740 ATTAAAAATT-AAGATAAT-AAA
1 ATTAAAAATTAAAGA-AATAAAA
436761 ATTAAAAATTAAAGAAATAAAA
1 ATTAAAAATTAAAGAAATAAAA
436783 ATTAAAAATTAAA
1 ATTAAAAATTAAA
436796 ATTTATATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 13 0.39
22 20 0.61
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.27
Consensus pattern (22 bp):
ATTAAAAATTAAAGAAATAAAA
Found at i:439498 original size:47 final size:47
Alignment explanation
Indices: 439436--439530 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 47
439426 CTTTGTTTTG
* *
439436 GACAGCCTTTGGTTATTACTTATTACCTTAGCAATACCAGTTTTCTA
1 GACAGCATTTAGTTATTACTTATTACCTTAGCAATACCAGTTTTCTA
*
439483 GACAGCATTTAGTTATTACTTATTACCTTAGCAATATCAGTTTTCTA
1 GACAGCATTTAGTTATTACTTATTACCTTAGCAATACCAGTTTTCTA
439530 G
1 G
439531 CCATTAGAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (47 bp):
GACAGCATTTAGTTATTACTTATTACCTTAGCAATACCAGTTTTCTA
Found at i:442336 original size:17 final size:17
Alignment explanation
Indices: 442311--442345 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
442301 AATTTAAATT
* *
442311 GATTCAATTTGATTTGA
1 GATTAAATTTAATTTGA
442328 GATTAAATTTAATTTGA
1 GATTAAATTTAATTTGA
442345 G
1 G
442346 TATAGTAATA
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:0.34, C:0.03, G:0.17, T:0.46
Consensus pattern (17 bp):
GATTAAATTTAATTTGA
Found at i:442989 original size:18 final size:18
Alignment explanation
Indices: 442966--443000 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
442956 CCCTAAAAAT
*
442966 TAAGTTTAGTGAATTATC
1 TAAGTTCAGTGAATTATC
442984 TAAGTTCAGTGAATTAT
1 TAAGTTCAGTGAATTAT
443001 ATGATCCGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (18 bp):
TAAGTTCAGTGAATTATC
Found at i:443264 original size:17 final size:17
Alignment explanation
Indices: 443250--443288 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
443240 AATATTTATG
443250 TTTT-AAATTTATTTAA
1 TTTTAAAATTTATTTAA
*
443266 TTTTAAAATTTATATAA
1 TTTTAAAATTTATTTAA
*
443283 TATTAA
1 TTTTAA
443289 TTATTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTAAAATTTATTTAA
Found at i:443977 original size:9 final size:9
Alignment explanation
Indices: 443956--443985 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
443946 ATTATAAATC
443956 ATAAATATAA
1 ATAAAT-TAA
443966 ATAAATTAA
1 ATAAATTAA
443975 ATAAATTAA
1 ATAAATTAA
443984 AT
1 AT
443986 TGGATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 14 0.70
10 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
ATAAATTAA
Found at i:447225 original size:25 final size:26
Alignment explanation
Indices: 447197--447261 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
447187 ACAATATTAA
* *
447197 ATAAAATTATATAAATATGACAC-AT
1 ATAAAATTATAAAAACATGACACAAT
* *
447222 ATAAAATAATAAAAACATGATACGAAT
1 ATAAAATTATAAAAACATGACAC-AAT
447249 ATAAAATT-TAAAA
1 ATAAAATTATAAAA
447262 TTTATATAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
25 19 0.58
26 5 0.15
27 9 0.27
ACGTcount: A:0.62, C:0.06, G:0.05, T:0.28
Consensus pattern (26 bp):
ATAAAATTATAAAAACATGACACAAT
Found at i:451159 original size:9 final size:9
Alignment explanation
Indices: 451147--451176 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
451137 CAAAAACATG
451147 AAAAAATTT
1 AAAAAATTT
451156 AAAAAATTT
1 AAAAAATTT
451165 AAAAAATTT
1 AAAAAATTT
451174 AAA
1 AAA
451177 CATACTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAAAATTT
Found at i:452319 original size:11 final size:11
Alignment explanation
Indices: 452303--452336 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
452293 ATGTATATTA
*
452303 AAATATAATAT
1 AAATATAAAAT
452314 AAATATAAAAT
1 AAATATAAAAT
452325 AAATATATAAAT
1 AAATATA-AAAT
452337 TATTAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATATAAAAT
Found at i:452341 original size:39 final size:38
Alignment explanation
Indices: 452298--452448 Score: 111
Period size: 39 Copynumber: 4.1 Consensus size: 38
452288 ATAAGATGTA
452298 TATTAAAATATAATATAAATATAAAATAAATATATAAAT
1 TATTAAAATATAATATAAATATAAAATAAATATA-AAAT
* * * *
452337 TATTAAAAT-TTATGT-AATATAAGAT--AT-TAATA-
1 TATTAAAATATAATATAAATATAAAATAAATATAAAAT
* * *
452369 TATTAAAA-AT-TTATAAATATATAATAAATTTAAATAT
1 TATTAAAATATAATATAAATATAAAATAAATATAAA-AT
* * * * *
452406 TATTATAATAAAAAATAAATATAATATTAATATATAAAT
1 TATTAAAATATAATATAAATATAAAATAAATATA-AAAT
452445 TATT
1 TATT
452449 TATTTTATTT
Statistics
Matches: 85, Mismatches: 17, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
31 2 0.02
32 17 0.20
33 2 0.02
34 4 0.05
35 5 0.06
36 1 0.01
37 16 0.19
38 5 0.06
39 31 0.36
40 2 0.02
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (38 bp):
TATTAAAATATAATATAAATATAAAATAAATATAAAAT
Found at i:452388 original size:32 final size:31
Alignment explanation
Indices: 452317--452394 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 31
452307 ATAATATAAA
452317 TATAAA-ATAAATATATAAATTATTAAAATT
1 TATAAATATAAATATATAAATTATTAAAATT
*
452347 TATGTAATATAAGATAT-T-AATATATTAAAAATT
1 TAT-AAATATAA-ATATATAAAT-TATT-AAAATT
452380 TATAAATATATAATA
1 TATAAATATA-AATA
452395 AATTTAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
30 3 0.08
31 5 0.12
32 18 0.45
33 14 0.35
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (31 bp):
TATAAATATAAATATATAAATTATTAAAATT
Found at i:452880 original size:23 final size:21
Alignment explanation
Indices: 452838--452882 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
452828 ATGTAATTTA
*
452838 ATTTAATAATTTGAATATATT
1 ATTTAATAATTTGAAGATATT
*
452859 ATTTATATATATTTTAAGATATT
1 ATTTA-ATA-ATTTGAAGATATT
452882 A
1 A
452883 AAAAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 3 0.15
23 12 0.60
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (21 bp):
ATTTAATAATTTGAAGATATT
Found at i:452915 original size:22 final size:21
Alignment explanation
Indices: 452887--452928 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
452877 ATATTAAAAA
452887 ATATTTTA-ATATTAATATTTAT
1 ATATTTTATA-ATTAA-ATTTAT
452909 ATATTTTATAATTAAATTTA
1 ATATTTTATAATTAAATTTA
452929 AATAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 13 0.68
23 1 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTTTATAATTAAATTTAT
Found at i:452963 original size:17 final size:17
Alignment explanation
Indices: 452926--452963 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
452916 ATAATTAAAT
*
452926 TTAAATAAAATTTATAT
1 TTAAATAAAATTTATAA
452943 TTAAATAATAATTT-TAA
1 TTAAATAA-AATTTATAA
452960 TTAA
1 TTAA
452964 TTTAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAAATAAAATTTATAA
Found at i:453143 original size:17 final size:14
Alignment explanation
Indices: 453109--453136 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
453099 AACCATTTAA
453109 ATTTTTATTTATAT
1 ATTTTTATTTATAT
453123 ATTTTTATTTATAT
1 ATTTTTATTTATAT
453137 CATATTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
ATTTTTATTTATAT
Found at i:453796 original size:36 final size:36
Alignment explanation
Indices: 453701--453813 Score: 88
Period size: 36 Copynumber: 3.1 Consensus size: 36
453691 TTTATATTAG
* * * *
453701 TATTTATATTTTATAATTAAATTTAAATTAAAATATATT
1 TATTTA-AATTTATAA--AAATTTAAATTGAATTAAATT
** *
453740 T-TTTTTATTAATAAATAATTTAAATTGAATTAAATT
1 TATTTAAATTTATAAA-AATTTAAATTGAATTAAATT
*
453776 TATTTAAATTTATAAAAATTT-TATATG-ATTAAATT
1 TATTTAAATTTATAAAAATTTAAAT-TGAATTAAATT
453811 TAT
1 TAT
453814 CAAATAAAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
35 14 0.23
36 25 0.42
37 17 0.28
38 3 0.05
39 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (36 bp):
TATTTAAATTTATAAAAATTTAAATTGAATTAAATT
Found at i:455194 original size:21 final size:20
Alignment explanation
Indices: 455167--455223 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
455157 AATTTTATAT
455167 AAATATAAAATACTTTAAAA
1 AAATATAAAATACTTTAAAA
*
455187 ATAATATAAAATA--ATAAAA
1 A-AATATAAAATACTTTAAAA
455206 AACATATAAAATTACTTT
1 AA-ATATAAAA-TACTTT
455224 TTAATTTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
18 1 0.03
19 14 0.47
20 3 0.10
21 11 0.37
22 1 0.03
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
AAATATAAAATACTTTAAAA
Found at i:455216 original size:9 final size:10
Alignment explanation
Indices: 455168--455217 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
455158 ATTTTATATA
455168 AATATAAAAT
1 AATATAAAAT
* *
455178 ACTTTAAAAAT
1 AATAT-AAAAT
455189 AATATAAAAT
1 AATATAAAAT
455199 AATA-AAAA-
1 AATATAAAAT
455207 ACATATAAAAT
1 A-ATATAAAAT
455218 TACTTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
8 1 0.03
9 7 0.22
10 16 0.50
11 8 0.25
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (10 bp):
AATATAAAAT
Found at i:455377 original size:18 final size:19
Alignment explanation
Indices: 455352--455402 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
455342 ATTATTAATG
455352 TATT-AAATTTTATATAAA
1 TATTAAAATTTTATATAAA
*
455370 TA-TAAAATATT-T-TAAA
1 TATTAAAATTTTATATAAA
455386 TATTAAAATTATTATAT
1 TATTAAAATT-TTATAT
455403 GATAATAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
16 6 0.23
17 8 0.31
18 10 0.38
19 1 0.04
20 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTAAAATTTTATATAAA
Found at i:455750 original size:26 final size:26
Alignment explanation
Indices: 455721--455770 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
455711 TTATTATTAA
*
455721 AATTTTTAAATTTAAAAATTTATAAT
1 AATTTTTAAATTTAAAAATCTATAAT
*
455747 AATTTTTAAATTTAATAATCTATA
1 AATTTTTAAATTTAAAAATCTATA
455771 TATACGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
AATTTTTAAATTTAAAAATCTATAAT
Found at i:456030 original size:17 final size:16
Alignment explanation
Indices: 455989--456034 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
455979 TTCAATTTCT
455989 TATA-ATAAGTATTTTA
1 TATATATAA-TATTTTA
456005 T-TATCATAATATTTATA
1 TATAT-ATAATATTT-TA
456022 TATATATAATATT
1 TATATATAATATT
456035 GTTTAACATG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.08
16 6 0.23
17 15 0.58
18 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (16 bp):
TATATATAATATTTTA
Found at i:456459 original size:14 final size:14
Alignment explanation
Indices: 456390--456460 Score: 53
Period size: 14 Copynumber: 5.1 Consensus size: 14
456380 TATTCAATTA
456390 TATAATATAATATAT
1 TATAATATAA-ATAT
**
456405 TAT-ATAATTTATAT
1 TATAAT-ATAAATAT
456419 TATAA-A-AAAT-T
1 TATAATATAAATAT
456430 TA-ATATATATAATAT
1 TATA-ATATA-AATAT
456445 TATAATATAAATAT
1 TATAATATAAATAT
456459 TA
1 TA
456461 AAAATACGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 17
0.68 0.06 0.26
Matches are distributed among these distances:
10 1 0.02
11 4 0.09
12 3 0.07
13 2 0.05
14 19 0.43
15 14 0.32
16 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TATAATATAAATAT
Found at i:457050 original size:25 final size:29
Alignment explanation
Indices: 457022--457075 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
457012 AGAATATTAT
457022 AATA-AAT-TCTTTAA-TAT-TAAATAAG
1 AATAGAATATCTTTAAGTATATAAATAAG
*
457047 AATAGAATATTTTTAAGTATATAAATAAG
1 AATAGAATATCTTTAAGTATATAAATAAG
457076 TAAAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.17
26 3 0.12
27 6 0.25
28 3 0.12
29 8 0.33
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (29 bp):
AATAGAATATCTTTAAGTATATAAATAAG
Found at i:457082 original size:27 final size:26
Alignment explanation
Indices: 457031--457082 Score: 61
Period size: 27 Copynumber: 1.9 Consensus size: 26
457021 TAATAAATTC
*
457031 TTTAATATTAAATAAGAATAGAATATT
1 TTTAATATTAAATAAG-ATAAAATATT
457058 TTTAAGTATATAAATAAG-TAAAATA
1 TTTAA-TAT-TAAATAAGATAAAATA
457083 AATATAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
27 11 0.50
28 3 0.14
29 8 0.36
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (26 bp):
TTTAATATTAAATAAGATAAAATATT
Found at i:457436 original size:11 final size:11
Alignment explanation
Indices: 457406--457466 Score: 65
Period size: 11 Copynumber: 5.7 Consensus size: 11
457396 TAATAAAAAA
457406 ATTAAATTTAT
1 ATTAAATTTAT
*
457417 -TTATTATTTAT
1 ATTA-AATTTAT
457428 ATTAAATTTAT
1 ATTAAATTTAT
*
457439 A-TAAAATTAT
1 ATTAAATTTAT
*
457449 -TTAAATTTAA
1 ATTAAATTTAT
457459 ATTAAATT
1 ATTAAATT
457467 AAATAATATC
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
10 18 0.44
11 20 0.49
12 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATTAAATTTAT
Found at i:457454 original size:20 final size:21
Alignment explanation
Indices: 457424--457467 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
457414 TATTTATTAT
*
457424 TTATATTAAATTTATATAAAA
1 TTATATTAAATTTAAATAAAA
*
457445 TTAT-TTAAATTTAAATTAAA
1 TTATATTAAATTTAAATAAAA
457465 TTA
1 TTA
457468 AATAATATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTATATTAAATTTAAATAAAA
Found at i:457470 original size:25 final size:25
Alignment explanation
Indices: 457419--457470 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
457409 AAATTTATTT
* *
457419 ATTATTTATATTAAATTTATATAAA
1 ATTATTTAAATTAAATTTAAATAAA
*
457444 ATTATTTAAATTTAAA-TTAAATTAA
1 ATTATTTAAA-TTAAATTTAAATAAA
457469 AT
1 AT
457471 AATATCATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
ATTATTTAAATTAAATTTAAATAAA
Found at i:465382 original size:10 final size:10
Alignment explanation
Indices: 465359--465390 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
465349 GGATTATTGT
465359 TTAAAAAATA
1 TTAAAAAATA
465369 -TAAAAAATA
1 TTAAAAAATA
465378 TTAAAAAATA
1 TTAAAAAATA
465388 TTA
1 TTA
465391 TATTAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
TTAAAAAATA
Found at i:465412 original size:21 final size:21
Alignment explanation
Indices: 465373--465436 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
465363 AAAATATAAA
* *
465373 AAATATTAAAAAATATTATATT
1 AAAT-TTAAATAATTTTATATT
*
465395 AATATTTACAT-ATTTTATAATT
1 AA-ATTTAAATAATTTTAT-ATT
465417 AAATTTAAATAATTTT-TATT
1 AAATTTAAATAATTTTATATT
465437 TGTTAACAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 3 0.09
21 14 0.40
22 16 0.46
23 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
AAATTTAAATAATTTTATATT
Found at i:465565 original size:23 final size:23
Alignment explanation
Indices: 465519--465565 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
465509 AATTAAGTTA
* * *
465519 AACGAGTTGTCTAACTTTTGAAT
1 AACGAGTTATCTAACTCTTAAAT
*
465542 AACGGGTTATCTAACTCTTAAAT
1 AACGAGTTATCTAACTCTTAAAT
465565 A
1 A
465566 GGTTAATGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (23 bp):
AACGAGTTATCTAACTCTTAAAT
Found at i:465890 original size:17 final size:16
Alignment explanation
Indices: 465862--465909 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 16
465852 ATGTTTGATT
465862 TTATTAAATTAAATTA
1 TTATTAAATTAAATTA
*
465878 TTATTATAATTAATTTA
1 TTATTA-AATTAAATTA
*
465895 TT-TT-AATTATATTA
1 TTATTAAATTAAATTA
465909 T
1 T
465910 ATTTATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 9 0.32
16 8 0.29
17 11 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATTAAATTAAATTA
Found at i:465933 original size:38 final size:36
Alignment explanation
Indices: 465859--465948 Score: 112
Period size: 38 Copynumber: 2.5 Consensus size: 36
465849 ATAATGTTTG
*
465859 ATTTT-ATTAAATTAAATTATTATTATAATTAATTT
1 ATTTTAATTAAATTAAATTATTATAATAATTAATTT
* * *
465894 ATTTTAATTATATTATATTTATATATAATAATTATTTT
1 ATTTTAATTAAATTA-AATTAT-TATAATAATTAATTT
465932 ATTTTAA-TAAATTAAAT
1 ATTTTAATTAAATTAAAT
465949 ATACTATAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
35 5 0.11
36 10 0.22
37 11 0.24
38 20 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (36 bp):
ATTTTAATTAAATTAAATTATTATAATAATTAATTT
Found at i:468952 original size:15 final size:15
Alignment explanation
Indices: 468922--468950 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
468912 TATTTTTAAT
468922 TAAAAAACTTTAAAA
1 TAAAAAACTTTAAAA
468937 TAAAAAA-TTTAAAA
1 TAAAAAACTTTAAAA
468951 ATCCAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAAAAACTTTAAAA
Found at i:469770 original size:29 final size:29
Alignment explanation
Indices: 469736--469794 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
469726 GTTTATGAAA
469736 AATGTAAAAGGGGTTTTTGAAAGTTGCTT
1 AATGTAAAAGGGGTTTTTGAAAGTTGCTT
469765 AATGTAAAAGGGGTTTTTGAAAGTTGCTT
1 AATGTAAAAGGGGTTTTTGAAAGTTGCTT
469794 A
1 A
469795 CATTATAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.03, G:0.27, T:0.37
Consensus pattern (29 bp):
AATGTAAAAGGGGTTTTTGAAAGTTGCTT
Found at i:473690 original size:21 final size:21
Alignment explanation
Indices: 473666--473706 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
473656 ATATTTTATT
473666 TAAAT-TTAATTATAAAATATA
1 TAAATATTAA-TATAAAATATA
473687 TAAATATTAATATAAAATAT
1 TAAATATTAATATAAAATAT
473707 TTTTTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAATATTAATATAAAATATA
Found at i:473744 original size:16 final size:17
Alignment explanation
Indices: 473723--473764 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
473713 AATTTTTATT
*
473723 AATTAATAATAAA-TTA
1 AATTAAAAATAAATTTA
473739 AATTAAAAATAAATTTA
1 AATTAAAAATAAATTTA
473756 AA-TAAAAAT
1 AATTAAAAAT
473765 TTTAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATTAAAAATAAATTTA
Found at i:475006 original size:229 final size:227
Alignment explanation
Indices: 474601--475238 Score: 721
Period size: 229 Copynumber: 2.8 Consensus size: 227
474591 TCGTGAATGC
* * *
474601 AGGTAACATAGGATGTCTTGAAGTTCTTCATGAATTATTA-TCAGTTCTCAGCTTTAGGCCTGGA
1 AGGTAGCATAGGATGTCTTGAAGTTCTTCATGAGTTATTAGT-AGTTCTCAGCTTTAGGCTTGGA
* *
474665 AGATATGTCCTATTGTACTTGACTTTTCATTTTTTTCTAAAAGC-TCCCGTCTTCGACCTGCTGT
65 AGATATGTCCTATTTTACTTGAC-TTT--TTTTTTTCTAAAAGCATCCCGTCTTCGACCTACTGT
* *
474729 TAATGGAATGTGATCTTCAAATATATGAAAAATTTAAAAAATAAATTGAGTAGACTCATGTTGGA
127 TAATGGAATGTGATCTTCAAATATATGAAAAATTTAAAAAATAAATTGAGTAGACACATATTGGA
* *
474794 TATATATATCTTTATTTGACAC-TTAAACCTGAATCT
192 TATATATAT-TTTATTTGACACTTTAAACCCGAATAT
* * *
474830 GGGTAGTATAGGATGTCTTGAAGTTCTTCCTGAGTTATTAGTAGTTCTCAGCTTTAGGCTTGGAA
1 AGGTAGCATAGGATGTCTTGAAGTTCTTCATGAGTTATTAGTAGTTCTCAGCTTTAGGCTTGGAA
*
474895 GATACT-TCCTATTTTACTTGACATTTTTTTTTTCTAAAAGCAT-CTGTCTTCGACCTACTG-TA
66 GATA-TGTCCTATTTTACTTGAC-TTTTTTTTTTCTAAAAGCATCCCGTCTTCGACCTACTGTTA
**
474957 TATGGAATGTGATCTTCCAAATATATGAAAAATTTTTTTAAAA-AAATTGAGTAGACACATATTG
129 -ATGGAATGTGATCTT-CAAATATATGAAAAA--TTTAAAAAATAAATTGAGTAGACACATATTG
* *
475021 GATATATATCTTTTATTTGACACTTTAACCCCGAATAT
190 GATATATATATTTTATTTGACACTTTAAACCCGAATAT
* * * ** *
475059 AGGTAGCATAGCATCTTTTGGCGTTCTTCTTGAGTT-TTCAGTAGTTCTCAGCTTTAGGCTTGGA
1 AGGTAGCATAGGATGTCTTGAAGTTCTTCATGAGTTATT-AGTAGTTCTCAGCTTTAGGCTTGGA
* * * * *
475123 AGATATGTCCTATTTTTCTCGACTTTTCATTTTTTATAAAAGCA--CC-ACTTCGGACCTGCATG
65 AGATATGTCCTATTTTACTTGACTTTT--TTTTTTCTAAAAGCATCCCGTCTTC-GACCTAC-TG
* * * *
475185 -T-ATGGAGTATGATCTTCCGAATATAT-AAAGAATTTAAAAGA-AAATTGAGTAGAC
126 TTAATGGAATGTGATCTT-CAAATATATGAAA-AATTTAAAAAATAAATTGAGTAGAC
475239 CTGTGGCAGA
Statistics
Matches: 356, Mismatches: 38, Indels: 33
0.83 0.09 0.08
Matches are distributed among these distances:
226 21 0.06
227 48 0.13
228 63 0.18
229 198 0.56
230 26 0.07
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (227 bp):
AGGTAGCATAGGATGTCTTGAAGTTCTTCATGAGTTATTAGTAGTTCTCAGCTTTAGGCTTGGAA
GATATGTCCTATTTTACTTGACTTTTTTTTTTCTAAAAGCATCCCGTCTTCGACCTACTGTTAAT
GGAATGTGATCTTCAAATATATGAAAAATTTAAAAAATAAATTGAGTAGACACATATTGGATATA
TATATTTTATTTGACACTTTAAACCCGAATAT
Found at i:477227 original size:22 final size:20
Alignment explanation
Indices: 477194--477239 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
477184 TATATTATAA
*
477194 AAAACTTATAAAAACTAATT
1 AAAACTTATAAAAACTAAAT
*
477214 AAAACTTAATTAAAAATTAAAT
1 AAAACTT-A-TAAAAACTAAAT
477236 AAAA
1 AAAA
477240 AATTTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 1 0.05
22 14 0.64
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAACTTATAAAAACTAAAT
Found at i:478674 original size:21 final size:20
Alignment explanation
Indices: 478648--478703 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
478638 TTTTTTATTA
478648 AAAAAATTATAATTTAAATAT
1 AAAAAATTA-AATTTAAATAT
*
478669 AAAAAAATAAATTATAAATAT
1 AAAAAATTAAATT-TAAATAT
* *
478690 TAAAATTTAAATTT
1 AAAAAATTAAATTT
478704 TAAACTTACG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 5 0.17
21 25 0.83
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAAATTAAATTTAAATAT
Found at i:479862 original size:13 final size:13
Alignment explanation
Indices: 479844--479869 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
479834 ATAATTACAC
479844 CAACAAAAAGATG
1 CAACAAAAAGATG
479857 CAACAAAAAGATG
1 CAACAAAAAGATG
479870 AAAAGGATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.15, T:0.08
Consensus pattern (13 bp):
CAACAAAAAGATG
Found at i:479980 original size:15 final size:15
Alignment explanation
Indices: 479942--479980 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
479932 GTCAGATTGG
479942 TTTCGGGTTGAATTA
1 TTTCGGGTTGAATTA
*
479957 TTTTGGGTTGAATTA
1 TTTCGGGTTGAATTA
*
479972 TTTCAGGTT
1 TTTCGGGTT
479981 ATAAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.18, C:0.05, G:0.26, T:0.51
Consensus pattern (15 bp):
TTTCGGGTTGAATTA
Found at i:480040 original size:16 final size:16
Alignment explanation
Indices: 479999--480058 Score: 75
Period size: 16 Copynumber: 3.8 Consensus size: 16
479989 TTTGAGTTAT
*
479999 TTTCGGCTTCGGATCA
1 TTTCGGGTTCGGATCA
***
480015 TTTTAAGTTCGGATCA
1 TTTCGGGTTCGGATCA
*
480031 TTTCGGGTTCGGGTCA
1 TTTCGGGTTCGGATCA
480047 TTTCGGGTTCGG
1 TTTCGGGTTCGG
480059 GTCAATCGGG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.12, C:0.18, G:0.30, T:0.40
Consensus pattern (16 bp):
TTTCGGGTTCGGATCA
Found at i:480069 original size:15 final size:16
Alignment explanation
Indices: 480021--480070 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
480011 ATCATTTTAA
* *
480021 GTTCGGATCATTTCGG
1 GTTCGGGTCATATCGG
*
480037 GTTCGGGTCATTTCGG
1 GTTCGGGTCATATCGG
480053 GTTCGGGTCA-ATCGG
1 GTTCGGGTCATATCGG
480068 GTT
1 GTT
480071 TAATATTCGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 7 0.22
16 25 0.78
ACGTcount: A:0.10, C:0.18, G:0.36, T:0.36
Consensus pattern (16 bp):
GTTCGGGTCATATCGG
Found at i:480988 original size:21 final size:22
Alignment explanation
Indices: 480960--481016 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
480950 TATAATTACA
*
480960 TATTATATAATTAATTTAAAAT
1 TATTATATTATTAATTTAAAAT
*
480982 T-TTATATTA-TAATTTATAAT
1 TATTATATTATTAATTTAAAAT
481002 TATTAT-TTATTAATT
1 TATTATATTATTAATT
481017 AGATATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 14 0.45
21 16 0.52
22 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TATTATATTATTAATTTAAAAT
Found at i:481114 original size:16 final size:16
Alignment explanation
Indices: 481095--481150 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
481085 TTTATATTCG
481095 AATCATTATAGATTTA
1 AATCATTATAGATTTA
* *
481111 AATCATTTTAGATTTG
1 AATCATTATAGATTTA
* *
481127 AATCATTTTAAATTTA
1 AATCATTATAGATTTA
*
481143 AATTATTA
1 AATCATTA
481151 ATTTTTTATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.48
Consensus pattern (16 bp):
AATCATTATAGATTTA
Found at i:481118 original size:32 final size:32
Alignment explanation
Indices: 481080--481145 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
481070 AATTATTCGG
* *
481080 ATCATTTTATATTCGAATCATTATAGATTTAA
1 ATCATTTTAGATTCGAATCATTATAAATTTAA
* *
481112 ATCATTTTAGATTTGAATCATTTTAAATTTAA
1 ATCATTTTAGATTCGAATCATTATAAATTTAA
481144 AT
1 AT
481146 TATTAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (32 bp):
ATCATTTTAGATTCGAATCATTATAAATTTAA
Found at i:483785 original size:27 final size:28
Alignment explanation
Indices: 483748--483801 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
483738 ATTACTAACT
*
483748 TTTAATATATATATATATATATAATTAA
1 TTTAATATATACATATATATATAATTAA
*
483776 TTTAAT-TATACATATTTATATAATTA
1 TTTAATATATACATATATATATAATTA
483802 TAATATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
TTTAATATATACATATATATATAATTAA
Found at i:483805 original size:29 final size:30
Alignment explanation
Indices: 483734--483805 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 30
483724 AGTCAAGAAC
*
483734 TATAATTACTAACTTTTAATATATATATATATA
1 TATAATTA-TAA--TTTAATATATACATATATA
*
483767 TATAA-T-TAATTTAAT-TATACATATTTA
1 TATAATTATAATTTAATATATACATATATA
483794 TATAATTATAAT
1 TATAATTATAAT
483806 ATAAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
27 15 0.43
28 7 0.20
29 4 0.11
30 3 0.09
32 1 0.03
33 5 0.14
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (30 bp):
TATAATTATAATTTAATATATACATATATA
Found at i:483866 original size:30 final size:31
Alignment explanation
Indices: 483821--483884 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
483811 TTTAATAATA
483821 AAATTATATTCATTTTATA-TAAAAAAATTT
1 AAATTATATTCATTTTATATTAAAAAAATTT
* * *
483851 AAATTA-ATTCAATTTTTTATTATAATAATTT
1 AAATTATATTC-ATTTTATATTAAAAAAATTT
483882 AAA
1 AAA
483885 ATATTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 4 0.14
30 13 0.45
31 12 0.41
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (31 bp):
AAATTATATTCATTTTATATTAAAAAAATTT
Found at i:483884 original size:31 final size:30
Alignment explanation
Indices: 483813--483884 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
483803 AATATAAATT
*
483813 TAATAA-TAAAATTATATTCATTTTATATA
1 TAATAATTTAAATTATATTCATTTTATATA
* * *
483842 AAAAAATTTAAATTA-ATTCAATTTTTTATTA
1 TAATAATTTAAATTATATTC-ATTTTATA-TA
483873 TAATAATTTAAA
1 TAATAATTTAAA
483885 ATATTATTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
29 8 0.24
30 14 0.41
31 12 0.35
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (30 bp):
TAATAATTTAAATTATATTCATTTTATATA
Found at i:484354 original size:28 final size:27
Alignment explanation
Indices: 484323--484376 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
484313 TTAATTAGAT
* *
484323 ATTAATTTAATTAATAAAAATATAAAAA
1 ATTAATTAAACTAATAAAAATA-AAAAA
*
484351 ATTAATTAAACTAATAATAATAAAAA
1 ATTAATTAAACTAATAAAAATAAAAA
484377 TATTTACATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (27 bp):
ATTAATTAAACTAATAAAAATAAAAAA
Found at i:484740 original size:20 final size:20
Alignment explanation
Indices: 484717--484758 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
484707 TTCATTTCTT
*
484717 AAAAAT-CTAGTCAAATTTA
1 AAAAATACTACTCAAATTTA
484736 AAAAATACTACTCAAATTTA
1 AAAAATACTACTCAAATTTA
484756 AAA
1 AAA
484759 TATTTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAAATACTACTCAAATTTA
Found at i:485085 original size:28 final size:28
Alignment explanation
Indices: 485029--485097 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
485019 ATGTGAAAAA
* *
485029 ATATTTTTATTATTTTTTATATTACATT
1 ATATTTTAATTATTTTATATATTACATT
485057 ATATTTTAATT-TTTTATATCATATA-ATT
1 ATATTTTAATTATTTTATAT-AT-TACATT
* *
485085 ATATCTTATTTAT
1 ATATTTTAATTAT
485098 AGTTATTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
27 7 0.21
28 24 0.71
29 3 0.09
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (28 bp):
ATATTTTAATTATTTTATATATTACATT
Found at i:485524 original size:33 final size:34
Alignment explanation
Indices: 485452--485525 Score: 80
Period size: 36 Copynumber: 2.1 Consensus size: 34
485442 TTTGAATATT
* *
485452 TAAATATTAAATAAATAATTTTATTATTAAATATAA
1 TAAATATTAAATAAATAATATTATTATT--AGATAA
*
485488 TAAATATTTAATAAATAATATTATTTATT-GAT-A
1 TAAATATTAAATAAATAATATTA-TTATTAGATAA
485521 TAAAT
1 TAAAT
485526 TTAGGGTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
33 6 0.18
34 2 0.06
36 21 0.62
37 5 0.15
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (34 bp):
TAAATATTAAATAAATAATATTATTATTAGATAA
Found at i:490943 original size:32 final size:29
Alignment explanation
Indices: 490907--490965 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 29
490897 TTATATAATG
490907 TTTATAAATAATTTTTATATATTTCTATTTAT
1 TTTAT-AATAATTTTT-TATATTT-TATTTAT
* *
490939 TTTATATTTATTTTTTATATTTTATTT
1 TTTATAATAATTTTTTATATTTTATTT
490966 TAATTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.20
30 7 0.28
31 8 0.32
32 5 0.20
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (29 bp):
TTTATAATAATTTTTTATATTTTATTTAT
Found at i:490948 original size:11 final size:11
Alignment explanation
Indices: 490932--490999 Score: 52
Period size: 11 Copynumber: 5.9 Consensus size: 11
490922 TATATATTTC
490932 TATTTATTTTA
1 TATTTATTTTA
490943 TATTTATTTTTTA
1 TATTTA--TTTTA
490956 TATTTTATTTTA
1 TA-TTTATTTTA
*
490968 -ATTAATTTT-
1 TATTTATTTTA
490977 TAATATTATGTTTA
1 T-AT-TTAT-TTTA
490991 TA-TTATTTT
1 TATTTATTTT
491000 TTGTATATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 17
0.71 0.03 0.26
Matches are distributed among these distances:
10 10 0.21
11 13 0.28
12 8 0.17
13 11 0.23
14 5 0.11
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.71
Consensus pattern (11 bp):
TATTTATTTTA
Found at i:490956 original size:13 final size:13
Alignment explanation
Indices: 490938--491001 Score: 57
Period size: 12 Copynumber: 5.3 Consensus size: 13
490928 TTTCTATTTA
490938 TTTTATATTTATT
1 TTTTATATTTATT
*
490951 TTTTATATTT-TA
1 TTTTATATTTATT
*
490963 TTTTA-ATTAATT
1 TTTTATATTTATT
*
490975 TTTAATA-TTA-T
1 TTTTATATTTATT
*
490986 GTTTATA-TTATT
1 TTTTATATTTATT
490998 TTTT
1 TTTT
491002 GTATATTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
11 12 0.30
12 17 0.43
13 11 0.28
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.72
Consensus pattern (13 bp):
TTTTATATTTATT
Found at i:490975 original size:24 final size:25
Alignment explanation
Indices: 490934--491009 Score: 86
Period size: 25 Copynumber: 3.1 Consensus size: 25
490924 TATATTTCTA
*
490934 TTTATTTTATATTTATTTTTTATAT
1 TTTATTTTATATTAATTTTTTATAT
490959 TTTATTTTA-ATTAA-TTTTTA-AT
1 TTTATTTTATATTAATTTTTTATAT
* *
490981 ATTATGTTTATATTATTTTTTGTATAT
1 TTTAT-TTTATATTAATTTTT-TATAT
491008 TT
1 TT
491010 AAAATATTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
22 6 0.14
23 10 0.24
24 8 0.19
25 13 0.31
26 2 0.05
27 3 0.07
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (25 bp):
TTTATTTTATATTAATTTTTTATAT
Found at i:490990 original size:23 final size:24
Alignment explanation
Indices: 490935--491008 Score: 80
Period size: 23 Copynumber: 3.1 Consensus size: 24
490925 ATATTTCTAT
* *
490935 TTATTTTATATTTATTTTTTATATT
1 TTATTTTATA-TTAATTTTTATATA
490960 TTATTTTA-ATTAATTTTTA-ATA
1 TTATTTTATATTAATTTTTATATA
* *
490982 TTATGTTTATATTATTTTTTGTATA
1 TTAT-TTTATATTAATTTTTATATA
491007 TT
1 TT
491009 TAAAATATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
22 6 0.14
23 13 0.31
24 10 0.24
25 13 0.31
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (24 bp):
TTATTTTATATTAATTTTTATATA
Found at i:491069 original size:20 final size:20
Alignment explanation
Indices: 491022--491071 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
491012 AATATTAAAA
* *
491022 ATTTATATAAATTTTTAAAT
1 ATTTATATATATTTTGAAAT
* * *
491042 GTTAATATATATTTTGACAT
1 ATTTATATATATTTTGAAAT
491062 ATTTATATAT
1 ATTTATATAT
491072 TCGTATTATG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (20 bp):
ATTTATATATATTTTGAAAT
Found at i:491091 original size:11 final size:11
Alignment explanation
Indices: 491075--491126 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
491065 TATATATTCG
491075 TATTATGTTTA
1 TATTATGTTTA
*
491086 TATTATTTTTA
1 TATTATGTTTA
*
491097 TATTATATTT-
1 TATTATGTTTA
*
491107 TAATTATTTTTA
1 T-ATTATGTTTA
491119 T-TTATGTT
1 TATTATGTT
491127 ATGTTTATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
10 7 0.20
11 27 0.77
12 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (11 bp):
TATTATGTTTA
Found at i:491112 original size:22 final size:22
Alignment explanation
Indices: 491082--491123 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
491072 TCGTATTATG
491082 TTTATATTATTTTTATATTATAT
1 TTTATATTATTTTTAT-TTATAT
491105 TTTA-ATTATTTTTATTTAT
1 TTTATATTATTTTTATTTAT
491124 GTTATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTATATTATTTTTATTTATAT
Found at i:491123 original size:37 final size:37
Alignment explanation
Indices: 491082--491160 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
491072 TCGTATTATG
* *
491082 TTTATATTATTTTTATATTATATTTTAATT-ATTTTTA
1 TTTATATTATGTTTATATTATATCTTAATTCA-TTTTA
* * *
491119 TTTATGTTATGTTTATATTGTGTCTTAATTCATTTTA
1 TTTATATTATGTTTATATTATATCTTAATTCATTTTA
491156 TTTAT
1 TTTAT
491161 TTGTATAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 35 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.67
Consensus pattern (37 bp):
TTTATATTATGTTTATATTATATCTTAATTCATTTTA
Found at i:491483 original size:17 final size:17
Alignment explanation
Indices: 491430--491501 Score: 67
Period size: 17 Copynumber: 4.3 Consensus size: 17
491420 AGAAAGAAAG
*
491430 AAAAAGGAAAAAAA-AG
1 AAAAAGGAAAAAAAGAA
* *
491446 AGAAAGG-AGAAAAGAA
1 AAAAAGGAAAAAAAGAA
491462 GAAAAAGGAAAAAAAGAA
1 -AAAAAGGAAAAAAAGAA
* **
491480 AAAAAAGAAAAAGGGAA
1 AAAAAGGAAAAAAAGAA
491497 AAAAA
1 AAAAA
491502 TTATTTGTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
15 5 0.11
16 7 0.16
17 25 0.56
18 8 0.18
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
AAAAAGGAAAAAAAGAA
Found at i:491492 original size:33 final size:32
Alignment explanation
Indices: 491418--491492 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
491408 GCTGACAAAG
* * *
491418 AAAGAAAGA-AAGAAAAAGGAAAAAAAAGAGA
1 AAAGAAAAAGAAGAAAAAGGAAAAAAAAAAAA
*
491449 AAGGAGAAAAGAAGAAAAAGGAAAAAAAGAAAAA
1 AAAGA-AAAAGAAGAAAAAGGAAAAAAA-AAAAA
491483 AAAGAAAAAG
1 AAAGAAAAAG
491493 GGAAAAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
31 4 0.11
32 3 0.08
33 22 0.61
34 7 0.19
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (32 bp):
AAAGAAAAAGAAGAAAAAGGAAAAAAAAAAAA
Done.