Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold8
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: 6381039
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 22487 characters in sequence are not A, C, G, or T
File 22 of 33
Found at i:3520613 original size:19 final size:19
Alignment explanation
Indices: 3520572--3520613 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
3520562 ATCATATTCA
* *
3520572 TATTTAATTTAATATTTTT
1 TATTAAATTTAATATTTTG
3520591 TATTAAATTT-ATATTTATG
1 TATTAAATTTAATATTT-TG
3520610 TATT
1 TATT
3520614 TAAAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TATTAAATTTAATATTTTG
Found at i:3524122 original size:13 final size:13
Alignment explanation
Indices: 3524106--3524144 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
3524096 ATTTTTAAAA
3524106 AATATTTATATTT
1 AATATTTATATTT
3524119 AATATTTATATTT
1 AATATTTATATTT
3524132 AATA--TATATTT
1 AATATTTATATTT
3524143 AA
1 AA
3524145 ATATAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 9 0.35
13 17 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATATTTATATTT
Found at i:3524141 original size:11 final size:11
Alignment explanation
Indices: 3524112--3524149 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 11
3524102 AAAAAATATT
3524112 TATATTTAATA
1 TATATTTAATA
3524123 TTTATATTTAATA
1 --TATATTTAATA
3524136 TATATTTAA-A
1 TATATTTAATA
3524146 TATA
1 TATA
3524150 AATATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 5 0.20
11 9 0.36
13 11 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TATATTTAATA
Found at i:3525503 original size:18 final size:18
Alignment explanation
Indices: 3525462--3525510 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
3525452 TAATAATAAA
*
3525462 TTATATTATATAAATTTTG
1 TTATATT-TATATATTTTG
* *
3525481 ATATATTTATATATTTTT
1 TTATATTTATATATTTTG
*
3525499 TTATATTGATAT
1 TTATATTTATAT
3525511 TTAATAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (18 bp):
TTATATTTATATATTTTG
Found at i:3528776 original size:13 final size:13
Alignment explanation
Indices: 3528749--3528790 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
3528739 CCTTGTCTTC
3528749 TTTTTTTTTT-T-
1 TTTTTTTTTTCTA
3528760 TTTTTTTTTTCTA
1 TTTTTTTTTTCTA
* *
3528773 TTTTTTATTTCAA
1 TTTTTTTTTTCTA
3528786 TTTTT
1 TTTTT
3528791 GCTACAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 10 0.37
12 1 0.04
13 16 0.59
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTTTTTCTA
Found at i:3529083 original size:12 final size:12
Alignment explanation
Indices: 3529066--3529123 Score: 59
Period size: 12 Copynumber: 5.1 Consensus size: 12
3529056 AAAATTTTTT
3529066 TATTATTTATAA
1 TATTATTTATAA
*
3529078 TATTA-TTAAAA
1 TATTATTTATAA
* *
3529089 TATTTTTTATAT
1 TATTATTTATAA
*
3529101 TAATATTTAT-A
1 TATTATTTATAA
3529112 TATT-TTTATAA
1 TATTATTTATAA
3529123 T
1 T
3529124 TAAATTTAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
10 5 0.14
11 14 0.39
12 17 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTATTTATAA
Found at i:3529097 original size:23 final size:23
Alignment explanation
Indices: 3529066--3529145 Score: 65
Period size: 23 Copynumber: 3.4 Consensus size: 23
3529056 AAAATTTTTT
* *
3529066 TATTATTTATAATATTATTAAAA
1 TATTTTTTATAATAATATTAAAA
* * *
3529089 TATTTTTTATATTAATATTTATA
1 TATTTTTTATAATAATATTAAAA
3529112 TA-TTTTTATAATTAA-ATTTAAATA
1 TATTTTTTATAA-TAATA-TTAAA-A
*
3529136 AATTTTTTAT
1 TATTTTTTAT
3529146 TATATTAAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
22 9 0.20
23 26 0.59
24 2 0.05
25 7 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TATTTTTTATAATAATATTAAAA
Found at i:3529147 original size:22 final size:23
Alignment explanation
Indices: 3529092--3529157 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
3529082 ATTAAAATAT
*
3529092 TTTTTATATTAATATTT--ATATA
1 TTTTTATATTAA-ATTTAAATAAA
3529114 TTTTTATAATTAAATTTAAATAAA
1 TTTTTAT-ATTAAATTTAAATAAA
*
3529138 TTTTT-TATTATA-TTAAATAA
1 TTTTTATATTAAATTTAAATAA
3529158 TAATAATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 8 0.21
22 16 0.41
23 6 0.15
24 9 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTTATATTAAATTTAAATAAA
Found at i:3529711 original size:3 final size:3
Alignment explanation
Indices: 3529703--3529752 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
3529693 CTTAGTTTGT
*
3529703 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3529751 TT
1 TT
3529753 TTGGTTTTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:3536429 original size:21 final size:20
Alignment explanation
Indices: 3536383--3536434 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
3536373 AAAAAGAAAA
3536383 AATTATATA-TTTATGTCAT
1 AATTATATATTTTATGTCAT
* * *
3536402 ATTTATATTATTTTTTGTTAT
1 AATTATA-TATTTTATGTCAT
3536423 AATTATATATTT
1 AATTATATATTT
3536435 AAAATATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 6 0.22
20 7 0.26
21 14 0.52
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (20 bp):
AATTATATATTTTATGTCAT
Found at i:3542786 original size:18 final size:18
Alignment explanation
Indices: 3542752--3542790 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3542742 ATATTAATGG
*
3542752 TAAAATAAAATTGAAAAT
1 TAAAATAAAATTAAAAAT
3542770 TAAAA-AAAAGTTAAAAAT
1 TAAAATAAAA-TTAAAAAT
3542788 TAA
1 TAA
3542791 TTATCAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
TAAAATAAAATTAAAAAT
Found at i:3544817 original size:30 final size:30
Alignment explanation
Indices: 3544781--3544841 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
3544771 TGTTATACCT
3544781 ATTAAGATTGTTTCTTTTAAACTCTCATGA
1 ATTAAGATTGTTTCTTTTAAACTCTCATGA
3544811 ATTAAGATTGTTTCTTTTAAACTCTCATGA
1 ATTAAGATTGTTTCTTTTAAACTCTCATGA
3544841 A
1 A
3544842 ATTATATATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (30 bp):
ATTAAGATTGTTTCTTTTAAACTCTCATGA
Found at i:3547882 original size:2 final size:2
Alignment explanation
Indices: 3547877--3547911 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3547867 AATCTAGCAC
3547877 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
3547912 AGAGAGAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.51, T:0.49
Consensus pattern (2 bp):
GT
Found at i:3550005 original size:10 final size:10
Alignment explanation
Indices: 3549990--3550015 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
3549980 AATTCCAACG
3549990 TTTTCTTACA
1 TTTTCTTACA
3550000 TTTTCTTACA
1 TTTTCTTACA
3550010 TTTTCT
1 TTTTCT
3550016 AAAGTACCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTCTTACA
Found at i:3554065 original size:2 final size:2
Alignment explanation
Indices: 3554058--3554083 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3554048 CATCTGAACT
3554058 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
3554084 CTTTTCTTTT
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:3555656 original size:16 final size:16
Alignment explanation
Indices: 3555637--3555679 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
3555627 TTAAATATAA
*
3555637 TTTTAAAAAAATAATT
1 TTTTAAAAAAATAATC
*
3555653 TTTTAAAAAAATTATC
1 TTTTAAAAAAATAATC
*
3555669 ATTTAAAAAAA
1 TTTTAAAAAAA
3555680 CTCATATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
TTTTAAAAAAATAATC
Found at i:3556020 original size:2 final size:2
Alignment explanation
Indices: 3556013--3556037 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3556003 TATCAAACCT
3556013 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
3556038 CATCAGCAGC
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:3556049 original size:3 final size:3
Alignment explanation
Indices: 3556036--3556071 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
3556026 AGAGAGAGAG
*
3556036 AGC ATC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC
3556072 GCTGATACCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.33, G:0.31, T:0.03
Consensus pattern (3 bp):
AGC
Found at i:3556934 original size:2 final size:2
Alignment explanation
Indices: 3556929--3556960 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
3556919 TTTATATACC
*
3556929 TA TA TA TA TA TA TT 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
3556961 ATCTTATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:3556940 original size:14 final size:14
Alignment explanation
Indices: 3556921--3556954 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3556911 CGTTTCCTTT
3556921 TATATACCTATATA
1 TATATACCTATATA
**
3556935 TATATATTTATATA
1 TATATACCTATATA
3556949 TATATA
1 TATATA
3556955 TATATAATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (14 bp):
TATATACCTATATA
Found at i:3557026 original size:17 final size:17
Alignment explanation
Indices: 3556995--3557041 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
3556985 CAATATTAAA
*
3556995 ATTAAA-ATTAAAATTT
1 ATTAAATATTATAATTT
3557011 ATTAAATATTATAATTT
1 ATTAAATATTATAATTT
*
3557028 -TAAAATAATTATAA
1 ATTAAAT-ATTATAA
3557042 AATATAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTAAATATTATAATTT
Found at i:3557057 original size:27 final size:25
Alignment explanation
Indices: 3557001--3557060 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 25
3556991 TAAAATTAAA
* *
3557001 ATTAAAATTTATTAAATATTATAAT
1 ATTAAAATTTATAAAATATAATAAT
* *
3557026 TTTAAAATAATTATAAAATATAATTAT
1 ATTAAAAT--TTATAAAATATAATAAT
3557053 ATTAAAAT
1 ATTAAAAT
3557061 CGACTTAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 7 0.25
27 21 0.75
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
ATTAAAATTTATAAAATATAATAAT
Found at i:3557670 original size:2 final size:2
Alignment explanation
Indices: 3557663--3557687 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3557653 AACGAAAGTG
3557663 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3557688 TAAATTGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3563061 original size:2 final size:2
Alignment explanation
Indices: 3563054--3563084 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3563044 TTCAATAAAT
3563054 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3563085 CAAAAGGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3563684 original size:2 final size:2
Alignment explanation
Indices: 3563679--3563732 Score: 69
Period size: 2 Copynumber: 28.0 Consensus size: 2
3563669 ATAGAGTTAG
*
3563679 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GA- AT A- AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
3563720 AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT
3563733 TTATTATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
1 3 0.07
2 42 0.91
3 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:3564210 original size:6 final size:6
Alignment explanation
Indices: 3564201--3564239 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
3564191 TAAAAATAAA
*
3564201 AAATTT AAATTAT AAATAAT AAATTT AAATTT AAATTT A
1 AAATTT AAATT-T AAAT-TT AAATTT AAATTT AAATTT A
3564240 TTAAATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 19 0.66
7 10 0.34
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AAATTT
Found at i:3564217 original size:20 final size:19
Alignment explanation
Indices: 3564194--3564236 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
3564184 TATGATTTAA
3564194 AAATAAAAAATTTAAATTAT
1 AAATAAAAAATTTAAATT-T
*
3564214 AAATAATAAATTTAAATTT
1 AAATAAAAAATTTAAATTT
3564233 AAAT
1 AAAT
3564237 TTATTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATAAAAAATTTAAATTT
Found at i:3567550 original size:13 final size:13
Alignment explanation
Indices: 3567532--3567569 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
3567522 CGTTCCCCAC
3567532 AAAAAAAA-AAAA
1 AAAAAAAACAAAA
3567544 AAAAAAAACAAAA
1 AAAAAAAACAAAA
*
3567557 CAAAAAAACAAAA
1 AAAAAAAACAAAA
3567570 GTTTTGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAACAAAA
Found at i:3571333 original size:20 final size:20
Alignment explanation
Indices: 3571310--3571348 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3571300 AATACGATAA
*
3571310 AAATAATATATATATATATT
1 AAATAATATATAAATATATT
**
3571330 AAATTTTATATAAATATAT
1 AAATAATATATAAATATAT
3571349 AATATTTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AAATAATATATAAATATATT
Found at i:3571341 original size:18 final size:20
Alignment explanation
Indices: 3571316--3571376 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 20
3571306 ATAAAAATAA
*
3571316 TATATATATATATTAA-ATTT
1 TATATAAATATA-TAATATTT
3571336 TATATAAATATATAATATTTT
1 TATATAAATATATAATA-TTT
3571357 TAATATAATTATATATAATA
1 T-ATATAA--ATATATAATA
3571377 AATAAAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 3 0.09
20 12 0.34
21 4 0.11
22 6 0.17
24 10 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATATAAATATATAATATTT
Found at i:3571362 original size:22 final size:22
Alignment explanation
Indices: 3571313--3571377 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
3571303 ACGATAAAAA
* *
3571313 TAATATATATATATATTAAATTT
1 TAATATAAATATATAAT-AATTT
*
3571336 T-ATATAAATATATAATATTTT
1 TAATATAAATATATAATAATTT
3571357 TAATATAATTATATATAATAA
1 TAATATAA--ATATATAATAA
3571378 ATAAAAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 5 0.14
22 19 0.54
23 1 0.03
24 10 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAATATAAATATATAATAATTT
Found at i:3571632 original size:2 final size:2
Alignment explanation
Indices: 3571625--3571657 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3571615 TCTTAAAAAC
3571625 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3571658 TTCTCGATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3575241 original size:6 final size:6
Alignment explanation
Indices: 3575232--3575263 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
3575222 AAAAAAATCC
*
3575232 TCTGTT TCTGTT TCTGTT TCTGCT TCTGTT TC
1 TCTGTT TCTGTT TCTGTT TCTGTT TCTGTT TC
3575264 GGACATCGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.22, G:0.16, T:0.62
Consensus pattern (6 bp):
TCTGTT
Found at i:3576084 original size:2 final size:2
Alignment explanation
Indices: 3576077--3576102 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3576067 TTTGTGTTAC
3576077 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
3576103 TTCCTTCATT
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:3578432 original size:15 final size:15
Alignment explanation
Indices: 3578398--3578438 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
3578388 TCCAAACTAC
*
3578398 AAATTTTAAATTCAT
1 AAATTTTAAAATCAT
*
3578413 -GATTTTAAAATCAT
1 AAATTTTAAAATCAT
3578427 AAATTTTAAAAT
1 AAATTTTAAAAT
3578439 TTAAACTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (15 bp):
AAATTTTAAAATCAT
Found at i:3589143 original size:270 final size:272
Alignment explanation
Indices: 3588766--3589308 Score: 948
Period size: 270 Copynumber: 2.0 Consensus size: 272
3588756 CAAAAGTCAT
3588766 GAGCAAAAACTCATATGCCGTTCCCAAACGTCTCAAAACACATCCCAAATTAAAAAAAAAATAAC
1 GAGCAAAAACTCATATGCCGTTCCCAAACGTCTCAAAACACATCCCAAATT-AAAAAAAAATAAC
*
3588831 AGCATGAGCCATAACCCAAAAGTAACAACATGGACAACTCAGAACATGACTATAGCAACCCAAAT
65 AGCATGAGCCATAACCCAAAAGCAACAACATGGACAACTCAGAACATGACTATAGCAACCCAAAT
*
3588896 TCAATATCTCTTACCTCATCCCTTCTCCATGAAAGTGCACTCAAATCTAGCAGGAAGCAACAAGC
130 TCAATATCTCTTACCTCATCCCTTCCCCATGAAAGTGCACTCAAATCTAGCAGGAAGCAACAAGC
*
3588961 ACAAAACAAATGAAAATGGGGGAAACATGCACAAGATACCGCCTGAATGTTCCCTTTTA-TTTGA
195 ACAAAACAAATGAAAATGGGGGAAACATGCACAAGATACCGCCTGAATGTTCACTTTTACTTTGA
3589025 AAGTTGATAATTG
260 AAGTTGATAATTG
*
3589038 GAGC-AAAACATCATATGCCGTTCCCAAACGTCTCAAAACACATCCCAAATT-AAAAACAATAAC
1 GAGCAAAAAC-TCATATGCCGTTCCCAAACGTCTCAAAACACATCCCAAATTAAAAAAAAATAAC
* *
3589101 AGCATGAGCCATAACCCAAAAGCAACAACATTGACAACTCAGAACATGACTGTAGCAACCCAAAT
65 AGCATGAGCCATAACCCAAAAGCAACAACATGGACAACTCAGAACATGACTATAGCAACCCAAAT
*
3589166 TCAATATCTTTTACCTCATCCCTTCCCCATGAAAGTGCACTCAAATCTAGCAGGAAGCAACAAGC
130 TCAATATCTCTTACCTCATCCCTTCCCCATGAAAGTGCACTCAAATCTAGCAGGAAGCAACAAGC
* * * *
3589231 ACAAACCAACTGAAAATGGGGGAAACATGCACAAGATGCCTCCTGAATGTTCACTTTTACTTTGA
195 ACAAAACAAATGAAAATGGGGGAAACATGCACAAGATACCGCCTGAATGTTCACTTTTACTTTGA
3589296 AAGTTGATAATTG
260 AAGTTGATAATTG
3589309 CCAGTATTGA
Statistics
Matches: 258, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
270 190 0.74
271 23 0.09
272 45 0.17
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.21
Consensus pattern (272 bp):
GAGCAAAAACTCATATGCCGTTCCCAAACGTCTCAAAACACATCCCAAATTAAAAAAAAATAACA
GCATGAGCCATAACCCAAAAGCAACAACATGGACAACTCAGAACATGACTATAGCAACCCAAATT
CAATATCTCTTACCTCATCCCTTCCCCATGAAAGTGCACTCAAATCTAGCAGGAAGCAACAAGCA
CAAAACAAATGAAAATGGGGGAAACATGCACAAGATACCGCCTGAATGTTCACTTTTACTTTGAA
AGTTGATAATTG
Found at i:3590207 original size:42 final size:42
Alignment explanation
Indices: 3590148--3590232 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
3590138 CTGCTGATCC
3590148 TGTCGCTGTGTTTTTGAGTGTTAACGCTATGGATTCAAGCTG
1 TGTCGCTGTGTTTTTGAGTGTTAACGCTATGGATTCAAGCTG
3590190 TGTCGCTGTGTTTTTGAGTGTTAACGCTATGGATTCAAGCTG
1 TGTCGCTGTGTTTTTGAGTGTTAACGCTATGGATTCAAGCTG
3590232 T
1 T
3590233 TATCAATGGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.16, C:0.14, G:0.28, T:0.41
Consensus pattern (42 bp):
TGTCGCTGTGTTTTTGAGTGTTAACGCTATGGATTCAAGCTG
Found at i:3590217 original size:21 final size:21
Alignment explanation
Indices: 3590151--3590217 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
3590141 CTGATCCTGT
3590151 CGCTGTGTTTTTGAGTGTTAA
1 CGCTGTGTTTTTGAGTGTTAA
* ** **
3590172 CGCTATGGATTCAAGCTGTGT--
1 CGCTGTGTTTTTGAG-TGT-TAA
3590193 CGCTGTGTTTTTGAGTGTTAA
1 CGCTGTGTTTTTGAGTGTTAA
3590214 CGCT
1 CGCT
3590218 ATGGATTCAA
Statistics
Matches: 32, Mismatches: 10, Indels: 8
0.64 0.20 0.16
Matches are distributed among these distances:
19 1 0.03
20 3 0.09
21 24 0.75
22 3 0.09
23 1 0.03
ACGTcount: A:0.15, C:0.15, G:0.28, T:0.42
Consensus pattern (21 bp):
CGCTGTGTTTTTGAGTGTTAA
Found at i:3591212 original size:15 final size:14
Alignment explanation
Indices: 3591186--3591215 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3591176 TTCAACCATA
3591186 TATGCTAATTTTTT
1 TATGCTAATTTTTT
*
3591200 TATGCTAAATTTTT
1 TATGCTAATTTTTT
3591214 TA
1 TA
3591216 ATGCAGGGAA
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:0.27, C:0.07, G:0.07, T:0.60
Consensus pattern (14 bp):
TATGCTAATTTTTT
Found at i:3592070 original size:3 final size:3
Alignment explanation
Indices: 3592062--3592087 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3592052 CCTACTTTTG
3592062 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
3592088 TTGTATTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:3596229 original size:2 final size:2
Alignment explanation
Indices: 3596217--3596252 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
3596207 GTTCTACCAC
*
3596217 TA TA TA CA 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
3596253 AAAGATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:3597049 original size:2 final size:2
Alignment explanation
Indices: 3597042--3597072 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3597032 TTTAAGTCCT
3597042 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3597073 TAAAACGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3603254 original size:34 final size:34
Alignment explanation
Indices: 3603214--3603279 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
3603204 AACAATTAAC
*
3603214 ATGTCCTACAAAGAAATACATTGGCAAACATAAT
1 ATGTCCTACAAAGAAAGACATTGGCAAACATAAT
* *
3603248 ATGTCCTACGAAGAAAGATATTGGCAAACATA
1 ATGTCCTACAAAGAAAGACATTGGCAAACATA
3603280 GATGAGATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (34 bp):
ATGTCCTACAAAGAAAGACATTGGCAAACATAAT
Found at i:3604274 original size:30 final size:30
Alignment explanation
Indices: 3604240--3604316 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 30
3604230 CAACAGACTT
*
3604240 GGGTAAACAATAATCATTCCAAACTTCAAA
1 GGGTAAAGAATAATCATTCCAAACTTCAAA
* *
3604270 GGGTAAAGAATAGTCATTCCTAACTTCAAA
1 GGGTAAAGAATAATCATTCCAAACTTCAAA
3604300 GGGTAAAGAATAATCAT
1 GGGTAAAGAATAATCAT
3604317 AACTTAAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.25
Consensus pattern (30 bp):
GGGTAAAGAATAATCATTCCAAACTTCAAA
Found at i:3604319 original size:26 final size:28
Alignment explanation
Indices: 3604261--3604326 Score: 82
Period size: 30 Copynumber: 2.4 Consensus size: 28
3604251 AATCATTCCA
*
3604261 AACTTCAAAGGGTAAAGAATAGTCATTCCT
1 AACTTCAAAGGGTAAAGAATA--CATTCAT
3604291 AACTTCAAAGGGTAAAGAATA-A-TCAT
1 AACTTCAAAGGGTAAAGAATACATTCAT
*
3604317 AACTTAAAAG
1 AACTTCAAAG
3604327 AAATATAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 12 0.35
27 1 0.03
30 21 0.62
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.24
Consensus pattern (28 bp):
AACTTCAAAGGGTAAAGAATACATTCAT
Found at i:3606562 original size:2 final size:2
Alignment explanation
Indices: 3606555--3606587 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3606545 GTAAAACTCT
3606555 GA GA GA GA 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 GA GA GA GA G
3606588 GTACAGTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3617350 original size:28 final size:28
Alignment explanation
Indices: 3617304--3617358 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
3617294 AATATCATTA
* *
3617304 TTTTATCAGTAAATGAATTTTTAATAAAT
1 TTTTACCAGTAAATGAATTATT-ATAAAT
*
3617333 TTTTACCATTAAAT-AATTATTATAAA
1 TTTTACCAGTAAATGAATTATTATAAA
3617359 AAAATTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 5 0.22
28 6 0.26
29 12 0.52
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (28 bp):
TTTTACCAGTAAATGAATTATTATAAAT
Found at i:3619486 original size:22 final size:23
Alignment explanation
Indices: 3619461--3619512 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
3619451 TAAATTTAAG
3619461 TATAAA-AATATATAAA-TATTTA
1 TATAAATAAT-TATAAACTATTTA
3619483 TATAAATAATTATAAACTA-TTA
1 TATAAATAATTATAAACTATTTA
*
3619505 TTTAAATA
1 TATAAATA
3619513 GTAAAATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
TATAAATAATTATAAACTATTTA
Found at i:3624560 original size:6 final size:6
Alignment explanation
Indices: 3624549--3624594 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
3624539 TAAATACTAA
3624549 ATTTAT ATTTAT ATTTA- ATATTA- ATTTA- ATTATAT ATTTAT ATTTA
1 ATTTAT ATTTAT ATTTAT AT-TTAT ATTTAT ATT-TAT ATTTAT ATTTA
3624595 ATACTCATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 8 0.22
6 26 0.70
7 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (6 bp):
ATTTAT
Found at i:3624586 original size:29 final size:28
Alignment explanation
Indices: 3624548--3624606 Score: 91
Period size: 29 Copynumber: 2.1 Consensus size: 28
3624538 TTAAATACTA
*
3624548 AATTTATATTTATATTTAATATTAATTT
1 AATTTATATTTATATTTAATACTAATTT
*
3624576 AATTATATATTTATATTTAATACTCATTT
1 AATT-TATATTTATATTTAATACTAATTT
3624605 AA
1 AA
3624607 ATTTTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (28 bp):
AATTTATATTTATATTTAATACTAATTT
Found at i:3624596 original size:23 final size:23
Alignment explanation
Indices: 3624548--3624592 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
3624538 TTAAATACTA
3624548 AATTTATATTTATATTTAATATT
1 AATTTATATTTATATTTAATATT
3624571 AATTTA-ATTATATATTT-ATATT
1 AATTTATATT-TATATTTAATATT
3624593 TAATACTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
AATTTATATTTATATTTAATATT
Found at i:3628314 original size:2 final size:2
Alignment explanation
Indices: 3628307--3628345 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3628297 ATAGTACGTT
3628307 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3628346 GTGCATAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3628703 original size:2 final size:2
Alignment explanation
Indices: 3628696--3628720 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3628686 TCTCATTCTG
3628696 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
3628721 ATGAAAATTG
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:3629308 original size:17 final size:18
Alignment explanation
Indices: 3629282--3629315 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3629272 ATTAAATTTT
*
3629282 AATTATTATT-TTTAATA
1 AATTAATATTATTTAATA
3629299 AATTAATATTATTTAAT
1 AATTAATATTATTTAAT
3629316 TTATTGATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTAATATTATTTAATA
Found at i:3629346 original size:16 final size:16
Alignment explanation
Indices: 3629322--3629353 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3629312 TAATTTATTG
*
3629322 ATAATATATATTTAAT
1 ATAAAATATATTTAAT
3629338 ATAAAATATATTTAAT
1 ATAAAATATATTTAAT
3629354 TAATTTTTAT
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATAAAATATATTTAAT
Found at i:3629359 original size:25 final size:25
Alignment explanation
Indices: 3629331--3629378 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
3629321 GATAATATAT
3629331 ATTTAATATAAA-ATATATTTAATTA
1 ATTT-ATATAAATATATATTTAATTA
* *
3629356 ATTTTTATAAATTTATATTTAAT
1 ATTTATATAAATATATATTTAAT
3629379 ATATTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
ATTTATATAAATATATATTTAATTA
Found at i:3629404 original size:34 final size:34
Alignment explanation
Indices: 3629326--3629409 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 34
3629316 TTATTGATAA
*
3629326 TATATATTTAATATAAAATATATTTAATTAATTTT
1 TATATATTT-ATATAAAATATATTTAATTAATTTG
* **
3629361 TATAAATTTATATTTAATATA-TTAA-TAATGTATG
1 TATATATTTATATAAAATATATTTAATTAAT-T-TG
3629395 TATATATTTATATAA
1 TATATATTTATATAA
3629410 TTTTAATAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
32 4 0.10
33 5 0.12
34 23 0.57
35 8 0.20
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (34 bp):
TATATATTTATATAAAATATATTTAATTAATTTG
Found at i:3629756 original size:11 final size:11
Alignment explanation
Indices: 3629666--3629761 Score: 54
Period size: 11 Copynumber: 9.7 Consensus size: 11
3629656 CACAATTTAT
* *
3629666 ATATTAATATT
1 ATATTTATATA
3629677 ATATTTATATA
1 ATATTTATATA
3629688 A-ATTT-T-T-
1 ATATTTATATA
*
3629695 ATA-TCATATA
1 ATATTTATATA
3629705 ATATTTA-A-A
1 ATATTTATATA
3629714 ATA-TTATATA
1 ATATTTATATA
*
3629724 A-ATAT-TAT-
1 ATATTTATATA
*
3629732 ATATTTATTTTA
1 ATATTTA-TATA
3629744 ATATTTATATA
1 ATATTTATATA
3629755 AT-TTTAT
1 ATATTTAT
3629762 TGTTTTTATA
Statistics
Matches: 65, Mismatches: 8, Indels: 25
0.66 0.08 0.26
Matches are distributed among these distances:
7 2 0.03
8 7 0.11
9 14 0.22
10 16 0.25
11 19 0.29
12 7 0.11
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (11 bp):
ATATTTATATA
Found at i:3630277 original size:17 final size:17
Alignment explanation
Indices: 3630256--3630307 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
3630246 TATATTAATT
3630256 TAATATTTAAAAA-TTA
1 TAATATTTAAAAATTTA
*
3630272 TAA-ATATTAAATATTTA
1 TAATAT-TTAAAAATTTA
*
3630289 TAATTTTTAAAAATTTA
1 TAATATTTAAAAATTTA
3630306 TA
1 TA
3630308 GTTGATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 2 0.07
16 9 0.30
17 18 0.60
18 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAATATTTAAAAATTTA
Found at i:3630318 original size:18 final size:17
Alignment explanation
Indices: 3630262--3630319 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
3630252 AATTTAATAT
*
3630262 TTAAAAA-TTATAAATA
1 TTAAAAATTTATAATTA
* *
3630278 TTAAATATTTATAATTT
1 TTAAAAATTTATAATTA
*
3630295 TTAAAAATTTATAGTTGA
1 TTAAAAATTTATAATT-A
3630313 TTAAAAA
1 TTAAAAA
3630320 CAAATATATA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 6 0.18
17 21 0.62
18 7 0.21
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TTAAAAATTTATAATTA
Found at i:3630324 original size:22 final size:22
Alignment explanation
Indices: 3630299--3630341 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3630289 TAATTTTTAA
* *
3630299 AAATTTATAGTTGATTAAAAAC
1 AAATATATAATTGATTAAAAAC
*
3630321 AAATATATAATTTATTAAAAA
1 AAATATATAATTGATTAAAAA
3630342 ACATAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (22 bp):
AAATATATAATTGATTAAAAAC
Found at i:3632401 original size:22 final size:21
Alignment explanation
Indices: 3632355--3632393 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
3632345 TGAATTCTAA
3632355 TAAATTTATAATTTTTTTTCT
1 TAAATTTATAATTTTTTTTCT
3632376 TAAATTT-TAATTTTTTTT
1 TAAATTTATAATTTTTTTT
3632394 GTGCTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (21 bp):
TAAATTTATAATTTTTTTTCT
Found at i:3632951 original size:42 final size:41
Alignment explanation
Indices: 3632823--3632953 Score: 133
Period size: 41 Copynumber: 3.0 Consensus size: 41
3632813 ACATGCTTTA
3632823 TTTATTTATTTTTTAAAATATATAATAAAAAATATGATAATATTT
1 TTTATTTATTTTTT-AAATATATAAT-AAAAATAT-ATAATA-TT
* * *
3632868 ATTTTTTTAATTTTATAAAT-TA-AATTAAAAAGT-TATCATATT
1 -TTTATTT-ATTTTTTAAATATATAA-TAAAAA-TATATAATATT
3632910 TTTATTTATTTTTTAAATATATAATAAAAATATAATAATATT
1 TTTATTTATTTTTTAAATATATAATAAAAATAT-ATAATATT
3632952 TT
1 TT
3632954 AGTTATATTT
Statistics
Matches: 72, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
40 11 0.15
41 15 0.21
42 13 0.18
43 5 0.07
44 8 0.11
45 4 0.06
46 10 0.14
47 6 0.08
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.53
Consensus pattern (41 bp):
TTTATTTATTTTTTAAATATATAATAAAAATATATAATATT
Found at i:3632996 original size:22 final size:22
Alignment explanation
Indices: 3632971--3633014 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
3632961 TTTATAAAAT
3632971 TTAAAAAATATATC-ATTATATA
1 TTAAAAAAT-TATCTATTATATA
* *
3632993 TTAAATAATTATCTATTTTATA
1 TTAAAAAATTATCTATTATATA
3633015 ATATCATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAAAAAATTATCTATTATATA
Found at i:3633146 original size:2 final size:2
Alignment explanation
Indices: 3633141--3633168 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3633131 AAAATAAAAA
3633141 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3633169 GGAAACCCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3634325 original size:3 final size:3
Alignment explanation
Indices: 3634317--3634342 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3634307 GAATAAAAAC
3634317 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
3634343 ATTAGTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:3636030 original size:13 final size:13
Alignment explanation
Indices: 3636009--3636038 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3635999 ATTTAAAACG
3636009 TATTAAATATAAA
1 TATTAAATATAAA
*
3636022 TATTGAATATAAA
1 TATTAAATATAAA
3636035 TATT
1 TATT
3636039 TTTTTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (13 bp):
TATTAAATATAAA
Found at i:3641625 original size:3 final size:3
Alignment explanation
Indices: 3641619--3641654 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
3641609 TTTGAAATTC
3641619 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3641655 GAATGTAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3642027 original size:2 final size:2
Alignment explanation
Indices: 3642016--3642065 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
3642006 GTCCTTATTC
3642016 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
3642057 TA TA TA TA T
1 TA TA TA TA T
3642066 CTCTTTGGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3649377 original size:21 final size:21
Alignment explanation
Indices: 3649347--3649392 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
3649337 TTAATTATTA
*
3649347 TTTATAAATTTATAAATATAAT
1 TTTATAAATTAATAAATA-AAT
3649369 TTTAT-AATTAATAAATAAAT
1 TTTATAAATTAATAAATAAAT
3649389 TTTA
1 TTTA
3649393 CATATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.30
21 11 0.48
22 5 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTATAAATTAATAAATAAAT
Found at i:3649656 original size:26 final size:27
Alignment explanation
Indices: 3649626--3649683 Score: 84
Period size: 25 Copynumber: 2.2 Consensus size: 27
3649616 TGGATAATTT
*
3649626 TTTATTTTTTAAATAATAATAATA-AA
1 TTTATTTTTTAAATAAAAATAATATAA
3649652 TTTA-TTTTTAAATAAAAATAATATAA
1 TTTATTTTTTAAATAAAAATAATATAA
*
3649678 TATATT
1 TTTATT
3649684 AATTTTACAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 18 0.64
26 9 0.32
27 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
TTTATTTTTTAAATAAAAATAATATAA
Found at i:3650112 original size:18 final size:17
Alignment explanation
Indices: 3650081--3650129 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
3650071 TCTTAAAAGG
3650081 TAAATAAAATTATTTT-
1 TAAATAAAATTATTTTA
3650097 TAAATTAAATATTATTTTA
1 TAAA-TAAA-ATTATTTTA
3650116 TAAA-AATAATTATT
1 TAAATAA-AATTATT
3650130 AATATTCAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.14
17 12 0.41
18 9 0.31
19 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAATAAAATTATTTTA
Found at i:3650272 original size:17 final size:16
Alignment explanation
Indices: 3650245--3650279 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
3650235 TTTATATTAT
*
3650245 AATTAAAAAATTATAA
1 AATTAAAAAATAATAA
3650261 AATTATAAAAATAATAA
1 AATTA-AAAAATAATAA
3650278 AA
1 AA
3650280 AATTACAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATTAAAAAATAATAA
Found at i:3655290 original size:3 final size:3
Alignment explanation
Indices: 3655282--3655315 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
3655272 GGTATAGCTT
3655282 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
3655316 GGAATCACTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:3656985 original size:2 final size:2
Alignment explanation
Indices: 3656978--3657018 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
3656968 CTCCCCCACC
3656978 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
3657019 ATTTATCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:3657871 original size:19 final size:18
Alignment explanation
Indices: 3657833--3657872 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
3657823 AGAAAAAAAC
*
3657833 ATGAAAAAATATGAACAA
1 ATGAAAAAACATGAACAA
*
3657851 ATGAAAAGAACATGAATAA
1 ATGAAAA-AACATGAACAA
3657870 ATG
1 ATG
3657873 GGCTTAGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.62, C:0.05, G:0.15, T:0.17
Consensus pattern (18 bp):
ATGAAAAAACATGAACAA
Found at i:3658823 original size:2 final size:2
Alignment explanation
Indices: 3658812--3658842 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
3658802 TTTGGAATAC
3658812 AT AT -T 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
3658843 TGATCTCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:3659238 original size:2 final size:2
Alignment explanation
Indices: 3659231--3659256 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3659221 ACCTCACACC
3659231 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
3659257 CACATATAAA
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:3660066 original size:24 final size:23
Alignment explanation
Indices: 3660032--3660077 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
3660022 AAAAATTTTA
3660032 TTTAAATTTAATTATAATATAAAAT
1 TTTAAATTTAATT-TAA-ATAAAAT
3660057 TTTAAA-TTAATTTAAATAAAA
1 TTTAAATTTAATTTAAATAAAA
3660078 AAAATTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.29
23 3 0.14
24 6 0.29
25 6 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TTTAAATTTAATTTAAATAAAAT
Found at i:3660079 original size:24 final size:25
Alignment explanation
Indices: 3660032--3660079 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
3660022 AAAAATTTTA
*
3660032 TTTAAATTTAATTATAATATAAAAT
1 TTTAAATTTAATTATAATAAAAAAT
3660057 TTTAAA-TTAATT-TAAATAAAAAA
1 TTTAAATTTAATTAT-AATAAAAAA
3660080 AATTCAAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 14 0.67
25 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
TTTAAATTTAATTATAATAAAAAAT
Found at i:3662012 original size:20 final size:20
Alignment explanation
Indices: 3661989--3662057 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 20
3661979 TTTAAAAATT
*
3661989 TATTTTATTATTTAAAATAA
1 TATTTTATAATTTAAAATAA
* * *
3662009 TATTTAAAAATTTAAAATTA
1 TATTTTATAATTTAAAATAA
*
3662029 T-TTTTAT-A-TTAATATTAA
1 TATTTTATAATTTAA-AATAA
3662047 TA-TTTATAATT
1 TATTTTATAATT
3662058 AAATTTATAT
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
17 4 0.11
18 10 0.27
19 5 0.14
20 18 0.49
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTTTATAATTTAAAATAA
Found at i:3662042 original size:32 final size:32
Alignment explanation
Indices: 3661978--3662044 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
3661968 ATACAGATTG
**
3661978 ATTTAAAAATTTATTTTATTATTTAAAATAAT
1 ATTTAAAAATTTAAATTATTATTTAAAATAAT
* *
3662010 ATTTAAAAATTTAAAATTATT-TTTATATTAAT
1 ATTTAAAAATTT-AAATTATTATTTAAAATAAT
3662042 ATT
1 ATT
3662045 AATATTTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 24 0.80
33 6 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (32 bp):
ATTTAAAAATTTAAATTATTATTTAAAATAAT
Found at i:3670492 original size:2 final size:2
Alignment explanation
Indices: 3670485--3670518 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3670475 GGTTTGGACC
3670485 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
3670519 ATTGCTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3672764 original size:255 final size:255
Alignment explanation
Indices: 3672313--3672822 Score: 1011
Period size: 255 Copynumber: 2.0 Consensus size: 255
3672303 AAAGTGTTTT
3672313 ATCTTTGCTGCATAGGGATTTGAGTGTGGATCATTCAGGAAGGGATTTATCTGTGAATTATGATA
1 ATCTTTGCTGCATAGGGATTTGAGTGTGGATCATTCAGGAAGGGATTTATCTGTGAATTATGATA
*
3672378 AAAGTCTCGTAAGGATTTTGTGTCAAGAGTAAAACTTGTATTTTCTTTTAGGTGCAACTGCAAAT
66 AAAGTCTCGTAAGGATTTTGTGTAAAGAGTAAAACTTGTATTTTCTTTTAGGTGCAACTGCAAAT
3672443 TTCAATGAAAAGAATTCTTCATTTGTTATTGTGAGTGTGAAAGAACAACGACCAACTTGTAATGG
131 TTCAATGAAAAGAATTCTTCATTTGTTATTGTGAGTGTGAAAGAACAACGACCAACTTGTAATGG
3672508 GTTCTTTGAAGCTTTGATTGGGATTTGGGTGTTTAAGTAGTTCAATTCTTAAGTAAATTC
196 GTTCTTTGAAGCTTTGATTGGGATTTGGGTGTTTAAGTAGTTCAATTCTTAAGTAAATTC
3672568 ATCTTTGCTGCATAGGGATTTGAGTGTGGATCATTCAGGAAGGGATTTATCTGTGAATTATGATA
1 ATCTTTGCTGCATAGGGATTTGAGTGTGGATCATTCAGGAAGGGATTTATCTGTGAATTATGATA
3672633 AAAGTCTCGTAAGGATTTTGTGTAAAGAGTAAAACTTGTATTTTCTTTTAGGTGCAACTGCAAAT
66 AAAGTCTCGTAAGGATTTTGTGTAAAGAGTAAAACTTGTATTTTCTTTTAGGTGCAACTGCAAAT
3672698 TTCAATGAAAAGAATTCTTCATTTGTTATTGTGAGTGTGAAAGAACAACGACCAACTTGTAATGG
131 TTCAATGAAAAGAATTCTTCATTTGTTATTGTGAGTGTGAAAGAACAACGACCAACTTGTAATGG
3672763 GTTCTTTGAAGCTTTGATTGGGATTTGGGTGTTTAAGTAGTTCAATTCTTAAGTAAATTC
196 GTTCTTTGAAGCTTTGATTGGGATTTGGGTGTTTAAGTAGTTCAATTCTTAAGTAAATTC
3672823 CAGTTGATGA
Statistics
Matches: 254, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
255 254 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (255 bp):
ATCTTTGCTGCATAGGGATTTGAGTGTGGATCATTCAGGAAGGGATTTATCTGTGAATTATGATA
AAAGTCTCGTAAGGATTTTGTGTAAAGAGTAAAACTTGTATTTTCTTTTAGGTGCAACTGCAAAT
TTCAATGAAAAGAATTCTTCATTTGTTATTGTGAGTGTGAAAGAACAACGACCAACTTGTAATGG
GTTCTTTGAAGCTTTGATTGGGATTTGGGTGTTTAAGTAGTTCAATTCTTAAGTAAATTC
Found at i:3686232 original size:2 final size:2
Alignment explanation
Indices: 3686220--3686257 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
3686210 TTTCAACAGT
*
3686220 TA TA TA AA 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
3686258 GTGTGGAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:3689271 original size:3 final size:3
Alignment explanation
Indices: 3689263--3689299 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
3689253 AAATTGAGAA
3689263 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
3689300 GTAACTTGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3690682 original size:2 final size:2
Alignment explanation
Indices: 3690675--3690704 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3690665 CAAATTCATA
3690675 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
3690705 GTAAAGAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3692995 original size:96 final size:96
Alignment explanation
Indices: 3692860--3693050 Score: 283
Period size: 96 Copynumber: 2.0 Consensus size: 96
3692850 AAAGTAAAAT
* * *
3692860 CTGTTTATCATCTTAGGATTTTGGTTAGGTTAAAATAGAATCTGTTTATCATAATTTCATTTGAT
1 CTGTTTATCATCTAAGGATTTTGGTTAGGTTAAAATAGAACCTGTTTATCATAATTTCATTTCAT
*
3692925 TGATAATTACAAATTTCCAACCCACCTTGAA
66 TGATAATTAAAAATTTCCAACCCACCTTGAA
* * **
3692956 CTGTTTATCATCTAAGGATTTTGGTTGGGTTAAAGTAGAACCTGTTTATCATCGTTTCATTTCAT
1 CTGTTTATCATCTAAGGATTTTGGTTAGGTTAAAATAGAACCTGTTTATCATAATTTCATTTCAT
* * *
3693021 TGGTAATTAAAAATTTGCAACCCAGCTTGA
66 TGATAATTAAAAATTTCCAACCCACCTTGA
3693051 GTTTAGGGAT
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 84 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (96 bp):
CTGTTTATCATCTAAGGATTTTGGTTAGGTTAAAATAGAACCTGTTTATCATAATTTCATTTCAT
TGATAATTAAAAATTTCCAACCCACCTTGAA
Found at i:3696448 original size:20 final size:20
Alignment explanation
Indices: 3696401--3696452 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
3696391 ACAAATTATT
*
3696401 AATATATTAA-ATTTTATATA
1 AATATA-TAATATTTTAAATA
3696421 AATATATAATATTTTAAATA
1 AATATATAATATTTTAAATA
3696441 TAAT-TATAATAT
1 -AATATATAATAT
3696453 ATAAAAGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 3 0.10
20 23 0.79
21 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AATATATAATATTTTAAATA
Found at i:3706326 original size:2 final size:2
Alignment explanation
Indices: 3706319--3706343 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3706309 AAAATTAATT
3706319 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3706344 CTTTTACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3718918 original size:23 final size:23
Alignment explanation
Indices: 3718881--3718959 Score: 63
Period size: 23 Copynumber: 3.3 Consensus size: 23
3718871 AATCTAATAC
** *
3718881 TATTTAAATAAAATAATTTATTT
1 TATTTAAATTTAATAATTTATAT
*
3718904 TATTTAAATTTAATATTTTATAT
1 TATTTAAATTTAATAATTTATAT
*
3718927 T-TTTAATATTTTAATATTATTTAAAT
1 TATTTAA-A-TTTAATA--ATTTATAT
3718953 T-TTTAAA
1 TATTTAAA
3718960 AAAATTCAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
22 5 0.11
23 21 0.46
24 7 0.15
25 1 0.02
26 12 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TATTTAAATTTAATAATTTATAT
Found at i:3718933 original size:16 final size:18
Alignment explanation
Indices: 3718911--3718955 Score: 69
Period size: 16 Copynumber: 2.7 Consensus size: 18
3718901 TTTTATTTAA
3718911 ATTTAATATTTT-ATATT
1 ATTTAATATTTTAATATT
3718928 -TTTAATATTTTAATATT
1 ATTTAATATTTTAATATT
3718945 ATTTAA-ATTTT
1 ATTTAATATTTT
3718956 TAAAAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 11 0.42
17 10 0.38
18 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTAATATTTTAATATT
Found at i:3721535 original size:2 final size:2
Alignment explanation
Indices: 3721528--3721571 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
3721518 AACCAATGGG
3721528 AT AT AT AT AT 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 AT AT AT AT AT
3721570 AT
1 AT
3721572 TTGTTAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3724033 original size:2 final size:2
Alignment explanation
Indices: 3724020--3724052 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
3724010 GAATTAGTAT
3724020 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA
3724053 CACTAAAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3724120 original size:2 final size:2
Alignment explanation
Indices: 3724113--3724147 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3724103 ATGTGATAAA
3724113 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3724148 AATGCATGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3724818 original size:21 final size:21
Alignment explanation
Indices: 3724794--3724833 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3724784 AATTAGCTCA
**
3724794 TATATTATTTATAATAATTTT
1 TATATTAAATATAATAATTTT
3724815 TATATTAAATATAATAATT
1 TATATTAAATATAATAATT
3724834 AATAATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATATTAAATATAATAATTTT
Found at i:3725594 original size:30 final size:31
Alignment explanation
Indices: 3725544--3725610 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
3725534 TATTTTTATT
3725544 TATTTATTTTTTACTATTTAATATATTAAAA
1 TATTTATTTTTTACTATTTAATATATTAAAA
* *
3725575 TATTTA-TTTTTA-TATTTTAATTTTTTAAAA
1 TATTTATTTTTTACTA-TTTAATATATTAAAA
*
3725605 TTTTTA
1 TATTTA
3725611 AACCTCTTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 2 0.06
30 24 0.75
31 6 0.19
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (31 bp):
TATTTATTTTTTACTATTTAATATATTAAAA
Found at i:3725756 original size:2 final size:2
Alignment explanation
Indices: 3725751--3725781 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3725741 TGTGCGTGTG
3725751 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3725782 CAACGAGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3728283 original size:13 final size:13
Alignment explanation
Indices: 3728256--3728321 Score: 64
Period size: 13 Copynumber: 5.1 Consensus size: 13
3728246 TGCTCATATT
3728256 TTTAT-TTTAAGTA
1 TTTATATTTAA-TA
3728269 TTTATATTTAATA
1 TTTATATTTAATA
*
3728282 TTTATAATT-ATA
1 TTTATATTTAATA
** *
3728294 TAAATAATTTTATA
1 TTTAT-ATTTAATA
3728308 TTTATATTTAATA
1 TTTATATTTAATA
3728321 T
1 T
3728322 ATTTTTAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
12 6 0.14
13 26 0.60
14 11 0.26
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TTTATATTTAATA
Found at i:3728802 original size:25 final size:26
Alignment explanation
Indices: 3728769--3728817 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
3728759 AATTTAATAA
3728769 ATATGATA-TGAAAATTTTAATATTT
1 ATATGATATTGAAAATTTTAATATTT
* *
3728794 ATATTATATTTAAAATTTTAATAT
1 ATATGATATTGAAAATTTTAATAT
3728818 ATTTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (26 bp):
ATATGATATTGAAAATTTTAATATTT
Found at i:3728820 original size:17 final size:17
Alignment explanation
Indices: 3728784--3728829 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
3728774 ATATGAAAAT
*
3728784 TTTAATATTTATATTATA
1 TTTAATATTT-TAATATA
*
3728802 TTTAAAATTTTAATATA
1 TTTAATATTTTAATATA
3728819 TTTAATATTTT
1 TTTAATATTTT
3728830 TATGTATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTAATATTTTAATATA
Found at i:3728824 original size:9 final size:8
Alignment explanation
Indices: 3728782--3728829 Score: 51
Period size: 9 Copynumber: 5.6 Consensus size: 8
3728772 TGATATGAAA
3728782 ATTTTAAT
1 ATTTTAAT
*
3728790 ATTTATATT
1 ATTT-TAAT
*
3728799 ATATTTAAA
1 AT-TTTAAT
3728808 ATTTTAAT
1 ATTTTAAT
3728816 ATATTTAAT
1 AT-TTTAAT
3728825 ATTTT
1 ATTTT
3728830 TATGTATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 14 0.42
9 17 0.52
10 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATTTTAAT
Found at i:3728831 original size:26 final size:26
Alignment explanation
Indices: 3728779--3728831 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
3728769 ATATGATATG
*
3728779 AAAATTTTAATATTTATATTATATTT
1 AAAATTTTAATATTTATAATATATTT
*
3728805 AAAATTTTAATATATT-TAATATTTTT
1 AAAATTTTAATAT-TTATAATATATTT
3728831 A
1 A
3728832 TGTATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
AAAATTTTAATATTTATAATATATTT
Found at i:3729497 original size:16 final size:16
Alignment explanation
Indices: 3729476--3729530 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
3729466 TTTATATAAA
3729476 AATTATATTTTTAATT
1 AATTATATTTTTAATT
3729492 AATTATATATTTT-ATT
1 AATTATAT-TTTTAATT
3729508 AA--ATATTTATTATATTT
1 AATTATATTT-TTA-A-TT
3729525 AATTAT
1 AATTAT
3729531 TTTAAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
13 2 0.06
14 6 0.19
16 14 0.44
17 8 0.25
19 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AATTATATTTTTAATT
Found at i:3729523 original size:21 final size:21
Alignment explanation
Indices: 3729477--3729529 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
3729467 TTATATAAAA
*
3729477 ATTATA-TTT-TTAATTAATT
1 ATTATATTTTATTAAATAATT
*
3729496 A-TATATTTTATTAAATATTT
1 ATTATATTTTATTAAATAATT
*
3729516 ATTATATTTAATTA
1 ATTATATTTTATTA
3729530 TTTTAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 4 0.14
19 4 0.14
20 9 0.32
21 11 0.39
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTATATTTTATTAAATAATT
Found at i:3730510 original size:3 final size:3
Alignment explanation
Indices: 3730502--3730537 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
3730492 AGCACGATTG
3730502 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3730538 TGAACATTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:3730717 original size:21 final size:23
Alignment explanation
Indices: 3730677--3730722 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
3730667 ATTATTTATT
*
3730677 AATTTTTTTCTTTCTAAAAAGAA
1 AATTTCTTTCTTTCTAAAAAGAA
*
3730700 AATTTCTTT-TTT-TAAAAATAA
1 AATTTCTTTCTTTCTAAAAAGAA
3730721 AA
1 AA
3730723 AAAGAATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 3 0.14
23 8 0.38
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (23 bp):
AATTTCTTTCTTTCTAAAAAGAA
Found at i:3732243 original size:2 final size:2
Alignment explanation
Indices: 3732236--3732261 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3732226 GATAACTTAC
3732236 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
3732262 TTAAAGTAAA
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:3732379 original size:12 final size:12
Alignment explanation
Indices: 3732364--3732391 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
3732354 AACAGTTTTT
3732364 TAATGAACTATA
1 TAATGAACTATA
3732376 TAATGAACTATA
1 TAATGAACTATA
3732388 TAAT
1 TAAT
3732392 CAACAGTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (12 bp):
TAATGAACTATA
Found at i:3736129 original size:12 final size:13
Alignment explanation
Indices: 3736112--3736141 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3736102 TTAAATCAAA
3736112 TTAAATTT-AAAT
1 TTAAATTTAAAAT
3736124 TTAAATTTAAAAT
1 TTAAATTTAAAAT
3736137 TTAAA
1 TTAAA
3736142 ATTTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTAAATTTAAAAT
Found at i:3736145 original size:7 final size:6
Alignment explanation
Indices: 3736112--3736141 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
3736102 TTAAATCAAA
3736112 TTAAAT TTAAAT TTAAAT TTAAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TT-AAAT TTAAA
3736142 ATTTTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
TTAAAT
Found at i:3744132 original size:16 final size:17
Alignment explanation
Indices: 3744106--3744139 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
3744096 TATTTAAGTC
3744106 TCAACATTATAATTTAT
1 TCAACATTATAATTTAT
3744123 TCAA-ATTATAATTTAT
1 TCAACATTATAATTTAT
3744139 T
1 T
3744140 TATAACAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (17 bp):
TCAACATTATAATTTAT
Found at i:3744392 original size:2 final size:2
Alignment explanation
Indices: 3744385--3744413 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3744375 GATTTGTACA
3744385 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3744414 AAGTAGGCAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3745135 original size:2 final size:2
Alignment explanation
Indices: 3745128--3745154 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3745118 CGATATTTCT
3745128 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
3745155 TTTTCAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3752597 original size:21 final size:21
Alignment explanation
Indices: 3752556--3752598 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
3752546 GTATTTAAAT
* *
3752556 AAATTTTAATATATCAAATAA
1 AAATTTTAATAAATAAAATAA
3752577 AAATTTTAA-AAATAAATATAA
1 AAATTTTAATAAATAAA-ATAA
3752598 A
1 A
3752599 TAATATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATTTTAATAAATAAAATAA
Found at i:3752621 original size:20 final size:21
Alignment explanation
Indices: 3752591--3752629 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
3752581 TTTAAAAATA
3752591 AATATAAATAATATTATTTTT
1 AATATAAATAATATTATTTTT
3752612 AATA-AAATAATATTATTT
1 AATATAAATAATATTATTT
3752630 AATTTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATAAATAATATTATTTTT
Found at i:3754126 original size:21 final size:23
Alignment explanation
Indices: 3754100--3754144 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
3754090 ATTAGTATAA
3754100 AAAATAAT-TAAA-ATATAATAT
1 AAAATAATATAAATATATAATAT
3754121 AAAATAATATAAATATATAATAT
1 AAAATAATATAAATATATAATAT
3754144 A
1 A
3754145 TTAAAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 8 0.36
22 4 0.18
23 10 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAATAATATAAATATATAATAT
Found at i:3754161 original size:32 final size:32
Alignment explanation
Indices: 3754124--3754205 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 32
3754114 ATAATATAAA
3754124 ATAATATAAATATATAATATATTAAAATTTAT
1 ATAATATAAATATATAATATATTAAAATTTAT
* ** *
3754156 ATAATATCAAT-TATTAATATATTTTATTTTAT
1 ATAATATAAATATA-TAATATATTAAAATTTAT
3754188 ATAA-A-AAATATATAATAT
1 ATAATATAAATATATAATAT
3754206 TTTTAATATA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
30 9 0.21
31 5 0.12
32 29 0.67
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (32 bp):
ATAATATAAATATATAATATATTAAAATTTAT
Found at i:3754224 original size:27 final size:28
Alignment explanation
Indices: 3754125--3754229 Score: 78
Period size: 32 Copynumber: 3.8 Consensus size: 28
3754115 TAATATAAAA
*
3754125 TAATATAAATATATAATATATTAAAATTTAT
1 TAATATAAAT-TATAATATA-TAATATTT-T
* **
3754156 ATAATATCAATTATTAATATATTTTA-TTT
1 -TAATATAAATTA-TAATATATAATATTTT
3754185 T-ATATAAA--A-AATATATAATATTTT
1 TAATATAAATTATAATATATAATATTTT
*
3754209 TAATAT-AATTATAATACATAA
1 TAATATAAATTATAATATATAA
3754230 ACTTATATCT
Statistics
Matches: 59, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
23 9 0.15
24 6 0.10
25 5 0.08
26 1 0.02
27 14 0.24
28 1 0.02
29 1 0.02
30 2 0.03
31 4 0.07
32 16 0.27
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
TAATATAAATTATAATATATAATATTTT
Found at i:3755373 original size:2 final size:2
Alignment explanation
Indices: 3755366--3755396 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3755356 TTATTCAAGT
3755366 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3755397 TTATTTATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.