Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 63 of 91
Found at i:10451486 original size:19 final size:20
Alignment explanation
Indices: 10451442--10451488 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
10451432 GAACACCGGT
*
10451442 GCCGGATTCTGGAAATTTTC
1 GCCGGAATCTGGAAATTTTC
**
10451462 ATCGGAATCTGGAAA-TTTC
1 GCCGGAATCTGGAAATTTTC
10451481 GCCGGAAT
1 GCCGGAAT
10451489 TGTTGCCGGA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (20 bp):
GCCGGAATCTGGAAATTTTC
Found at i:10451968 original size:18 final size:18
Alignment explanation
Indices: 10451934--10451968 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10451924 GATAATTCGG
* *
10451934 AAAAAAAAATCAGATAAT
1 AAAAAAAAATAACATAAT
10451952 AAAAAAAAATAACATAA
1 AAAAAAAAATAACATAA
10451969 GATAAACCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.06, G:0.03, T:0.14
Consensus pattern (18 bp):
AAAAAAAAATAACATAAT
Found at i:10464071 original size:24 final size:24
Alignment explanation
Indices: 10464043--10464118 Score: 59
Period size: 24 Copynumber: 3.1 Consensus size: 24
10464033 ATATATTTAG
*
10464043 TAAATAGATTTTTATTAAATAATA
1 TAAATAAATTTTTATTAAATAATA
* *
10464067 TAAATTATTATTTTAGATTAATTATAAT-
1 TAAA-TA-AATTTT-TATTAA--ATAATA
10464095 T-AATAAATTTTTATTAAA-AATA
1 TAAATAAATTTTTATTAAATAATA
10464117 TA
1 TA
10464119 TATATTAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 15
0.68 0.07 0.25
Matches are distributed among these distances:
21 3 0.07
22 2 0.05
24 9 0.22
25 7 0.17
26 7 0.17
27 7 0.17
28 1 0.02
29 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (24 bp):
TAAATAAATTTTTATTAAATAATA
Found at i:10464136 original size:29 final size:28
Alignment explanation
Indices: 10464089--10464144 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
10464079 TTAGATTAAT
* *
10464089 TATAATTAATAAATTTTTATTAAAAATA
1 TATAATTAATAAATATTTATAAAAAATA
*
10464117 TATATATTAATATATATTTATAAAAAAT
1 TATA-ATTAATAAATATTTATAAAAAAT
10464145 TATCGAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTAATAAATATTTATAAAAAATA
Found at i:10464764 original size:17 final size:17
Alignment explanation
Indices: 10464725--10464792 Score: 68
Period size: 16 Copynumber: 4.0 Consensus size: 17
10464715 TTTTAAATTT
*
10464725 ATTTTCTAAAAATTATATG
1 ATTTT-TAAAAATT-TATA
*
10464744 ATTTTTAAAAGTTTATA
1 ATTTTTAAAAATTTATA
*
10464761 ATTTTT-CAAATTT-TA
1 ATTTTTAAAAATTTATA
*
10464776 ATTTTCAAAAATTTATA
1 ATTTTTAAAAATTTATA
10464793 TAAAAAATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
15 7 0.17
16 11 0.27
17 11 0.27
18 7 0.17
19 5 0.12
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.51
Consensus pattern (17 bp):
ATTTTTAAAAATTTATA
Found at i:10465935 original size:13 final size:13
Alignment explanation
Indices: 10465907--10465949 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
10465897 ATGATAATTA
*
10465907 AAAATAATTATA-
1 AAAATAATAATAG
10465919 AAAATAATAATAG
1 AAAATAATAATAG
10465932 AAAA-AATTAATAG
1 AAAATAA-TAATAG
10465945 AAAAT
1 AAAAT
10465950 GAAATGCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 13 0.48
13 14 0.52
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (13 bp):
AAAATAATAATAG
Found at i:10467054 original size:83 final size:82
Alignment explanation
Indices: 10466844--10467090 Score: 282
Period size: 83 Copynumber: 3.0 Consensus size: 82
10466834 AAGTAATATA
* *
10466844 ATTCGATTAATTAATAATGTATTAAATATAAACTTATAATATTTTATTTGATCAAATCATTAAAT
1 ATTCGATTTATTAATAATGTATTAAATATAAA-TTATATTATTTTATTTGATCAAATCATTAAAT
* *
10466909 AATTTATTTTTATTAATATC
65 AA-TT-TTTTTATTGACATC
* * * ** * *
10466929 A-TCAGATTTATTAACAGTATATTAAATATTATTTTATTTTATTTTATTTAATCAAATCATTAAA
1 ATTC-GATTTATTAATAATGTATTAAATA-TAAATTATATTATTTTATTTGATCAAATCATTAAA
10466993 TAATTTTTTTATTGACATC
64 TAATTTTTTTATTGACATC
* * *
10467012 ATTCTATTTATTAATAATGCATTAAATATAAATTAATATTATTTTATTTGATC-AATCATGAAAT
1 ATTCGATTTATTAATAATGTATTAAATATAAATT-ATATTATTTTATTTGATCAAATCATTAAAT
*
10467076 CATTTTTTTTATTGA
65 -AATTTTTTTATTGA
10467091 AATGGATATA
Statistics
Matches: 135, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
82 14 0.10
83 61 0.45
84 6 0.04
85 52 0.39
86 2 0.01
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.50
Consensus pattern (82 bp):
ATTCGATTTATTAATAATGTATTAAATATAAATTATATTATTTTATTTGATCAAATCATTAAATA
ATTTTTTTATTGACATC
Found at i:10467605 original size:30 final size:30
Alignment explanation
Indices: 10467569--10467626 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
10467559 TATTTAAAAA
10467569 TAATATTTAATAAAT-TTGATATTTAAATTT
1 TAATATTT-ATAAATATTGATATTTAAATTT
* *
10467599 TAATATTTATAAATATTTATTTTTAAAT
1 TAATATTTATAAATATTGATATTTAAAT
10467627 GATCTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (30 bp):
TAATATTTATAAATATTGATATTTAAATTT
Found at i:10467611 original size:16 final size:16
Alignment explanation
Indices: 10467569--10467617 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
10467559 TATTTAAAAA
10467569 TAATATTTAATAAA-TT
1 TAATATTT-ATAAATTT
*
10467585 TGATA-TT-TAAATTT
1 TAATATTTATAAATTT
10467599 TAATATTTATAAATATT
1 TAATATTTATAAAT-TT
10467616 TA
1 TA
10467618 TTTTTAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
13 4 0.15
14 6 0.22
15 4 0.15
16 9 0.33
17 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TAATATTTATAAATTT
Found at i:10467972 original size:12 final size:11
Alignment explanation
Indices: 10467957--10468014 Score: 55
Period size: 12 Copynumber: 5.0 Consensus size: 11
10467947 AATATTATTT
10467957 TAAATATAAATA
1 TAAA-ATAAATA
10467969 TAAAATTAAATA
1 TAAAA-TAAATA
*
10467981 TATAAAAAAATA
1 TA-AAATAAATA
*
10467993 T-AAATAATTA
1 TAAAATAAATA
10468003 TAAAATTAAATA
1 TAAAA-TAAATA
10468015 GATAATTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 8 0.21
11 4 0.11
12 23 0.61
13 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAAATAAATA
Found at i:10467977 original size:18 final size:18
Alignment explanation
Indices: 10467956--10468014 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
10467946 AAATATTATT
10467956 TTAAATATAAATATAAAA
1 TTAAATATAAATATAAAA
10467974 TTAAATATATAA-A-AAAA
1 TTAAATATA-AATATAAAA
*
10467991 -TATAA-ATAATTATAAAA
1 TTA-AATATAAATATAAAA
10468008 TTAAATA
1 TTAAATA
10468015 GATAATTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
15 1 0.03
16 6 0.18
17 12 0.35
18 13 0.38
19 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TTAAATATAAATATAAAA
Found at i:10468004 original size:20 final size:20
Alignment explanation
Indices: 10467970--10468028 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
10467960 ATATAAATAT
10467970 AAAAT-TAAAT-A-TATAAA
1 AAAATATAAATAATTATAAA
10467987 AAAATATAAATAATTATAAA
1 AAAATATAAATAATTATAAA
* *
10468007 ATTAA-ATAGATAATT-TAAA
1 A-AAATATAAATAATTATAAA
10468026 AAA
1 AAA
10468029 TTATTTATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
17 5 0.14
18 6 0.17
19 6 0.17
20 16 0.46
21 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAATATAAATAATTATAAA
Found at i:10468013 original size:22 final size:19
Alignment explanation
Indices: 10467960--10468014 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 19
10467950 ATTATTTTAA
10467960 ATATAAATATAAA-ATTAAAT
1 ATATAAA-ATAAATA-TAAAT
10467980 ATATAAAA-AAATATAAAT
1 ATATAAAATAAATATAAAT
10467998 AATTATAAAATTAAATA
1 -A-TATAAAA-TAAATA
10468015 GATAATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
18 8 0.27
19 3 0.10
20 14 0.47
22 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
ATATAAAATAAATATAAAT
Found at i:10468014 original size:16 final size:16
Alignment explanation
Indices: 10467962--10468014 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
10467952 TATTTTAAAT
*
10467962 ATAAATATAAAATTAA
1 ATAATTATAAAATTAA
* *
10467978 ATATATAAAAAAATATAA
1 ATA-ATTATAAAAT-TAA
10467996 ATAATTATAAAATTAA
1 ATAATTATAAAATTAA
10468012 ATA
1 ATA
10468015 GATAATTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
16 9 0.30
17 15 0.50
18 6 0.20
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAATTATAAAATTAA
Found at i:10468229 original size:25 final size:27
Alignment explanation
Indices: 10468192--10468255 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
10468182 GGGGTAAAAG
* * *
10468192 GAGACTAATTAAGTTCATATTTT-TTAT
1 GAGACTTA-TAAGTGCAAATTTTATTAT
10468219 GAGA-TTATAAGTGCAAATTTTATTAT
1 GAGACTTATAAGTGCAAATTTTATTAT
*
10468245 GTGACTTATAA
1 GAGACTTATAA
10468256 CCTAATTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 12 0.39
26 9 0.29
27 10 0.32
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (27 bp):
GAGACTTATAAGTGCAAATTTTATTAT
Found at i:10472269 original size:14 final size:14
Alignment explanation
Indices: 10472252--10472278 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10472242 ATTCGGATTA
10472252 TATTAAATTTAAAT
1 TATTAAATTTAAAT
10472266 TATTAAATTTAAA
1 TATTAAATTTAAA
10472279 ATTGATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TATTAAATTTAAAT
Found at i:10473672 original size:37 final size:37
Alignment explanation
Indices: 10473622--10473697 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
10473612 AAGTTTAATC
*
10473622 ATGTTTATTTGCATGCTTTTCTTTTCATCTTCTAGCA
1 ATGTTTATTTGCATACTTTTCTTTTCATCTTCTAGCA
*
10473659 ATGTTTCTTTGCATACTTTTCTTTTCATCTTCTAGCA
1 ATGTTTATTTGCATACTTTTCTTTTCATCTTCTAGCA
10473696 AT
1 AT
10473698 AATTAGAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.17, C:0.20, G:0.09, T:0.54
Consensus pattern (37 bp):
ATGTTTATTTGCATACTTTTCTTTTCATCTTCTAGCA
Found at i:10477939 original size:122 final size:122
Alignment explanation
Indices: 10477759--10478026 Score: 376
Period size: 122 Copynumber: 2.2 Consensus size: 122
10477749 TATGAGAGTA
* * * *
10477759 GACTAAAGGAGATTGAGAGGATTTACATAGGTATGATGAATTGGTACATATAAGTATTTATTTAT
1 GACTAGAGAAGATTGAGAGGGTCTACATAGGTATGATGAATTGGTACATATAAGTATTTATTTAT
* * * * * * *
10477824 TTTTGTTGAAAGGGTATACATGAGTATGTGTTTGTTTGGGTTGAGAATATTTTATAG
66 TTTTATTGAAAGAGTACACATGAGTATGTATTTGTTTGGATTGAAAATATTTCATAG
* *
10477881 GAC-ATGAGAATATTGAGAGGGTCTACATAGGTATGATGAATTGGTACATATAGGTATTTATTTA
1 GACTA-GAGAAGATTGAGAGGGTCTACATAGGTATGATGAATTGGTACATATAAGTATTTATTTA
* *
10477945 TTTTTATTGAAAGAGTGCACATGAGTATGTATTTGTTTGGATTGAAAATATTTCATAT
65 TTTTTATTGAAAGAGTACACATGAGTATGTATTTGTTTGGATTGAAAATATTTCATAG
*
10478003 GACTAGAGGAGATTGAGAGGGTCT
1 GACTAGAGAAGATTGAGAGGGTCT
10478027 TATGAGTATT
Statistics
Matches: 127, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
121 1 0.01
122 125 0.98
123 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (122 bp):
GACTAGAGAAGATTGAGAGGGTCTACATAGGTATGATGAATTGGTACATATAAGTATTTATTTAT
TTTTATTGAAAGAGTACACATGAGTATGTATTTGTTTGGATTGAAAATATTTCATAG
Found at i:10478789 original size:28 final size:28
Alignment explanation
Indices: 10478749--10478804 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
10478739 CTAAAGATTT
10478749 ACATCTTATAGGTGTATATATTTATATG
1 ACATCTTATAGGTGTATATATTTATATG
*
10478777 ACATCTTATAGGTGTATATGTTTATATG
1 ACATCTTATAGGTGTATATATTTATATG
10478805 TTTGTGAGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.46
Consensus pattern (28 bp):
ACATCTTATAGGTGTATATATTTATATG
Found at i:10478921 original size:29 final size:29
Alignment explanation
Indices: 10478888--10478948 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
10478878 AGAGGGTTCA
10478888 TATAGGTATGATGAATTGATACATATAGG
1 TATAGGTATGATGAATTGATACATATAGG
10478917 TATAGGTATGATGAATTGATACATATAGG
1 TATAGGTATGATGAATTGATACATATAGG
10478946 TAT
1 TAT
10478949 GTGTTTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.36
Consensus pattern (29 bp):
TATAGGTATGATGAATTGATACATATAGG
Found at i:10484500 original size:21 final size:22
Alignment explanation
Indices: 10484476--10484517 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10484466 TGATCTTATT
*
10484476 TTAAAAAA-AAGAAAGAAAAAC
1 TTAAAAAACAAAAAAGAAAAAC
10484497 TTAAAAAACAAAAAAGAAAAA
1 TTAAAAAACAAAAAAGAAAAA
10484518 GCAAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.79, C:0.05, G:0.07, T:0.10
Consensus pattern (22 bp):
TTAAAAAACAAAAAAGAAAAAC
Found at i:10484524 original size:22 final size:21
Alignment explanation
Indices: 10484478--10484525 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
10484468 ATCTTATTTT
*
10484478 AAAAAAAAGAAAGAAAAACTTA
1 AAAAAAAAAAAAGAAAAAC-TA
*
10484500 AAAAACAAAAAAGAAAAAGC-A
1 AAAAAAAAAAAAGAAAAA-CTA
10484521 AAAAA
1 AAAAA
10484526 TAAGATAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 6 0.26
22 16 0.70
23 1 0.04
ACGTcount: A:0.81, C:0.06, G:0.08, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAAAAGAAAAACTA
Found at i:10484867 original size:15 final size:15
Alignment explanation
Indices: 10484807--10484869 Score: 51
Period size: 16 Copynumber: 4.1 Consensus size: 15
10484797 ATTAAATATA
*
10484807 AAAAAGAAAATTAAAT
1 AAAAA-AAAATCAAAT
10484823 AAAAAATAAATTGCAAA-
1 AAAAAA-AAA-T-CAAAT
*
10484840 AAAATAAAA--AAAT
1 AAAAAAAAATCAAAT
10484853 AAAAAAAAATCAAAT
1 AAAAAAAAATCAAAT
10484868 AA
1 AA
10484870 CTTAACATGT
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
12 3 0.08
13 8 0.21
15 7 0.18
16 11 0.29
17 6 0.16
18 3 0.08
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (15 bp):
AAAAAAAAATCAAAT
Found at i:10485529 original size:24 final size:24
Alignment explanation
Indices: 10485498--10485547 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
10485488 AATAAAATCT
* *
10485498 TTTTAAAATATATAT-TTATATAA
1 TTTTAAAAAATATATATTAAATAA
*
10485521 TTTTAAAAAATATTTATTAAATAA
1 TTTTAAAAAATATATATTAAATAA
10485545 TTT
1 TTT
10485548 AAAGGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTTAAAAAATATATATTAAATAA
Found at i:10487229 original size:26 final size:26
Alignment explanation
Indices: 10487180--10487232 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
10487170 TATATAAAAG
* * **
10487180 TATATATTTTATTATTAATTTTATTA
1 TATATATTATATTAATAAAATTATTA
10487206 TATATATTATATTAATAAAATTATTA
1 TATATATTATATTAATAAAATTATTA
10487232 T
1 T
10487233 TTGATATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TATATATTATATTAATAAAATTATTA
Found at i:10487262 original size:28 final size:29
Alignment explanation
Indices: 10487207--10487262 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
10487197 ATTTTATTAT
*
10487207 ATATATTATATTAATAAAATTATTATTTG
1 ATATATTATATTAATAAAATTAATATTTG
10487236 ATATATTA-ACTTAA-AAAATTAATATTT
1 ATATATTATA-TTAATAAAATTAATATTT
10487263 TAAATTCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
ATATATTATATTAATAAAATTAATATTTG
Found at i:10487443 original size:19 final size:19
Alignment explanation
Indices: 10487419--10487455 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
10487409 CCCTATTTGA
10487419 TTTTTTTTA--TTTTTAAT
1 TTTTTTTTATTTTTTTAAT
10487436 TTTTTTTTATTTTTTTAAT
1 TTTTTTTTATTTTTTTAAT
10487455 T
1 T
10487456 AAATAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTTTTATTTTTTTAAT
Found at i:10487503 original size:13 final size:14
Alignment explanation
Indices: 10487469--10487497 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10487459 TAAAATTTAC
10487469 AATAAAAATCAATA
1 AATAAAAATCAATA
10487483 AATAAAAAT-AATA
1 AATAAAAATCAATA
10487496 AA
1 AA
10487498 ACAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (14 bp):
AATAAAAATCAATA
Found at i:10487869 original size:18 final size:18
Alignment explanation
Indices: 10487843--10487877 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10487833 ATTTGAGATC
*
10487843 TTTTGTATAGTTTTAATT
1 TTTTGTATAGCTTTAATT
*
10487861 TTTTTTATAGCTTTAAT
1 TTTTGTATAGCTTTAAT
10487878 GTGTTTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.03, G:0.09, T:0.66
Consensus pattern (18 bp):
TTTTGTATAGCTTTAATT
Found at i:10488425 original size:29 final size:30
Alignment explanation
Indices: 10488366--10488424 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
10488356 AAAAAAAATT
*
10488366 TTTTTAATTTGAACTCAAAAAAATTCAAAA
1 TTTTAAATTTGAACTCAAAAAAATTCAAAA
10488396 TTTTAAATTTGAACTCAAAAAAATTCAAA
1 TTTTAAATTTGAACTCAAAAAAATTCAAA
10488425 TAAAAACAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (30 bp):
TTTTAAATTTGAACTCAAAAAAATTCAAAA
Found at i:10489742 original size:3 final size:3
Alignment explanation
Indices: 10489734--10489759 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10489724 TTTTCATTAA
10489734 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
10489760 ACTTTTTTCC
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:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:10490248 original size:21 final size:23
Alignment explanation
Indices: 10490207--10490259 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
10490197 ATTTTTACCT
10490207 ACTATTT-TTATTTTTACTTATG
1 ACTATTTCTTATTTTTACTTATG
*
10490229 ACTATTTCTT-TTTTTA-TTATT
1 ACTATTTCTTATTTTTACTTATG
*
10490250 ACAATTTCTT
1 ACTATTTCTT
10490260 CAATTTTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 13 0.46
22 13 0.46
23 2 0.07
ACGTcount: A:0.23, C:0.11, G:0.02, T:0.64
Consensus pattern (23 bp):
ACTATTTCTTATTTTTACTTATG
Found at i:10492815 original size:16 final size:16
Alignment explanation
Indices: 10492794--10492825 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10492784 ATGAGGGGAA
10492794 TTTTTGGTATGATTTT
1 TTTTTGGTATGATTTT
10492810 TTTTTGGTATGATTTT
1 TTTTTGGTATGATTTT
10492826 CGATTTTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.19, T:0.69
Consensus pattern (16 bp):
TTTTTGGTATGATTTT
Found at i:10495942 original size:19 final size:20
Alignment explanation
Indices: 10495905--10495943 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
10495895 TGAAATTATT
*
10495905 TTTTTTTAATTACTATATATA
1 TTTTTTAAATTAC-ATATATA
10495926 TTTTTTAAATTAC-TATAT
1 TTTTTTAAATTACATATAT
10495944 TGATATTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTTAAATTACATATATA
Found at i:10495997 original size:24 final size:24
Alignment explanation
Indices: 10495970--10496024 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
10495960 AATTTAAAAC
10495970 ATAATATG-ATAATACAG-TACGAAA
1 ATAATATGAATAA-A-AGATACGAAA
*
10495994 ATAATACGAATAAAAGATACGAAA
1 ATAATATGAATAAAAGATACGAAA
*
10496018 GTAATAT
1 ATAATAT
10496025 AATTTAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 2 0.08
24 20 0.77
25 4 0.15
ACGTcount: A:0.56, C:0.07, G:0.13, T:0.24
Consensus pattern (24 bp):
ATAATATGAATAAAAGATACGAAA
Found at i:10496137 original size:2 final size:2
Alignment explanation
Indices: 10496130--10496170 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
10496120 ACTGTCAAGT
*
10496130 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10496171 GGAGAGTAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10499465 original size:2 final size:2
Alignment explanation
Indices: 10499458--10499500 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
10499448 TTCAAAAAGA
10499458 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
10499500 A
1 A
10499501 AACACTGCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10506540 original size:25 final size:25
Alignment explanation
Indices: 10506492--10506538 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
10506482 AAGTTTTCAT
*
10506492 TTATAATAAATAAAATACTAAAATC
1 TTATAATAAATAAAATAATAAAATC
*
10506517 TTATAA-AAATATAATAATAAAA
1 TTATAATAAATAAAATAATAAAA
10506539 ATATCAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (25 bp):
TTATAATAAATAAAATAATAAAATC
Found at i:10511592 original size:15 final size:15
Alignment explanation
Indices: 10511561--10511617 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 15
10511551 TAAATAATTT
*
10511561 AAAAGAAAAAGTTAA
1 AAAAGAAAAAGTAAA
*
10511576 AAAAGCAAAAAGAAAA
1 AAAAG-AAAAAGTAAA
* *
10511592 AAAATTAAAAATTAAAA
1 AAAA-GAAAAAGT-AAA
10511609 AAAAGAAAA
1 AAAAGAAAA
10511618 TGACACATGA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
15 5 0.15
16 21 0.64
17 7 0.21
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.11
Consensus pattern (15 bp):
AAAAGAAAAAGTAAA
Found at i:10515132 original size:8 final size:8
Alignment explanation
Indices: 10515119--10515155 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
10515109 TTTTTATTTA
10515119 TATATATT
1 TATATATT
*
10515127 TATATAAT
1 TATATATT
10515135 TATATATT
1 TATATATT
*
10515143 TAAATATT
1 TATATATT
10515151 TATAT
1 TATAT
10515156 TTAAAAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TATATATT
Found at i:10515159 original size:14 final size:16
Alignment explanation
Indices: 10515119--10515172 Score: 62
Period size: 14 Copynumber: 3.6 Consensus size: 16
10515109 TTTTTATTTA
*
10515119 TATATATTTATATAAT
1 TATATATTTAAATAAT
10515135 TATATATTTAAAT-AT
1 TATATATTTAAATAAT
10515150 T-TATATTTAAA-AAT
1 TATATATTTAAATAAT
*
10515164 AATAT-TTTA
1 TATATATTTA
10515173 TATTTTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 16 0.47
15 6 0.18
16 12 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATATATTTAAATAAT
Found at i:10515174 original size:20 final size:22
Alignment explanation
Indices: 10515145--10515196 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
10515135 TATATATTTA
10515145 AATA-TTTATA-TTT-AAAAAT
1 AATATTTTATATTTTAAAAAAT
10515164 AATATTTTATATTTTTAAAAAAT
1 AATATTTTATA-TTTTAAAAAAT
10515187 AATATTTTAT
1 AATATTTTAT
10515197 TAATTTCGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.14
20 6 0.21
22 3 0.10
23 16 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:10516375 original size:28 final size:29
Alignment explanation
Indices: 10516325--10516382 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
10516315 ATTTAAAATT
* *
10516325 TTTTAAAATATTGTGATTCAAAAATTAAA
1 TTTTAAAATATTGTGAATCAAAAATAAAA
*
10516354 TTTTAAAA-ATTGTGAATGAAAAATAAAA
1 TTTTAAAATATTGTGAATCAAAAATAAAA
10516382 T
1 T
10516383 ATTGCCTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (29 bp):
TTTTAAAATATTGTGAATCAAAAATAAAA
Found at i:10518217 original size:21 final size:20
Alignment explanation
Indices: 10518181--10518322 Score: 117
Period size: 21 Copynumber: 6.8 Consensus size: 20
10518171 ATATTAGTAA
*
10518181 TAATTTAATATATTCAATTT
1 TAATTTAATATATTCAATAT
*
10518201 TCATTTAATATTATTCAATAT
1 TAATTTAATA-TATTCAATAT
* *
10518222 TAATTTAATACCATTAAATAT
1 TAATTTAATA-TATTCAATAT
* * *
10518243 T-ATTGAACAATATTAAATAT
1 TAATTTAA-TATATTCAATAT
*
10518263 TAATTTAATCATATTAAAT-T
1 TAATTTAAT-ATATTCAATAT
*
10518283 TCAATTTAATAATATTAAATAT
1 T-AATTTAAT-ATATTCAATAT
*
10518305 TAATTAAATAATATTCAA
1 TAATTTAAT-ATATTCAA
10518323 CATTTGCTAA
Statistics
Matches: 102, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
20 26 0.25
21 74 0.73
22 2 0.02
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.46
Consensus pattern (20 bp):
TAATTTAATATATTCAATAT
Found at i:10518428 original size:29 final size:28
Alignment explanation
Indices: 10518364--10518499 Score: 123
Period size: 29 Copynumber: 4.8 Consensus size: 28
10518354 TAATAATATT
* * * *
10518364 TTAATATAACAAT-TTTAACATAAAATT
1 TTAATTTAATAATATTTAATATAAAATA
* * *
10518391 TTATTTTAATTATATTCTAATATTAAATA
1 TTAATTTAATAATATT-TAATATAAAATA
* *
10518420 TTAATTTAACAATATTTAAAATAAAATA
1 TTAATTTAATAATATTTAATATAAAATA
*
10518448 TT-ATATTAATAATACTTTAATATGAAATA
1 TTAAT-TTAATAATA-TTTAATATAAAATA
*
10518477 TTAATTTAATAGTATCTTAATAT
1 TTAATTTAATAATAT-TTAATAT
10518500 TATTTAATTA
Statistics
Matches: 87, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
27 11 0.13
28 23 0.26
29 51 0.59
30 2 0.02
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (28 bp):
TTAATTTAATAATATTTAATATAAAATA
Found at i:10518581 original size:11 final size:11
Alignment explanation
Indices: 10518559--10518597 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
10518549 AATTATTATT
10518559 TTTTAA-AA-A
1 TTTTAATAATA
10518568 TTTTAATAATA
1 TTTTAATAATA
10518579 TTTTAATAATA
1 TTTTAATAATA
10518590 TTTTAATA
1 TTTTAATA
10518598 CTAAATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 6 0.21
10 2 0.07
11 20 0.71
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAATAATA
Found at i:10518614 original size:10 final size:10
Alignment explanation
Indices: 10518599--10518759 Score: 78
Period size: 10 Copynumber: 15.8 Consensus size: 10
10518589 ATTTTAATAC
*
10518599 TAAATAATAT
1 TAAATATTAT
*
10518609 TCAATATTAAT
1 TAAATATT-AT
*
10518620 TTAATATTAT
1 TAAATATTAT
**
10518630 TAGCTATTAT
1 TAAATATTAT
* *
10518640 TTAATAATAT
1 TAAATATTAT
10518650 TAAATATTAT
1 TAAATATTAT
* *
10518660 TGAATAATAT
1 TAAATATTAT
*
10518670 TAAATATTAAC
1 TAAATATT-AT
10518681 T-AATCA-TAT
1 TAAAT-ATTAT
* *
10518690 TAAATTTTAA
1 TAAATATTAT
*
10518700 TATAATAATAT
1 TA-AATATTAT
*
10518711 TAAAT-TTAA
1 TAAATATTAT
*
10518720 TATAATAATAT
1 TA-AATATTAT
*
10518731 TAAATTTTAAT
1 TAAATATT-AT
*
10518742 AAAATAATT-T
1 TAAAT-ATTAT
10518752 TAAATATT
1 TAAATATT
10518760 TTGTAATATT
Statistics
Matches: 109, Mismatches: 32, Indels: 21
0.67 0.20 0.13
Matches are distributed among these distances:
9 9 0.08
10 69 0.63
11 29 0.27
12 2 0.02
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (10 bp):
TAAATATTAT
Found at i:10518643 original size:20 final size:20
Alignment explanation
Indices: 10518601--10518759 Score: 140
Period size: 20 Copynumber: 7.8 Consensus size: 20
10518591 TTTAATACTA
*
10518601 AATAATATTCAATATTAATTT
1 AATAATATTAAATATT-ATTT
* **
10518622 AATATTATTAGCTATTATTT
1 AATAATATTAAATATTATTT
*
10518642 AATAATATTAAATATTATTG
1 AATAATATTAAATATTATTT
**
10518662 AATAATATTAAATATTAACT
1 AATAATATTAAATATTATTT
* * *
10518682 AATCATATTAAATTTTAATAT
1 AATAATATTAAATATT-ATTT
*
10518703 AATAATATTAAAT-TTAATAT
1 AATAATATTAAATATT-ATTT
* **
10518723 AATAATATTAAATTTTAATAA
1 AATAATATTAAATATT-ATTT
*
10518744 AATAATTTTAAATATT
1 AATAATATTAAATATT
10518760 TTGTAATATT
Statistics
Matches: 117, Mismatches: 19, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
20 71 0.61
21 46 0.39
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.47
Consensus pattern (20 bp):
AATAATATTAAATATTATTT
Found at i:10518676 original size:61 final size:62
Alignment explanation
Indices: 10518591--10518759 Score: 159
Period size: 61 Copynumber: 2.7 Consensus size: 62
10518581 TTAATAATAT
* * ** *
10518591 TTTAATACTAAATAATATTCAATATTAATTTAAT-ATTATTAGCTATT-ATTTAATAATATTAAA
1 TTTAATA-T-AATAATATTAAATATTAATCTAATCA-TATTAAATATTAATATAATAATATTAAA
*
10518654 TATT-AT-TGAATAATATTAAATATTAA-CTAATCATATTAAATTTTAATATAATAATATTAAA
1 T-TTAATAT-AATAATATTAAATATTAATCTAATCATATTAAATATTAATATAATAATATTAAA
* ** * *
10518715 TTTAATATAATAATATTAAATTTTAATAAAATAATTTTAAATATT
1 TTTAATATAATAATATTAAATATTAATCTAATCATATTAAATATT
10518760 TTGTAATATT
Statistics
Matches: 87, Mismatches: 13, Indels: 13
0.77 0.12 0.12
Matches are distributed among these distances:
60 14 0.16
61 54 0.62
62 14 0.16
63 3 0.03
64 2 0.02
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (62 bp):
TTTAATATAATAATATTAAATATTAATCTAATCATATTAAATATTAATATAATAATATTAAA
Found at i:10518731 original size:41 final size:42
Alignment explanation
Indices: 10518592--10518759 Score: 166
Period size: 41 Copynumber: 4.0 Consensus size: 42
10518582 TAATAATATT
* * * **
10518592 TTAATACTAAATAATATTCAATATTAATTTAATATTATTAGCTA
1 TTAATA-T-AATAATATTAAATATTAATATAATAATATTAAATA
*
10518636 TT-ATTTAATAATATTAAATATT-AT-TGAATAATATTAAATA
1 TTAATATAATAATATTAAATATTAATAT-AATAATATTAAATA
* * *
10518676 TTAA-CTAATCATATTAAATTTTAATATAATAATATTAAAT-
1 TTAATATAATAATATTAAATATTAATATAATAATATTAAATA
* * *
10518716 TTAATATAATAATATTAAATTTTAATAAAATAATTTTAAATA
1 TTAATATAATAATATTAAATATTAATATAATAATATTAAATA
10518758 TT
1 TT
10518760 TTGTAATATT
Statistics
Matches: 106, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
39 1 0.01
40 34 0.32
41 63 0.59
42 4 0.04
43 2 0.02
44 2 0.02
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (42 bp):
TTAATATAATAATATTAAATATTAATATAATAATATTAAATA
Found at i:10518800 original size:11 final size:10
Alignment explanation
Indices: 10518785--10519098 Score: 78
Period size: 11 Copynumber: 31.4 Consensus size: 10
10518775 ATAAATATTA
10518785 ATTTAATAAT
1 ATTTAATAAT
10518795 ATTT--TAAT
1 ATTTAATAAT
*
10518803 ATTTAATATT
1 ATTTAATAAT
10518813 ATTTTAATAAT
1 A-TTTAATAAT
*
10518824 ATTTTAATATT
1 A-TTTAATAAT
*
10518835 AGGTTTGAAATATTT
1 A--TTT--AATA-AT
10518850 ATTTAAATAAT
1 ATTT-AATAAT
*
10518861 ATATTAATATT
1 AT-TTAATAAT
* *
10518872 ATGTACT-A-
1 ATTTAATAAT
*
10518880 ATTTAACAAT
1 ATTTAATAAT
*
10518890 ATTTCAT-AT
1 ATTTAATAAT
10518899 CATTT--TAAT
1 -ATTTAATAAT
* *
10518908 ATTAAATAGT
1 ATTTAATAAT
10518918 GATTTAATAAT
1 -ATTTAATAAT
*
10518929 ACTTTAATACT
1 A-TTTAATAAT
10518940 ATTTAAATAAT
1 ATTT-AATAAT
10518951 -TTT-ATAAT
1 ATTTAATAAT
**
10518959 ATTTTAATGTT
1 A-TTTAATAAT
*
10518970 ATTTTAATATTAA
1 A-TTTAATA--AT
*
10518983 ATTT-TTAAT
1 ATTTAATAAT
10518992 -TTT--TAAT
1 ATTTAATAAT
*
10518999 -TTT--TAAA
1 ATTTAATAAT
10519006 ATTTAAT-AT
1 ATTTAATAAT
10519015 CATTTTAATAAT
1 -A-TTTAATAAT
10519027 ATTT--TAAT
1 ATTTAATAAT
**
10519035 ATAAAATAAT
1 ATTTAATAAT
10519045 ATTTAAT-AT
1 ATTTAATAAT
10519054 GATTT--TAAT
1 -ATTTAATAAT
* *
10519063 AATTAATATT
1 ATTTAATAAT
*
10519073 ACTATAATAAT
1 A-TTTAATAAT
*
10519084 ATTTTAATATT
1 A-TTTAATAAT
10519095 ATTT
1 ATTT
10519099 TGTACTAAAT
Statistics
Matches: 228, Mismatches: 41, Indels: 70
0.67 0.12 0.21
Matches are distributed among these distances:
7 10 0.04
8 37 0.16
9 11 0.05
10 58 0.25
11 86 0.38
12 15 0.07
13 4 0.02
14 4 0.02
15 3 0.01
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (10 bp):
ATTTAATAAT
Found at i:10518806 original size:18 final size:18
Alignment explanation
Indices: 10518785--10518821 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
10518775 ATAAATATTA
10518785 ATTTAATAATATTTTAAT
1 ATTTAATAATATTTTAAT
*
10518803 ATTTAATATTATTTTAAT
1 ATTTAATAATATTTTAAT
10518821 A
1 A
10518822 ATATTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTAATAATATTTTAAT
Found at i:10518820 original size:29 final size:29
Alignment explanation
Indices: 10518778--10518834 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
10518768 TTTTGTTATA
10518778 AATATTAATTTAATAATATTTTAATATTT
1 AATATTAATTTAATAATATTTTAATATTT
*
10518807 AATATTATTTTAATAATATTTTAATATT
1 AATATTAATTTAATAATATTTTAATATT
10518835 AGGTTTGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
AATATTAATTTAATAATATTTTAATATTT
Found at i:10518957 original size:8 final size:7
Alignment explanation
Indices: 10518947--10519004 Score: 50
Period size: 7 Copynumber: 8.4 Consensus size: 7
10518937 ACTATTTAAA
10518947 TAATTTT
1 TAATTTT
10518954 ATAATATTT
1 -TAAT-TTT
*
10518963 TAA-TGT
1 TAATTTT
10518969 T-AT-TT
1 TAATTTT
*
10518974 TAATATT
1 TAATTTT
*
10518981 AAATTTT
1 TAATTTT
10518988 TAATTTT
1 TAATTTT
10518995 TAATTTT
1 TAATTTT
10519002 TAA
1 TAA
10519005 AATTTAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
5 3 0.07
6 5 0.12
7 23 0.56
8 7 0.17
9 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (7 bp):
TAATTTT
Found at i:10519010 original size:14 final size:14
Alignment explanation
Indices: 10518971--10519012 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
10518961 TTTAATGTTA
*
10518971 TTTTAATATTAAAT
1 TTTTAATATTTAAT
*
10518985 TTTTAATTTTTAAT
1 TTTTAATATTTAAT
*
10518999 TTTTAAAATTTAAT
1 TTTTAATATTTAAT
10519013 ATCATTTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTAATATTTAAT
Found at i:10519051 original size:39 final size:39
Alignment explanation
Indices: 10519006--10519099 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 39
10518996 AATTTTTAAA
*
10519006 ATTTAATATCATTTTAATAA-T-ATTTTAATATAAAATAAT
1 ATTTAATATCATTTTAATAATTAATATTAATAT--AATAAT
* *
10519045 ATTTAATATGATTTTAATAATTAATATTACTATAATAAT
1 ATTTAATATCATTTTAATAATTAATATTAATATAATAAT
*
10519084 ATTTTAATATTATTTT
1 A-TTTAATATCATTTT
10519100 GTACTAAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
39 26 0.54
40 14 0.29
41 8 0.17
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (39 bp):
ATTTAATATCATTTTAATAATTAATATTAATATAATAAT
Found at i:10519080 original size:18 final size:18
Alignment explanation
Indices: 10519040--10519083 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10519030 TTAATATAAA
* *
10519040 ATAATATTTAATATGATT
1 ATAATAATTAATATGACT
* *
10519058 TTAATAATTAATATTACT
1 ATAATAATTAATATGACT
10519076 ATAATAAT
1 ATAATAAT
10519084 ATTTTAATAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (18 bp):
ATAATAATTAATATGACT
Found at i:10519091 original size:29 final size:28
Alignment explanation
Indices: 10518921--10519092 Score: 88
Period size: 28 Copynumber: 6.0 Consensus size: 28
10518911 AAATAGTGAT
* * *
10518921 TTAATAATACTTTAATACTATTTAAATAA
1 TTAATATTA-TTTAATAATATTTTAATAA
* * **
10518950 TTTTATAATATTTTAATGTTATTTTAAT-A
1 -TTAATATTA-TTTAATAATATTTTAATAA
10518979 TTAA-ATT-TTTAATTTTTAAT-TTTTAA-AA
1 TTAATATTATTTAA----TAATATTTTAATAA
*
10519007 TTTAATATCATTTTAATAATATTTTAAT-A
1 -TTAATATTA-TTTAATAATATTTTAATAA
* *
10519036 TAAAATAATATTTAAT-ATGATTTTAATAA
1 T-TAATATTATTTAATAAT-ATTTTAATAA
*
10519065 TTAATATTACTATAATAATATTTTAATA
1 TTAATATTA-TTTAATAATATTTTAATA
10519093 TTATTTTGTA
Statistics
Matches: 110, Mismatches: 16, Indels: 33
0.69 0.10 0.21
Matches are distributed among these distances:
25 5 0.05
27 4 0.04
28 35 0.32
29 35 0.32
30 26 0.24
32 5 0.05
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (28 bp):
TTAATATTATTTAATAATATTTTAATAA
Found at i:10519104 original size:29 final size:28
Alignment explanation
Indices: 10519021--10519132 Score: 68
Period size: 28 Copynumber: 3.9 Consensus size: 28
10519011 ATATCATTTT
* * * *
10519021 AATAAT-ATTTTAATATAAAATAATATTT
1 AATAATAATTTTAATAT-TAATATTACTA
*
10519049 AAT-ATGATTTTAATAATTAATATTACTA
1 AATAATAATTTTAAT-ATTAATATTACTA
* *
10519077 TAATAAT-ATTTTAATATTATTTTGTACTA
1 -AATAATAATTTTAATATTAATAT-TACTA
*
10519106 AATATTAATTTGTAATATGTTAATATT
1 AATAATAATTT-TAATA--TTAATATT
10519133 TAGTGTTCTT
Statistics
Matches: 66, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
27 2 0.03
28 29 0.44
29 22 0.33
30 7 0.11
31 1 0.02
32 5 0.08
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (28 bp):
AATAATAATTTTAATATTAATATTACTA
Found at i:10519213 original size:27 final size:25
Alignment explanation
Indices: 10519146--10519221 Score: 82
Period size: 27 Copynumber: 3.0 Consensus size: 25
10519136 TGTTCTTTAT
* *
10519146 TATTATTTTAATATTTAATATTTAA
1 TATTATTTTATTATTTAATATTAAA
* *
10519171 TA-TATCTTAATAATTTTGAATATTAAA
1 TATTAT-TTTATTA-TTT-AATATTAAA
10519198 TATTATTTTATTATTTAATATTAA
1 TATTATTTTATTATTTAATATTAA
10519222 GTTAATAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
24 3 0.07
25 14 0.34
26 6 0.15
27 15 0.37
28 3 0.07
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (25 bp):
TATTATTTTATTATTTAATATTAAA
Found at i:10519848 original size:34 final size:33
Alignment explanation
Indices: 10519803--10519910 Score: 119
Period size: 34 Copynumber: 3.1 Consensus size: 33
10519793 TGTGAATTAG
* *
10519803 AAATCTCTGCGAAACTTGAAATTTTGCAAATCTA
1 AAATCTTTGCGAAACTTGAAATTTTG-AAATTTA
10519837 AAATCTTTGCGAAACTTGAAATTCTTGAGAATTTGA
1 AAATCTTTGCGAAACTTGAAATT-TTGA-AATTT-A
* *
10519873 AAACCTTTGCGAATCTTG-AATCTTTGAAAATTTA
1 AAATCTTTGCGAAACTTGAAAT-TTTG-AAATTTA
10519907 AAAT
1 AAAT
10519911 TATTATGAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
34 27 0.42
35 18 0.28
36 19 0.30
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (33 bp):
AAATCTTTGCGAAACTTGAAATTTTGAAATTTA
Found at i:10520315 original size:18 final size:17
Alignment explanation
Indices: 10520282--10520340 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
10520272 TTAATTGTTT
*
10520282 TAAAAAAAAGTCAAAAG
1 TAAAAAAAAGTAAAAAG
10520299 TAAAAAAAAGGTAAAAA-
1 TAAAAAAAA-GTAAAAAG
* *
10520316 AAATAAAAAAG-AGAAA-
1 TAA-AAAAAAGTAAAAAG
10520332 TAAAAAAAA
1 TAAAAAAAA
10520341 AACGAAGGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
15 6 0.17
16 6 0.17
17 12 0.33
18 12 0.33
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (17 bp):
TAAAAAAAAGTAAAAAG
Found at i:10520341 original size:18 final size:17
Alignment explanation
Indices: 10520300--10520342 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
10520290 AGTCAAAAGT
10520300 AAAAAAAAGGTAAAAAA
1 AAAAAAAAGGTAAAAAA
10520317 AATAAAAAAGAG-AAATAAA
1 AA-AAAAAAG-GTAAA-AAA
10520336 AAAAAAA
1 AAAAAAA
10520343 CGAAGGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 2 0.09
18 15 0.65
19 6 0.26
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (17 bp):
AAAAAAAAGGTAAAAAA
Found at i:10520907 original size:5 final size:5
Alignment explanation
Indices: 10520899--10520958 Score: 52
Period size: 5 Copynumber: 11.8 Consensus size: 5
10520889 TCTTTTTCCT
* * *
10520899 TTTTA TTTT- TTTTA TTTTA TTTGA TTTTA TTTTT TGTTTC TCTATT-
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA T-T-TTA
10520945 TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTT
10520959 TATTCTCCTA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
4 6 0.13
5 32 0.70
6 6 0.13
7 2 0.04
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:10520969 original size:26 final size:27
Alignment explanation
Indices: 10520922--10520973 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
10520912 ATTTTATTTG
*
10520922 ATTTTATTTTTTGTTTCTCTATTTTTT
1 ATTTTATTTTTTGTCTCTCTATTTTTT
10520949 ATTTTATTTTTAT-TCTC-CTATTTTT
1 ATTTTATTTTT-TGTCTCTCTATTTTT
10520974 CGTATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
27 14 0.61
28 1 0.04
ACGTcount: A:0.13, C:0.10, G:0.02, T:0.75
Consensus pattern (27 bp):
ATTTTATTTTTTGTCTCTCTATTTTTT
Found at i:10521132 original size:21 final size:21
Alignment explanation
Indices: 10521097--10521155 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
10521087 ATGATTATTA
*
10521097 ATTAATTTGCATGATATTTTAT
1 ATTAA-TTACATGATATTTTAT
* *
10521119 CTTAATTACATGATAATTTAT
1 ATTAATTACATGATATTTTAT
*
10521140 ATTAATTGCATGATAT
1 ATTAATTACATGATAT
10521156 CATATTATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.49
Consensus pattern (21 bp):
ATTAATTACATGATATTTTAT
Found at i:10521168 original size:21 final size:21
Alignment explanation
Indices: 10521139--10521198 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
10521129 TGATAATTTA
10521139 TATTAATTGCATGATATCATAT
1 TATT-ATTGCATGATATCATAT
* * *
10521161 TATTATTGTATGATGTTATAT
1 TATTATTGCATGATATCATAT
*
10521182 TATTATTTGCATAATAT
1 TATTA-TTGCATGATAT
10521199 TATTTTTCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (21 bp):
TATTATTGCATGATATCATAT
Found at i:10522109 original size:11 final size:11
Alignment explanation
Indices: 10522014--10522120 Score: 63
Period size: 11 Copynumber: 10.5 Consensus size: 11
10522004 CGTTATGATA
10522014 AATATTATTTT
1 AATATTATTTT
*
10522025 AATAATA-TTT
1 AATATTATTTT
10522035 --TATTA--TT
1 AATATTATTTT
**
10522042 AATATTAAGTT
1 AATATTATTTT
*
10522053 AATAATATTTT
1 AATATTATTTT
10522064 AATATTA-TTT
1 AATATTATTTT
*
10522074 AACTA--ATGTT
1 AA-TATTATTTT
*
10522084 ATTA-T-TTTT
1 AATATTATTTT
*
10522093 ATTATTATTTT
1 AATATTATTTT
*
10522104 AATATTATTTC
1 AATATTATTTT
10522115 AATATT
1 AATATT
10522121 CAATATTAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 18
0.72 0.10 0.17
Matches are distributed among these distances:
7 2 0.03
8 4 0.05
9 15 0.20
10 12 0.16
11 43 0.57
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (11 bp):
AATATTATTTT
Found at i:10522111 original size:14 final size:14
Alignment explanation
Indices: 10522016--10522112 Score: 55
Period size: 14 Copynumber: 7.3 Consensus size: 14
10522006 TTATGATAAA
*
10522016 TATTATTTTAATAA
1 TATTATTTTAATAT
* *
10522030 TATT-TTATTATTAA
1 TATTATT-TTAATAT
**
10522044 TATTAAGTTAATA-
1 TATTATTTTAATAT
10522057 -A-TATTTTAATAT
1 TATTATTTTAATAT
** *
10522069 TATT-TAACTAATGT
1 TATTAT-TTTAATAT
10522083 TATTATTTT--TAT
1 TATTATTTTAATAT
10522095 TATTATTTTAATAT
1 TATTATTTTAATAT
10522109 TATT
1 TATT
10522113 TCAATATTCA
Statistics
Matches: 62, Mismatches: 12, Indels: 18
0.67 0.13 0.20
Matches are distributed among these distances:
11 8 0.13
12 12 0.19
13 4 0.06
14 37 0.60
15 1 0.02
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (14 bp):
TATTATTTTAATAT
Found at i:10522158 original size:30 final size:28
Alignment explanation
Indices: 10522059--10522168 Score: 82
Period size: 30 Copynumber: 3.8 Consensus size: 28
10522049 AGTTAATAAT
10522059 ATTTTAATATT-ATTTAACTAATGTTATTA
1 ATTTTAATATTAATTTAA-TAAT-TTATTA
* * *
10522088 TTTTTATTATTATTTTAAT-A-TTATTTCA
1 ATTTTAATATTAATTTAATAATTTA-TT-A
*
10522116 ATATTCAATATTAATTTAATAATTTATTAAA
1 AT-TTTAATATTAATTTAATAATTTATT--A
* *
10522147 ATTTTAATATTAAATTACTAAT
1 ATTTTAATATTAATTTAATAAT
10522169 AGTATCTATG
Statistics
Matches: 63, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
26 3 0.05
27 2 0.03
28 3 0.05
29 24 0.38
30 25 0.40
31 6 0.10
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (28 bp):
ATTTTAATATTAATTTAATAATTTATTA
Found at i:10525490 original size:59 final size:58
Alignment explanation
Indices: 10525392--10525852 Score: 544
Period size: 59 Copynumber: 7.7 Consensus size: 58
10525382 TTTTTTGTAG
10525392 GGAAAATTGATACTTTCAACTTTT-CTCCAAAAATATTTTTTGGAAATTTCGATTTTC-AA
1 GGAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTGGAAATTT--ATTTTCTAA
* *
10525451 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCT-TTTTTTGAAAATTCATTTT-TAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTGGAAATTTATTTTCTAA
* *
10525509 GGAAAATTGATACTTTATTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTC-AA
1 GGAAAATTGATAC--T-TTCAACTTTTCCTCAAAAATA--TTTTTTGGAAA-TTT-ATTTTCTAA
*
10525573 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTTGGAAATTTA-TTTTC---TAA
10525637 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTGGAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTGGAAATTTATTTTCTAA
* * *
10525694 GGAAAATTGGTACTTTCAACTTTTCCCTAAAAATATATTTTTTTGAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTT-CCTCAAAA-ATATTTTTTGGAAATTTATTTTCTAA
* * *
10525753 GGAAAATTCATACTTTCAATTTTTTCCCCAAAAATATTTTTTGGAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAA-CTTTTCCTCAAAAATATTTTTTGGAAATTTATTTTCTAA
*
10525811 GGAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTT
10525853 TTTGGAATTT
Statistics
Matches: 358, Mismatches: 20, Indels: 49
0.84 0.05 0.11
Matches are distributed among these distances:
57 40 0.11
58 73 0.20
59 79 0.22
60 31 0.09
61 52 0.15
62 25 0.07
63 3 0.01
64 55 0.15
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAATTTATTTTCTAA
Found at i:10525910 original size:20 final size:20
Alignment explanation
Indices: 10525881--10525918 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10525871 TATTTAAAGA
10525881 AAATAAAAT-AATAAAAAAT
1 AAATAAAATAAATAAAAAAT
10525900 AAATAAAAATAAATAAAAA
1 AAAT-AAAATAAATAAAAA
10525919 GAATATTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 5 0.29
21 8 0.47
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (20 bp):
AAATAAAATAAATAAAAAAT
Found at i:10526860 original size:22 final size:22
Alignment explanation
Indices: 10526831--10526882 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
10526821 AATAAATCAA
* *
10526831 AAAAAATATTAT-GGGATAAAT
1 AAAAAATAATATCAGGATAAAT
*
10526852 AAAAGAATAATATCAGGATATAT
1 AAAA-AATAATATCAGGATAAAT
10526875 AAAAAATA
1 AAAAAATA
10526883 CGAAAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 4 0.15
22 11 0.42
23 11 0.42
ACGTcount: A:0.62, C:0.02, G:0.12, T:0.25
Consensus pattern (22 bp):
AAAAAATAATATCAGGATAAAT
Found at i:10527178 original size:20 final size:19
Alignment explanation
Indices: 10527150--10527195 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
10527140 AACATTTTCA
10527150 TTTTTTTGT-TTTTTTTGTT
1 TTTTTTTGTGTTTTTTT-TT
10527169 TTTCTTTTGTGTTTTTTTTT
1 TTT-TTTTGTGTTTTTTTTT
10527189 TTTTTTT
1 TTTTTTT
10527196 ACCAAAGCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.28
20 11 0.44
21 7 0.28
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (19 bp):
TTTTTTTGTGTTTTTTTTT
Found at i:10527181 original size:22 final size:22
Alignment explanation
Indices: 10527151--10527193 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10527141 ACATTTTCAT
*
10527151 TTTTTTGTTTTTTTTGTTTTTC
1 TTTTGTGTTTTTTTTGTTTTTC
*
10527173 TTTTGTGTTTTTTTTTTTTTT
1 TTTTGTGTTTTTTTTGTTTTT
10527194 TTACCAAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.88
Consensus pattern (22 bp):
TTTTGTGTTTTTTTTGTTTTTC
Found at i:10527189 original size:13 final size:12
Alignment explanation
Indices: 10527158--10527195 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
10527148 CATTTTTTTG
10527158 TTTTTTTTGTTT
1 TTTTTTTTGTTT
*
10527170 TTCTTTTGTGTTT
1 TT-TTTTTTGTTT
10527183 TTTTTTTT-TTT
1 TTTTTTTTGTTT
10527194 TT
1 TT
10527196 ACCAAAGCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 5 0.22
12 7 0.30
13 11 0.48
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.89
Consensus pattern (12 bp):
TTTTTTTTGTTT
Found at i:10527293 original size:42 final size:42
Alignment explanation
Indices: 10527202--10527612 Score: 587
Period size: 42 Copynumber: 10.0 Consensus size: 42
10527192 TTTTACCAAA
* * * * *
10527202 GCTCCTTTAAACAGAGACTCAACGACTCTGAGAAACA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAA-AGTAAATT
*
10527245 GCTCCTCTAAACAGAGGCACCACGATTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
10527287 GCTCCTCTAAACAGAGGCA--ACGAAC-TT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAATT
*
10527326 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
*
10527368 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
10527410 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
10527452 GCTCCTCTAAACAGAGGCA--ACGAAC-TT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAATT
*
10527491 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
* *
10527533 GCTCCTCTAAACAGAGGTACCACGACTTTAGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
10527575 GCTCCTCTAAACAGAGGCA--ACGGAC-TTGGAAAA-TAAAT
1 GCTCCTCTAAACAGAGGCACCAC-GACTTTGGAAAAGTAAAT
10527613 ACTCCTAGAC
Statistics
Matches: 339, Mismatches: 17, Indels: 28
0.88 0.04 0.07
Matches are distributed among these distances:
39 67 0.20
40 23 0.07
41 17 0.05
42 208 0.61
43 24 0.07
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
Found at i:10527422 original size:123 final size:121
Alignment explanation
Indices: 10527202--10527612 Score: 587
Period size: 123 Copynumber: 3.3 Consensus size: 121
10527192 TTTTACCAAA
* * *
10527202 GCTCCTTTAAACAGAGACTCAACGACTCTGAGAAACATAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAG--GCAACGACT-TG-GAAAAATAAATTGCTCCTCTAAACAGAGGCACCA
*
10527267 CGATTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC-TT-GAAAAGTAAATT
62 CGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-ACTTTAGAAAAGTAAATT
*
10527326 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCA--ACGAC-TTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
*
10527391 GACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
63 GACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGACTTTAGAAAAGTAAATT
*
10527452 GCTCCTCTAAACAGAGGCAACGAACTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGGCAACG-ACTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
* *
10527516 CTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGTACCACGACTTTAGAAAAGTAAATT
65 CTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAACGACTTTAGAAAAGTAAATT
10527575 GCTCCTCTAAACAGAGGCAACGGACTTGG-AAAATAAAT
1 GCTCCTCTAAACAGAGGCAAC-GACTTGGAAAAATAAAT
10527613 ACTCCTAGAC
Statistics
Matches: 264, Mismatches: 11, Indels: 25
0.88 0.04 0.08
Matches are distributed among these distances:
122 2 0.01
123 191 0.72
124 31 0.12
125 9 0.03
126 31 0.12
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (121 bp):
GCTCCTCTAAACAGAGGCAACGACTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGAC
TTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGACTTTAGAAAAGTAAATT
Found at i:10527511 original size:165 final size:165
Alignment explanation
Indices: 10527239--10527612 Score: 693
Period size: 165 Copynumber: 2.3 Consensus size: 165
10527229 CTGAGAAACA
*
10527239 TAAATTGCTCCTCTAAACAGAGGCACCACGATTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG
10527304 CAACGAACTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTG
66 CAACGAACTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTG
*
10527369 CTCCTCTAAACAGAGGTACCACGACTTTGGAAAAG
131 CTCCTCTAAACAGAGGTACCACGACTTTAGAAAAG
10527404 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG
10527469 CAACGAACTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTG
66 CAACGAACTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTG
10527534 CTCCTCTAAACAGAGGTACCACGACTTTAGAAAAG
131 CTCCTCTAAACAGAGGTACCACGACTTTAGAAAAG
10527569 TAAATTGCTCCTCTAAACAGAGGCA--ACGGAC-TTGGAAAA-TAAAT
1 TAAATTGCTCCTCTAAACAGAGGCACCAC-GACTTTGGAAAAGTAAAT
10527613 ACTCCTAGAC
Statistics
Matches: 206, Mismatches: 2, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
162 5 0.02
163 10 0.05
164 3 0.01
165 188 0.91
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (165 bp):
TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG
CAACGAACTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTG
CTCCTCTAAACAGAGGTACCACGACTTTAGAAAAG
Found at i:10528858 original size:21 final size:20
Alignment explanation
Indices: 10528824--10528888 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
10528814 TCTTTTTTCA
10528824 TTTTCTCATTTTTTCTTCTTTTT
1 TTTTCTCA--TTTT-TTCTTTTT
*
10528847 TTTTCTCATTTTTCCTTTTT
1 TTTTCTCATTTTTTCTTTTT
*
10528867 TTTT-TCTTTTTTTTCTTTTT
1 TTTTCTC-ATTTTTTCTTTTT
10528887 TT
1 TT
10528889 CATTCCATTG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
19 2 0.05
20 24 0.63
21 4 0.11
23 8 0.21
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTCTCATTTTTTCTTTTT
Found at i:10528858 original size:31 final size:30
Alignment explanation
Indices: 10528816--10528880 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
10528806 TTTGAATCTC
10528816 TTTTTTCA-TTTTCTCATTTTTTCTTCTTTT
1 TTTTTTCATTTTTC-CATTTTTTCTTCTTTT
* *
10528846 TTTTTCTCATTTTTCCTTTTTTTTTTCTTTT
1 TTTTT-TCATTTTTCCATTTTTTCTTCTTTT
10528877 TTTT
1 TTTT
10528881 CTTTTTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 5 0.16
31 21 0.68
32 5 0.16
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (30 bp):
TTTTTTCATTTTTCCATTTTTTCTTCTTTT
Found at i:10528887 original size:9 final size:9
Alignment explanation
Indices: 10528832--10528888 Score: 53
Period size: 9 Copynumber: 5.8 Consensus size: 9
10528822 CATTTTCTCA
10528832 TTTTTTCTTC
1 TTTTTT-TTC
10528842 TTTTTTTTTC
1 -TTTTTTTTC
10528852 TCATTTTTCCTT-
1 T--TTTTT--TTC
10528864 TTTTTTTTC
1 TTTTTTTTC
10528873 TTTTTTTTC
1 TTTTTTTTC
10528882 TTTTTTT
1 TTTTTTT
10528889 CATTCCATTG
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
8 2 0.05
9 17 0.41
10 8 0.20
11 11 0.27
12 1 0.02
13 2 0.05
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:10532837 original size:64 final size:59
Alignment explanation
Indices: 10532748--10533031 Score: 331
Period size: 65 Copynumber: 4.6 Consensus size: 59
10532738 TTTTTTGTAG
10532748 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTA--TTTC---TAA
* **
10532812 GGAAAATTGATACTTTCAACTTTTCCCTGAAAATATTTTTTTTTGGAAATTTATTTTTCTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGGAAATTTA--TTTC---TAA
* *
10532877 GAAAAATTGATACTTTCAAC-TTTCCCTAAAAA-ATATTTTTTGGAAATTTATTTCTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTCTAA
* * * *
10532934 GGAAAATTGATACTTCTCAACTTTT-CCCTAAAATATTTTTTTTTGAAATTTATTTCTGA
1 GAAAAATTGATACTT-TCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTCTAA
* *
10532993 GAAAAATTGATACTTTCAATTTTTTCCCCAAAAAAATTT
1 GAAAAATTGATACTTTCAA-CTTTTCCCCAAAAATATTT
10533032 AATTTCTAAG
Statistics
Matches: 198, Mismatches: 16, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
57 17 0.09
58 15 0.08
59 43 0.22
60 15 0.08
62 16 0.08
63 1 0.01
64 43 0.22
65 48 0.24
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (59 bp):
GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTCTAA
Found at i:10532857 original size:65 final size:64
Alignment explanation
Indices: 10532750--10532988 Score: 352
Period size: 65 Copynumber: 3.8 Consensus size: 64
10532740 TTTTGTAGGA
*
10532750 AAAATTGATACTTTCAACTTTTCCCCAAAA-ATATTTTTTTTGGAAATTTATTTTTCTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAATAT-TTTTTTTTGGAAATTTATTTTTCTTTTAAGG
*
10532814 AAAATTGATACTTTCAACTTTTCCCTGAAAATATTTTTTTTTGGAAATTTATTTTTCTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCT-AAAATATTTTTTTTTGGAAATTTATTTTTCTTTTAAGG
* *
10532879 AAAATTGATACTTTCAAC-TTTCCCTAAAA-AATATTTTTTGGAAATTTA--TTTC---TAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAATATTTTTTTTTGGAAATTTATTTTTCTTTTAAGG
10532936 AAAATTGATACTTCTCAACTTTTCCCTAAAATATTTTTTTTT-GAAATTTATTT
1 AAAATTGATACTT-TCAACTTTTCCCTAAAATATTTTTTTTTGGAAATTTATTT
10532989 CTGAGAAAAA
Statistics
Matches: 161, Mismatches: 7, Indels: 17
0.87 0.04 0.09
Matches are distributed among these distances:
57 17 0.11
58 5 0.03
59 19 0.12
60 12 0.07
61 1 0.01
62 17 0.11
63 4 0.02
64 32 0.20
65 52 0.32
66 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (64 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAATATTTTTTTTTGGAAATTTATTTTTCTTTTAAGG
Found at i:10533188 original size:24 final size:24
Alignment explanation
Indices: 10533160--10533209 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
10533150 AACCTAATCT
* *
10533160 AATAAATAAA-AAAAAAATAAACAA
1 AATAAACAAAGAAAAAAA-AAAAAA
10533184 AATAAACAAAGAAAAAAAAAAAAA
1 AATAAACAAAGAAAAAAAAAAAAA
10533208 AA
1 AA
10533210 CCTGGAGCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.86, C:0.04, G:0.02, T:0.08
Consensus pattern (24 bp):
AATAAACAAAGAAAAAAAAAAAAA
Found at i:10534065 original size:36 final size:32
Alignment explanation
Indices: 10534008--10534074 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 32
10533998 TCCAAAAATC
*
10534008 AAATAAAAAAAATACTAGATAATTAGAAAAGAT
1 AAATAAAAAAAATACTAGATAAATA-AAAAGAT
*
10534041 AAATAAAAAAAAATATTATGGATAAATAAAAAGA
1 AAAT-AAAAAAAATACTA--GATAAATAAAAAGA
10534075 ATAATATCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 4 0.14
34 12 0.41
35 6 0.21
36 7 0.24
ACGTcount: A:0.69, C:0.01, G:0.09, T:0.21
Consensus pattern (32 bp):
AAATAAAAAAAATACTAGATAAATAAAAAGAT
Found at i:10534087 original size:23 final size:21
Alignment explanation
Indices: 10534037--10534095 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 21
10534027 TAATTAGAAA
*
10534037 AGATAAATAAAAAAAAATATT
1 AGATAAATAAAAAAAAATATC
10534058 ATGGATAAATAAAAAGAATAATATC
1 A--GATAAATAAAAA-AA-AATATC
*
10534083 AGATATATAAAAA
1 AGATAAATAAAAA
10534096 TACGAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 1 0.03
23 23 0.72
24 2 0.06
25 6 0.19
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.24
Consensus pattern (21 bp):
AGATAAATAAAAAAAAATATC
Found at i:10534194 original size:32 final size:29
Alignment explanation
Indices: 10534119--10534195 Score: 75
Period size: 28 Copynumber: 2.6 Consensus size: 29
10534109 AAAATAAAAG
* * *
10534119 ATAAAAATAAAAAATATATATTAGTAATA
1 ATAAATATAAAAAATAAATATTAGGAATA
* *
10534148 ATAAGTA-AATAAATAAATATATAGGATATA
1 ATAAATATAAAAAATAAATAT-TAGGA-ATA
10534178 CATAAATATAAAAAATAA
1 -ATAAATATAAAAAATAA
10534196 TAATAAAACA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
28 11 0.30
29 9 0.24
30 3 0.08
31 6 0.16
32 8 0.22
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (29 bp):
ATAAATATAAAAAATAAATATTAGGAATA
Found at i:10542967 original size:19 final size:20
Alignment explanation
Indices: 10542943--10542983 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10542933 AACTCAAAGC
10542943 AAAA-TTTATTTTCTTG-ATA
1 AAAATTTTATTTT-TTGTATA
10542962 AAAATTTTATTTTTTGTATA
1 AAAATTTTATTTTTTGTATA
10542982 AA
1 AA
10542984 TGTATATGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (20 bp):
AAAATTTTATTTTTTGTATA
Found at i:10546717 original size:5 final size:5
Alignment explanation
Indices: 10546707--10546736 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
10546697 AAGGATATTT
10546707 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
10546737 ATACTATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:10547001 original size:23 final size:23
Alignment explanation
Indices: 10546965--10547013 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
10546955 TTTAACATGG
*
10546965 TTTTTTTTTAG-TTTGAAATTTT
1 TTTTTTTTTAGTTTTGAAAGTTT
*
10546987 TTTTTTTTGTCGTTTTGAAAGTTT
1 TTTTTTTT-TAGTTTTGAAAGTTT
10547011 TTT
1 TTT
10547014 ATGAACGGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 8 0.35
23 2 0.09
24 13 0.57
ACGTcount: A:0.14, C:0.02, G:0.12, T:0.71
Consensus pattern (23 bp):
TTTTTTTTTAGTTTTGAAAGTTT
Found at i:10547291 original size:7 final size:7
Alignment explanation
Indices: 10547279--10547328 Score: 59
Period size: 7 Copynumber: 7.3 Consensus size: 7
10547269 AAAATGTATA
10547279 TAAAAAT
1 TAAAAAT
10547286 TAAAAAT
1 TAAAAAT
10547293 T-AAAAT
1 TAAAAAT
* *
10547299 TATATAT
1 TAAAAAT
10547306 GTAAAAAT
1 -TAAAAAT
10547314 T-AAAAT
1 TAAAAAT
10547320 TAAAAAT
1 TAAAAAT
10547327 TA
1 TA
10547329 TATAAAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 12 0.33
7 19 0.53
8 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (7 bp):
TAAAAAT
Found at i:10547297 original size:13 final size:13
Alignment explanation
Indices: 10547279--10547328 Score: 57
Period size: 13 Copynumber: 3.7 Consensus size: 13
10547269 AAAATGTATA
10547279 TAAAAATTAAAAAT
1 TAAAAATT-AAAAT
*
10547293 T-AAAATTATATAT
1 TAAAAATTA-AAAT
10547306 GTAAAAATTAAAAT
1 -TAAAAATTAAAAT
10547320 TAAAAATTA
1 TAAAAATTA
10547329 TATAAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 1 0.03
13 18 0.58
14 5 0.16
15 7 0.23
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (13 bp):
TAAAAATTAAAAT
Found at i:10547316 original size:28 final size:28
Alignment explanation
Indices: 10547279--10547332 Score: 92
Period size: 28 Copynumber: 1.9 Consensus size: 28
10547269 AAAATGTATA
10547279 TAAAAATTAAAAATT-AAAATTATATATG
1 TAAAAATT-AAAATTAAAAATTATATATG
10547307 TAAAAATTAAAATTAAAAATTATATA
1 TAAAAATTAAAATTAAAAATTATATA
10547333 AAAATAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (28 bp):
TAAAAATTAAAATTAAAAATTATATATG
Found at i:10550172 original size:80 final size:80
Alignment explanation
Indices: 10550078--10550247 Score: 313
Period size: 80 Copynumber: 2.1 Consensus size: 80
10550068 ATTATGATAG
*
10550078 GATAGGATAAGATGATATTATGAATAGGATTAGATTAAATAATGTCATCCTATATCATGTTTGAT
1 GATAGGATAAGATGATATTATGAATAGGATTAGATTAAATAATGTCATCCTATATCATGTTTAAT
*
10550143 GTGTGTAAGGATTAA
66 GTGTGTAAAGATTAA
*
10550158 GATAGGATAAGATGATATTATGAATAGGATTAGATTAAATAATGTCATCCTATGTCATGTTTAAT
1 GATAGGATAAGATGATATTATGAATAGGATTAGATTAAATAATGTCATCCTATATCATGTTTAAT
10550223 GTGTGTAAAGATTAA
66 GTGTGTAAAGATTAA
10550238 GATAGGATAA
1 GATAGGATAA
10550248 TTTATTTCTT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 87 1.00
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.35
Consensus pattern (80 bp):
GATAGGATAAGATGATATTATGAATAGGATTAGATTAAATAATGTCATCCTATATCATGTTTAAT
GTGTGTAAAGATTAA
Found at i:10550688 original size:43 final size:43
Alignment explanation
Indices: 10550641--10550728 Score: 142
Period size: 43 Copynumber: 2.0 Consensus size: 43
10550631 CAATGGGTTT
* *
10550641 TGTTCTTCTTAAAAGGCATTTATACCATATC-TTCATAGAGTAA
1 TGTTCTTCTTAAAAAGCATTTACACCATATCATT-ATAGAGTAA
10550684 TGTTCTTCTTAAAAAGCATTTACACCATATCATTATAGAGTAA
1 TGTTCTTCTTAAAAAGCATTTACACCATATCATTATAGAGTAA
10550727 TG
1 TG
10550729 AAAAAAAATG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 40 0.95
44 2 0.05
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (43 bp):
TGTTCTTCTTAAAAAGCATTTACACCATATCATTATAGAGTAA
Found at i:10559579 original size:34 final size:34
Alignment explanation
Indices: 10559535--10559605 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
10559525 ACAGGTGGGA
*
10559535 TATTGAATGCTTTAGGAATTAATTAGATATGAAC
1 TATTGAATGCTTTAGGAATTAATTAGATATCAAC
*
10559569 TATTGTATGCTTTAGGAATTAATTAGATATCAAC
1 TATTGAATGCTTTAGGAATTAATTAGATATCAAC
10559603 TAT
1 TAT
10559606 CATTCCCATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (34 bp):
TATTGAATGCTTTAGGAATTAATTAGATATCAAC
Found at i:10564739 original size:24 final size:24
Alignment explanation
Indices: 10564710--10564765 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
10564700 GCATTTTAAG
10564710 GGAACAAAGGCTGTGTTTAAGATT
1 GGAACAAAGGCTGTGTTTAAGATT
*
10564734 GGAACAAAGGCTGTGTTTAAGGTT
1 GGAACAAAGGCTGTGTTTAAGATT
*
10564758 GAAACAAA
1 GGAACAAA
10564766 TACCATGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.38, C:0.09, G:0.29, T:0.25
Consensus pattern (24 bp):
GGAACAAAGGCTGTGTTTAAGATT
Found at i:10570405 original size:51 final size:49
Alignment explanation
Indices: 10570345--10570443 Score: 162
Period size: 51 Copynumber: 2.0 Consensus size: 49
10570335 TTTGTACTTA
*
10570345 GTTTTCTCAAATTAATTTAGTACTATGATTTCGTTGCTATAATTGATGCAG
1 GTTTTCTCAAATTAATTTAGTACTATGATTTC-CT-CTATAATTGATGCAG
*
10570396 GTTTTCTCAAATTAATTTATTACTATGATTTCCTCTATAATTGATGCA
1 GTTTTCTCAAATTAATTTAGTACTATGATTTCCTCTATAATTGATGCA
10570444 TCATTGTATG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 14 0.30
50 1 0.02
51 31 0.67
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.46
Consensus pattern (49 bp):
GTTTTCTCAAATTAATTTAGTACTATGATTTCCTCTATAATTGATGCAG
Found at i:10576448 original size:12 final size:13
Alignment explanation
Indices: 10576433--10576485 Score: 67
Period size: 12 Copynumber: 4.2 Consensus size: 13
10576423 ATATTAATGT
10576433 TTTAATTATT-TA
1 TTTAATTATTATA
10576445 TTTAATT-TTATA
1 TTTAATTATTATA
*
10576457 TTTATTTATATATA
1 TTTAATTAT-TATA
10576471 TTTAATT-TTATA
1 TTTAATTATTATA
10576483 TTT
1 TTT
10576486 GTATTAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
11 2 0.06
12 22 0.61
13 2 0.06
14 10 0.28
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTAATTATTATA
Found at i:10576480 original size:20 final size:20
Alignment explanation
Indices: 10576438--10576481 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
10576428 AATGTTTTAA
* *
10576438 TTATTTATTTAATTTTATAT
1 TTATTTATATAATTTAATAT
10576458 TTATTTATATATATTTAAT-T
1 TTATTTATATA-ATTTAATAT
10576478 TTAT
1 TTAT
10576482 ATTTGTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATTTATATAATTTAATAT
Found at i:10576526 original size:22 final size:21
Alignment explanation
Indices: 10576491--10576531 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
10576481 TATTTGTATT
10576491 AAAAATAATATATTATATTTTA
1 AAAAATAATATATTA-ATTTTA
* *
10576513 AAAAATATTTTATTAATTT
1 AAAAATAATATATTAATTT
10576532 CGGATAAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAAAATAATATATTAATTTTA
Found at i:10577508 original size:20 final size:20
Alignment explanation
Indices: 10577479--10577520 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
10577469 TGTACTTATA
10577479 AATTACGTACTTGCAATTTT
1 AATTACGTACTTGCAATTTT
*
10577499 AATTATGTACTTGCAATTTT
1 AATTACGTACTTGCAATTTT
10577519 AA
1 AA
10577521 CATGCATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (20 bp):
AATTACGTACTTGCAATTTT
Found at i:10583817 original size:16 final size:16
Alignment explanation
Indices: 10583794--10583832 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
10583784 ATTTCCACCA
*
10583794 ATTT-TTATTTATTTT
1 ATTTATTATTTATTAT
10583809 ATTTATTATTTATTAT
1 ATTTATTATTTATTAT
10583825 ATTTATTA
1 ATTTATTA
10583833 GATAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
ATTTATTATTTATTAT
Found at i:10586690 original size:19 final size:20
Alignment explanation
Indices: 10586668--10586705 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10586658 TGTGTATTTT
*
10586668 TTTTAATTTTTGA-TAATTA
1 TTTTAAATTTTGATTAATTA
10586687 TTTTAAATTTTGATTAATT
1 TTTTAAATTTTGATTAATT
10586706 TGAAATCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTTAAATTTTGATTAATTA
Found at i:10587324 original size:17 final size:17
Alignment explanation
Indices: 10587296--10587339 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
10587286 AATCATCATA
*
10587296 ATAATTTGATTATTAAG
1 ATAATTTTATTATTAAG
* *
10587313 TTGATTTTATTATTAAG
1 ATAATTTTATTATTAAG
10587330 ATAATTTTAT
1 ATAATTTTAT
10587340 CGCTCATAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (17 bp):
ATAATTTTATTATTAAG
Found at i:10588105 original size:12 final size:12
Alignment explanation
Indices: 10588090--10588155 Score: 57
Period size: 12 Copynumber: 5.3 Consensus size: 12
10588080 ATTTTTAATA
10588090 TAAATATAAAAT
1 TAAATATAAAAT
10588102 TAAATATATAAA-
1 TAAATATA-AAAT
*
10588114 -AATATATAAATAAA
1 TAA-ATAT-AA-AAT
10588128 TAAATATAAAAT
1 TAAATATAAAAT
10588140 TAAATA-AATAAT
1 TAAATATAA-AAT
10588152 TAAA
1 TAAA
10588156 AAAATAATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
11 4 0.09
12 28 0.61
13 8 0.17
14 4 0.09
15 2 0.04
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
TAAATATAAAAT
Found at i:10588134 original size:16 final size:16
Alignment explanation
Indices: 10588113--10588162 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
10588103 AAATATATAA
10588113 AAATATATAAATAAAT
1 AAATATATAAATAAAT
10588129 AAATATA-AAATTAAAT
1 AAATATATAAA-TAAAT
*
10588145 AAATA-ATTAAAAAAAT
1 AAATATA-TAAATAAAT
10588161 AA
1 AA
10588163 TTTATATATC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 4 0.13
16 23 0.77
17 3 0.10
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATATATAAATAAAT
Found at i:10588134 original size:24 final size:24
Alignment explanation
Indices: 10588091--10588155 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
10588081 TTTTTAATAT
10588091 AAATATA-AAATTAAAT--ATATAA
1 AAATATATAAA-TAAATAAATATAA
10588113 AAATATATAAATAAATAAATATAA
1 AAATATATAAATAAATAAATATAA
* * *
10588137 AATTAAATAAATAATTAAA
1 AAATATATAAATAAATAAA
10588156 AAAATAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 12 0.32
23 3 0.08
24 22 0.59
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (24 bp):
AAATATATAAATAAATAAATATAA
Found at i:10588897 original size:18 final size:17
Alignment explanation
Indices: 10588871--10588904 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10588861 AAAGGAAAGA
*
10588871 AAAATAAAAAAAGTAATG
1 AAAACAAAAAAA-TAATG
10588889 AAAACAAAAAAATAAT
1 AAAACAAAAAAATAAT
10588905 TTTTTTGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAACAAAAAAATAATG
Found at i:10592341 original size:150 final size:150
Alignment explanation
Indices: 10592127--10593958 Score: 2789
Period size: 150 Copynumber: 12.3 Consensus size: 150
10592117 ATTACCAAGT
* *
10592127 TTGACACAACCTGGAATAGCACCTATGGCTTCCTCTCAACCATCATTGTCAAACTCAACACCAAG
1 TTGATACAACCTGGAATGGCACCTATGGCTTCCTCTCAACCATCATTGTCAAACTCAACACCAAG
* *
10592192 CTTGCCACTGCCTGGAATGTCGCCTTCTGCTACCCATCCCTCTTTGCCGACTAATAGTTCATCGT
66 CTTGGCACTGCCTGGAATGTCGCCTTCTGCTACCCATCCATCTTTGCCGACTAATAGTTCATCGT
10592257 TATCCAACTCAACTTCAGGC
131 TATCCAACTCAACTTCAGGC
10592277 TTGATACAACCTGGAATGGCACCTATGGCTTCCTCTCAACCATCATTGTCAAACTCAACACCAAG
1 TTGATACAACCTGGAATGGCACCTATGGCTTCCTCTCAACCATCATTGTCAAACTCAACACCAAG
** * * * * * * **
10592342 CTTGGCACCACCTGCAATGTCACCTTCTACCACCCAACCATCTTTGCCTACTAATAGTTCATCAA
66 CTTGGCACTGCCTGGAATGTCGCCTTCTGCTACCCATCCATCTTTGCCGACTAATAGTTCATCGT
* ** * **
10592407 TA-CCAAGTTTGAC-ACAAAC
131 TATCCAA-CTCAACTTCAGGC
10592426 -TGA-A-AA-----AATGGCACCTATGGCTTCCTCTCAACCATCATTGTCAAACTCAACACCAAG
1 TTGATACAACCTGGAATGGCACCTATGGCTTCCTCTCAACCATCATTGTCAAACTCAACACCAAG
* *
10592483 CTTGGCACTGCCTGGAATGTCGCCTTCTGCTACAACCCATCCGTCTCTGCCGACTAATAGTTCA-
66 CTTGGCACTGCCTGGAATGTCGCCTTCTGCT---ACCCATCCATCTTTGCCGACTAATAGTTCAT
10592547 CTGTTATCCAACTCAACTTCAGGC
128 C-GTTATCCAACTCAACTTCAGGC
* * * * * *
10592571 TTGGTACAACCTGGAATGGCTCCTATGGCTTCCACTCAACCATCAATGTCAAACACAACGCCAAG
1 TTGATACAACCTGGAATGGCACCTATGGCTTCCTCTCAACCATCATTGTCAAACTCAACACCAAG
* * * * *
10592636 CTTGGCAC-GACCTGCAATGTCACCTTCTACCACCCAACCATCTTTGCCTG-CTAATAG--C-TC
66 CTTGGCACTG-CCTGGAATGTCGCCTTCTGCTACCCATCCATCTTTGCC-GACTAATAGTTCATC
* * *
10592696 ---AT-C-A-T-TAC--CAAGT
129 GTTATCCAACTCAACTTCAGGC
* *
10592709 TTGACACAACCTGGAATGGCACCTATGACTTCCTCTCAACCATCATTGTCAAACTCAACACCAAG
1 TTGATACAACCTGGAATGGCACCTATGGCTTCCTCTCAACCATCATTGTCAAACTCAACACCAAG
*
10592774 CTTGGCACTGCCTGGAATGTCGCCCTCTGCTACCACCCATCCATCTTTGCCGACTAATAGTTCAT
66 CTTGGCACTGCCTGGAATGTCGCCTTCTGCT---ACCCATCCATCTTTGCCGACTAATAGTTCAT
* *
10592839 CGTTATCTAACTCAACCTCAGGC
128 CGTTATCCAACTCAACTTCAGGC
* *
10592862 TTGATACAACCTGGAATGGCTCCTATGGCTTCCTCTGAACCATCATTGTCAAACTCAACACCAAG
1 TTGATACAACCTGGAATGGCACCTATGGCTTCCTCTCAACCATCATTGTCAAACTCAACACCAAG
*
10592927 CTTGGCACTGCCCGGAATGTCGCCTTCTGCTACCCATCCATCTTTGCCGACTAATAGTTCATCGT
66 CTTGGCACTGCCTGGAATGTCGCCTTCTGCTACCCATCCATCTTTGCCGACTAATAGTTCATCGT
10592992 TATCCAACTCAACTTCAGGC
131 TATCCAACTCAACTTCAGGC
10593012 TTGATACAACCTGGAATGGCACC-AGTGGCTTCCTCTCAACCATCATTGTCAAACTCAACACCAA
1 TTGATACAACCTGGAATGGCACCTA-TGGCTTCCTCTCAACCATCATTGTCAAACTCAACACCAA
*
10593076 GCTTGGCACTGCCTGGAATGTCGCCTTCTGCTACCACCCATCCATCTTTGCCTACTAATAGTTCA
65 GCTTGGCACTGCCTGGAATGTCGCCTTCTGCT---ACCCATCCATCTTTGCCGACTAATAGTTCA
10593141 TCGTTATCCAACTCAACTTCAGGC
127 TCGTTATCCAACTCAACTTCAGGC
* *
10593165 CTGATACAACCTGGAATGGCTCCTATGGCTTCCTCTCAACCATCATTGTCAAACTCAACACCAAG
1 TTGATACAACCTGGAATGGCACCTATGGCTTCCTCTCAACCATCATTGTCAAACTCAACACCAAG
*
10593230 CTTGGCACTGCCTGGAATGTCGCCTTCTGCTACCCATCCATCTTTGCCGACTAATGGTTCATCGT
66 CTTGGCACTGCCTGGAATGTCGCCTTCTGCTACCCATCCATCTTTGCCGACTAATAGTTCATCGT
*
10593295 TATCCAACTCAACTTCAGGT
131 TATCCAACTCAACTTCAGGC
*
10593315 TTGATACAACCTGGAATGGCTCCTATGGCTTCCTCTCAACCATCATTGTCAAACTCAACACCAAG
1 TTGATACAACCTGGAATGGCACCTATGGCTTCCTCTCAACCATCATTGTCAAACTCAACACCAAG
* *
10593380 CTTGGCACTGCCTGGAATGTCGCCTTCTGCCACCCATCCGTCTTTGCCGACTAATAGTTCATCGT
66 CTTGGCACTGCCTGGAATGTCGCCTTCTGCTACCCATCCATCTTTGCCGACTAATAGTTCATCGT
10593445 TATCCAACTCAACTTCAGGC
131 TATCCAACTCAACTTCAGGC
*
10593465 TTGATACAACCTGGAATGGCACCTATGGCTTCCTCTCTACCATCATTGTCAAACTCAACACCAAG
1 TTGATACAACCTGGAATGGCACCTATGGCTTCCTCTCAACCATCATTGTCAAACTCAACACCAAG
* *
10593530 CTTGGCACTGCCTGGAATGTCGCCTTCTGCCACCAATCCATCTTTGCCGACTAATAGTTCATCGT
66 CTTGGCACTGCCTGGAATGTCGCCTTCTGCTACCCATCCATCTTTGCCGACTAATAGTTCATCGT
10593595 TATCCAACTCAACTTCAGGC
131 TATCCAACTCAACTTCAGGC
* * *
10593615 TTGATACAACCTGGAATGGCTCCTATGGCTTCCTCTCAACCATCATTGTCAAACTTAACATCAAG
1 TTGATACAACCTGGAATGGCACCTATGGCTTCCTCTCAACCATCATTGTCAAACTCAACACCAAG
*
10593680 CTTGCCACTGCCTGGAATGTCGCCTTCTGCTACCCATCCATCTTTGCCGACTAATAGTTCATCGT
66 CTTGGCACTGCCTGGAATGTCGCCTTCTGCTACCCATCCATCTTTGCCGACTAATAGTTCATCGT
10593745 TATCCAACTCAACTTCAGGC
131 TATCCAACTCAACTTCAGGC
10593765 TTGATACAACCTGGAATGGCACCTATGGCTTCCTCTCAACCATCATTGTCAAACTCAACACCAAG
1 TTGATACAACCTGGAATGGCACCTATGGCTTCCTCTCAACCATCATTGTCAAACTCAACACCAAG
*
10593830 CTTGGCACTGCCTGGAATGTCGCCTTCTGCCACCCATCCATCTTTGCCGACTAATAGTTCATCGT
66 CTTGGCACTGCCTGGAATGTCGCCTTCTGCTACCCATCCATCTTTGCCGACTAATAGTTCATCGT
10593895 TATCCAACTCAACTTCAGGC
131 TATCCAACTCAACTTCAGGC
* * *
10593915 TTGATACAACCAGGAATGGCTCCTATAGCTTCCTCTCAACCATC
1 TTGATACAACCTGGAATGGCACCTATGGCTTCCTCTCAACCATC
10593959 TTCACCAGAT
Statistics
Matches: 1529, Mismatches: 113, Indels: 80
0.89 0.07 0.05
Matches are distributed among these distances:
138 84 0.05
139 1 0.00
140 3 0.00
141 100 0.07
142 1 0.00
143 3 0.00
144 35 0.02
145 7 0.00
146 4 0.00
147 4 0.00
148 7 0.00
149 9 0.01
150 957 0.63
151 3 0.00
152 1 0.00
153 309 0.20
154 1 0.00
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (150 bp):
TTGATACAACCTGGAATGGCACCTATGGCTTCCTCTCAACCATCATTGTCAAACTCAACACCAAG
CTTGGCACTGCCTGGAATGTCGCCTTCTGCTACCCATCCATCTTTGCCGACTAATAGTTCATCGT
TATCCAACTCAACTTCAGGC
Found at i:10596258 original size:31 final size:31
Alignment explanation
Indices: 10596220--10596282 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
10596210 ATACACTATC
10596220 AGTGAATCAGATGATAACAACTCATTAATGA
1 AGTGAATCAGATGATAACAACTCATTAATGA
* *
10596251 AGTGAATCAGATGATAATATCTCATTAATGA
1 AGTGAATCAGATGATAACAACTCATTAATGA
10596282 A
1 A
10596283 TAAGTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (31 bp):
AGTGAATCAGATGATAACAACTCATTAATGA
Found at i:10596857 original size:3 final size:3
Alignment explanation
Indices: 10596849--10596880 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
10596839 TCAAAAATTG
10596849 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10596881 GTATATACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10598426 original size:34 final size:33
Alignment explanation
Indices: 10598379--10598472 Score: 109
Period size: 34 Copynumber: 2.8 Consensus size: 33
10598369 TTTAACAACG
*
10598379 TTTTTAAGCACAAACGTCACTAAATTTAACG-GT
1 TTTTTAA-TACAAACGTCACTAAATTTAACGAGT
*
10598412 ATTTTCTAATACAAATGTCACTAAATTTAACGACGT
1 -TTTT-TAATACAAACGTCACTAAATTTAACGA-GT
* *
10598448 TTTTTGATACAAACGTCGCTAAATT
1 TTTTTAATACAAACGTCACTAAATT
10598473 CAGCATTTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
34 43 0.83
35 7 0.13
36 2 0.04
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (33 bp):
TTTTTAATACAAACGTCACTAAATTTAACGAGT
Found at i:10600777 original size:64 final size:62
Alignment explanation
Indices: 10600621--10600778 Score: 158
Period size: 64 Copynumber: 2.5 Consensus size: 62
10600611 TTTGCAATGA
* *
10600621 GGATTATTGAAGGCATTTTT-TGAAAAAAAACGTCTTCAATAATCCTCCCCAATTTTTTTGAAG
1 GGATTATTGAAGGCATTTTTGT-AAAAAAAAC-TCTGCAATAATCCTCCCCAATTTTTTAGAAG
* * * * * * *
10600684 AGACTATTGAAGGCATTTTTTTACCAAAAAATACT-AGCAATAATCCTCTCTAATTTTTTAGAGG
1 GGATTATTGAAGGCATTTTTGTA--AAAAAA-ACTCTGCAATAATCCTCCCCAATTTTTTAGAAG
*
10600748 GGATTATTGAATGCATTTTCTGTAAAAAAAA
1 GGATTATTGAAGGCATTTT-TGTAAAAAAAA
10600779 AAATACCTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
62 1 0.01
63 25 0.32
64 40 0.51
65 10 0.13
66 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (62 bp):
GGATTATTGAAGGCATTTTTGTAAAAAAAACTCTGCAATAATCCTCCCCAATTTTTTAGAAG
Found at i:10601362 original size:64 final size:64
Alignment explanation
Indices: 10601222--10601425 Score: 147
Period size: 64 Copynumber: 3.2 Consensus size: 64
10601212 ATAAGAATAT
* * * * * * *
10601222 TTATTGAAGGCA--TTTTGAAC-AAAAAATGCCTTCAATAAT--GTCTTAAATTTTTAAAAGAGA
1 TTATTGAAGGCATTTTTTG-ACTAAATAACGCCTTCAATAATCCCTCTCAATTTTTTATAAGGGA
* * * *
10601282 TTATT-AATGACGTTTTTTGACTAAA-AATGCCTTTAATAATTCCCTCT-AATTTTTT-TAGAGG
1 TTATTGAA-GGCATTTTTTGACTAAATAACGCCTTCAATAA-TCCCTCTCAATTTTTTATA-A-G
10601343 GGA
62 GGA
* *** * *
10601346 TTATTGAAGGTATTTTTTTTGTAAATAACGCCTTCAGTAATCCCTTTCAATTTTTTATAAGGGA
1 TTATTGAAGGCATTTTTTGACTAAATAACGCCTTCAATAATCCCTCTCAATTTTTTATAAGGGA
10601410 TTATTGAAGGCATTTT
1 TTATTGAAGGCATTTT
10601426 AAGCAAAAAA
Statistics
Matches: 113, Mismatches: 18, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
59 2 0.02
60 7 0.06
61 15 0.13
62 10 0.09
63 8 0.07
64 47 0.42
65 22 0.19
66 2 0.02
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.42
Consensus pattern (64 bp):
TTATTGAAGGCATTTTTTGACTAAATAACGCCTTCAATAATCCCTCTCAATTTTTTATAAGGGA
Found at i:10608671 original size:16 final size:16
Alignment explanation
Indices: 10608650--10608685 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10608640 TGTTATTTTA
*
10608650 TTAATTAAATTTATTT
1 TTAATTAAATTTAATT
*
10608666 TTAATTAATTTTAATT
1 TTAATTAAATTTAATT
10608682 TTAA
1 TTAA
10608686 GATATATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTAATTAAATTTAATT
Found at i:10619954 original size:64 final size:65
Alignment explanation
Indices: 10619875--10620002 Score: 215
Period size: 64 Copynumber: 2.0 Consensus size: 65
10619865 GGTAGAGAAG
*
10619875 AAAGCCTACTAAATTAAA-CAGTGAAGGGTTCTTATCTTTGGCGAAAGATTCTAAATTTT-TAGG
1 AAAGCCTACTAAATTAAACCA-TGAAGGGTTCTTATCTTTGGCCAAAGATTCTAAATTTTGTAGG
10619938 T
65 T
*
10619939 AAAGCCTACTAAATTAAACCATGAAGGGTTCTTATCTTTGGCCTAAGATTCTAAATTTTGTAGG
1 AAAGCCTACTAAATTAAACCATGAAGGGTTCTTATCTTTGGCCAAAGATTCTAAATTTTGTAGG
10620003 CATTTCTCAG
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
64 54 0.90
65 6 0.10
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (65 bp):
AAAGCCTACTAAATTAAACCATGAAGGGTTCTTATCTTTGGCCAAAGATTCTAAATTTTGTAGGT
Found at i:10626564 original size:12 final size:13
Alignment explanation
Indices: 10626549--10626581 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
10626539 CTAAAATAAA
10626549 ATAAATAAAAT-T
1 ATAAATAAAATAT
10626561 ATAAATAAAATAT
1 ATAAATAAAATAT
10626574 ATTAAATA
1 A-TAAATA
10626582 TAGTTGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 2 0.11
14 6 0.32
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAAATAAAATAT
Found at i:10629312 original size:60 final size:62
Alignment explanation
Indices: 10629225--10629351 Score: 163
Period size: 62 Copynumber: 2.1 Consensus size: 62
10629215 AGAAAATTAC
* * *
10629225 TTTTTCTCCAATGCTCTCATTTTTCTTGGTT-TTTTTT-ATTAAATATTGAAATTTGGGTT-
1 TTTTTCTCCAATGCTCTCATTTGTCTTGGTTATTTTTTGAATAAATATTGAAATTTGGCTTG
* *
10629284 TTTTTCTCC-ATCGCCTCTCATTTGTCTTGGTTATTTTTTGAATAAATGTTGAGATTTGGCTTG
1 TTTTTCTCCAAT-G-CTCTCATTTGTCTTGGTTATTTTTTGAATAAATATTGAAATTTGGCTTG
10629347 TTTTT
1 TTTTT
10629352 GGGTTAACAA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
58 2 0.03
59 10 0.17
60 17 0.29
61 6 0.10
62 18 0.31
63 5 0.09
ACGTcount: A:0.17, C:0.13, G:0.14, T:0.56
Consensus pattern (62 bp):
TTTTTCTCCAATGCTCTCATTTGTCTTGGTTATTTTTTGAATAAATATTGAAATTTGGCTTG
Done.