Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 102 of 109
Found at i:20475982 original size:23 final size:23
Alignment explanation
Indices: 20475956--20476033 Score: 72
Period size: 23 Copynumber: 3.4 Consensus size: 23
20475946 GATTTTATAT
20475956 AATATTAAATTAAATCAAATTTA
1 AATATTAAATTAAATCAAATTTA
* * *
20475979 AATA-TAAAATAATATAAAAATTTT
1 AATATTAAATTAA-AT-CAAATTTA
*
20476003 AA-ATTAAATCT-AATCGAATTTA
1 AATATTAAAT-TAAATCAAATTTA
20476025 AATATTAAA
1 AATATTAAA
20476034 AGTATAAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
22 14 0.33
23 15 0.35
24 13 0.30
25 1 0.02
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (23 bp):
AATATTAAATTAAATCAAATTTA
Found at i:20477021 original size:13 final size:14
Alignment explanation
Indices: 20476987--20477024 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
20476977 TTATTCTAAG
20476987 ATTTTATAATTAGAA
1 ATTTTA-AATTAGAA
*
20477002 CTTTTAAATT-GAA
1 ATTTTAAATTAGAA
20477015 ATTTTAAATT
1 ATTTTAAATT
20477025 TTAATTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.57
14 4 0.19
15 5 0.24
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (14 bp):
ATTTTAAATTAGAA
Found at i:20483830 original size:31 final size:31
Alignment explanation
Indices: 20483787--20483845 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
20483777 TTAAGGAATG
20483787 AATTTTCAGATTACTGATGATCCTTTTCATA
1 AATTTTCAGATTACTGATGATCCTTTTCATA
*
20483818 AATTTTCTGATTACTGATGATCCTTTTC
1 AATTTTCAGATTACTGATGATCCTTTTC
20483846 TCTTCTCCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (31 bp):
AATTTTCAGATTACTGATGATCCTTTTCATA
Found at i:20483941 original size:2 final size:2
Alignment explanation
Indices: 20483934--20483959 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20483924 TACATGTCAA
20483934 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
20483960 CTCTGAAAGC
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:20484417 original size:2 final size:2
Alignment explanation
Indices: 20484410--20484434 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20484400 AAGTATTGAA
20484410 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
20484435 ACCAGAGGAG
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:20504502 original size:28 final size:29
Alignment explanation
Indices: 20504461--20504516 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
20504451 AAATATAAAA
**
20504461 TATATATTTTTAATTTTATTAATTTTATT
1 TATATATTTTTAATAATATTAATTTTATT
*
20504490 TATA-ATTTTTAATAATATTATTTTTAT
1 TATATATTTTTAATAATATTAATTTTAT
20504517 ATTTTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (29 bp):
TATATATTTTTAATAATATTAATTTTATT
Found at i:20504505 original size:22 final size:22
Alignment explanation
Indices: 20504459--20504537 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 22
20504449 AGAAATATAA
*
20504459 AATATATATTTTTAA-TTTTATT
1 AATAT-TATTTTTAATTTTTAAT
* *
20504481 AATTTTATTTATAATTTTTAAT
1 AATATTATTTTTAATTTTTAAT
*
20504503 AATATTATTTTTATATTTTTTATT
1 AATATTATTTTTA-A-TTTTTAAT
*
20504527 TATATTATTTT
1 AATATTATTTT
20504538 CATATCTAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
21 8 0.17
22 21 0.45
23 1 0.02
24 17 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
AATATTATTTTTAATTTTTAAT
Found at i:20504522 original size:24 final size:24
Alignment explanation
Indices: 20504488--20504542 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
20504478 ATTAATTTTA
*
20504488 TTTATAATTTTTAATAATATTATT
1 TTTATATTTTTTAATAATATTATT
* *
20504512 TTTATATTTTTTATTTATATTATT
1 TTTATATTTTTTAATAATATTATT
*
20504536 TTCATAT
1 TTTATAT
20504543 CTAATAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTATATTTTTTAATAATATTATT
Found at i:20504553 original size:24 final size:24
Alignment explanation
Indices: 20504499--20504553 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 24
20504489 TTATAATTTT
* * * **
20504499 TAATAATATTATTTTTATATTTTT
1 TAATTATATTATTTTCATATCTAA
*
20504523 TATTTATATTATTTTCATATCTAA
1 TAATTATATTATTTTCATATCTAA
20504547 TAATTAT
1 TAATTAT
20504554 GTCATATTTT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (24 bp):
TAATTATATTATTTTCATATCTAA
Found at i:20521580 original size:54 final size:55
Alignment explanation
Indices: 20521476--20521585 Score: 195
Period size: 54 Copynumber: 2.0 Consensus size: 55
20521466 TTCAAACCGA
*
20521476 AACTTTCTTCATATGATGTTCACTTGCTGAGATTAAAAACACAGATATTTATGTT
1 AACTTTCTTCATATGATGTTCACTTGCCGAGATTAAAAACACAGATATTTATGTT
*
20521531 AACTTTCTTCATATGATGTTCA-TTGCCGAGATTAAAAACATAGATATTTATGTT
1 AACTTTCTTCATATGATGTTCACTTGCCGAGATTAAAAACACAGATATTTATGTT
20521585 A
1 A
20521586 TCATAGCTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
54 31 0.58
55 22 0.42
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.40
Consensus pattern (55 bp):
AACTTTCTTCATATGATGTTCACTTGCCGAGATTAAAAACACAGATATTTATGTT
Found at i:20533522 original size:17 final size:17
Alignment explanation
Indices: 20533500--20533561 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
20533490 ACTATTGGTG
20533500 GATCTAGAAGGAATTTA
1 GATCTAGAAGGAATTTA
* *
20533517 GATCTAG-TGCATATATAAGTA
1 GATCTAGAAGGA-AT-T---TA
20533538 GATCTAGAAGGAATTTA
1 GATCTAGAAGGAATTTA
20533555 GATCTAG
1 GATCTAG
20533562 TGGCATATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
16 2 0.06
17 18 0.51
18 1 0.03
20 1 0.03
21 11 0.31
22 2 0.06
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.31
Consensus pattern (17 bp):
GATCTAGAAGGAATTTA
Found at i:20536427 original size:2 final size:2
Alignment explanation
Indices: 20536420--20536448 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
20536410 AATAGAAAAT
20536420 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20536449 TTGCCGCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20537744 original size:15 final size:15
Alignment explanation
Indices: 20537727--20537825 Score: 51
Period size: 14 Copynumber: 6.5 Consensus size: 15
20537717 TATATTATAT
20537727 TTTTTA-TTTATTTA
1 TTTTTATTTTATTTA
20537741 TTTTTATTTTATTTTAA
1 TTTTTATTTTA-TTT-A
** * *
20537758 AATATATTTATATTCA
1 TTTTTATTT-TATTTA
**
20537774 TTTAAATTTTATTTA
1 TTTTTATTTTATTTA
* *
20537789 -TTTAAATTTATTTAA
1 TTTTTATTTTATTT-A
*
20537804 TTTTGA-TTTATTTA
1 TTTTTATTTTATTTA
20537818 TTATTTAT
1 TT-TTTAT
20537826 AAATATGTTC
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
14 20 0.31
15 20 0.31
16 14 0.22
17 9 0.14
18 2 0.03
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (15 bp):
TTTTTATTTTATTTA
Found at i:20537767 original size:21 final size:20
Alignment explanation
Indices: 20537743--20537791 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
20537733 TTTATTTATT
*
20537743 TTTATTTTATTTTAAAATATA
1 TTTATTTCA-TTTAAAATATA
* *
20537764 TTTATATTCATTTAAATTTTA
1 TTTAT-TTCATTTAAAATATA
20537785 TTTATTT
1 TTTATTT
20537792 AAATTTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 2 0.08
21 19 0.79
22 3 0.12
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTATTTCATTTAAAATATA
Found at i:20537801 original size:25 final size:25
Alignment explanation
Indices: 20537762--20537817 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
20537752 TTTTAAAATA
*
20537762 TATTTATATTCATTTAAATTTT-ATT
1 TATTTAAATTCATTT-AATTTTGATT
*
20537787 TATTTAAATTTATTTAATTTTGATT
1 TATTTAAATTCATTTAATTTTGATT
20537812 TATTTA
1 TATTTA
20537818 TTATTTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 6 0.21
25 22 0.79
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (25 bp):
TATTTAAATTCATTTAATTTTGATT
Found at i:20537848 original size:26 final size:26
Alignment explanation
Indices: 20537809--20537894 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
20537799 TTTAATTTTG
* *
20537809 ATTTATTTATTATTTATAAATATGTTC
1 ATTTATATA-TATTTATAAATATATTC
*
20537836 ATTTATATATATTTATAAATATATTT
1 ATTTATATATATTTATAAATATATTC
* ** *
20537862 ATTTAATATTTATGAATAAATTTATTC
1 ATTT-ATATATATTTATAAATATATTC
20537889 AATTTA
1 -ATTTA
20537895 ATTGAATCAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 19 0.39
27 26 0.53
28 4 0.08
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (26 bp):
ATTTATATATATTTATAAATATATTC
Found at i:20538678 original size:31 final size:31
Alignment explanation
Indices: 20538628--20538706 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
20538618 AAATACAAAA
* *
20538628 AAAATTATAATT--ATAATTAATTATTATATT
1 AAAA-TATAATTAAATAATTAATTAATAAATT
* * *
20538658 CATATATCATTAAATAATTAATTAATAAATT
1 AAAATATAATTAAATAATTAATTAATAAATT
20538689 AAAATATAATTAAATAAT
1 AAAATATAATTAAATAAT
20538707 CAAAATCATA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 6 0.15
30 2 0.05
31 31 0.79
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (31 bp):
AAAATATAATTAAATAATTAATTAATAAATT
Found at i:20538711 original size:19 final size:20
Alignment explanation
Indices: 20538676--20538717 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
20538666 ATTAAATAAT
*
20538676 TAATTAATAAATTAAAAT-A
1 TAATTAATAAATCAAAATCA
20538695 TAATTAA-ATAATCAAAATCA
1 TAATTAATA-AATCAAAATCA
20538715 TAA
1 TAA
20538718 ACAATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.75
20 4 0.20
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
TAATTAATAAATCAAAATCA
Found at i:20546289 original size:18 final size:18
Alignment explanation
Indices: 20546266--20546305 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
20546256 ATTTTTATTT
* * *
20546266 TATAAAAATTTAAATATA
1 TATAAAAACTAAAAAATA
20546284 TATAAAAACTAAAAAATA
1 TATAAAAACTAAAAAATA
20546302 TATA
1 TATA
20546306 TAATTCGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
TATAAAAACTAAAAAATA
Found at i:20559575 original size:23 final size:24
Alignment explanation
Indices: 20559523--20559577 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
20559513 AATTAATTTA
* *
20559523 TATAATTATATTTAAAATTTCACAT
1 TATAA-TAAATTTAAAATTTCAAAT
20559548 T-TAATAAATTTAAAATTT-AAAT
1 TATAATAAATTTAAAATTTCAAAT
20559570 TATAATAA
1 TATAATAA
20559578 CTATAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 4 0.15
23 19 0.70
24 3 0.11
25 1 0.04
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (24 bp):
TATAATAAATTTAAAATTTCAAAT
Found at i:20562821 original size:45 final size:45
Alignment explanation
Indices: 20562770--20562859 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
20562760 TGCCACAAAG
20562770 AAGGAGGACCCTGATATAGCTAAAATGGGAAGCTTCATGTGATAA
1 AAGGAGGACCCTGATATAGCTAAAATGGGAAGCTTCATGTGATAA
20562815 AAGGAGGACCCTGATATAGCTAAAATGGGAAGCTTCATGTGATAA
1 AAGGAGGACCCTGATATAGCTAAAATGGGAAGCTTCATGTGATAA
20562860 GATGTATAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.22
Consensus pattern (45 bp):
AAGGAGGACCCTGATATAGCTAAAATGGGAAGCTTCATGTGATAA
Found at i:20563065 original size:5 final size:5
Alignment explanation
Indices: 20563055--20563089 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
20563045 GCTGGCTATA
20563055 AATTC AATTC AATTC AATTC AATTC AATTC AATTC
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC
20563090 TTATTGCTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
AATTC
Found at i:20565731 original size:5 final size:5
Alignment explanation
Indices: 20565721--20565751 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
20565711 AGTTTCACCG
20565721 TCAAA TCAAA TCAAA TCAAA TCAAA TCAAA T
1 TCAAA TCAAA TCAAA TCAAA TCAAA TCAAA T
20565752 AGACACAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (5 bp):
TCAAA
Found at i:20590040 original size:35 final size:37
Alignment explanation
Indices: 20589972--20590041 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 37
20589962 TTTTTATTTT
* *
20589972 TATTTTTTTATTAAATTTAATAAATAATGTTAAATTA
1 TATTTTTATATTAAATTTAATAAATAATATTAAATTA
* *
20590009 TATTTTTATATT-TATTTATTAAATAA-ATTAAAT
1 TATTTTTATATTAAATTTAATAAATAATATTAAAT
20590042 ATAAATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 6 0.21
36 12 0.41
37 11 0.38
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (37 bp):
TATTTTTATATTAAATTTAATAAATAATATTAAATTA
Found at i:20590219 original size:20 final size:20
Alignment explanation
Indices: 20590196--20590234 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
20590186 TTTTTTAAAT
20590196 TTTATTTATATTTATTTGAG
1 TTTATTTATATTTATTTGAG
*
20590216 TTTATTTATATTTGTTTGA
1 TTTATTTATATTTATTTGA
20590235 AATTTACTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (20 bp):
TTTATTTATATTTATTTGAG
Found at i:20590325 original size:23 final size:23
Alignment explanation
Indices: 20590247--20590331 Score: 80
Period size: 23 Copynumber: 3.6 Consensus size: 23
20590237 TTTACTTGTT
* * *
20590247 TAAATTTATTTATTATTCATGAA
1 TAAATTTATTTAATATTTATAAA
** *
20590270 TATGTTTATTTATATATGTTTGTAAA
1 TAAATTTATTTA-ATA--TTTATAAA
*
20590296 TATATTTATTTAATATTTATAAA
1 TAAATTTATTTAATATTTATAAA
20590319 TAAATTTATTTAA
1 TAAATTTATTTAA
20590332 CTTAATTGAA
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
23 29 0.58
24 2 0.04
25 3 0.06
26 16 0.32
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (23 bp):
TAAATTTATTTAATATTTATAAA
Found at i:20590390 original size:15 final size:15
Alignment explanation
Indices: 20590372--20590403 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20590362 AAATTTTATT
*
20590372 ATTTAAATAAATTAA
1 ATTTAAATAAATAAA
20590387 ATTTAAATAAATAAA
1 ATTTAAATAAATAAA
20590402 AT
1 AT
20590404 AATTTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATTTAAATAAATAAA
Found at i:20594731 original size:19 final size:20
Alignment explanation
Indices: 20594707--20594760 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
20594697 TAGTAACATC
*
20594707 TTTTATTTTTTAAAT-TATT
1 TTTTATTTTTTAAATATATA
20594726 TTTTATTATTTTAAATATATA
1 TTTTATT-TTTTAAATATATA
*
20594747 TGTTATTTTGTTAA
1 TTTTATTTT-TTAA
20594761 TTTTGATGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 7 0.23
20 10 0.33
21 13 0.43
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTATTTTTTAAATATATA
Found at i:20595059 original size:30 final size:30
Alignment explanation
Indices: 20595003--20595086 Score: 73
Period size: 30 Copynumber: 2.7 Consensus size: 30
20594993 TCATTCTTAT
* *
20595003 TATATTGTATACAATATTATATTTATATTA
1 TATATTGTATAAAATATTAAATTTATATTA
*
20595033 TATATTTTATAAAAT-TTAAATATTATAATT-
1 TATATTGTATAAAATATTAAAT-TTAT-ATTA
* *
20595063 TATGTTGATATAAAAATATAAAAT
1 TATATTG-TAT-AAAATATTAAAT
20595087 ATAATTTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
29 5 0.12
30 22 0.51
31 6 0.14
32 5 0.12
33 5 0.12
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (30 bp):
TATATTGTATAAAATATTAAATTTATATTA
Found at i:20595609 original size:21 final size:21
Alignment explanation
Indices: 20595555--20595606 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
20595545 CATGTATAAA
20595555 TTTTATATTAAATTATTATAT
1 TTTTATATTAAATTATTATAT
*
20595576 TTTTACTA-T-AATT-TTTTAT
1 TTTTA-TATTAAATTATTATAT
20595595 TTTTATATTAAA
1 TTTTATATTAAA
20595607 ATTAAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 2 0.07
19 11 0.41
20 6 0.22
21 6 0.22
22 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTATATTAAATTATTATAT
Found at i:20599336 original size:20 final size:20
Alignment explanation
Indices: 20599295--20599336 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
20599285 AAGCCTTCTT
*
20599295 TTCCTAAATAAATTTAAGTG
1 TTCCTAAATAAATTTAAATG
*
20599315 TTCC-AAATCAATTTGAAATG
1 TTCCTAAATAAATTT-AAATG
20599335 TT
1 TT
20599337 TGCTGATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (20 bp):
TTCCTAAATAAATTTAAATG
Found at i:20600365 original size:20 final size:21
Alignment explanation
Indices: 20600304--20600365 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 21
20600294 TATTTATATA
* *
20600304 TATTTAATAA-ATAAAATTTT
1 TATTAAATAATATAAAATTAT
20600324 TATTAAATAATAT-AAATTAT
1 TATTAAATAATATAAAATTAT
20600344 TATTTTAAATTAAT-TAAAATTA
1 TA--TTAAA-TAATATAAAATTA
20600366 ATATATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
20 17 0.49
21 2 0.06
22 6 0.17
23 10 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TATTAAATAATATAAAATTAT
Found at i:20600571 original size:16 final size:19
Alignment explanation
Indices: 20600542--20600577 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
20600532 AATATCCATT
20600542 ATATATATACT-AAAATAA
1 ATATATATACTAAAAATAA
20600560 ATATA-ATA-TAAAAATAA
1 ATATATATACTAAAAATAA
20600577 A
1 A
20600578 AAATACTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
16 1 0.06
17 11 0.65
18 5 0.29
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
ATATATATACTAAAAATAA
Found at i:20601379 original size:8 final size:7
Alignment explanation
Indices: 20601365--20601420 Score: 55
Period size: 7 Copynumber: 8.1 Consensus size: 7
20601355 GTGATAAGAT
20601365 TTTTTAA
1 TTTTTAA
20601372 TTTATTAA
1 TTT-TTAA
20601380 -TTTTAA
1 TTTTTAA
20601386 TTTTTAA
1 TTTTTAA
*
20601393 -TTTTGA
1 TTTTTAA
20601399 TTTTT-A
1 TTTTTAA
*
20601405 TTTATTCA
1 TTT-TTAA
20601413 TTTTTAA
1 TTTTTAA
20601420 T
1 T
20601421 AAAAAATTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
6 13 0.31
7 21 0.50
8 8 0.19
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (7 bp):
TTTTTAA
Found at i:20601394 original size:13 final size:13
Alignment explanation
Indices: 20601366--20601420 Score: 65
Period size: 14 Copynumber: 4.1 Consensus size: 13
20601356 TGATAAGATT
20601366 TTTTAATTTATTAA
1 TTTTAATTT-TTAA
20601380 TTTTAATTTTTAA
1 TTTTAATTTTTAA
* *
20601393 TTTTGATTTTTAT
1 TTTTAATTTTTAA
*
20601406 TTATTCATTTTTAA
1 TT-TTAATTTTTAA
20601420 T
1 T
20601421 AAAAAATTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
13 17 0.47
14 19 0.53
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:20601396 original size:27 final size:27
Alignment explanation
Indices: 20601366--20601420 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
20601356 TGATAAGATT
20601366 TTTTAATTTATTAATT-TTAATTTTTAA
1 TTTTAATTT-TTAATTATTAATTTTTAA
* * *
20601393 TTTTGATTTTTATTTATTCATTTTTAA
1 TTTTAATTTTTAATTATTAATTTTTAA
20601420 T
1 T
20601421 AAAAAATTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (27 bp):
TTTTAATTTTTAATTATTAATTTTTAA
Found at i:20606078 original size:9 final size:10
Alignment explanation
Indices: 20606062--20606089 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
20606052 AAAAGCCATT
20606062 GAAAAAAAAA
1 GAAAAAAAAA
20606072 GAAAAAAAAA
1 GAAAAAAAAA
20606082 GAAAAAAA
1 GAAAAAAA
20606090 TAGGACAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:20612116 original size:2 final size:2
Alignment explanation
Indices: 20612111--20612136 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20612101 CTAACAAATT
20612111 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
20612137 GAGAGAGAGA
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:20612141 original size:2 final size:2
Alignment explanation
Indices: 20612136--20612161 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20612126 ATATATATAT
20612136 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
20612162 TATTTATTTG
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):
AG
Found at i:20625785 original size:110 final size:110
Alignment explanation
Indices: 20625575--20625791 Score: 319
Period size: 110 Copynumber: 2.0 Consensus size: 110
20625565 CCATATCAAA
* *
20625575 AAGAATGACAACCAAATAGGCAAGCAGCTAAAGTGCCATCTATAGCATTTTCAATTAAGTTCACT
1 AAGAATGACAACCAAATAGGCAAGCAGCTAAAGTGCCATCTATAGCATTTCCAATAAAGTTCACT
* *
20625640 TACTGCACAAGAACAATTAAAAAGACGCACATTAGACAGCAATGT
66 TACCGCACAAGAACAATTAAAAAGACACACATTAGACAGCAATGT
* * * *
20625685 AAGAATGACAACCAAATAGGCCAGCAGCTAAAGTGCCATTTATGGCGTTTCCAATAAAGTTCACT
1 AAGAATGACAACCAAATAGGCAAGCAGCTAAAGTGCCATCTATAGCATTTCCAATAAAGTTCACT
* * *
20625750 TACCGCACAAGAGCAATTAAAACTG-CACACTTTAGACAGCAA
66 TACCGCACAAGAACAATTAAAA-AGACACACATTAGACAGCAA
20625792 GGATTGGAAA
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
110 94 0.99
111 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (110 bp):
AAGAATGACAACCAAATAGGCAAGCAGCTAAAGTGCCATCTATAGCATTTCCAATAAAGTTCACT
TACCGCACAAGAACAATTAAAAAGACACACATTAGACAGCAATGT
Found at i:20630674 original size:20 final size:20
Alignment explanation
Indices: 20630649--20630689 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
20630639 TAGATAAAAA
20630649 AATTCATATATTTATATTAT
1 AATTCATATATTTATATTAT
20630669 AATTCATATATTTATATTAT
1 AATTCATATATTTATATTAT
20630689 A
1 A
20630690 TTTATATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
AATTCATATATTTATATTAT
Found at i:20630691 original size:11 final size:11
Alignment explanation
Indices: 20630655--20630701 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
20630645 AAAAAATTCA
20630655 TATATTTATAT
1 TATATTTATAT
* *
20630666 TATAATT-CA-
1 TATATTTATAT
20630675 TATATTTATAT
1 TATATTTATAT
20630686 TATATTTATAT
1 TATATTTATAT
*
20630697 CATAT
1 TATAT
20630702 CAAATATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
9 6 0.21
10 2 0.07
11 21 0.72
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (11 bp):
TATATTTATAT
Found at i:20646515 original size:8 final size:8
Alignment explanation
Indices: 20646499--20646547 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
20646489 TTTTTATTTA
20646499 AAATT-AT
1 AAATTAAT
20646506 AAATTAAT
1 AAATTAAT
20646514 AAATTAAT
1 AAATTAAT
*
20646522 AAA-TATT
1 AAATTAAT
*
20646529 ATA-TAAT
1 AAATTAAT
20646536 AAATTAAT
1 AAATTAAT
20646544 AAAT
1 AAAT
20646548 GAAATTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
7 15 0.42
8 21 0.58
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
AAATTAAT
Found at i:20668245 original size:76 final size:76
Alignment explanation
Indices: 20668127--20668271 Score: 263
Period size: 76 Copynumber: 1.9 Consensus size: 76
20668117 CGTAAAATAC
*
20668127 TCTTACTAAACTAGTTGTTTTAATATGCACATAAGAAAAATATTCATCGTTTTTAACAAAATCAT
1 TCTTACTAAACTAGTTGTTTTAATATGCACATAAGAAAAATATTCATCGTTTTTAACAAAATCAA
20668192 ATATAAAACAG
66 ATATAAAACAG
* *
20668203 TCTTACTAAACTAGTTGTTTTAATATGCACATAAGAATAATATTTATCGTTTTTAACAAAATCAA
1 TCTTACTAAACTAGTTGTTTTAATATGCACATAAGAAAAATATTCATCGTTTTTAACAAAATCAA
20668268 ATAT
66 ATAT
20668272 TTTTTATTTA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 66 1.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (76 bp):
TCTTACTAAACTAGTTGTTTTAATATGCACATAAGAAAAATATTCATCGTTTTTAACAAAATCAA
ATATAAAACAG
Found at i:20673402 original size:42 final size:40
Alignment explanation
Indices: 20673331--20673432 Score: 107
Period size: 42 Copynumber: 2.5 Consensus size: 40
20673321 ATGTATTATA
* * *
20673331 TTAATAAAATTATTATTTAATGTTTTAATTTAAGATATTAAT
1 TTAATAAAAATATTATTTAATGTTATAA-TTAAAATA-TAAT
*
20673373 TTAATAAAAATATTATATTTATG-TATAATTAAAATATAAT
1 TTAATAAAAATATTAT-TTAATGTTATAATTAAAATATAAT
*
20673413 TTATATTAAAAATAATATTT
1 TTA-A-TAAAAATATTATTT
20673433 TTTAAAATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
40 7 0.13
41 10 0.19
42 30 0.58
43 5 0.10
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (40 bp):
TTAATAAAAATATTATTTAATGTTATAATTAAAATATAAT
Found at i:20673686 original size:14 final size:14
Alignment explanation
Indices: 20673667--20673712 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
20673657 CCCAATTGCT
20673667 ATAAATAATTTAAA
1 ATAAATAATTTAAA
20673681 ATAAATAATTATAAA
1 ATAAATAATT-TAAA
* *
20673696 TTATAT-ATTTAAA
1 ATAAATAATTTAAA
20673709 ATAA
1 ATAA
20673713 TTTTAATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 6 0.22
14 13 0.48
15 8 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATAAATAATTTAAA
Found at i:20679958 original size:25 final size:25
Alignment explanation
Indices: 20679924--20679973 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
20679914 AACATCAAGT
20679924 TTTAACAAAGAAAGTTTATGACACC
1 TTTAACAAAGAAAGTTTATGACACC
** *
20679949 TTTAACAAAGGGAGTTTATGTCACC
1 TTTAACAAAGAAAGTTTATGACACC
20679974 CCAATCCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (25 bp):
TTTAACAAAGAAAGTTTATGACACC
Found at i:20681893 original size:16 final size:16
Alignment explanation
Indices: 20681872--20681903 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
20681862 AAAGTATAAA
20681872 TTGGATTGTTATAGGG
1 TTGGATTGTTATAGGG
20681888 TTGGATTGTTATAGGG
1 TTGGATTGTTATAGGG
20681904 GACGTGTAGA
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:0.19, C:0.00, G:0.38, T:0.44
Consensus pattern (16 bp):
TTGGATTGTTATAGGG
Found at i:20682568 original size:19 final size:20
Alignment explanation
Indices: 20682539--20682588 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
20682529 ACACGACACG
* *
20682539 AATATATATGAATAAATACA
1 AATAGATATGAACAAATACA
* *
20682559 ACTA-ATATGAACATATACA
1 AATAGATATGAACAAATACA
20682578 AATAGATATGA
1 AATAGATATGA
20682589 TTAATACGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (20 bp):
AATAGATATGAACAAATACA
Found at i:20691079 original size:6 final size:6
Alignment explanation
Indices: 20691068--20691101 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
20691058 GGCTATCACC
* *
20691068 TTTCAT TTTCAT CTTCAT TTTCGT TTTCAT TTTC
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTC
20691102 TGCCCTGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.12, C:0.21, G:0.03, T:0.65
Consensus pattern (6 bp):
TTTCAT
Found at i:20705703 original size:21 final size:21
Alignment explanation
Indices: 20705657--20705703 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
20705647 TATGTTAAGG
** *
20705657 TAATTTTTTATAAATATATAT
1 TAATTTTCAATAAAAATATAT
20705678 T--TTTTCAATAAAAATATAT
1 TAATTTTCAATAAAAATATAT
20705697 TAATTTT
1 TAATTTT
20705704 AATTAATCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
19 16 0.76
21 5 0.24
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TAATTTTCAATAAAAATATAT
Found at i:20709544 original size:20 final size:20
Alignment explanation
Indices: 20709503--20709544 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
20709493 TTTCATGACT
* *
20709503 TCAAACAAAATTTATTTTTG
1 TCAAACAAAATTTACTTCTG
*
20709523 TCAAATAAAATTTACTTCTG
1 TCAAACAAAATTTACTTCTG
20709543 TC
1 TC
20709545 TAAGGTGACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.43
Consensus pattern (20 bp):
TCAAACAAAATTTACTTCTG
Found at i:20710609 original size:22 final size:22
Alignment explanation
Indices: 20710584--20710632 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
20710574 AATTGTTCCT
20710584 GGGCAAAGTCCTTG-TCTTGGCA
1 GGGCAAAGTCCTTGCT-TTGGCA
*
20710606 GGGCAAAGTCCTTGCTTTGGCG
1 GGGCAAAGTCCTTGCTTTGGCA
20710628 GGGCA
1 GGGCA
20710633 GAGGCTTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.16, C:0.22, G:0.37, T:0.24
Consensus pattern (22 bp):
GGGCAAAGTCCTTGCTTTGGCA
Found at i:20714936 original size:156 final size:156
Alignment explanation
Indices: 20714623--20714928 Score: 508
Period size: 156 Copynumber: 2.0 Consensus size: 156
20714613 CCGGAAACCA
* *
20714623 ATGAATCTGATACGTATTTGATTTGTGCAGATATGTATCGAGAATTTCTCGTACATCACCTACGA
1 ATGAATCTGATACGTATTTGATTTGTCCAGATACGTATCGAGAATTTCTCGTACATCACCTACGA
* ** *
20714688 AAGCGTATCATGATTTTGCCAGTTATGTAACTTTGCTCCAAAGCCACTTTCGGAGCAATGTTCTT
66 AAGCGTATCATGATTTTGCCAGTTATGTAACTTTGCTCCAAAACCACTTTCACAGCAATGTTCGT
20714753 GAAAAACACGCTTCTAACATCCGTCG
131 GAAAAACACGCTTCTAACATCCGTCG
*
20714779 ATGAATCTGATACGTATTTGATTTGTCCAGATACGTATCGGGAATTTCTCGTACATCACCTACGA
1 ATGAATCTGATACGTATTTGATTTGTCCAGATACGTATCGAGAATTTCTCGTACATCACCTACGA
20714844 AAGCGTATCATGATTTTGCCA-TCTATGTAACTTTGCTCCAAAACCACTTTCACAGCAATGTTCG
66 AAGCGTATCATGATTTTGCCAGT-TATGTAACTTTGCTCCAAAACCACTTTCACAGCAATGTTCG
* *
20714908 TG-ACAACACGCTTTTAACATC
130 TGAAAAACACGCTTCTAACATC
20714929 TGGTCGATTT
Statistics
Matches: 140, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
155 18 0.13
156 122 0.87
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (156 bp):
ATGAATCTGATACGTATTTGATTTGTCCAGATACGTATCGAGAATTTCTCGTACATCACCTACGA
AAGCGTATCATGATTTTGCCAGTTATGTAACTTTGCTCCAAAACCACTTTCACAGCAATGTTCGT
GAAAAACACGCTTCTAACATCCGTCG
Found at i:20723170 original size:11 final size:11
Alignment explanation
Indices: 20723154--20723181 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
20723144 ATACAATGAT
20723154 ATAATATAAAA
1 ATAATATAAAA
20723165 ATAATATAAAA
1 ATAATATAAAA
20723176 ATAATA
1 ATAATA
20723182 CTATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:20724302 original size:6 final size:6
Alignment explanation
Indices: 20724292--20724325 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
20724282 TTAATAACAA
* *
20724292 TAATAG CAATAG TAATAG TAATAG TAATAA TAAT
1 TAATAG TAATAG TAATAG TAATAG TAATAG TAAT
20724326 CCTTTGATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.32
Consensus pattern (6 bp):
TAATAG
Found at i:20731459 original size:17 final size:19
Alignment explanation
Indices: 20731437--20731471 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
20731427 ATAAAATAAT
20731437 TATTT-AATAT-TTAAAAC
1 TATTTAAATATATTAAAAC
20731454 TATTTAAATATATTAAAA
1 TATTTAAATATATTAAAA
20731472 TTTATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTTAAATATATTAAAAC
Found at i:20731509 original size:25 final size:22
Alignment explanation
Indices: 20731454--20731498 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
20731444 TATTTAAAAC
20731454 TATTTAAATATATTAAAATTTA
1 TATTTAAATATATTAAAATTTA
*
20731476 TATTAAAATAATATATAAAATTT
1 TATTTAAAT-ATAT-TAAAATTT
20731499 TCAATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 4 0.20
24 8 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TATTTAAATATATTAAAATTTA
Found at i:20742496 original size:18 final size:19
Alignment explanation
Indices: 20742473--20742513 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
20742463 AATCAAATTA
20742473 TATATTTTTATT-AATTTT
1 TATATTTTTATTAAATTTT
*
20742491 TATATTTTTTTTAAATTTT
1 TATATTTTTATTAAATTTT
20742510 TATA
1 TATA
20742514 AAATAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TATATTTTTATTAAATTTT
Found at i:20743499 original size:21 final size:20
Alignment explanation
Indices: 20743467--20743509 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
20743457 AGTATTTAAT
**
20743467 ATTAAATTTTATTTTTTTTA
1 ATTAAATTTTATAATTTTTA
20743487 ATTAAATTTTTATAATTTTTA
1 ATTAAA-TTTTATAATTTTTA
20743508 AT
1 AT
20743510 GTCAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTAAATTTTATAATTTTTA
Found at i:20743528 original size:10 final size:10
Alignment explanation
Indices: 20743513--20743539 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
20743503 TTTTAATGTC
20743513 AAAAAATTAA
1 AAAAAATTAA
20743523 AAAAAATTAA
1 AAAAAATTAA
20743533 AAAAAAT
1 AAAAAAT
20743540 AAGACATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAAAATTAA
Found at i:20743788 original size:3 final size:3
Alignment explanation
Indices: 20743780--20743829 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
20743770 TTGTCTTGTT
20743780 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
20743828 TT
1 TT
20743830 TAAAATGTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:20745381 original size:19 final size:20
Alignment explanation
Indices: 20745357--20745400 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
20745347 TAATTTTATA
20745357 TTTATATAT-AAAATAATAT
1 TTTATATATAAAAATAATAT
*
20745376 TTTATATCTAAAAATAATAT
1 TTTATATATAAAAATAATAT
20745396 TTTAT
1 TTTAT
20745401 TTATTTTGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTATATATAAAAATAATAT
Found at i:20751212 original size:18 final size:19
Alignment explanation
Indices: 20751177--20751213 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
20751167 GTAAATTAAT
*
20751177 ATTTTATTTTTAATAATAA
1 ATTTTATTTATAATAATAA
20751196 ATTTTATTTAT-ATAATAA
1 ATTTTATTTATAATAATAA
20751214 TTAATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTTATTTATAATAATAA
Found at i:20751215 original size:17 final size:18
Alignment explanation
Indices: 20751173--20751215 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
20751163 AAAGGTAAAT
*
20751173 TAAT-ATTTTATTTTTAA
1 TAATAATTTTATTTATAA
20751190 TAATAAATTTTATTTAT-A
1 TAAT-AATTTTATTTATAA
20751208 TAATAATT
1 TAATAATT
20751216 AATAATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.35
18 5 0.22
19 10 0.43
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TAATAATTTTATTTATAA
Found at i:20752371 original size:16 final size:17
Alignment explanation
Indices: 20752352--20752393 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
20752342 TTTATTTAAT
*
20752352 TTTATATTTA-TTGATA
1 TTTATATTAATTTGATA
*
20752368 TTTAT-TTAATTTTATA
1 TTTATATTAATTTGATA
20752384 TTTATATTAA
1 TTTATATTAA
20752394 AAAATAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 3 0.14
16 15 0.68
17 4 0.18
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTATATTAATTTGATA
Found at i:20752409 original size:20 final size:20
Alignment explanation
Indices: 20752384--20752428 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
20752374 TAATTTTATA
20752384 TTTATA-TTAAAAAATAATAT
1 TTTATATTTAAAAAA-AATAT
*
20752404 TTTATATTTCAAAAAAATAT
1 TTTATATTTAAAAAAAATAT
20752424 TTTAT
1 TTTAT
20752429 TAATTTTGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTATATTTAAAAAAAATAT
Found at i:20757526 original size:35 final size:33
Alignment explanation
Indices: 20757461--20757544 Score: 87
Period size: 35 Copynumber: 2.4 Consensus size: 33
20757451 TATTTTGTAT
**
20757461 TAATATAAATTATGATAAATAATTTTTATTTAAAA
1 TAATATAAA-TAT-ATAAATAATTAATATTTAAAA
* *
20757496 TACAATATAAATATATAAATTATTAATATTTTAAA
1 T--AATATAAATATATAAATAATTAATATTTAAAA
*
20757531 TAACATAAATATAT
1 TAATATAAATATAT
20757545 TAAAGTAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
33 12 0.29
35 19 0.45
36 3 0.07
37 8 0.19
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (33 bp):
TAATATAAATATATAAATAATTAATATTTAAAA
Found at i:20758773 original size:33 final size:34
Alignment explanation
Indices: 20758732--20758798 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
20758722 TAGACCTGCA
* *
20758732 AAGCAAGCCTTCGCCC-TTTAAGAAGCGGGTTCC
1 AAGCAAGCCTTCACCCTTTTAAGAAGCCGGTTCC
20758765 AAGCAAGCCTTCACCCTTTTAAGAAGCCGGTTCC
1 AAGCAAGCCTTCACCCTTTTAAGAAGCCGGTTCC
20758799 TAATTGGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 15 0.48
34 16 0.52
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.22
Consensus pattern (34 bp):
AAGCAAGCCTTCACCCTTTTAAGAAGCCGGTTCC
Found at i:20759026 original size:2 final size:2
Alignment explanation
Indices: 20759019--20759048 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
20759009 TATCTTACTA
20759019 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20759049 AAGCCATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:20759037 original size:15 final size:15
Alignment explanation
Indices: 20759017--20759049 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
20759007 TTTATCTTAC
20759017 TAATATATATATATA
1 TAATATATATATATA
20759032 TAATATATATATATA
1 TAATATATATATATA
20759047 TAA
1 TAA
20759050 AGCCATTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATATATATATATA
Found at i:20759039 original size:13 final size:13
Alignment explanation
Indices: 20759021--20759046 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20759011 TCTTACTAAT
20759021 ATATATATATATA
1 ATATATATATATA
20759034 ATATATATATATA
1 ATATATATATATA
20759047 TAAAGCCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATATATATA
Found at i:20761123 original size:23 final size:22
Alignment explanation
Indices: 20761086--20761137 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
20761076 TTAATATATA
* *
20761086 TACAAAATAATAAATTTTTAAT
1 TACAAAATAAAAAATTTTAAAT
20761108 TACAATAATAAAAAATTTTAAAT
1 TACAA-AATAAAAAATTTTAAAT
*
20761131 TATAAAA
1 TACAAAA
20761138 ATTTAATTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
TACAAAATAAAAAATTTTAAAT
Found at i:20761199 original size:22 final size:21
Alignment explanation
Indices: 20761158--20761202 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
20761148 ACTTATAAAT
*
20761158 TATTTAAATTAATTATTTTAA
1 TATTTAAATTAATCATTTTAA
20761179 TATTTAAATTTAACTCA-TTTAA
1 TATTTAAA-TTAA-TCATTTTAA
20761201 TA
1 TA
20761203 AATTAAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.38
22 11 0.52
23 2 0.10
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTTAAATTAATCATTTTAA
Found at i:20761998 original size:15 final size:15
Alignment explanation
Indices: 20761975--20762010 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
20761965 GATTAGGTTA
*
20761975 ATTTTAAATTAAATT
1 ATTTAAAATTAAATT
20761990 ATTTAAAATTAAATT
1 ATTTAAAATTAAATT
*
20762005 AATTAA
1 ATTTAA
20762011 TTTTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTAAAATTAAATT
Found at i:20762014 original size:35 final size:35
Alignment explanation
Indices: 20761972--20762118 Score: 92
Period size: 35 Copynumber: 4.3 Consensus size: 35
20761962 ATTGATTAGG
20761972 TTAATTTTAAATTAAATTATTTAAAATTAAATTAA
1 TTAATTTTAAATTAAATTATTTAAAATTAAATTAA
* * * ** *
20762007 TTAATTTT-ATTTTAATTA-ATCGAATTAAATTTA
1 TTAATTTTAAATTAAATTATTTAAAATTAAATTAA
* * * *
20762040 TTAATTTTAAAAATT-AATTAATCAAAATTAATTTGA
1 TTAATTTT--AAATTAAATTATTTAAAATTAAATTAA
* * *
20762076 TTAA-TTGAATAATAAAATATATT-AAATTAAATTAA
1 TTAATTTTAA-ATTAAATTAT-TTAAAATTAAATTAA
20762111 --AATTTTAA
1 TTAATTTTAA
20762119 TTTTTAATGT
Statistics
Matches: 83, Mismatches: 21, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
33 23 0.28
34 14 0.17
35 29 0.35
36 17 0.20
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (35 bp):
TTAATTTTAAATTAAATTATTTAAAATTAAATTAA
Found at i:20762021 original size:20 final size:19
Alignment explanation
Indices: 20761972--20762026 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
20761962 ATTGATTAGG
20761972 TTAATTTTAAATTAAATTAT
1 TTAATTTTAAATT-AATTAT
**
20761992 TTAAAATTAAATTAATTAAT
1 TTAATTTTAAATTAATT-AT
*
20762012 TTTATTTT-AATTAAT
1 TTAATTTTAAATTAAT
20762027 CGAATTAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTAATTTTAAATTAATTAT
Found at i:20762337 original size:4 final size:4
Alignment explanation
Indices: 20762307--20762368 Score: 54
Period size: 4 Copynumber: 14.5 Consensus size: 4
20762297 TTAATAATAA
* *
20762307 AATT AATTT AATTT AA-T AATA AATT AATT AATAA AATTT AATT AATT
1 AATT AA-TT AA-TT AATT AATT AATT AATT AAT-T AA-TT AATT AATT
20762354 AATT AATT AAATT AA
1 AATT AATT -AATT AA
20762369 AACCAAATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
3 3 0.06
4 28 0.57
5 17 0.35
6 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (4 bp):
AATT
Found at i:20762347 original size:30 final size:31
Alignment explanation
Indices: 20762311--20762368 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
20762301 TAATAAAATT
20762311 AATTTAATTTAA-TAATAAATT-AATTAATAA
1 AATTTAA-TTAATTAATAAATTAAATTAATAA
*
20762341 AATTTAATTAATTAATTAATTAAATTAA
1 AATTTAATTAATTAATAAATTAAATTAA
20762369 AACCAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 4 0.16
30 15 0.60
31 6 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (31 bp):
AATTTAATTAATTAATAAATTAAATTAATAA
Found at i:20762348 original size:22 final size:22
Alignment explanation
Indices: 20762323--20762366 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
20762313 TTTAATTTAA
20762323 TAATAAATTAATTAATAAAATT
1 TAATAAATTAATTAATAAAATT
* *
20762345 TAATTAATTAATTAATTAAATT
1 TAATAAATTAATTAATAAAATT
20762367 AAAACCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATAAATTAATTAATAAAATT
Found at i:20762701 original size:3 final size:3
Alignment explanation
Indices: 20762688--20762719 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
20762678 TTGCTTCCTC
*
20762688 TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
20762720 ACCTGCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:20767087 original size:25 final size:26
Alignment explanation
Indices: 20767033--20767102 Score: 83
Period size: 25 Copynumber: 2.7 Consensus size: 26
20767023 AAAAAATATA
20767033 ATAATAATAATAATAATAATTTATTAAT
1 ATAA-AAT-ATAATAATAATTTATTAAT
*
20767061 ATAAATTATAATACATAATTT-TT-AT
1 ATAAAATATAATA-ATAATTTATTAAT
20767086 ATAAAATATAAT-ATAAT
1 ATAAAATATAATAATAAT
20767103 ATATAAATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
23 5 0.13
25 13 0.33
26 8 0.21
27 9 0.23
28 4 0.10
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (26 bp):
ATAAAATATAATAATAATTTATTAAT
Found at i:20767101 original size:30 final size:29
Alignment explanation
Indices: 20767033--20767130 Score: 78
Period size: 30 Copynumber: 3.4 Consensus size: 29
20767023 AAAAAATATA
*
20767033 ATAATAATAATAATAATAATTTATTAATAT
1 ATAAT-ATAATAATAATAATTTATTAAAAT
*
20767063 A-AATTATAATACATAAT-TTTTATATAAAAT
1 ATAA-TATAATA-ATAATAATTTAT-TAAAAT
* *
20767093 ATAATATAAT-AT-ATAAATTATTAATAT
1 ATAATATAATAATAATAATTTATTAAAAT
* *
20767120 TTTATATAATA
1 ATAATATAATA
20767131 TAAATATACG
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
27 15 0.27
28 6 0.11
29 13 0.24
30 19 0.35
31 2 0.04
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (29 bp):
ATAATATAATAATAATAATTTATTAAAAT
Found at i:20767108 original size:37 final size:39
Alignment explanation
Indices: 20767057--20767138 Score: 93
Period size: 39 Copynumber: 2.2 Consensus size: 39
20767047 AATAATTTAT
20767057 TAATATAAATTAT-AA-TACATAAT-TTTTATATAAAATA
1 TAATATAAATTATAAATTA-ATAATATTTTATATAAAATA
* *
20767094 TAATAT-AATATATAAATTATTAATATTTTATATAATATA
1 TAATATAAAT-TATAAATTAATAATATTTTATATAAAATA
20767133 -AATATA
1 TAATATA
20767139 CGAATTATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
36 3 0.08
37 9 0.24
38 11 0.29
39 15 0.39
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (39 bp):
TAATATAAATTATAAATTAATAATATTTTATATAAAATA
Found at i:20767136 original size:18 final size:19
Alignment explanation
Indices: 20767067--20767137 Score: 67
Period size: 18 Copynumber: 3.8 Consensus size: 19
20767057 TAATATAAAT
*
20767067 TATAATACATAAT-TTTTA
1 TATAATATATAATATTTTA
* **
20767085 TATAAAATATAATATAATA
1 TATAATATATAATATTTTA
20767104 TATAA-ATTATTAATATTTTA
1 TATAATA-TA-TAATATTTTA
20767124 TATAATATA-AATAT
1 TATAATATATAATAT
20767138 ACGAATTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
18 17 0.40
19 10 0.23
20 15 0.35
21 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (19 bp):
TATAATATATAATATTTTA
Found at i:20768235 original size:28 final size:30
Alignment explanation
Indices: 20768195--20768251 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 30
20768185 TAAAAATATA
*
20768195 ATTAATAAATAAATA-TTTAAATA-ATTTT
1 ATTAATAAATAAAAATTTTAAATATATTTT
20768223 ATTAA-AAATTAAAAATTTTAAATATATTT
1 ATTAATAAA-TAAAAATTTTAAATATATTT
20768252 AAAAAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 3 0.12
28 10 0.40
29 8 0.32
30 4 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
ATTAATAAATAAAAATTTTAAATATATTTT
Found at i:20768252 original size:29 final size:29
Alignment explanation
Indices: 20768205--20768265 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
20768195 ATTAATAAAT
20768205 AAATATTTAAATAATTTTATTAAAAA-TTAA
1 AAATATTTAAATAATTTTA--AAAAATTTAA
20768235 AAAT-TTTAAAT-ATATTTAAAAAATTTAA
1 AAATATTTAAATAAT-TTTAAAAAATTTAA
20768263 AAA
1 AAA
20768266 ATTGGATGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
27 5 0.17
28 9 0.31
29 11 0.38
30 4 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
AAATATTTAAATAATTTTAAAAAATTTAA
Found at i:20768260 original size:9 final size:9
Alignment explanation
Indices: 20768226--20768268 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
20768216 TAATTTTATT
20768226 AAAAA-TTA
1 AAAAATTTA
*
20768234 AAAATTTTA
1 AAAAATTTA
*
20768243 AATATATTTA
1 AA-AAATTTA
20768253 AAAAATTTA
1 AAAAATTTA
20768262 AAAAATT
1 AAAAATT
20768269 GGATGCAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
8 4 0.14
9 18 0.62
10 7 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
AAAAATTTA
Found at i:20773788 original size:45 final size:45
Alignment explanation
Indices: 20773730--20773828 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
20773720 TTAGAAATAT
* *
20773730 ATTTTTTTAATTTCTAAATTTTTCACAATTTGGGTCTATTTAGAA
1 ATTTTTTTTATTTCTAAATTTTTCACAATTTGGATCTATTTAGAA
* * * * *
20773775 GTTTTTTTTATTTCTAAATTTTTTACCATTTTGATCTATTTATAA
1 ATTTTTTTTATTTCTAAATTTTTCACAATTTGGATCTATTTAGAA
20773820 ATTTTTTTT
1 ATTTTTTTT
20773829 CTTTGAAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.61
Consensus pattern (45 bp):
ATTTTTTTTATTTCTAAATTTTTCACAATTTGGATCTATTTAGAA
Found at i:20774157 original size:24 final size:25
Alignment explanation
Indices: 20774120--20774166 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
20774110 CTTACTTAAA
* *
20774120 AAATTTATAGAAATTT-ATCATTTG
1 AAATTAATAAAAATTTCATCATTTG
20774144 AAATTAATAAAAATTTCATCATT
1 AAATTAATAAAAATTTCATCATT
20774167 GGATAATTTG
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:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (25 bp):
AAATTAATAAAAATTTCATCATTTG
Found at i:20782191 original size:19 final size:19
Alignment explanation
Indices: 20782150--20782191 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
20782140 CCTGTCAGAT
**
20782150 TTTTCCTTTTTTTGTTTTT
1 TTTTCCTTTTTTTGTTTAG
20782169 TTTTCCTTATTTTT-TTTAG
1 TTTTCCTT-TTTTTGTTTAG
20782188 TTTT
1 TTTT
20782192 TTTTATTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.05, C:0.10, G:0.05, T:0.81
Consensus pattern (19 bp):
TTTTCCTTTTTTTGTTTAG
Found at i:20782615 original size:10 final size:10
Alignment explanation
Indices: 20782585--20782633 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
20782575 ATTATTTTAA
20782585 ATATAAATAT
1 ATATAAATAT
*
20782595 AAAATTAAATAT
1 -ATA-TAAATAT
20782607 ATATAAATAT
1 ATATAAATAT
* *
20782617 ATATAATTAA
1 ATATAAATAT
20782627 ATATAAA
1 ATATAAA
20782634 ATTAAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
10 21 0.66
11 4 0.12
12 7 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATATAAATAT
Found at i:20782624 original size:24 final size:22
Alignment explanation
Indices: 20782585--20782631 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 22
20782575 ATTATTTTAA
20782585 ATATAAATATAAAATTAAATAT
1 ATATAAATATAAAATTAAATAT
20782607 ATATAAATATATATAATTAAATAT
1 ATATAAATATA-A-AATTAAATAT
20782631 A
1 A
20782632 AAATTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 11 0.48
23 1 0.04
24 11 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
ATATAAATATAAAATTAAATAT
Found at i:20782636 original size:12 final size:12
Alignment explanation
Indices: 20782583--20782639 Score: 64
Period size: 12 Copynumber: 4.7 Consensus size: 12
20782573 ATATTATTTT
20782583 AAATATAAATATA
1 AAAT-TAAATATA
20782596 AAATTAAATAT-
1 AAATTAAATATA
*
20782607 ATA-TAAATATA
1 AAATTAAATATA
20782618 TATAATTAAATATA
1 -A-AATTAAATATA
20782632 AAATTAAA
1 AAATTAAA
20782640 AAAATAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
10 7 0.18
11 2 0.05
12 15 0.39
13 6 0.16
14 8 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAATTAAATATA
Found at i:20786272 original size:2 final size:2
Alignment explanation
Indices: 20786261--20786294 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
20786251 TGCATTTGTA
20786261 AT AT AT -T 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
20786295 AAGGATAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20788344 original size:9 final size:9
Alignment explanation
Indices: 20788333--20788376 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
20788323 TGAGGTAGCT
*
20788333 CATCATCAT
1 CATCATCAC
20788342 CATCATCAC
1 CATCATCAC
* *
20788351 CACCACCAC
1 CATCATCAC
*
20788360 CATCACCAC
1 CATCATCAC
20788369 CATCATCA
1 CATCATCA
20788377 TAATCATGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.34, C:0.48, G:0.00, T:0.18
Consensus pattern (9 bp):
CATCATCAC
Found at i:20789283 original size:23 final size:22
Alignment explanation
Indices: 20789274--20789322 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
20789264 TTTTTATATC
20789274 AAAATTTATTTAAATATATTTAA
1 AAAATTTA-TTAAATATATTTAA
*
20789297 AAAATTTATTAAA-ATAATATAA
1 AAAATTTATTAAATAT-ATTTAA
20789319 AAAA
1 AAAA
20789323 ATTAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 2 0.08
22 14 0.58
23 8 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAATTTATTAAATATATTTAA
Found at i:20789323 original size:23 final size:23
Alignment explanation
Indices: 20789274--20789325 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
20789264 TTTTTATATC
* *
20789274 AAAATTTATTTAAATATATTTAA
1 AAAATTTATTAAAATATATTAAA
20789297 AAAATTTATTAAAATA-ATATAAA
1 AAAATTTATTAAAATATAT-TAAA
20789320 AAAATT
1 AAAATT
20789326 AAAAATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 24 0.92
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAATTTATTAAAATATATTAAA
Found at i:20793618 original size:3 final size:3
Alignment explanation
Indices: 20793610--20793646 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
20793600 GCATCCAAAC
20793610 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
20793647 TTATTATTAT
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:20793651 original size:3 final size:3
Alignment explanation
Indices: 20793645--20793688 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
20793635 ATAATAATAA
*
20793645 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
20793689 ATTAATTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:20793694 original size:4 final size:4
Alignment explanation
Indices: 20793685--20793715 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
20793675 TACTATTATT
20793685 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT
20793716 GCTTGCTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:20801355 original size:12 final size:13
Alignment explanation
Indices: 20801306--20801365 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
20801296 GATACATGAT
*
20801306 ATAAAAATAAATAA
1 ATAAAAAT-TATAA
*
20801320 ATAAAAATAATATA
1 ATAAAAATTATA-A
* *
20801334 TTATAAAATT-TTA
1 ATA-AAAATTATAA
20801347 ATAAAAATTATAA
1 ATAAAAATTATAA
20801360 ATAAAA
1 ATAAAA
20801366 TTAAATATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
12 6 0.16
13 15 0.39
14 12 0.32
15 5 0.13
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAAAAATTATAA
Found at i:20801424 original size:18 final size:19
Alignment explanation
Indices: 20801403--20801468 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 19
20801393 TAACATAAAT
20801403 TATAATATATAAT-TTTTA
1 TATAATATATAATATTTTA
*
20801421 TATAAAATATAATATAAATTTA
1 TATAATATATAATAT---TTTA
20801443 TA-AAT-TATTAATATTTTA
1 TATAATATA-TAATATTTTA
20801461 TATAATAT
1 TATAATAT
20801469 GAATATATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
18 18 0.46
19 4 0.10
20 3 0.08
21 8 0.21
22 6 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATAATATATAATATTTTA
Found at i:20801445 original size:31 final size:31
Alignment explanation
Indices: 20801360--20801445 Score: 81
Period size: 31 Copynumber: 2.8 Consensus size: 31
20801350 AAAATTATAA
*
20801360 ATAAAAT-TAAATATATATTT-TATATTTTTAT
1 ATAAAATAT-AATATAAATTTATA-ATTTTTAT
* *
20801391 ATTAACATA-AAT-TATAATATATAATTTTTAT
1 A-TAAAATATAATATA-AATTTATAATTTTTAT
20801422 ATAAAATATAATATAAATTTATAA
1 ATAAAATATAATATAAATTTATAA
20801446 ATTATTAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
30 8 0.18
31 27 0.61
32 9 0.20
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (31 bp):
ATAAAATATAATATAAATTTATAATTTTTAT
Found at i:20801466 original size:33 final size:32
Alignment explanation
Indices: 20801427--20801490 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
20801417 TTTATATAAA
*
20801427 ATATAATATAAATTTATAAATTATTAATATTTT
1 ATATAATATAAATATATAAATTATT-ATATTTT
*
20801460 ATATAATATGAATATATAAATTATTATATTT
1 ATATAATATAAATATATAAATTATTATATTT
20801491 ATTATTGTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 6 0.21
33 23 0.79
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (32 bp):
ATATAATATAAATATATAAATTATTATATTTT
Found at i:20802578 original size:29 final size:29
Alignment explanation
Indices: 20802545--20802607 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
20802535 AATGGATATA
*
20802545 ATTAATATAAATATACATGAATAAACACG
1 ATTAATATAAAAATACATGAATAAACACG
* *
20802574 ATTAATATAAAAATATATGAATAGACACG
1 ATTAATATAAAAATACATGAATAAACACG
20802603 ATTAA
1 ATTAA
20802608 CACGAATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.29
Consensus pattern (29 bp):
ATTAATATAAAAATACATGAATAAACACG
Found at i:20802618 original size:29 final size:29
Alignment explanation
Indices: 20802553--20802619 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
20802543 TAATTAATAT
* * *
20802553 AAATATACATGAATAAACACGATTAATAT
1 AAATATATATGAATAAACACGATTAACAC
* *
20802582 AAAAATATATGAATAGACACGATTAACAC
1 AAATATATATGAATAAACACGATTAACAC
*
20802611 GAATATATA
1 AAATATATA
20802620 CACATACATG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.55, C:0.10, G:0.09, T:0.25
Consensus pattern (29 bp):
AAATATATATGAATAAACACGATTAACAC
Found at i:20803217 original size:22 final size:22
Alignment explanation
Indices: 20803192--20803233 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
20803182 TATTGATATG
20803192 AATAAACATAAAATTTTTTTTA
1 AATAAACATAAAATTTTTTTTA
* * *
20803214 AATACATATATAATTTTTTT
1 AATAAACATAAAATTTTTTT
20803234 GTATTGTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (22 bp):
AATAAACATAAAATTTTTTTTA
Found at i:20806960 original size:23 final size:23
Alignment explanation
Indices: 20806933--20806979 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
20806923 GTGAATTTAG
20806933 AAATAAAAATTATATAAAA-ATAC
1 AAATAAAAATTA-ATAAAATATAC
**
20806956 AAATAAATTTTAATAAAATATAC
1 AAATAAAAATTAATAAAATATAC
20806979 A
1 A
20806980 TAATTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (23 bp):
AAATAAAAATTAATAAAATATAC
Found at i:20813724 original size:28 final size:28
Alignment explanation
Indices: 20813685--20813757 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
20813675 TAAAATTTGG
* * *
20813685 ATAAAATGCAAATTGGATAAAATGGTTA
1 ATAAAATACAAATTGCAGAAAATGGTTA
20813713 ATAAAATACAAATTGCAGAAAATGGTTA
1 ATAAAATACAAATTGCAGAAAATGGTTA
*
20813741 ATAAAAAACAAATTGCA
1 ATAAAATACAAATTGCA
20813758 CATTTTTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.25
Consensus pattern (28 bp):
ATAAAATACAAATTGCAGAAAATGGTTA
Found at i:20814183 original size:12 final size:12
Alignment explanation
Indices: 20814166--20814242 Score: 52
Period size: 12 Copynumber: 6.3 Consensus size: 12
20814156 TAAAAGTAAA
20814166 TATTAAATTAAT
1 TATTAAATTAAT
*
20814178 TATTAAATTTAT
1 TATTAAATTAAT
*
20814190 AATTTAAA-TAAT
1 TA-TTAAATTAAT
20814202 TCATTAAA--AAT
1 T-ATTAAATTAAT
* *
20814213 TTTTAGAATTTAAG
1 TATTA-AA-TTAAT
*
20814227 TATTAAATTAAA
1 TATTAAATTAAT
20814239 TATT
1 TATT
20814243 TTATTATAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
10 3 0.06
11 6 0.12
12 28 0.55
13 8 0.16
14 6 0.12
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (12 bp):
TATTAAATTAAT
Found at i:20816324 original size:31 final size:31
Alignment explanation
Indices: 20816286--20816348 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 31
20816276 TATATTTTAT
*
20816286 ATTTTTATAT-TGATATAA-ATTATAATATATA
1 ATTTTTATATATAATATAATA-TA-AATATATA
20816317 ATTTTTATATATAATATAATATAAATATATA
1 ATTTTTATATATAATATAATATAAATATATA
20816348 A
1 A
20816349 ATTATTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 19 0.66
32 9 0.31
33 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (31 bp):
ATTTTTATATATAATATAATATAAATATATA
Found at i:20816346 original size:13 final size:12
Alignment explanation
Indices: 20816298--20816348 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 12
20816288 TTTTATATTG
20816298 ATATAAATTATA
1 ATATAAATTATA
* *
20816310 ATATATAATTTTT
1 ATATA-AATTATA
20816323 ATATATAA-TATA
1 ATATA-AATTATA
20816335 ATATAAATATATA
1 ATATAAAT-TATA
20816348 A
1 A
20816349 ATTATTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
11 2 0.06
12 12 0.38
13 18 0.56
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
ATATAAATTATA
Found at i:20822060 original size:7 final size:6
Alignment explanation
Indices: 20822028--20822077 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
20822018 TGATATAATA
* **
20822028 TTAAAT TTAAAT TTAAAT TT-AAT TTAAAAT TTAAAA TTCGAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TTAAAT TTAAAT TTAAAT
20822076 TT
1 TT
20822078 GATCAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
5 5 0.14
6 26 0.72
7 5 0.14
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (6 bp):
TTAAAT
Found at i:20824087 original size:19 final size:19
Alignment explanation
Indices: 20824039--20824090 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 19
20824029 TAAAATATAT
*
20824039 TTTTTAATT-TTATTAAAA
1 TTTTAAATTATTATTAAAA
20824057 TTATATATAATTATTATTAAAA
1 TT-T-TA-AATTATTATTAAAA
20824079 TTTTAAATTATT
1 TTTTAAATTATT
20824091 TAATTTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 2 0.07
19 8 0.28
20 3 0.10
21 5 0.17
22 11 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTAAATTATTATTAAAA
Found at i:20828920 original size:30 final size:30
Alignment explanation
Indices: 20828885--20828953 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
20828875 TAAATAAAAT
* * * *
20828885 AAAATAATGTTTTAAGGGTTTAATTGGATA
1 AAAATAATATTTTAAGAGCTTAATTAGATA
20828915 AAAATAATATTTTAAGAGCTTAATTAGATA
1 AAAATAATATTTTAAGAGCTTAATTAGATA
20828945 AAAATAATA
1 AAAATAATA
20828954 CTAAGAAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.49, C:0.01, G:0.13, T:0.36
Consensus pattern (30 bp):
AAAATAATATTTTAAGAGCTTAATTAGATA
Found at i:20837993 original size:20 final size:20
Alignment explanation
Indices: 20837955--20837993 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20837945 TAAAAAATTG
*
20837955 TTTAAAATTTAATACTATTA
1 TTTAAAATTTAAAACTATTA
*
20837975 TTTAAAATTTAAAATTATT
1 TTTAAAATTTAAAACTATT
20837994 TTATTTTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAAAATTTAAAACTATTA
Found at i:20840751 original size:21 final size:20
Alignment explanation
Indices: 20840704--20840775 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 20
20840694 TTGTTAAAAA
20840704 TGTTGACATGGCTATTAATT
1 TGTTGACATGGCTATTAATT
* *
20840724 TGATGACATGGGC-ATTGATTT
1 TGTTGACAT-GGCTATT-AATT
* * *
20840745 TGTTGACGTAG-TATTAACT
1 TGTTGACATGGCTATTAATT
*
20840764 TATTGACATGGC
1 TGTTGACATGGC
20840776 AAGTAGGATA
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
19 10 0.26
20 15 0.39
21 13 0.34
ACGTcount: A:0.25, C:0.11, G:0.24, T:0.40
Consensus pattern (20 bp):
TGTTGACATGGCTATTAATT
Found at i:20841229 original size:22 final size:22
Alignment explanation
Indices: 20841204--20841246 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
20841194 CTATATGGAA
20841204 AAAAATCTTAT-ACAAATTTATT
1 AAAAATC-TATCACAAATTTATT
*
20841226 AAAAATCTATCATAAATTTAT
1 AAAAATCTATCACAAATTTAT
20841247 CAATATATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAAATCTATCACAAATTTATT
Found at i:20844132 original size:231 final size:231
Alignment explanation
Indices: 20843052--20844153 Score: 1339
Period size: 231 Copynumber: 4.8 Consensus size: 231
20843042 ACAGTTAATT
* * *
20843052 AATTTGCAAAGAAATGCTTTAACAAATTAAAAATATTA-AAATATAACAAAAATACCGAATAACG
1 AATTTTCAAATAAATGCTTTAACAAATT-AAAATATTACAAA-ATAACGAAAATACCGAATAACG
* * * * * *
20843116 GTCATATTATTTCTAAATTTAGAAATTATTATTAAATTATTTACTCAAAT-TTCTTTCAAAAATT
64 GTCATATTATTTCTAAATTTAGAAATTATTATTAAATAATCTATTCAAATCTT-TTACAACAATA
* * * * * * *
20843180 TCATTTATCAAACTT-AA-TTTGATATACTAAAACGACTAATTATAAATAATGAGTGATGATTAA
128 ACATTTATCAAATTTGAACTTTGATATACTAAAACGATTAACTGTAAATAATGAATGATGATGAA
* * *
20843243 TTTTTGACGTTAACAGTTAATTAT-TTTAATTTATAGAATC
193 TTTATGAC-TTAATAGTTAATTATCTTAAATTT-TAGAATC
* * *
20843283 AAGTTTT-AAAAAAATGCTTTAACAAATTAAAAATATTACAAGATAACGAAAATACCAAATAACG
1 AA-TTTTCAAATAAATGCTTTAACAAATT-AAAATATTACAAAATAACGAAAATACCGAATAACG
* * * *
20843347 GTCATATCATTTCTAAATTTAAAAATTATTATTAAATAATCTATTCAAATCTTTTACGATAATAA
64 GTCATATTATTTCTAAATTTAGAAATTATTATTAAATAATCTATTCAAATCTTTTACAACAATAA
* * * *
20843412 CATTAATTAAATTTGAACTTTGATATACTAAAACGACTAACTGTAAATAATGAATGATGAT-AAA
129 CATTTATCAAATTTGAACTTTGATATACTAAAACGATTAACTGTAAATAATGAATGATGATGAAT
*
20843476 TTATGACTTCAATAGTTAATTATCTT-ATTTTTAGAATC
194 TTATGACTT-AATAGTTAATTATCTTAAATTTTAGAATC
* * * * * *
20843514 AA-TTTCAAATGAATGATTTAACAAATTAAAATATTATAAAATACCGAAAATACCAAACAACGGT
1 AATTTTCAAATAAATGCTTTAACAAATTAAAATATTACAAAATAACGAAAATACCGAATAACGGT
* *
20843578 CATATTATTTCTAAATTTATAAATTATTATTAAATAAT-TATTCAAATCTTTTATAACAATAACA
66 CATATTATTTCTAAATTTAGAAATTATTATTAAATAATCTATTCAAATCTTTTACAACAATAACA
*
20843642 TTTATCAAATTTGAACTTTGATATACTAAAACGATTAACTGTAAATAATGAATGATGATAAATTT
131 TTTATCAAATTTGAACTTTGATATACTAAAACGATTAACTGTAAATAATGAATGATGATGAATTT
**
20843707 ATGACTTTAATAGTTAATTATCTTATTTTTTAGAATC
196 ATGAC-TTAATAGTTAATTATCTTAAATTTTAGAATC
*
20843744 AATTTT---AT---TGCTTTAACAAATTAAAATATTACAAAATAACGAAAATACCGAACAACGGT
1 AATTTTCAAATAAATGCTTTAACAAATTAAAATATTACAAAATAACGAAAATACCGAATAACGGT
*
20843803 CATATTATTT-TAAAATTTA-AAATCATTATTAAATAATCTATTCAAATCTTTTACAACAATAAC
66 CATATTATTTCT-AAATTTAGAAATTATTATTAAATAATCTATTCAAATCTTTTACAACAATAAC
* * * * *
20843866 GTTTGTCAAATTCGAACTTTGATATACTAAAACGATTAACTGTATATAAT-AATGAGTGATGATT
130 ATTTATCAAATTTGAACTTTGATATACTAAAACGATTAACTGTAAATAATGAATGA-TGATGAAT
* * * *
20843930 TTTTGGCATTAATAGTTAATTATCTTAAATTTTAGATTT
194 TTATGAC-TTAATAGTTAATTATCTTAAATTTTAGAATC
* * *
20843969 AATTTTCAAATAAATACTTTAATAAA-TAAAAGTATTACAAAATAACAAAAATACCGAATAACGG
1 AATTTTCAAATAAATGCTTTAACAAATTAAAA-TATTACAAAATAACGAAAATACCGAATAACGG
* * *
20844033 TCATATTATTTCTAAATTTAGATATTATTATTGAATAATCTATTCAAAAT-TTTTACAACGATAA
65 TCATATTATTTCTAAATTTAGAAATTATTATTAAATAATCTATTC-AAATCTTTTACAACAATAA
** ** * *
20844097 CATTCGTCAAATTTGAACTTTGAT-TACTAAAACGATTAGTTGTAAACAATGATTGAT
129 CATTTATCAAATTTGAACTTTGATATACTAAAACGATTAACTGTAAATAATGAATGAT
20844154 TAGTATTCAG
Statistics
Matches: 768, Mismatches: 77, Indels: 52
0.86 0.09 0.06
Matches are distributed among these distances:
224 23 0.03
225 178 0.23
228 83 0.11
229 97 0.13
230 38 0.05
231 210 0.27
232 93 0.12
233 46 0.06
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (231 bp):
AATTTTCAAATAAATGCTTTAACAAATTAAAATATTACAAAATAACGAAAATACCGAATAACGGT
CATATTATTTCTAAATTTAGAAATTATTATTAAATAATCTATTCAAATCTTTTACAACAATAACA
TTTATCAAATTTGAACTTTGATATACTAAAACGATTAACTGTAAATAATGAATGATGATGAATTT
ATGACTTAATAGTTAATTATCTTAAATTTTAGAATC
Done.