Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6381039
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 22487 characters in sequence are not A, C, G, or T
File 28 of 33
Found at i:5030814 original size:21 final size:20
Alignment explanation
Indices: 5030749--5030816 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 20
5030739 TTTTTTTAAA
*
5030749 ATTATAAATATAATATAAATT
1 ATTATAAATATTATA-AAATT
*
5030770 ATTA-AAATATT-TAAATTTT
1 ATTATAAATATTATAAA-ATT
5030789 AATTATAAATATTATAAAATAT
1 -ATTATAAATATTATAAAAT-T
5030811 ATTATA
1 ATTATA
5030817 TTAATCACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
18 2 0.05
19 4 0.10
20 10 0.26
21 18 0.46
22 5 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTATAAATATTATAAAATT
Found at i:5034491 original size:13 final size:13
Alignment explanation
Indices: 5034452--5034494 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
5034442 TAAATAAAAA
5034452 TATTAAATAAATATT
1 TATT-AATAAA-ATT
*
5034467 TTTTAA-AAAATT
1 TATTAATAAAATT
5034479 TATTAATAAAATT
1 TATTAATAAAATT
5034492 TAT
1 TAT
5034495 AAAGTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 2 0.08
15 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TATTAATAAAATT
Found at i:5038414 original size:2 final size:2
Alignment explanation
Indices: 5038407--5038435 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5038397 CTCTTTCCTT
5038407 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
5038436 TTGAATTTTG
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:5040414 original size:9 final size:9
Alignment explanation
Indices: 5040400--5040442 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
5040390 GAGGTGATTT
*
5040400 GGAAGAAGA
1 GGAAGAGGA
5040409 GGAAGAGGA
1 GGAAGAGGA
*
5040418 AGAAGAGGA
1 GGAAGAGGA
5040427 GGAAGAGGA
1 GGAAGAGGA
5040436 GGAAGAG
1 GGAAGAG
5040443 CAGATTGAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (9 bp):
GGAAGAGGA
Found at i:5043832 original size:2 final size:2
Alignment explanation
Indices: 5043825--5043857 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
5043815 CGCAGCTTGA
*
5043825 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5043858 GATTTACCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:5046185 original size:2 final size:2
Alignment explanation
Indices: 5046180--5046214 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5046170 TATATATATA
5046180 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
5046215 AGCCATACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:5053861 original size:17 final size:17
Alignment explanation
Indices: 5053841--5053874 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
5053831 CTTGTGATCA
5053841 CCAACTACTCAAAAGAG
1 CCAACTACTCAAAAGAG
5053858 CCAACTACTCAAAAGAG
1 CCAACTACTCAAAAGAG
5053875 AAGTGGACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.29, G:0.12, T:0.12
Consensus pattern (17 bp):
CCAACTACTCAAAAGAG
Found at i:5057764 original size:2 final size:2
Alignment explanation
Indices: 5057757--5057782 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5057747 ATAAGGCTTT
5057757 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
5057783 AGAGAAAGAA
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:5060739 original size:27 final size:27
Alignment explanation
Indices: 5060703--5060776 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
5060693 ACAAACCACA
*
5060703 ATTTTTGACAAACAAAAAGGAA-TCACC
1 ATTTTTGACAAACACAAAGGAACT-ACC
* *
5060730 ATTTTTGACAAATACAAAGTAACTACC
1 ATTTTTGACAAACACAAAGGAACTACC
*
5060757 ATTTTTTACAAACACAAAGG
1 ATTTTTGACAAACACAAAGG
5060777 GTGACTTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
27 39 0.98
28 1 0.03
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.27
Consensus pattern (27 bp):
ATTTTTGACAAACACAAAGGAACTACC
Found at i:5065341 original size:27 final size:28
Alignment explanation
Indices: 5065266--5065343 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 28
5065256 AAACAACAAG
* *
5065266 CCACAATTTTTGACAAACA-AAAATGAA
1 CCACCATTTTTGACAAACACAAAGTGAA
* * *
5065293 TCACCATTTTTGATAAATACAAAGT-AA
1 CCACCATTTTTGACAAACACAAAGTGAA
*
5065320 CCACCATTTTTTACAAACACAAAG
1 CCACCATTTTTGACAAACACAAAG
5065344 AGTGGCTTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
27 37 0.90
28 4 0.10
ACGTcount: A:0.46, C:0.21, G:0.06, T:0.27
Consensus pattern (28 bp):
CCACCATTTTTGACAAACACAAAGTGAA
Found at i:5067586 original size:9 final size:9
Alignment explanation
Indices: 5067574--5067621 Score: 62
Period size: 9 Copynumber: 5.2 Consensus size: 9
5067564 AATTAACATG
5067574 ATATATTTA
1 ATATATTTA
5067583 ATATATATTA
1 ATATAT-TTA
*
5067593 TTTATATTTA
1 -ATATATTTA
5067603 ATAT-TTTA
1 ATATATTTA
5067611 ATATATTTA
1 ATATATTTA
5067620 AT
1 AT
5067622 TTTTTTTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
8 8 0.24
9 15 0.44
10 6 0.18
11 5 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATATATTTA
Found at i:5067645 original size:33 final size:37
Alignment explanation
Indices: 5067574--5067645 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 37
5067564 AATTAACATG
*
5067574 ATATATTTAATATATATTATTTATATTTAATATTTTA
1 ATATATTTAATATATATTATTTATATTTAATATATTA
5067611 ATATATTTAAT-T-T-TT-TTTATATTT-ATATGATTA
1 ATATATTTAATATATATTATTTATATTTAATAT-ATTA
5067644 AT
1 AT
5067646 GCAAATAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
32 4 0.12
33 14 0.42
34 2 0.06
35 1 0.03
36 1 0.03
37 11 0.33
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (37 bp):
ATATATTTAATATATATTATTTATATTTAATATATTA
Found at i:5069008 original size:2 final size:2
Alignment explanation
Indices: 5069001--5069037 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
5068991 TAAAACCATA
*
5069001 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5069038 ATTTTTGAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:5070225 original size:29 final size:29
Alignment explanation
Indices: 5070193--5070267 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 29
5070183 CACTTGTTAT
*
5070193 AATAAGTTTTTATATTTTTA-TTATATCA-A
1 AATAAGTTTTTA-ATTTTAATTTATAT-ATA
* *
5070222 AATAAATTTTTAACATTTAATTTATATATA
1 AATAAGTTTTTAA-TTTTAATTTATATATA
5070252 AATAAGTTTTTAATTT
1 AATAAGTTTTTAATTT
5070268 ACATTGAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 1 0.03
29 18 0.47
30 19 0.50
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (29 bp):
AATAAGTTTTTAATTTTAATTTATATATA
Found at i:5070265 original size:23 final size:23
Alignment explanation
Indices: 5070237--5070290 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
5070227 ATTTTTAACA
* **
5070237 TTTAATTTATATAT-AAATAAGTT
1 TTTAATTTACAT-TGAAATAAAAT
5070260 TTTAATTTACATTGAAATAAAAT
1 TTTAATTTACATTGAAATAAAAT
5070283 TTTAATTT
1 TTTAATTT
5070291 TTAAAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (23 bp):
TTTAATTTACATTGAAATAAAAT
Found at i:5071829 original size:14 final size:14
Alignment explanation
Indices: 5071787--5071853 Score: 50
Period size: 14 Copynumber: 5.0 Consensus size: 14
5071777 TTTATCATTA
5071787 TTAATTTAA-TTTT
1 TTAATTTAATTTTT
* **
5071800 TT--TTAAATTTAC
1 TTAATTTAATTTTT
5071812 TTAATTTAATTTTT
1 TTAATTTAATTTTT
* *
5071826 TTAATTTTATTTAT
1 TTAATTTAATTTTT
**
5071840 AAAATTTAATTTTT
1 TTAATTTAATTTTT
5071854 ATTGATTATG
Statistics
Matches: 39, Mismatches: 12, Indels: 5
0.70 0.21 0.09
Matches are distributed among these distances:
11 4 0.10
12 4 0.10
13 2 0.05
14 29 0.74
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (14 bp):
TTAATTTAATTTTT
Found at i:5071871 original size:28 final size:28
Alignment explanation
Indices: 5071814--5071875 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
5071804 AAATTTACTT
*
5071814 AATTTAATTTTTTTAATTTTATTTATAA
1 AATTTAATTTTTTTAATTATATTTATAA
* *
5071842 AATTTAATTTTTATTGATTATGTTTA-AA
1 AATTTAATTTTT-TTAATTATATTTATAA
5071870 AATTTA
1 AATTTA
5071876 CTTATAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 20 0.67
29 10 0.33
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (28 bp):
AATTTAATTTTTTTAATTATATTTATAA
Found at i:5071885 original size:14 final size:14
Alignment explanation
Indices: 5071866--5071895 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5071856 TGATTATGTT
5071866 TAAAAATTTACTTA
1 TAAAAATTTACTTA
*
5071880 TAAAAATTTATTTA
1 TAAAAATTTACTTA
5071894 TA
1 TA
5071896 TTAGTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
TAAAAATTTACTTA
Found at i:5071974 original size:20 final size:20
Alignment explanation
Indices: 5071913--5071974 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
5071903 AAAAATTAAA
5071913 TTAATTA-TATATATTTTTAT
1 TTAATTATTAT-TATTTTTAT
* *
5071933 ATAATT-TATATT-TATTTAAT
1 TTAATTAT-TATTAT-TTTTAT
5071953 TTAATTATTATTATTTTTAT
1 TTAATTATTATTATTTTTAT
5071973 TT
1 TT
5071975 TATTCATGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
19 1 0.03
20 27 0.82
21 5 0.15
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTAATTATTATTATTTTTAT
Found at i:5072364 original size:36 final size:37
Alignment explanation
Indices: 5072323--5072394 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 37
5072313 ATAATAATAA
5072323 TATTATATTAAATATA-TAATATGTAAAAATT-TTATT
1 TATTATATTAAATATATTAA-ATGTAAAAATTATTATT
* * *
5072359 TATTATTTTTAATATATTAAATGTAAATATTATTAT
1 TATTATATTAAATATATTAAATGTAAAAATTATTAT
5072395 ATATGATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 24 0.77
37 7 0.23
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (37 bp):
TATTATATTAAATATATTAAATGTAAAAATTATTATT
Found at i:5075740 original size:25 final size:27
Alignment explanation
Indices: 5075712--5075767 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 27
5075702 ATTTAATATG
5075712 ATATAAAAAT-TAATTAA-AA-ATATAA
1 ATATAAAAATAT-ATTAAGAATATATAA
*
5075737 ATATATAAATATATTAAGAATATATAA
1 ATATAAAAATATATTAAGAATATATAA
5075764 ATAT
1 ATAT
5075768 TTTAAAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 14 0.52
26 3 0.11
27 10 0.37
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (27 bp):
ATATAAAAATATATTAAGAATATATAA
Found at i:5075761 original size:27 final size:26
Alignment explanation
Indices: 5075724--5075835 Score: 101
Period size: 27 Copynumber: 4.4 Consensus size: 26
5075714 ATAAAAATTA
5075724 ATTAAAA-ATATAAATATATAAATAT
1 ATTAAAATATATAAATATATAAATAT
* *
5075749 ATTAAGAATATATAAATATTTTAA-A-
1 ATTAA-AATATATAAATATATAAATAT
* *
5075774 ATTGATATAATATAAAT-TATAAATAT
1 ATTAAAAT-ATATAAATATATAAATAT
5075800 ATTAAAATTTATATAAATATA-AAATA-
1 ATTAAAA--TATATAAATATATAAATAT
*
5075826 ATTTAAATAT
1 ATTAAAATAT
5075836 GATTATATTA
Statistics
Matches: 70, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
24 9 0.13
25 18 0.26
26 14 0.20
27 26 0.37
28 3 0.04
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (26 bp):
ATTAAAATATATAAATATATAAATAT
Found at i:5075795 original size:59 final size:60
Alignment explanation
Indices: 5075732--5075853 Score: 146
Period size: 59 Copynumber: 2.0 Consensus size: 60
5075722 TAATTAAAAA
*
5075732 TATAAATATA-TAAATATATTA-AG-AATATATAAATATTTTAAA-ATTGA-TATAATATAAAT
1 TATAAATATATTAAA-AT-TTATAGAAATATA-AAATAATTTAAATA-TGATTATAATATAAAT
* *
5075791 TATAAATATATTAAAATTTATATAAATATAAAATAATTTAAATATGATTATATTATAAAT
1 TATAAATATATTAAAATTTATAGAAATATAAAATAATTTAAATATGATTATAATATAAAT
5075851 TAT
1 TAT
5075854 TTTTAAAAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
58 3 0.05
59 27 0.49
60 25 0.45
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (60 bp):
TATAAATATATTAAAATTTATAGAAATATAAAATAATTTAAATATGATTATAATATAAAT
Found at i:5075805 original size:32 final size:33
Alignment explanation
Indices: 5075759--5075822 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
5075749 ATTAAGAATA
*
5075759 TATAAATATTTTAAAATTGATAT-AATATAAAT
1 TATAAATATATTAAAATTGATATAAATATAAAT
*
5075791 TATAAATATATTAAAATTTATATAAATATAAA
1 TATAAATATATTAAAATTGATATAAATATAAA
5075823 ATAATTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 21 0.72
33 8 0.28
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (33 bp):
TATAAATATATTAAAATTGATATAAATATAAAT
Found at i:5075817 original size:10 final size:10
Alignment explanation
Indices: 5075737--5075820 Score: 52
Period size: 10 Copynumber: 8.3 Consensus size: 10
5075727 AAAAATATAA
5075737 ATATATAAAT
1 ATATATAAAT
5075747 ATAT-TAAGA-
1 ATATATAA-AT
5075756 ATATATAAAT
1 ATATATAAAT
*
5075766 AT-TTTAAA-
1 ATATATAAAT
5075774 ATTGATATAATAT
1 A-T-ATATAA-AT
*
5075787 AAATTATAAAT
1 ATA-TATAAAT
5075798 ATAT-TAAAAT
1 ATATAT-AAAT
*
5075808 TTATATAAAT
1 ATATATAAAT
5075818 ATA
1 ATA
5075821 AAATAATTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 22
0.67 0.07 0.26
Matches are distributed among these distances:
8 1 0.02
9 15 0.26
10 24 0.42
11 10 0.18
12 6 0.11
13 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (10 bp):
ATATATAAAT
Found at i:5075828 original size:20 final size:20
Alignment explanation
Indices: 5075791--5075830 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
5075781 TAATATAAAT
*
5075791 TATAAATATATTAAAATTTA
1 TATAAATATATAAAAATTTA
5075811 TATAAATATA-AAATAATTTA
1 TATAAATATATAAA-AATTTA
5075831 AATATGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TATAAATATATAAAAATTTA
Found at i:5076084 original size:36 final size:35
Alignment explanation
Indices: 5076042--5076117 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 35
5076032 AATTAAAAAT
* *
5076042 ATTTTTTATTTTTAAAAATAATTATAAATTATATTTA
1 ATTTTTT-TATTTAAAAATAATT-TAAATTATATTAA
*
5076079 ATTTTTTTAATTTATAAATAATTTAAATTATATTAA
1 ATTTTTTT-ATTTAAAAATAATTTAAATTATATTAA
5076115 ATT
1 ATT
5076118 CAAATCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 16 0.46
37 19 0.54
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (35 bp):
ATTTTTTTATTTAAAAATAATTTAAATTATATTAA
Found at i:5076098 original size:37 final size:37
Alignment explanation
Indices: 5076038--5076117 Score: 108
Period size: 36 Copynumber: 2.1 Consensus size: 37
5076028 TGATAATTAA
*
5076038 AAATATTTTTTATTTTTAAAAATAATTATAAATTATATT
1 AAAT-TTTTTTATATTTAAAAATAATT-TAAATTATATT
* *
5076077 TAATTTTTTTA-ATTTATAAATAATTTAAATTATATT
1 AAATTTTTTTATATTTAAAAATAATTTAAATTATATT
5076113 AAATT
1 AAATT
5076118 CAAATCAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 15 0.41
37 12 0.32
38 7 0.19
39 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (37 bp):
AAATTTTTTTATATTTAAAAATAATTTAAATTATATT
Found at i:5077259 original size:29 final size:28
Alignment explanation
Indices: 5077213--5077269 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
5077203 TTTTTAATCA
*
5077213 AAATTTAAAAATATAAATAAATATTTTT
1 AAATTTAAAAAAATAAATAAATATTTTT
*
5077241 AAATATTAAAAAAATAAATATATATTTTT
1 AAAT-TTAAAAAAATAAATAAATATTTTT
5077270 TATAAAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
AAATTTAAAAAAATAAATAAATATTTTT
Found at i:5077555 original size:17 final size:17
Alignment explanation
Indices: 5077521--5077586 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 17
5077511 TTTAAATTTT
5077521 TATATGTTTTAA--AAAA
1 TATAT-TTTTAATTAAAA
5077537 TATATTTTTAATTAAAA
1 TATATTTTTAATTAAAA
* *
5077554 TATA-TATTAAATATAAA
1 TATATTTTTAATTA-AAA
*
5077571 TATTATATTTAATTAA
1 TA-TATTTTTAATTAA
5077587 TAAAAAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
15 6 0.15
16 12 0.30
17 13 0.32
18 3 0.08
19 6 0.15
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
TATATTTTTAATTAAAA
Found at i:5077841 original size:6 final size:6
Alignment explanation
Indices: 5077786--5077849 Score: 55
Period size: 6 Copynumber: 11.2 Consensus size: 6
5077776 TAATTATTTT
* * * *
5077786 ATATTA ATATTT ATAATTA A-ATTA AAATTA AAATTA AAATT- ATATT-
1 ATATTA ATATTA AT-ATTA ATATTA ATATTA ATATTA ATATTA ATATTA
5077832 ATATTA ATATTA AT-TTA A
1 ATATTA ATATTA ATATTA A
5077850 ATTGAATCTA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
5 18 0.35
6 30 0.58
7 4 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
ATATTA
Found at i:5080069 original size:57 final size:57
Alignment explanation
Indices: 5079984--5080105 Score: 163
Period size: 57 Copynumber: 2.1 Consensus size: 57
5079974 TCCAGGAGGA
* * *
5079984 GGTGGTGGAAGTGGTGCCCCTGTTGCCACTACTTTTGACTGCAATGAGACTGAAGGT
1 GGTGGTGGAAGGGGTGCCCCTGTAGCCACTACATTTGACTGCAATGAGACTGAAGGT
* ** * * *
5080041 GGTGGTGGAAGGGGTGCTCCTGTAGCCACTACATTTGACTTTAATGGGGCTGGAGGT
1 GGTGGTGGAAGGGGTGCCCCTGTAGCCACTACATTTGACTGCAATGAGACTGAAGGT
5080098 GGTGGTGG
1 GGTGGTGG
5080106 CAGCGGCAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.17, C:0.16, G:0.39, T:0.28
Consensus pattern (57 bp):
GGTGGTGGAAGGGGTGCCCCTGTAGCCACTACATTTGACTGCAATGAGACTGAAGGT
Found at i:5083385 original size:13 final size:13
Alignment explanation
Indices: 5083367--5083391 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5083357 AGACCGTAGA
5083367 AATTTTTTTTTCG
1 AATTTTTTTTTCG
5083380 AATTTTTTTTTC
1 AATTTTTTTTTC
5083392 ACTCTCGATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.04, T:0.72
Consensus pattern (13 bp):
AATTTTTTTTTCG
Found at i:5084061 original size:19 final size:19
Alignment explanation
Indices: 5084039--5084078 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
5084029 CATTTTTGAC
*
5084039 ATAAATACTTATT-TTTATT
1 ATAAATAATT-TTATTTATT
5084058 ATAAATAATTTTATTTATT
1 ATAAATAATTTTATTTATT
5084077 AT
1 AT
5084079 TTTGATGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (19 bp):
ATAAATAATTTTATTTATT
Found at i:5084479 original size:21 final size:21
Alignment explanation
Indices: 5084439--5084479 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5084429 GTAATATATT
*
5084439 AATTTTATTTATTACTTTTTG
1 AATTTTATTTATAACTTTTTG
5084460 AATTTTATTT-TAACTCTTTT
1 AATTTTATTTATAACT-TTTT
5084480 TAATAGAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.66
Consensus pattern (21 bp):
AATTTTATTTATAACTTTTTG
Found at i:5085108 original size:50 final size:50
Alignment explanation
Indices: 5085054--5085211 Score: 142
Period size: 54 Copynumber: 3.1 Consensus size: 50
5085044 TAAAAATAAC
*
5085054 ATTAAATATAATGAATGAGATAAAATTAATTGGTAAGATTAATATATTAT
1 ATTAAATTTAATGAATGAGATAAAATTAATTGGTAAGATTAATATATTAT
* * * *
5085104 ATTAAATTTAAAGAATGAGATAAAA--AATTGTGAATGAGATAAAAATAATAATAT
1 ATTAAATTTAATGAATGAGATAAAATTAATTG-G--TAAGAT--TAAT-ATATTAT
* * **
5085158 ATTAAATTTAATAAATGAGA-AAACATTAATTGGTAATAATTTTTATATTAT
1 ATTAAATTTAATGAATGAGATAAA-ATTAATTGGTAA-GATTAATATATTAT
5085209 ATT
1 ATT
5085212 TTTAGTAATT
Statistics
Matches: 85, Mismatches: 13, Indels: 19
0.73 0.11 0.16
Matches are distributed among these distances:
48 5 0.06
49 1 0.01
50 23 0.27
51 14 0.16
52 1 0.01
53 8 0.09
54 27 0.32
55 1 0.01
56 5 0.06
ACGTcount: A:0.51, C:0.01, G:0.11, T:0.37
Consensus pattern (50 bp):
ATTAAATTTAATGAATGAGATAAAATTAATTGGTAAGATTAATATATTAT
Found at i:5087792 original size:2 final size:2
Alignment explanation
Indices: 5087785--5087819 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5087775 AACGTGAACT
5087785 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5087820 TCAATAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5087873 original size:18 final size:19
Alignment explanation
Indices: 5087847--5087896 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
5087837 TATCTTCAGA
5087847 ATATGATTTATATTTAT-AT
1 ATAT-ATTTATATTTATGAT
**
5087866 ATATATTTATAAGTATGAT
1 ATATATTTATATTTATGAT
5087885 AT-TATTTATATT
1 ATATATTTATATT
5087897 ACAAAAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (19 bp):
ATATATTTATATTTATGAT
Found at i:5089019 original size:19 final size:19
Alignment explanation
Indices: 5088992--5089037 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
5088982 CCATAATAGA
* * *
5088992 TATTAAAAAAATGAGTAAT
1 TATTTAAAAAATAAATAAT
5089011 TATTTAAAAAATAAATAAT
1 TATTTAAAAAATAAATAAT
*
5089030 TTTTTAAA
1 TATTTAAA
5089038 TATATTACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (19 bp):
TATTTAAAAAATAAATAAT
Found at i:5089997 original size:23 final size:23
Alignment explanation
Indices: 5089967--5090017 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
5089957 ATTTTTAACA
5089967 TTTAATTTAGAAAT-AAATAAAAT
1 TTTAATTTA-AAATCAAATAAAAT
* *
5089990 TTTAATTTACATTCAAATAAAAT
1 TTTAATTTAAAATCAAATAAAAT
5090013 TTTAA
1 TTTAA
5090018 CTTTTATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (23 bp):
TTTAATTTAAAATCAAATAAAAT
Found at i:5090023 original size:30 final size:27
Alignment explanation
Indices: 5089950--5090085 Score: 79
Period size: 29 Copynumber: 4.9 Consensus size: 27
5089940 TATTACTTCA
* *
5089950 AAATAAAATTTTTAACATTTAATTTAGAAAT
1 AAATAAAA-TTTTAA-TTTTAATTT--AACT
5089981 AAATAAAATTTTAA-TTTACA-TT--C-
1 AAATAAAATTTTAATTTTA-ATTTAACT
*
5090004 AAATAAAATTTTAACTTTTATTTGTAACT
1 AAATAAAATTTTAA-TTTTAATT-TAACT
* *
5090033 AAATAAATTTTTAATATTTAATTTGTAATT
1 AAATAAAATTTTAAT-TTTAA-TT-TAACT
*
5090063 AAATGAAA-TTTAA-TTTAATTTAA
1 AAATAAAATTTTAATTTTAATTTAA
5090086 TTGTAAATTA
Statistics
Matches: 88, Mismatches: 7, Indels: 26
0.73 0.06 0.21
Matches are distributed among these distances:
23 14 0.16
25 8 0.09
26 3 0.03
27 5 0.06
28 8 0.09
29 23 0.26
30 19 0.22
31 8 0.09
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (27 bp):
AAATAAAATTTTAATTTTAATTTAACT
Found at i:5090036 original size:29 final size:30
Alignment explanation
Indices: 5090004--5090073 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
5089994 ATTTACATTC
5090004 AAATAAAATTTTAACT-TTT-ATTTGTAACT
1 AAATAAAATTTTAA-TATTTAATTTGTAACT
* *
5090033 AAATAAATTTTTAATATTTAATTTGTAATT
1 AAATAAAATTTTAATATTTAATTTGTAACT
*
5090063 AAATGAAATTT
1 AAATAAAATTT
5090074 AATTTAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.03
29 16 0.46
30 18 0.51
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (30 bp):
AAATAAAATTTTAATATTTAATTTGTAACT
Found at i:5090038 original size:52 final size:54
Alignment explanation
Indices: 5089942--5090047 Score: 139
Period size: 52 Copynumber: 2.0 Consensus size: 54
5089932 CATATTTTTA
5089942 TTACTTCAAAATAAAATTTTTAACATTTAATTTAGAAATAAATAAAATTTTAAT
1 TTACTTCAAAATAAAATTTTTAACATTTAATTTAGAAATAAATAAAATTTTAAT
* * *
5089996 TTACATTC-AAATAAAA-TTTTAAC-TTTTATTT-GTAACTAAATAAATTTTTAAT
1 TTAC-TTCAAAATAAAATTTTTAACATTTAATTTAG-AAATAAATAAAATTTTAAT
5090048 ATTTAATTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
51 1 0.02
52 24 0.51
53 7 0.15
54 12 0.26
55 3 0.06
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (54 bp):
TTACTTCAAAATAAAATTTTTAACATTTAATTTAGAAATAAATAAAATTTTAAT
Found at i:5090129 original size:26 final size:26
Alignment explanation
Indices: 5090096--5090168 Score: 83
Period size: 27 Copynumber: 2.8 Consensus size: 26
5090086 TTGTAAATTA
*
5090096 AAAATAAAATTTTATTAAAATACAAT
1 AAAATAAAATTTTATTAAAATAAAAT
*
5090122 AAAATAAAATTTTAATCAAAATAAAAT
1 AAAATAAAATTTT-ATTAAAATAAAAT
** * *
5090149 AATTTAAGATTTTTTTAAAA
1 AAAATAAAATTTTATTAAAA
5090169 ATATTTTAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 18 0.46
27 21 0.54
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (26 bp):
AAAATAAAATTTTATTAAAATAAAAT
Found at i:5090161 original size:27 final size:26
Alignment explanation
Indices: 5090096--5090150 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
5090086 TTGTAAATTA
* *
5090096 AAAATAAAATTTTATTAAAATACAAT
1 AAAATAAAATTTTATCAAAATAAAAT
5090122 AAAATAAAATTTTAATCAAAATAAAAT
1 AAAATAAAATTTT-ATCAAAATAAAAT
5090149 AA
1 AA
5090151 TTTAAGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (26 bp):
AAAATAAAATTTTATCAAAATAAAAT
Found at i:5090305 original size:26 final size:27
Alignment explanation
Indices: 5090269--5090342 Score: 82
Period size: 26 Copynumber: 2.7 Consensus size: 27
5090259 TATGAGATTT
*
5090269 TTAATATTTATAAATATTT-AATTAAA
1 TTAATAATTATAAATATTTAAATTAAA
5090295 TTAATAATTATATAA-ATTTAAATTAAA
1 TTAATAATTATA-AATATTTAAATTAAA
5090322 TTATTATAAATT-TAAATATTT
1 TTA--AT-AATTATAAATATTT
5090343 TTATAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
26 15 0.37
27 12 0.29
28 2 0.05
29 8 0.20
30 4 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
TTAATAATTATAAATATTTAAATTAAA
Found at i:5090346 original size:21 final size:21
Alignment explanation
Indices: 5090290--5090338 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
5090280 AAATATTTAA
5090290 TTAAATTAATAATTA-TATAAAT
1 TTAAATT-A-AATTATTATAAAT
5090312 TTAAATTAAATTATTATAAAT
1 TTAAATTAAATTATTATAAAT
5090333 TTAAAT
1 TTAAAT
5090339 ATTTTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.19
21 14 0.54
22 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAAATTAAATTATTATAAAT
Found at i:5090352 original size:17 final size:17
Alignment explanation
Indices: 5090319--5090359 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
5090309 AATTTAAATT
*
5090319 AAATTATTATAAATTTA
1 AAATTTTTATAAATTTA
5090336 AATATTTTTAT-AATTTA
1 AA-ATTTTTATAAATTTA
5090353 AAATTTT
1 AAATTTT
5090360 ATGCAACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 5 0.23
17 10 0.45
18 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AAATTTTTATAAATTTA
Found at i:5090809 original size:26 final size:24
Alignment explanation
Indices: 5090759--5090809 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
5090749 TAAATGAAAC
*
5090759 ATAAAAAAATAATTAAAATACTAT
1 ATAAAAAAATAATTAAAATAATAT
*
5090783 ATAAAAAAATAATATGAATATAATAT
1 ATAAAAAAATAAT-T-AAAATAATAT
5090809 A
1 A
5090810 AATATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 13 0.57
25 1 0.04
26 9 0.39
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (24 bp):
ATAAAAAAATAATTAAAATAATAT
Found at i:5091924 original size:19 final size:20
Alignment explanation
Indices: 5091900--5091939 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
5091890 TTTATATATT
5091900 ATTTAAAAATTAAATA-AAA
1 ATTTAAAAATTAAATATAAA
*
5091919 ATTTAAAATTTAAATATAAA
1 ATTTAAAAATTAAATATAAA
5091939 A
1 A
5091940 AATCTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
ATTTAAAAATTAAATATAAA
Found at i:5092184 original size:15 final size:14
Alignment explanation
Indices: 5092163--5092200 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
5092153 ATATTATTCT
5092163 AAATTAAAATTAAA
1 AAATTAAAATTAAA
*
5092177 AAATTTAAATTTAAA
1 AAA-TTAAAATTAAA
5092192 AAATTAAAA
1 AAATTAAAA
5092201 AAATATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AAATTAAAATTAAA
Found at i:5092872 original size:20 final size:18
Alignment explanation
Indices: 5092837--5092876 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
5092827 TAATATGTAA
5092837 AATATTTTATAAAAATAT
1 AATATTTTATAAAAATAT
*
5092855 AATATTTTATAAAAAAAT
1 AATATTTTATAAAAATAT
5092873 AATA
1 AATA
5092877 CAAATATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATATTTTATAAAAATAT
Found at i:5093127 original size:28 final size:30
Alignment explanation
Indices: 5093102--5093156 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
5093092 TTTTATAATT
5093102 TTTAA-TTATT-AATAAAAATAATATAAAA
1 TTTAATTTATTAAATAAAAATAATATAAAA
* *
5093130 TTTAATTTATTAAATAATAATTATATA
1 TTTAATTTATTAAATAAAAATAATATA
5093157 TTTAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 5 0.22
29 5 0.22
30 13 0.57
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
TTTAATTTATTAAATAAAAATAATATAAAA
Found at i:5093164 original size:33 final size:34
Alignment explanation
Indices: 5093127--5093202 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 34
5093117 AAATAATATA
* *
5093127 AAATTTAATTTATTAAATAATAA-TTAT-ATATTT
1 AAATTTAATTTATTAAA-AATAAGATATAAAATTT
*
5093160 AAATTT--TTTATTTAAAATAAGATATAAAATTT
1 AAATTTAATTTATTAAAAATAAGATATAAAATTT
5093192 AAA-TTAATTTA
1 AAATTTAATTTA
5093203 AGAGTTAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
30 5 0.14
31 13 0.36
32 8 0.22
33 10 0.28
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (34 bp):
AAATTTAATTTATTAAAAATAAGATATAAAATTT
Found at i:5093974 original size:13 final size:13
Alignment explanation
Indices: 5093956--5093991 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
5093946 ACATTATTTT
*
5093956 AAAATAAAATTAA
1 AAAATAAAAATAA
5093969 AAAATAAAAATAA
1 AAAATAAAAATAA
5093982 AAAATAAAAA
1 AAAATAAAAA
5093992 AATTTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:5093976 original size:7 final size:7
Alignment explanation
Indices: 5093956--5093992 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
5093946 ACATTATTTT
5093956 AAAAT-A
1 AAAATAA
*
5093962 AAATTAA
1 AAAATAA
5093969 AAAAT-A
1 AAAATAA
5093975 AAAATAA
1 AAAATAA
5093982 AAAATAA
1 AAAATAA
5093989 AAAA
1 AAAA
5093993 ATTTATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
6 10 0.37
7 17 0.63
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
AAAATAA
Found at i:5094315 original size:25 final size:25
Alignment explanation
Indices: 5094287--5094334 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
5094277 TAAATATATT
5094287 AATTAAAAATAAAATAAAAATTTAA
1 AATTAAAAATAAAATAAAAATTTAA
** *
5094312 AATTAATTATAAAATAATAATTT
1 AATTAAAAATAAAATAAAAATTT
5094335 TTTTAATAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
AATTAAAAATAAAATAAAAATTTAA
Found at i:5094434 original size:13 final size:12
Alignment explanation
Indices: 5094412--5094444 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
5094402 ATATTATTTT
5094412 AAAGTAAAATTA
1 AAAGTAAAATTA
5094424 AAAGTTAAAATTA
1 AAAG-TAAAATTA
5094437 AAA-TAAAA
1 AAAGTAAAA
5094445 ATTTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.25
12 4 0.20
13 11 0.55
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (12 bp):
AAAGTAAAATTA
Found at i:5094916 original size:16 final size:15
Alignment explanation
Indices: 5094855--5094918 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
5094845 TTTGAACTTT
5094855 AAATTTATTTATTAA
1 AAATTTATTTATTAA
*
5094870 ATA-TT-TTT-TTAA
1 AAATTTATTTATTAA
* * *
5094882 AAAATTATTAATTAT
1 AAATTTATTTATTAA
5094897 AAATTTATTTAATTAA
1 AAATTTATTT-ATTAA
5094913 AAATTT
1 AAATTT
5094919 TATAAATATT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
12 6 0.16
13 5 0.13
14 4 0.11
15 13 0.34
16 10 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AAATTTATTTATTAA
Found at i:5095321 original size:4 final size:4
Alignment explanation
Indices: 5095312--5095359 Score: 66
Period size: 4 Copynumber: 12.8 Consensus size: 4
5095302 TATAAAAAAA
*
5095312 TTTC TTTC TTTC TTT- TTT- TTT- TTTC TTCC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
5095357 TTT
1 TTT
5095360 ATTTTCAGCT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 9 0.22
4 32 0.78
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTC
Found at i:5095588 original size:2 final size:2
Alignment explanation
Indices: 5095581--5095611 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
5095571 ATGTGACAAG
5095581 AT AT AT AT A- 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
5095612 TCATTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5095902 original size:15 final size:15
Alignment explanation
Indices: 5095879--5095912 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
5095869 TTTTGTTAAC
*
5095879 AATAAAATATAATGT
1 AATAAAATATAATAT
*
5095894 AATAGAATATAATAT
1 AATAAAATATAATAT
5095909 AATA
1 AATA
5095913 CTCGTATGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
AATAAAATATAATAT
Found at i:5097441 original size:103 final size:103
Alignment explanation
Indices: 5097289--5097491 Score: 282
Period size: 103 Copynumber: 2.0 Consensus size: 103
5097279 CAAGAATATA
* * *
5097289 TTGTATCTCTTTGTCATAAGAAGCCTTCATTCCTACCCGTGCACATTGTGATTTACCTCAGTCTA
1 TTGTATCTCTTTGTCATAAGAAGCCTTCACTCCTACCAGTGCACATTGTGACTTACCTCAGTCTA
*
5097354 AATCCTCTTAATCCTTAAGGAATGGCTTAAGCATATTG
66 AATCCTCTTAATCCTCAAGGAATGGCTTAAGCATATTG
* * ** * *
5097392 TTGTATCTCTTTGTCGTAAGAAGCC-TCTACTCCTACCAGTGTAGGTTGTGACTTGCCTCAGTTT
1 TTGTATCTCTTTGTCATAAGAAGCCTTC-ACTCCTACCAGTGCACATTGTGACTTACCTCAGTCT
* *
5097456 AGATCCTCTTAATCCTCATGGAATGGCTTAAGCATA
65 AAATCCTCTTAATCCTCAAGGAATGGCTTAAGCATA
5097492 CTGACATGGA
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
102 2 0.02
103 85 0.98
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (103 bp):
TTGTATCTCTTTGTCATAAGAAGCCTTCACTCCTACCAGTGCACATTGTGACTTACCTCAGTCTA
AATCCTCTTAATCCTCAAGGAATGGCTTAAGCATATTG
Found at i:5100627 original size:9 final size:9
Alignment explanation
Indices: 5100615--5100676 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
5100605 AATTAAATTA
5100615 ATTTTTTAT
1 ATTTTTTAT
*
5100624 ATTTTTATAA
1 ATTTTT-TAT
5100634 ATTTTTTAT
1 ATTTTTTAT
**
5100643 ATGATTTAT
1 ATTTTTTAT
*
5100652 ATTTAATTATT
1 ATTT-TTTA-T
*
5100663 ATATTTTAT
1 ATTTTTTAT
5100672 ATTTT
1 ATTTT
5100677 ATTTATGTAA
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
9 22 0.55
10 14 0.35
11 4 0.10
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:5101093 original size:47 final size:52
Alignment explanation
Indices: 5100995--5101099 Score: 121
Period size: 48 Copynumber: 2.1 Consensus size: 52
5100985 CTTTCAAAGC
* ** *
5100995 TAATTAATTTATTATTTATAATAATATTATATTAAATATGTAATATTTAAAA
1 TAATTTATTTATTATTTATAATAATATTATAAAAAATATGTAATATATAAAA
* *
5101047 -AATTTATTT-TTATTTTTAATAA-ATTA-AAAAAATAT-TATTATATAAAA
1 TAATTTATTTATTATTTATAATAATATTATAAAAAATATGTAATATATAAAA
5101094 TAATTT
1 TAATTT
5101100 TAAAAAATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
47 10 0.22
48 12 0.26
49 4 0.09
50 12 0.26
51 8 0.17
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (52 bp):
TAATTTATTTATTATTTATAATAATATTATAAAAAATATGTAATATATAAAA
Found at i:5104085 original size:13 final size:13
Alignment explanation
Indices: 5104067--5104109 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
5104057 CGTTTTAAAT
5104067 TTTTAAAAAATAA
1 TTTTAAAAAATAA
*
5104080 TTTTAAAATATAA
1 TTTTAAAAAATAA
*
5104093 TTGTT-AAAGATAA
1 TT-TTAAAAAATAA
5104106 TTTT
1 TTTT
5104110 TTATTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 2 0.07
13 23 0.85
14 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (13 bp):
TTTTAAAAAATAA
Found at i:5111551 original size:17 final size:18
Alignment explanation
Indices: 5111507--5111554 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
5111497 ATTTTTATGT
*
5111507 AAATATAAATATAATAAA
1 AAATTTAAATATAATAAA
5111525 AAATTATTAAATAT-ATAAA
1 AAA-T-TTAAATATAATAAA
5111544 AAATTTAAATA
1 AAATTTAAATA
5111555 CAAATAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 7 0.26
18 4 0.15
19 9 0.33
20 7 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATTTAAATATAATAAA
Found at i:5111618 original size:20 final size:19
Alignment explanation
Indices: 5111569--5111623 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
5111559 TAAAATAGGT
* *
5111569 ATATTATTATATTTATTAT
1 ATATTATAATATTTATTAA
*
5111588 ATGATTTTAATATTTATTAAA
1 AT-ATTATAATATTTATT-AA
5111609 ATATTATAAT-TTTAT
1 ATATTATAATATTTAT
5111624 ACCATATCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 7 0.23
20 20 0.67
21 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
ATATTATAATATTTATTAA
Found at i:5113829 original size:13 final size:14
Alignment explanation
Indices: 5113802--5113830 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5113792 TACAAGATAA
5113802 TAAATTTTAATATT
1 TAAATTTTAATATT
5113816 TAAATTTT-ATATT
1 TAAATTTTAATATT
5113829 TA
1 TA
5113831 TTAAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAAATTTTAATATT
Found at i:5114172 original size:21 final size:22
Alignment explanation
Indices: 5114137--5114189 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
5114127 TCACTAAAGG
5114137 TGAATTTAGTTTAATTTTATAT
1 TGAATTTAGTTTAATTTTATAT
*
5114159 TGAATTTA-TTTAATTTTGTAT
1 TGAATTTAGTTTAATTTTATAT
5114180 TG-A-TTAGTTT
1 TGAATTTAGTTT
5114190 TTTTAATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 3 0.10
20 4 0.14
21 14 0.48
22 8 0.28
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.60
Consensus pattern (22 bp):
TGAATTTAGTTTAATTTTATAT
Found at i:5117432 original size:2 final size:2
Alignment explanation
Indices: 5117425--5117454 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
5117415 CACATGCTTT
5117425 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
5117455 ATATTTAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:5119379 original size:2 final size:2
Alignment explanation
Indices: 5119372--5119410 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
5119362 TGCATCAATC
5119372 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5119411 CGCCCTAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5120266 original size:14 final size:15
Alignment explanation
Indices: 5120241--5120278 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
5120231 AAAAATCATC
5120241 TTATAA-TTTAATAT
1 TTATAATTTTAATAT
5120255 TTA-AATTTTAATAT
1 TTATAATTTTAATAT
5120269 TTATAATTTT
1 TTATAATTTT
5120279 TTATTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 14 0.64
15 6 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATAATTTTAATAT
Found at i:5120283 original size:14 final size:14
Alignment explanation
Indices: 5120241--5120284 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
5120231 AAAAATCATC
*
5120241 TTATAATTTAATAT
1 TTATAATTTTATAT
5120255 TTA-AATTTTAATAT
1 TTATAATTTT-ATAT
*
5120269 TTATAATTTTTTAT
1 TTATAATTTTATAT
5120283 TT
1 TT
5120285 TTAAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 5 0.19
14 15 0.58
15 6 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATAATTTTATAT
Found at i:5120293 original size:21 final size:23
Alignment explanation
Indices: 5120260--5120302 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
5120250 AATATTTAAA
5120260 TTTTAATATTTATAATTTTTTAT
1 TTTTAATATTTATAATTTTTTAT
5120283 TTTTAA-A-TTATAATTTTTTA
1 TTTTAATATTTATAATTTTTTA
5120303 ATAAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 13 0.65
22 1 0.05
23 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTAATATTTATAATTTTTTAT
Found at i:5120298 original size:14 final size:14
Alignment explanation
Indices: 5120247--5120300 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
5120237 CATCTTATAA
*
5120247 TTTAATATTTAAAT
1 TTTAATTTTTAAAT
*
5120261 TTTAATATTTATAATT
1 TTTAAT-TTT-TAAAT
*
5120277 TTTTATTTTTAAAT
1 TTTAATTTTTAAAT
*
5120291 TATAATTTTT
1 TTTAATTTTT
5120301 TAATAAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
14 18 0.56
15 5 0.16
16 9 0.28
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTAATTTTTAAAT
Found at i:5121781 original size:19 final size:18
Alignment explanation
Indices: 5121732--5121782 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
5121722 AGCATATTTG
*
5121732 ATAAAATTATTATAATAAA
1 ATAAAATTA-TAAAATAAA
5121751 ATAAAATT-TAAAATATAA
1 ATAAAATTATAAAATA-AA
5121769 A-AAAATTAATAAAA
1 ATAAAATT-ATAAAA
5121783 AATCTCAACG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 12 0.43
18 3 0.11
19 13 0.46
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAAATTATAAAATAAA
Found at i:5127450 original size:2 final size:2
Alignment explanation
Indices: 5127443--5127472 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
5127433 AAGAAGAGGG
5127443 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
5127473 CGATAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:5131318 original size:16 final size:16
Alignment explanation
Indices: 5131297--5131341 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
5131287 TAAACTCATT
5131297 TATATAAATAATTTTA
1 TATATAAATAATTTTA
5131313 TATATATAA-AATTTTA
1 TATATA-AATAATTTTA
*
5131329 -ACA-AAATAATTTT
1 TATATAAATAATTTT
5131342 TAATTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 2 0.08
14 7 0.27
15 2 0.08
16 13 0.50
17 2 0.08
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATATAAATAATTTTA
Found at i:5132202 original size:12 final size:12
Alignment explanation
Indices: 5132181--5132230 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
5132171 TCAATTAAAA
5132181 ATTA-TTTAATT
1 ATTATTTTAATT
5132192 ATTATTTTAATT
1 ATTATTTTAATT
*
5132204 TTTATATTTAATAT
1 ATTAT-TTTAAT-T
*
5132218 ATTATTTTTATT
1 ATTATTTTAATT
5132230 A
1 A
5132231 ATTAAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
11 4 0.12
12 13 0.39
13 11 0.33
14 5 0.15
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATTATTTTAATT
Found at i:5132235 original size:21 final size:22
Alignment explanation
Indices: 5132186--5132235 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
5132176 TAAAAATTAT
* *
5132186 TTAATTATTATTTTAATTTTTA
1 TTAATTAATATATTAATTTTTA
*
5132208 -TATTTAATATATT-ATTTTTA
1 TTAATTAATATATTAATTTTTA
5132228 TTAATTAA
1 TTAATTAA
5132236 AAAATAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTAATTAATATATTAATTTTTA
Found at i:5134830 original size:27 final size:27
Alignment explanation
Indices: 5134793--5134865 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
5134783 AAACAACATG
*
5134793 CCACCATTTTTGAAAAATA-AAAAGAAA
1 CCACCATTTTTGAAAAACACAAAA-AAA
* * *
5134820 CCATCATTTTTGACAAACACAAAATAA
1 CCACCATTTTTGAAAAACACAAAAAAA
*
5134847 CCACCATTTTTGACAAACA
1 CCACCATTTTTGAAAAACA
5134866 AATGGTAGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 36 0.90
28 4 0.10
ACGTcount: A:0.48, C:0.22, G:0.05, T:0.25
Consensus pattern (27 bp):
CCACCATTTTTGAAAAACACAAAAAAA
Found at i:5139389 original size:24 final size:23
Alignment explanation
Indices: 5139362--5139414 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
5139352 AAAATATCAT
*
5139362 TTTTTAT-ATACATAAAATAATTAC
1 TTTTTATAATACAT-AAATAA-TAA
*
5139386 TTTTT-TAATAGATAAATAATAA
1 TTTTTATAATACATAAATAATAA
5139408 TTTTTAT
1 TTTTTAT
5139415 TGACTAACCG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 7 0.28
23 8 0.32
24 10 0.40
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTTTATAATACATAAATAATAA
Found at i:5139412 original size:23 final size:25
Alignment explanation
Indices: 5139361--5139412 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
5139351 AAAAATATCA
*
5139361 TTTTTTATATACATAAAATAATTAC
1 TTTTTTATATACATAAAATAATAAC
*
5139386 TTTTTTA-ATAGAT-AAATAATAA-
1 TTTTTTATATACATAAAATAATAAC
5139408 TTTTT
1 TTTTT
5139413 ATTGACTAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.20
23 8 0.32
24 5 0.20
25 7 0.28
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (25 bp):
TTTTTTATATACATAAAATAATAAC
Found at i:5140659 original size:2 final size:2
Alignment explanation
Indices: 5140654--5140686 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5140644 ATATATATAT
5140654 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
5140687 AAGTTGAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5142558 original size:24 final size:24
Alignment explanation
Indices: 5142523--5142570 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
5142513 AAATTTGAAC
*
5142523 TTAAATCCTCTCTTTGGTTGCTTG
1 TTAAATCCTCTCTTTGATTGCTTG
*
5142547 TTAAATCTTCTCTTTGATTGCTTG
1 TTAAATCCTCTCTTTGATTGCTTG
5142571 CTATGTTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.15, C:0.19, G:0.15, T:0.52
Consensus pattern (24 bp):
TTAAATCCTCTCTTTGATTGCTTG
Found at i:5142652 original size:20 final size:21
Alignment explanation
Indices: 5142624--5142667 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
5142614 TATTTATTAC
* *
5142624 AAATATATTTAATTTTTTTAA
1 AAATATATTTAATATATTTAA
*
5142645 AAAT-TATTTTATATATTTAA
1 AAATATATTTAATATATTTAA
5142665 AAA
1 AAA
5142668 GTCTTTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AAATATATTTAATATATTTAA
Found at i:5144486 original size:15 final size:15
Alignment explanation
Indices: 5144452--5144493 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
5144442 AACTCGAGTG
5144452 TTAATAT-TTTAA-A
1 TTAATATATTTAATA
5144465 -TATATATATTTAATA
1 TTA-ATATATTTAATA
5144480 TTAATATATTTAAT
1 TTAATATATTTAAT
5144494 TATTTTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.08
13 4 0.16
14 5 0.20
15 12 0.48
16 2 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAATATATTTAATA
Found at i:5144545 original size:25 final size:27
Alignment explanation
Indices: 5144506--5144555 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
5144496 TTTTAATAAT
*
5144506 TATTTTTTATATA-TTT-AAAATATCA
1 TATTTTATATATATTTTGAAAATATCA
*
5144531 TATTTTATATTTATTTTGAAAATAT
1 TATTTTATATATATTTTGAAAATAT
5144556 ATTAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
26 3 0.14
27 7 0.33
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (27 bp):
TATTTTATATATATTTTGAAAATATCA
Found at i:5145821 original size:2 final size:2
Alignment explanation
Indices: 5145814--5145850 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
5145804 GATTTTTAAC
*
5145814 AT AT AT AT GT 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 AT A
5145851 GTGAATTAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5164184 original size:2 final size:2
Alignment explanation
Indices: 5164177--5164235 Score: 91
Period size: 2 Copynumber: 29.5 Consensus size: 2
5164167 CCGTTGCCCT
* *
5164177 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC CC CC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
5164219 TC TC TC TC TC TT TC TC T
1 TC TC TC TC TC TC TC TC T
5164236 AATCCTTTCT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:5165289 original size:2 final size:2
Alignment explanation
Indices: 5165282--5165308 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5165272 ACATGCTTCC
5165282 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
5165309 GCAAAGTCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:5165861 original size:21 final size:22
Alignment explanation
Indices: 5165820--5165862 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
5165810 CTACATCTGG
*
5165820 GTTTTCTTCAATTTTGTTTGAA
1 GTTTTCTTCAATTTTGCTTGAA
*
5165842 GTTTTCTT-ATTTTTGCTTGAA
1 GTTTTCTTCAATTTTGCTTGAA
5165863 TTTGATTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.16, C:0.09, G:0.14, T:0.60
Consensus pattern (22 bp):
GTTTTCTTCAATTTTGCTTGAA
Found at i:5170539 original size:2 final size:2
Alignment explanation
Indices: 5170532--5170570 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
5170522 GTCGGCATGT
5170532 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5170571 TTACATATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5171429 original size:24 final size:22
Alignment explanation
Indices: 5171393--5171437 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
5171383 AATATTAAAT
5171393 ATTAATTAAAAATATAATAAAAAA
1 ATTAATT-AAAA-ATAATAAAAAA
5171417 ATTAATGT-AAAATAATAAAAA
1 ATTAAT-TAAAAATAATAAAAA
5171438 TATATAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 10 0.50
23 3 0.15
24 6 0.30
25 1 0.05
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (22 bp):
ATTAATTAAAAATAATAAAAAA
Found at i:5171434 original size:25 final size:25
Alignment explanation
Indices: 5171378--5171434 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
5171368 AAATTATATT
* *
5171378 ATAATAATATTAAATATTAATTAAA
1 ATAATAATATAAAAAATTAATTAAA
5171403 A-ATATAATA-AAAAAATTAATGTAAA
1 ATA-ATAATATAAAAAATTAAT-TAAA
5171428 ATAATAA
1 ATAATAA
5171435 AAATATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
24 10 0.37
25 16 0.59
26 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (25 bp):
ATAATAATATAAAAAATTAATTAAA
Found at i:5171454 original size:32 final size:33
Alignment explanation
Indices: 5171399--5171485 Score: 106
Period size: 32 Copynumber: 2.7 Consensus size: 33
5171389 AAATATTAAT
* *
5171399 TAAAAATATAATAAAAAAATTAAT-GTAAAATAA
1 TAAAAATAT-ATAAATATATTAATAGTAAAATAA
* * *
5171432 TAAAAATATATAAATATTTTAATAGTTATATAA
1 TAAAAATATATAAATATATTAATAGTAAAATAA
5171465 TAAAAAT-TATAAATATATTAA
1 TAAAAATATATAAATATATTAA
5171486 ATTTATATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
32 24 0.51
33 23 0.49
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (33 bp):
TAAAAATATATAAATATATTAATAGTAAAATAA
Found at i:5171465 original size:33 final size:31
Alignment explanation
Indices: 5171428--5171495 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 31
5171418 TTAATGTAAA
*
5171428 ATAATAAAAATATATAAATATTTTAATAGTTAT
1 ATAATAAAAAT-TATAAATATATTAA-AGTTAT
*
5171461 ATAATAAAAATTATAAATATATTAAATTTAT
1 ATAATAAAAATTATAAATATATTAAAGTTAT
5171492 ATAA
1 ATAA
5171496 ATATAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 9 0.27
32 13 0.39
33 11 0.33
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (31 bp):
ATAATAAAAATTATAAATATATTAAAGTTAT
Found at i:5171513 original size:19 final size:19
Alignment explanation
Indices: 5171459--5171514 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
5171449 TTTAATAGTT
5171459 ATATAATAAA-AATTATAA
1 ATATAATAAATAATTATAA
* *
5171477 ATATATTAAAT-TTATATAA
1 ATATAATAAATAAT-TATAA
*
5171496 ATATAAAAAATAATTATAA
1 ATATAATAAATAATTATAA
5171515 TACAATTATG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
18 10 0.33
19 19 0.63
20 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
ATATAATAAATAATTATAA
Found at i:5172215 original size:13 final size:13
Alignment explanation
Indices: 5172197--5172221 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5172187 TGCTTCGTGT
5172197 CTTTAATTATCCA
1 CTTTAATTATCCA
5172210 CTTTAATTATCC
1 CTTTAATTATCC
5172222 TTGCTACAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (13 bp):
CTTTAATTATCCA
Found at i:5178197 original size:2 final size:2
Alignment explanation
Indices: 5178186--5178235 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
5178176 GCAAACTTGT
* * *
5178186 TA TA TA -A TA TA TA AA TA TA CA TA CA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5178227 TA TA TA TA T
1 TA TA TA TA T
5178236 GCTACTACTA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:5178943 original size:14 final size:14
Alignment explanation
Indices: 5178905--5178945 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
5178895 TATTTTCCAT
5178905 ATTTAAAAAA-TAA
1 ATTTAAAAAATTAA
*
5178918 A-TAAAAATAATTAA
1 ATTTAAAA-AATTAA
5178932 ATTTAAAAAATTAA
1 ATTTAAAAAATTAA
5178946 TTTTCTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
12 5 0.22
13 3 0.13
14 10 0.43
15 5 0.22
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATTTAAAAAATTAA
Found at i:5184271 original size:39 final size:39
Alignment explanation
Indices: 5184200--5184275 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
5184190 CTCTTCTTCT
* *
5184200 GATGGGATCATTACTGGAAACCGAGTTACTAGAAGGGCA
1 GATGGGATCATTACTAGAAACCGACTTACTAGAAGGGCA
* * *
5184239 GATGGGATCATTTCTAGAAATCGACTTTCTAGAAGGG
1 GATGGGATCATTACTAGAAACCGACTTACTAGAAGGG
5184276 AAGTAACCTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (39 bp):
GATGGGATCATTACTAGAAACCGACTTACTAGAAGGGCA
Found at i:5187304 original size:19 final size:19
Alignment explanation
Indices: 5187232--5187305 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 19
5187222 AAATCATTTA
*
5187232 TTAAAATAATTTAATTTATCT
1 TTAAAATAATTTAA-ATAT-T
* *
5187253 ATTAAATATTATTTTAA-ATT
1 -TTAAA-ATAATTTAAATATT
**
5187273 TTAAAATTTTTTAAATATT
1 TTAAAATAATTTAAATATT
5187292 TTAAAATAATTTAA
1 TTAAAATAATTTAA
5187306 TGATATTAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
18 8 0.19
19 20 0.47
20 1 0.02
21 2 0.05
22 5 0.12
23 7 0.16
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAAAATAATTTAAATATT
Found at i:5187457 original size:18 final size:19
Alignment explanation
Indices: 5187415--5187466 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
5187405 ACCTTAAAGC
5187415 ATTAATATAATAAAATATAAA
1 ATTAATATAAT-AAATAT-AA
*
5187436 ATTAATATAATAAATAT-T
1 ATTAATATAATAAATATAA
*
5187454 ATTAATATCATAA
1 ATTAATATAATAA
5187467 GTCTAATCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 12 0.41
20 6 0.21
21 11 0.38
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTAATATAATAAATATAA
Found at i:5193990 original size:19 final size:19
Alignment explanation
Indices: 5193959--5193998 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
5193949 ATGTTAAATA
*
5193959 TAAAAATTTTTATA-TATT
1 TAAAAATTATTATATTATT
5193977 TAAATAATTATTATATTATT
1 TAAA-AATTATTATATTATT
5193997 TA
1 TA
5193999 TATATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 9 0.47
20 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAAAAATTATTATATTATT
Found at i:5194032 original size:13 final size:14
Alignment explanation
Indices: 5194002--5194040 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
5193992 TTATTTATAT
*
5194002 ATAAATATATATAGA
1 ATAAAAATAT-TAGA
5194017 ATAAAAATATTA-A
1 ATAAAAATATTAGA
5194030 ATAAAAATATT
1 ATAAAAATATT
5194041 TTAAAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.52
14 2 0.09
15 9 0.39
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
ATAAAAATATTAGA
Found at i:5194426 original size:2 final size:2
Alignment explanation
Indices: 5194419--5194447 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5194409 AAGTCCACCT
5194419 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
5194448 TTGTCTATCC
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:5194640 original size:2 final size:2
Alignment explanation
Indices: 5194633--5194657 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5194623 AGATCTTCCT
5194633 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
5194658 TTATTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5194662 original size:4 final size:4
Alignment explanation
Indices: 5194655--5194681 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
5194645 TATATATATA
5194655 TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TAT
5194682 CTTTTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:5194819 original size:6 final size:6
Alignment explanation
Indices: 5194801--5194835 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
5194791 TCTCGGTTAG
*
5194801 TTTCTT TTT-TT TTTCTT TTTCTT TTTCTC TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
5194836 CTTTTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTCTT
Found at i:5199348 original size:23 final size:24
Alignment explanation
Indices: 5199316--5199360 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
5199306 TTAGTTTGGT
*
5199316 TTATCATTTTTTAAAATTTTAAAA
1 TTATCATTTTATAAAATTTTAAAA
*
5199340 TTATC-TTTTATAACATTTTAA
1 TTATCATTTTATAAAATTTTAA
5199361 TTTTTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (24 bp):
TTATCATTTTATAAAATTTTAAAA
Found at i:5204488 original size:13 final size:13
Alignment explanation
Indices: 5204472--5204521 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
5204462 TTTTATTTTA
*
5204472 AAATATTTATATT
1 AAATATATATATT
5204485 AAATATATATATAT
1 AAATATATATAT-T
* *
5204499 AATTATAATATTTT
1 AAATAT-ATATATT
5204513 AAATATATA
1 AAATATATA
5204522 CAAAACTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 14 0.45
14 12 0.39
15 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATATATATATT
Found at i:5205976 original size:5 final size:5
Alignment explanation
Indices: 5205966--5205990 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
5205956 TATTACTATT
5205966 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
5205991 TCCATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:5206038 original size:21 final size:21
Alignment explanation
Indices: 5206000--5206056 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
5205990 ATCCATATAA
**
5206000 ATATTTTTTAAA-AAATATTT
1 ATATTTTTTAAATTTATATTT
5206020 ATATTTTTTAAATTTATATTT
1 ATATTTTTTAAATTTATATTT
*
5206041 -TAATATTTTAAATTTA
1 AT-ATTTTTTAAATTTA
5206057 AATACAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.41
21 19 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATTTTTTAAATTTATATTT
Found at i:5206837 original size:50 final size:49
Alignment explanation
Indices: 5206772--5207021 Score: 292
Period size: 48 Copynumber: 5.1 Consensus size: 49
5206762 AAATGTATAA
5206772 ATATATGTACATCACAATTCACATGAGAAAAAAAAATGTGTGTACAAAAT
1 ATATATGTACATCACAATTCACATGAG-AAAAAAAATGTGTGTACAAAAT
* **
5206822 ATATATGAACATCACAATTCACATGAG-AAAAAAATGTGTGTACGTAAT
1 ATATATGTACATCACAATTCACATGAGAAAAAAAATGTGTGTACAAAAT
* * * * *
5206870 ATATATTTACCTCGCAATTCACATAAGAAAAAAAA-CTGTGTACGAAAA-
1 ATATATGTACATCACAATTCACATGAGAAAAAAAATGTGTGTAC-AAAAT
* ** ** *
5206918 AAATATGTATTTCACAATTCACATGAG-AAAAAAATGTGTGTACGTAAC
1 ATATATGTACATCACAATTCACATGAGAAAAAAAATGTGTGTACAAAAT
* * *
5206966 ATATATGCACGTCGCAATTCACATGAGAAAAAAAATGTGTGTACAAATAT
1 ATATATGTACATCACAATTCACATGAGAAAAAAAATGTGTGTACAAA-AT
5207016 ATATAT
1 ATATAT
5207022 ATATATATGT
Statistics
Matches: 166, Mismatches: 28, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
47 9 0.05
48 98 0.59
49 26 0.16
50 33 0.20
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.27
Consensus pattern (49 bp):
ATATATGTACATCACAATTCACATGAGAAAAAAAATGTGTGTACAAAAT
Found at i:5207667 original size:6 final size:6
Alignment explanation
Indices: 5207656--5207712 Score: 51
Period size: 6 Copynumber: 8.8 Consensus size: 6
5207646 TATGTTAATT
* * *
5207656 ATATAA ATATAA AAATAA ATATATA ATTAAAAA ATTTAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATA-A A-T-ATAA ATATAA ATATAA ATATAA
5207707 TATATA
1 -ATATA
5207713 TTATTTATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
6 28 0.68
7 8 0.20
8 3 0.07
9 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
ATATAA
Found at i:5207723 original size:30 final size:30
Alignment explanation
Indices: 5207689--5207751 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
5207679 TAATTAAAAA
5207689 ATTTAAATATAAATATAATATATATTATT-T
1 ATTTAAATATAAATATAATATAT-TTATTAT
** * *
5207719 ATTTATTTTTAAATATATTATATTTATTAT
1 ATTTAAATATAAATATAATATATTTATTAT
5207749 ATT
1 ATT
5207752 ATATTTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 5 0.18
30 23 0.82
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (30 bp):
ATTTAAATATAAATATAATATATTTATTAT
Found at i:5207742 original size:5 final size:5
Alignment explanation
Indices: 5207732--5207777 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
5207722 TATTTTTAAA
*
5207732 TATAT TATAT T-TAT TATAT TATAT T-TATT TAATAT TTTAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT TATA-T T-ATAT TATAT TATAT T
5207778 TTTATATCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
4 6 0.17
5 25 0.71
6 2 0.06
7 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
TATAT
Found at i:5207751 original size:14 final size:14
Alignment explanation
Indices: 5207732--5207777 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
5207722 TATTTTTAAA
5207732 TATATTATATTTAT
1 TATATTATATTTAT
5207746 TATATTATATTTAT
1 TATATTATATTTAT
*
5207760 T-TAATAT-TTTAT
1 TATATTATATTTAT
5207772 TATATT
1 TATATT
5207778 TTTATATCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 6 0.21
13 8 0.28
14 15 0.52
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TATATTATATTTAT
Done.