Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold71
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: 5741892
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.33
Warning! 121862 characters in sequence are not A, C, G, or T
File 25 of 33
Found at i:4110050 original size:21 final size:20
Alignment explanation
Indices: 4110026--4110064 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4110016 TATGTGAATA
*
4110026 AAATATAATTAATAAATATTT
1 AAATATAA-TAAAAAATATTT
*
4110047 AAATTTAATAAAAAATAT
1 AAATATAATAAAAAATAT
4110065 ATTTATTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATATAATAAAAAATATTT
Found at i:4110246 original size:22 final size:21
Alignment explanation
Indices: 4110208--4110248 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4110198 ACTAATAATT
* *
4110208 AAAAAATAAAATAAAATTACA
1 AAAAAAAAAAACAAAATTACA
4110229 AAAAAAAAAAACATAAATTA
1 AAAAAAAAAAACA-AAATTA
4110249 AACATCTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAAAAAAAAACAAAATTACA
Found at i:4110643 original size:26 final size:26
Alignment explanation
Indices: 4110614--4110668 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
4110604 TCCTATTATT
* *
4110614 AATTAATTTTTTA-TCAAATAAAATTG
1 AATTAAATTTTAACTCAAAT-AAATTG
*
4110640 AATTAAATTTTAACTCAAATTAATTG
1 AATTAAATTTTAACTCAAATAAATTG
4110666 AAT
1 AAT
4110669 AGACTTATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (26 bp):
AATTAAATTTTAACTCAAATAAATTG
Found at i:4110695 original size:3 final size:3
Alignment explanation
Indices: 4110687--4110713 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4110677 CAATTCTAGC
4110687 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
4110714 GACAGGGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4113741 original size:16 final size:18
Alignment explanation
Indices: 4113715--4113748 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4113705 GAATATAATC
4113715 ATTTGTTTTATA-ATTTA
1 ATTTGTTTTATATATTTA
4113732 ATTT-TTTTATATATTTA
1 ATTTGTTTTATATATTTA
4113749 TAATTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
ATTTGTTTTATATATTTA
Found at i:4115868 original size:15 final size:15
Alignment explanation
Indices: 4115848--4115891 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
4115838 TATTTACTAA
4115848 TTATTTTAATATTTT
1 TTATTTTAATATTTT
*
4115863 TTA-TTTAATATATTA
1 TTATTTTAATAT-TTT
4115878 TT-TTTTAATATTTT
1 TTATTTTAATATTTT
4115892 AAAAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATTTTAATATTTT
Found at i:4116306 original size:34 final size:37
Alignment explanation
Indices: 4116268--4116338 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 37
4116258 ATTTCAAACA
4116268 TAAATATA-ATATATATTAA-A-TATA-TTATTATATT
1 TAAATATATA-ATATATTAATATTATATTTATTATATT
*
4116302 TAAATGTATAATATATTAATATTATATTTATTATATT
1 TAAATATATAATATATTAATATTATATTTATTATATT
4116339 ATGTTTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
34 16 0.50
35 2 0.06
36 4 0.12
37 10 0.31
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (37 bp):
TAAATATATAATATATTAATATTATATTTATTATATT
Found at i:4127904 original size:2 final size:2
Alignment explanation
Indices: 4127899--4127955 Score: 78
Period size: 2 Copynumber: 28.5 Consensus size: 2
4127889 TTATTTCTTC
* *
4127899 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
4127941 TA TC TA TA TC TA TA T
1 TA TA TA TA TA TA TA T
4127956 GATAAAAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4128761 original size:26 final size:24
Alignment explanation
Indices: 4128692--4128762 Score: 63
Period size: 26 Copynumber: 2.8 Consensus size: 24
4128682 TATTTATATT
* *
4128692 TATAAATATAAATTAATAAAATTT
1 TATAAATATAAATAAATAAAATTA
*
4128716 TAT-AATTTAAAATAGTAATAAAATTA
1 TATAAATAT-AAATA--AATAAAATTA
4128742 TATTAAATATAAGATAAATAA
1 TA-TAAATATAA-ATAAATAA
4128763 TTTCTTACGT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
23 4 0.11
24 7 0.19
26 16 0.43
27 3 0.08
28 7 0.19
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (24 bp):
TATAAATATAAATAAATAAAATTA
Found at i:4128868 original size:2 final size:2
Alignment explanation
Indices: 4128861--4128892 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4128851 TGACTAAAAG
*
4128861 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4128893 AAAACAGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4129086 original size:20 final size:21
Alignment explanation
Indices: 4129050--4129119 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 21
4129040 TTTTATATAT
4129050 TATATTTATAATTAAAATATT-A
1 TATATTTATAA-TAAAAT-TTAA
4129072 TATATTTATAA-AAAATTTAA
1 TATATTTATAATAAAATTTAA
* *
4129092 TATATTAATAAT-ACA-TTAA
1 TATATTTATAATAAAATTTAA
4129111 TAT-TTTATA
1 TATATTTATA
4129120 TATTTATCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
18 5 0.12
19 9 0.21
20 18 0.42
22 11 0.26
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTTATAATAAAATTTAA
Found at i:4130388 original size:21 final size:20
Alignment explanation
Indices: 4130364--4130412 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
4130354 AAAAAAATAA
*
4130364 AAAATAATATTTATTTTTAAT
1 AAAATAATATTTATTATT-AT
*
4130385 AAAA-ATATTTTTATTATTAT
1 AAAATA-ATATTTATTATTAT
4130405 AAAATAAT
1 AAAATAAT
4130413 TTAAATCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAATAATATTTATTATTAT
Found at i:4133695 original size:2 final size:2
Alignment explanation
Indices: 4133688--4133738 Score: 84
Period size: 2 Copynumber: 25.0 Consensus size: 2
4133678 GTTAGGGTTT
4133688 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
*
4133731 CA TA TA TA
1 TA TA TA TA
4133739 GTTTGTATCC
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 45 0.98
3 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:4138945 original size:36 final size:36
Alignment explanation
Indices: 4138905--4138980 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
4138895 AAACACGATT
4138905 ACACGACTAAGACATGTATAATGCAATTAAAACATA
1 ACACGACTAAGACATGTATAATGCAATTAAAACATA
4138941 ACACGACTAAGACATGTATAATGCAATTAAAACATA
1 ACACGACTAAGACATGTATAATGCAATTAAAACATA
4138977 ACAC
1 ACAC
4138981 AAACACATCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.50, C:0.18, G:0.11, T:0.21
Consensus pattern (36 bp):
ACACGACTAAGACATGTATAATGCAATTAAAACATA
Found at i:4142794 original size:36 final size:36
Alignment explanation
Indices: 4142747--4142818 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
4142737 GTACATATGC
4142747 ATATCATCGTTGAGTTGAGTCAAGCTTAAGTTTAGG
1 ATATCATCGTTGAGTTGAGTCAAGCTTAAGTTTAGG
4142783 ATATCATCGTTGAGTTGAGTCAAGCTTAAGTTTAGG
1 ATATCATCGTTGAGTTGAGTCAAGCTTAAGTTTAGG
4142819 CTAAAGGTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (36 bp):
ATATCATCGTTGAGTTGAGTCAAGCTTAAGTTTAGG
Found at i:4146546 original size:18 final size:17
Alignment explanation
Indices: 4146464--4146557 Score: 68
Period size: 16 Copynumber: 5.5 Consensus size: 17
4146454 CTATTCGTAC
* *
4146464 TATATTATTTAATATAAT
1 TATATTATATAATA-ATT
* *
4146482 TATAAT-TATAATATTT
1 TATATTATATAATAATT
*
4146498 TATATT-TATATTAATT
1 TATATTATATAATAATT
*
4146514 T-TAATATATTAATAATT
1 TATATTATA-TAATAATT
4146531 TATATTATCATAATAAATT
1 TATATTAT-ATAAT-AATT
*
4146550 TTTATTAT
1 TATATTAT
4146558 TTTATATATA
Statistics
Matches: 60, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
15 3 0.05
16 17 0.28
17 14 0.23
18 14 0.23
19 12 0.20
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATATAATAATT
Found at i:4146550 original size:36 final size:33
Alignment explanation
Indices: 4146464--4146557 Score: 93
Period size: 33 Copynumber: 2.8 Consensus size: 33
4146454 CTATTCGTAC
* * *
4146464 TATATTATTTAATATAATTATAATTATAATATTT
1 TATATTATATAATA-AATTTTAATTATAATAATT
*
4146498 TATATT-TAT-ATTAATTTTAATATATTAATAATT
1 TATATTATATAATAAATTTTAAT-TA-TAATAATT
*
4146531 TATATTATCATAATAAATTTTTATTAT
1 TATATTAT-ATAATAAATTTTAATTAT
4146558 TTTATATATA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
31 8 0.16
32 4 0.08
33 15 0.31
34 8 0.16
35 4 0.08
36 10 0.20
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (33 bp):
TATATTATATAATAAATTTTAATTATAATAATT
Found at i:4148660 original size:30 final size:29
Alignment explanation
Indices: 4148617--4148683 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 29
4148607 TTATGAAAAG
* * *
4148617 TTTTTAATTAATT-AATTTAAAATTTTTA
1 TTTTTAATAAATTAAAATTAAAATATTTA
4148645 TATTGTTAATAAATTAAAATTAAAATATTTA
1 T-TT-TTAATAAATTAAAATTAAAATATTTA
4148676 TTTTTAAT
1 TTTTTAAT
4148684 TTAATCAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 1 0.03
29 7 0.21
30 11 0.33
31 14 0.42
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (29 bp):
TTTTTAATAAATTAAAATTAAAATATTTA
Found at i:4148698 original size:31 final size:30
Alignment explanation
Indices: 4148617--4148719 Score: 79
Period size: 31 Copynumber: 3.4 Consensus size: 30
4148607 TTATGAAAAG
* * *
4148617 TTTTTAA-TTAAT-TAATTTAAAATTTTTA
1 TTTTTAATTTAATCAAAATTAAAATATTTA
* *
4148645 TATTGTTAA-TAAATTAAAATTAAAATATTTA
1 T-TT-TTAATTTAATCAAAATTAAAATATTTA
4148676 TTTTTAATTTAATCAAACATTAATAA-ATTTGA
1 TTTTTAATTTAATCAAA-ATTAA-AATATTT-A
*
4148708 TTTTAAATTTAA
1 TTTTTAATTTAA
4148720 CATTTAACTT
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
28 1 0.02
29 6 0.10
30 17 0.28
31 23 0.38
32 14 0.23
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (30 bp):
TTTTTAATTTAATCAAAATTAAAATATTTA
Found at i:4148951 original size:26 final size:24
Alignment explanation
Indices: 4148920--4148988 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 24
4148910 GTAATTTTAT
4148920 ATTTAAAATATTTTATATTTAAATAA
1 ATTTAAAATATTTTATATTT--ATAA
*
4148946 ATTT-AATTATTTTAT-TTTATAA
1 ATTTAAAATATTTTATATTTATAA
4148968 ATATTAAATATTATTTTATAT
1 AT-TTAAA-A-TATTTTATAT
4148989 ATTTATATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
22 6 0.17
23 2 0.06
24 5 0.14
25 10 0.28
26 12 0.33
27 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTAAAATATTTTATATTTATAA
Found at i:4148961 original size:23 final size:23
Alignment explanation
Indices: 4148925--4148979 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
4148915 TTTATATTTA
4148925 AAATATTTTATATTTAAATAAAT-TT
1 AAATA-TTT-TATTT-AATAAATATT
* *
4148950 AATTATTTTATTTTATAAATATT
1 AAATATTTTATTTAATAAATATT
4148973 AAATATT
1 AAATATT
4148980 ATTTTATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 6 0.23
23 13 0.50
24 3 0.12
25 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AAATATTTTATTTAATAAATATT
Found at i:4148989 original size:23 final size:22
Alignment explanation
Indices: 4148932--4148989 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 22
4148922 TTAAAATATT
* *
4148932 TTATATTTAAATAAATTTAATTA
1 TTAT-TTTATATAAATTTAAATA
*
4148955 TT-TTATTTTATAAATATTAAATA
1 TTATT-TTATATAAAT-TTAAATA
4148978 TTATTTTATATA
1 TTATTTTATATA
4148990 TTTATATTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
21 1 0.04
22 9 0.32
23 16 0.57
24 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATTTTATATAAATTTAAATA
Found at i:4151181 original size:3 final size:3
Alignment explanation
Indices: 4151173--4151199 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4151163 AAATTTCAGT
4151173 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
4151200 CAACTATCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4151956 original size:12 final size:12
Alignment explanation
Indices: 4151941--4151970 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4151931 GTATAAAATC
4151941 ATCATCAAAAGA
1 ATCATCAAAAGA
4151953 ATCATCAAAAGA
1 ATCATCAAAAGA
*
4151965 GTCATC
1 ATCATC
4151971 TGAATCCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.20, G:0.10, T:0.20
Consensus pattern (12 bp):
ATCATCAAAAGA
Found at i:4154690 original size:14 final size:14
Alignment explanation
Indices: 4154671--4154698 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4154661 CTCTGACCAC
4154671 ATATGTGAAGACAT
1 ATATGTGAAGACAT
4154685 ATATGTGAAGACAT
1 ATATGTGAAGACAT
4154699 CCTTGGGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (14 bp):
ATATGTGAAGACAT
Found at i:4156653 original size:17 final size:18
Alignment explanation
Indices: 4156627--4156660 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4156617 ATTCAAAATA
*
4156627 TTAATTTAAT-TAATTTT
1 TTAATATAATATAATTTT
4156644 TTAATATAATATAATTT
1 TTAATATAATATAATTT
4156661 AAATTATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAATATAATATAATTTT
Found at i:4156968 original size:30 final size:29
Alignment explanation
Indices: 4156906--4156989 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 29
4156896 CATTGAAGTA
* * *
4156906 AAATAAAATTATA-ATTAAATAA-TTATT
1 AAATAAAATAACATATTAAAAAATTTATT
4156933 AAATAAAAATAA-ATATATAAAAAATTTATT
1 AAAT-AAAATAACATAT-TAAAAAATTTATT
* *
4156963 TAATAAAATAACATATTATAAAATTTA
1 AAATAAAATAACATATTAAAAAATTTA
4156990 ATTTTTAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
27 5 0.10
28 8 0.17
29 23 0.48
30 12 0.25
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (29 bp):
AAATAAAATAACATATTAAAAAATTTATT
Found at i:4156970 original size:29 final size:30
Alignment explanation
Indices: 4156919--4156989 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
4156909 TAAAATTATA
*
4156919 ATTAAATAA-TTATTAAATAAAAATAA-AT
1 ATTAAAAAATTTATTAAATAAAAATAACAT
*
4156947 ATATAAAAAATTTATTTAAT-AAAATAACAT
1 AT-TAAAAAATTTATTAAATAAAAATAACAT
*
4156977 ATTATAAAATTTA
1 ATTAAAAAATTTA
4156990 ATTTTTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 2 0.05
29 23 0.62
30 12 0.32
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (30 bp):
ATTAAAAAATTTATTAAATAAAAATAACAT
Found at i:4157002 original size:31 final size:28
Alignment explanation
Indices: 4156937--4157004 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 28
4156927 ATTATTAAAT
4156937 AAAAATAAATATATAAAAAATTTATTTA
1 AAAAATAAATATATAAAAAATTTATTTA
*
4156965 ATAAAATAACATAT-TATAAAATTTAATTTTTA
1 A-AAAATAA-ATATATAAAAAATTT-A--TTTA
4156997 AAAAATAA
1 AAAAATAA
4157005 TTTTTTATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
28 1 0.03
29 16 0.47
30 5 0.15
31 7 0.21
32 5 0.15
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (28 bp):
AAAAATAAATATATAAAAAATTTATTTA
Found at i:4157509 original size:13 final size:13
Alignment explanation
Indices: 4157476--4157513 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
4157466 TCTAATTTTT
* *
4157476 ATATTCAATGTAA
1 ATATTAAATATAA
4157489 AT-TTAAATATAA
1 ATATTAAATATAA
4157501 ATATTAAATATAA
1 ATATTAAATATAA
4157514 TCTTTTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (13 bp):
ATATTAAATATAA
Found at i:4158063 original size:28 final size:29
Alignment explanation
Indices: 4158032--4158090 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 29
4158022 TCATGTTCAT
*
4158032 AATTTATAACTTTTTTGTTCAGTA-AGAA
1 AATTAATAACTTTTTTGTTCAGTATAGAA
*
4158060 AATTAATATCTTTTTTGTTCAGTATAGAA
1 AATTAATAACTTTTTTGTTCAGTATAGAA
4158089 AA
1 AA
4158091 ATATTTGCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (29 bp):
AATTAATAACTTTTTTGTTCAGTATAGAA
Found at i:4159298 original size:2 final size:2
Alignment explanation
Indices: 4159291--4159317 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4159281 TACCAATCTA
4159291 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
4159318 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4159322 original size:2 final size:2
Alignment explanation
Indices: 4159317--4159359 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
4159307 TCTCTCTCTC
4159317 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4159359 T
1 T
4159360 TAGGTTTACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4159561 original size:19 final size:21
Alignment explanation
Indices: 4159518--4159562 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
4159508 TTTCATCAAT
*
4159518 TTATTTTATATTATTATTTAA
1 TTATTTTATACTATTATTTAA
4159539 -TATTTT-TACTATTA-TTAA
1 TTATTTTATACTATTATTTAA
4159557 TTATTT
1 TTATTT
4159563 ATTAATACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 4 0.18
19 12 0.55
20 6 0.27
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TTATTTTATACTATTATTTAA
Found at i:4159646 original size:28 final size:27
Alignment explanation
Indices: 4159586--4159646 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
4159576 TTTTTAATTT
*
4159586 TAATATTA--TAAAAAATAAATAAATA
1 TAATATTAGTTAAAAAATAAAAAAATA
*
4159611 TGATATTAGTTAAAAAATTAAAAAAAT-
1 TAATATTAGTTAAAAAA-TAAAAAAATA
4159638 TAATCATTA
1 TAAT-ATTA
4159647 TACTATACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 7 0.24
27 10 0.34
28 12 0.41
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (27 bp):
TAATATTAGTTAAAAAATAAAAAAATA
Found at i:4159721 original size:35 final size:34
Alignment explanation
Indices: 4159672--4159743 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
4159662 AAATTAAAAT
* *
4159672 TAAAAATTATTTAAATAATTT-TAATTAA-ATTTGA
1 TAAAAAATATTTAAA-AATTTAT-ATAAATATTTGA
4159706 TAAAAAATATATTAAAAATTTATATAAATATTTGA
1 TAAAAAATAT-TTAAAAATTTATATAAATATTTGA
4159741 TAA
1 TAA
4159744 TTTAAATATG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
34 18 0.55
35 15 0.45
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (34 bp):
TAAAAAATATTTAAAAATTTATATAAATATTTGA
Found at i:4170340 original size:40 final size:40
Alignment explanation
Indices: 4170296--4170375 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
4170286 TGAATCAAAG
4170296 AACACTCTAAGATGACATTGGCAGTATATGTATGCATGAC
1 AACACTCTAAGATGACATTGGCAGTATATGTATGCATGAC
*
4170336 AACACTTTAAGATGACATTGGCAGTATATGTATGCATGAC
1 AACACTCTAAGATGACATTGGCAGTATATGTATGCATGAC
4170376 TTTGTTTTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (40 bp):
AACACTCTAAGATGACATTGGCAGTATATGTATGCATGAC
Found at i:4171644 original size:2 final size:2
Alignment explanation
Indices: 4171630--4171727 Score: 51
Period size: 2 Copynumber: 49.5 Consensus size: 2
4171620 TATTTTTAAC
* * *
4171630 AT AT AT -T AG AT AT AT AT AT AT AT AT AT AT ACT CT A- AA AT CAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT -AT
* * * * * * *
4171672 AT AT AT ACT A- AT AT -T TT GT AT GT GT GT AT AT GT AT AT GT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4171713 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
4171728 CACACACACA
Statistics
Matches: 76, Mismatches: 13, Indels: 14
0.74 0.13 0.14
Matches are distributed among these distances:
1 4 0.05
2 67 0.88
3 5 0.07
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4171732 original size:2 final size:2
Alignment explanation
Indices: 4171727--4171752 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4171717 ATATATATAT
4171727 AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC
4171753 TAAAGAATTA
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4173979 original size:13 final size:14
Alignment explanation
Indices: 4173942--4173988 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
4173932 AGCAGTGATA
4173942 TTTAAATTATAATAT
1 TTTAAA-TATAATAT
4173957 TTAATAAATATAA-AT
1 TT--TAAATATAATAT
4173972 TTTAAATATTAATAT
1 TTTAAATA-TAATAT
4173987 TT
1 TT
4173989 CTAATTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 6 0.21
14 3 0.11
15 10 0.36
16 5 0.18
17 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTTAAATATAATAT
Found at i:4174251 original size:20 final size:20
Alignment explanation
Indices: 4174214--4174251 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4174204 TGTTAATTTT
*
4174214 TTTAAAAAAAGTTGATATTA
1 TTTAAAAAAAATTGATATTA
4174234 TTTAAAATAAAATT-ATAT
1 TTTAAAA-AAAATTGATAT
4174252 AAAATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
TTTAAAAAAAATTGATATTA
Found at i:4178721 original size:2 final size:2
Alignment explanation
Indices: 4178714--4178747 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4178704 GGAACCAATC
4178714 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4178748 TTTCTGTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4180681 original size:2 final size:2
Alignment explanation
Indices: 4180674--4180701 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4180664 AGTTTGGTTT
4180674 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4180702 GAGAGAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4180706 original size:2 final size:2
Alignment explanation
Indices: 4180701--4180732 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4180691 ATATATATAT
4180701 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4180733 TCCATGTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4186501 original size:2 final size:2
Alignment explanation
Indices: 4186494--4186520 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4186484 GTTTCACTTG
4186494 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
4186521 CCCCTAACAT
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:4187779 original size:62 final size:62
Alignment explanation
Indices: 4187667--4187784 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 62
4187657 TTAAAATATT
* * * *
4187667 ATAAATTTATATAAATTTTTATATGTTAATAGTTTATTTTACGTAGATTTTGATATGTTTTA
1 ATAAATTTATATAAATTTTTATATATAAATAATTTATTTTAAGTAGATTTTGATATGTTTTA
* *
4187729 ATAAATTTATATAAATTTTTGTATATAAATAATTTATTTTATATTA-ATTTTGATAT
1 ATAAATTTATATAAATTTTTATATATAAATAATTTATTTTA-AGTAGATTTTGATAT
4187785 ATTTGTATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
62 47 0.96
63 2 0.04
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.55
Consensus pattern (62 bp):
ATAAATTTATATAAATTTTTATATATAAATAATTTATTTTAAGTAGATTTTGATATGTTTTA
Found at i:4187871 original size:14 final size:15
Alignment explanation
Indices: 4187853--4187882 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4187843 AAAAAGAGAA
4187853 AAAAGAAGA-AAAAG
1 AAAAGAAGATAAAAG
4187867 AAAAGAAGATAAAAG
1 AAAAGAAGATAAAAG
4187882 A
1 A
4187883 TTTAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (15 bp):
AAAAGAAGATAAAAG
Found at i:4187880 original size:24 final size:22
Alignment explanation
Indices: 4187830--4187882 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
4187820 TTTTTGGATG
*
4187830 AAAATGAAAAAAAAAAAAGAGA
1 AAAAAGAAAAAAAAAAAAGAGA
*
4187852 AAAAAGAAGAAAAAGAAAAGAAGA
1 AAAAAGAA-AAAAAAAAAAG-AGA
*
4187876 TAAAAGA
1 AAAAAGA
4187883 TTTAAATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 7 0.27
23 10 0.38
24 9 0.35
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (22 bp):
AAAAAGAAAAAAAAAAAAGAGA
Found at i:4187927 original size:16 final size:17
Alignment explanation
Indices: 4187883--4187929 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
4187873 AGATAAAAGA
4187883 TTTAAATATATTATTGTG
1 TTTAAA-ATATTATTGTG
* *
4187901 TTTATATTATT-TTGTG
1 TTTAAAATATTATTGTG
4187917 TTTAAAATATTAT
1 TTTAAAATATTAT
4187930 AAATTTATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 14 0.58
17 5 0.21
18 5 0.21
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.60
Consensus pattern (17 bp):
TTTAAAATATTATTGTG
Found at i:4188415 original size:15 final size:16
Alignment explanation
Indices: 4188395--4188450 Score: 64
Period size: 15 Copynumber: 3.6 Consensus size: 16
4188385 ATTTAAGATA
4188395 TTTTATATATAAT-AT
1 TTTTATATATAATAAT
4188410 TTTTATATATTAATAAT
1 TTTTATATA-TAATAAT
*
4188427 TTATAT-TAT-ATAAT
1 TTTTATATATAATAAT
*
4188441 TTTAATATAT
1 TTTTATATAT
4188451 TTTTATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
14 9 0.26
15 13 0.37
16 6 0.17
17 7 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTATATATAATAAT
Found at i:4188420 original size:33 final size:32
Alignment explanation
Indices: 4188378--4188452 Score: 75
Period size: 33 Copynumber: 2.3 Consensus size: 32
4188368 TTTTATCTTA
*
4188378 TAATCATATTTAAGATATTT-TA-TATATAATATT
1 TAAT-ATATTTAATA-ATTTATATTATATAAT-TT
*
4188411 T-TTATATATTAATAATTTATATTATATAATTT
1 TAATATAT-TTAATAATTTATATTATATAATTT
4188443 TAATATATTT
1 TAATATATTT
4188453 TTATATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
31 8 0.23
32 13 0.37
33 14 0.40
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (32 bp):
TAATATATTTAATAATTTATATTATATAATTT
Found at i:4189763 original size:2 final size:2
Alignment explanation
Indices: 4189756--4189803 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
4189746 ATCTTAATCC
* *
4189756 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4189798 TA TA TA
1 TA TA TA
4189804 ACATTTTCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4196415 original size:23 final size:23
Alignment explanation
Indices: 4196372--4196413 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
4196362 AGTTTAATTT
4196372 TTTAAAATATATTTATTTATAAA
1 TTTAAAATATATTTATTTATAAA
*
4196395 TTTAAAA-A-ATTTAATTATA
1 TTTAAAATATATTTATTTATA
4196414 TATATATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 1 0.06
23 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTAAAATATATTTATTTATAAA
Found at i:4197177 original size:15 final size:15
Alignment explanation
Indices: 4197157--4197202 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
4197147 TATTTATTTG
4197157 ATATATAAAAATTATAA
1 ATAT-TAAAAATT-TAA
*
4197174 ATATTAAATATTTAA
1 ATATTAAAAATTTAA
*
4197189 AAATTAAAAATTTA
1 ATATTAAAAATTTA
4197203 TATGTATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 15 0.58
16 7 0.27
17 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATATTAAAAATTTAA
Found at i:4197293 original size:12 final size:11
Alignment explanation
Indices: 4197279--4197319 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
4197269 TTAAAAATTT
4197279 AAAATATATTA
1 AAAATATATTA
4197290 TAAAATATATGTA
1 -AAAATATAT-TA
4197303 AAAATAT-TTA
1 AAAATATATTA
4197313 AAAATAT
1 AAAATAT
4197320 TAATAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.32
11 1 0.04
12 16 0.57
13 2 0.07
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (11 bp):
AAAATATATTA
Found at i:4197309 original size:10 final size:9
Alignment explanation
Indices: 4197267--4197350 Score: 73
Period size: 10 Copynumber: 8.7 Consensus size: 9
4197257 ATATATATTT
4197267 TATTAAAAA
1 TATTAAAAA
4197276 T-TTAAAATA
1 TATTAAAA-A
4197285 TATTATAAAATA
1 TA-T-TAAAA-A
4197297 TATGTAAAAA
1 TAT-TAAAAA
4197307 TATTTAAAAA
1 TA-TTAAAAA
4197317 TATTAATAAA
1 TATTAA-AAA
4197327 T-TTAAAAA
1 TATTAAAAA
*
4197335 TATTAATACA
1 TATTAA-AAA
4197345 TATTAA
1 TATTAA
4197351 TTTAAAAAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 15
0.79 0.02 0.18
Matches are distributed among these distances:
8 10 0.15
9 15 0.23
10 23 0.35
11 8 0.12
12 9 0.14
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (9 bp):
TATTAAAAA
Found at i:4197331 original size:18 final size:18
Alignment explanation
Indices: 4197308--4197342 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
4197298 ATGTAAAAAT
4197308 ATTTAAAAATATTAATAA
1 ATTTAAAAATATTAATAA
4197326 ATTTAAAAATATTAATA
1 ATTTAAAAATATTAATA
4197343 CATATTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTTAAAAATATTAATAA
Found at i:4200324 original size:49 final size:52
Alignment explanation
Indices: 4200268--4200365 Score: 130
Period size: 49 Copynumber: 1.9 Consensus size: 52
4200258 AATTATACTT
* *
4200268 AATATATTATTTTTATT-AAATTA-AAAAACTATTAA-TAATATTTTTTTGA
1 AATATATTATCTTAATTAAAATTATAAAAACTATTAATTAATATTTTTTTGA
* * *
4200317 AATATATTATCTTAATTAAAATTATTAATATTATTAATTAATATTTTTT
1 AATATATTATCTTAATTAAAATTATAAAAACTATTAATTAATATTTTTT
4200366 AAAACAGTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
49 15 0.37
50 6 0.15
51 9 0.22
52 11 0.27
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (52 bp):
AATATATTATCTTAATTAAAATTATAAAAACTATTAATTAATATTTTTTTGA
Found at i:4201377 original size:15 final size:15
Alignment explanation
Indices: 4201357--4201399 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
4201347 GCGATGTATT
4201357 TAATAAATATAAAAA
1 TAATAAATATAAAAA
* *
4201372 TAATAAATTTAAATA
1 TAATAAATATAAAAA
*
4201387 TGAATTAATATAA
1 T-AATAAATATAA
4201400 CACATTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (15 bp):
TAATAAATATAAAAA
Found at i:4208773 original size:2 final size:2
Alignment explanation
Indices: 4208766--4208790 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4208756 GAGCATTAAA
4208766 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 A
4208791 CCTTTTGATA
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4209188 original size:22 final size:22
Alignment explanation
Indices: 4209163--4209210 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4209153 AAAGTTTATG
4209163 AAATTAATTATT-TAATTATTTA
1 AAATTAATTATTAT-ATTATTTA
* *
4209185 AAATTATTTATTATATTATTTT
1 AAATTAATTATTATATTATTTA
4209207 AAAT
1 AAAT
4209211 AAAATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AAATTAATTATTATATTATTTA
Found at i:4209849 original size:19 final size:20
Alignment explanation
Indices: 4209806--4209860 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
4209796 TCCCTCTTAA
*
4209806 AATATTTTATATATACTTTT
1 AATATTTTATATATACTTCT
* *
4209826 TATATTTTA-GTATACTTCT
1 AATATTTTATATATACTTCT
*
4209845 AATATATATATATATA
1 AATAT-TTTATATATA
4209861 TATATTAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 12 0.44
20 11 0.41
21 4 0.15
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (20 bp):
AATATTTTATATATACTTCT
Found at i:4212020 original size:2 final size:2
Alignment explanation
Indices: 4212013--4212057 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
4212003 AGGCAAAGCA
4212013 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4212055 AT A
1 AT A
4212058 AAAGCTACTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4213998 original size:2 final size:2
Alignment explanation
Indices: 4213991--4214044 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
4213981 GATTCAAAGC
4213991 GA GA GA GA GA GA 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 GA GA GA GA GA GA
4214033 GA GA GA GA GA GA
1 GA GA GA GA GA GA
4214045 CCTGTTACTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4214653 original size:21 final size:22
Alignment explanation
Indices: 4214610--4214662 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
4214600 AATGATATAA
4214610 AATATTATAAATTTTTAATATT
1 AATATTATAAATTTTTAATATT
*
4214632 AATA-TATATATTTTT-ATAATT
1 AATATTATAAATTTTTAAT-ATT
4214653 AA-ATT-TAAAT
1 AATATTATAAAT
4214663 ATAATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 7 0.26
21 16 0.59
22 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AATATTATAAATTTTTAATATT
Found at i:4214927 original size:14 final size:13
Alignment explanation
Indices: 4214904--4214938 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
4214894 TTTGTATTAA
4214904 TTTAATTTAATTT
1 TTTAATTTAATTT
4214917 TTTATATTTAATTTT
1 TTTA-ATTTAA-TTT
4214932 TTTAATT
1 TTTAATT
4214939 ATGTTTTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 9 0.45
15 7 0.35
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTAATTTAATTT
Found at i:4215495 original size:36 final size:36
Alignment explanation
Indices: 4215455--4215560 Score: 115
Period size: 36 Copynumber: 2.9 Consensus size: 36
4215445 GTTAAGAATT
*
4215455 ATTAAAATTATATTTATATTAAATAATAAAATATAA
1 ATTAAAATTATATTTAAATTAAATAATAAAATATAA
* * **
4215491 ATTAAAACTATATTTAAATTAAATAATAATTAAAATTT
1 ATTAAAATTATATTTAAATTAAATAATAA--AATATAA
* *
4215529 ATTAAAATTATA-TTAGCATTAAATAATTAAAT
1 ATTAAAATTATATTTA-AATTAAATAATAAAAT
4215561 TATATTTATA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
36 29 0.50
37 3 0.05
38 26 0.45
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.42
Consensus pattern (36 bp):
ATTAAAATTATATTTAAATTAAATAATAAAATATAA
Found at i:4215503 original size:74 final size:74
Alignment explanation
Indices: 4215408--4215560 Score: 172
Period size: 74 Copynumber: 2.1 Consensus size: 74
4215398 ATAATCGTTA
* * * *
4215408 AAAATATTATATTAAAATATATATT--TTTTAATAAATAGTTAAGAA-TTATTAAAATTATATTT
1 AAAATATTAAATTAAAATATAT-TTAAATTAAAT-AATAATTAA-AATTTATTAAAATTATA-TT
*
4215470 A-TATTAAATAAT
62 AGCATTAAATAAT
4215482 AAAATA-TAAATTAAAACTATATTTAAATTAAATAATAATTAAAATTTATTAAAATTATATTAGC
1 AAAATATTAAATTAAAA-TATATTTAAATTAAATAATAATTAAAATTTATTAAAATTATATTAGC
4215546 ATTAAATAAT
65 ATTAAATAAT
*
4215556 TAAAT
1 AAAAT
4215561 TATATTTATA
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
73 16 0.24
74 47 0.69
75 5 0.07
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (74 bp):
AAAATATTAAATTAAAATATATTTAAATTAAATAATAATTAAAATTTATTAAAATTATATTAGCA
TTAAATAAT
Found at i:4215508 original size:17 final size:17
Alignment explanation
Indices: 4215455--4215527 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 17
4215445 GTTAAGAATT
* *
4215455 ATTAAAATTATATTTAT
1 ATTAAAAATATATTTAA
* *
4215472 ATTAAATAATAAAATATAA
1 ATTAAA-AAT-ATATTTAA
*
4215491 ATTAAAACTATATTTAA
1 ATTAAAAATATATTTAA
*
4215508 ATTAAATAATA-ATTAAA
1 ATTAAA-AATATATTTAA
4215525 ATT
1 ATT
4215528 TATTAAAATT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
17 26 0.59
18 7 0.16
19 11 0.25
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAAAAATATATTTAA
Found at i:4217034 original size:16 final size:16
Alignment explanation
Indices: 4217015--4217065 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
4217005 CATACTCTAT
4217015 TTTAAATATAATATAA
1 TTTAAATATAATATAA
*
4217031 TTTAAAAAATAAT-TACA
1 TTT-AAATATAATATA-A
*
4217048 TATAAATATAATATAA
1 TTTAAATATAATATAA
4217064 TT
1 TT
4217066 ATATAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
16 15 0.54
17 13 0.46
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTAAATATAATATAA
Found at i:4217068 original size:17 final size:17
Alignment explanation
Indices: 4217017--4217068 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
4217007 TACTCTATTT
4217017 TAAATATAATATAATT-
1 TAAATATAATATAATTA
*
4217033 TAAAAAATAAT-TACA-TA
1 T-AAATATAATATA-ATTA
4217050 TAAATATAATATAATTA
1 TAAATATAATATAATTA
4217067 TA
1 TA
4217069 TAAATATATC
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
16 13 0.45
17 16 0.55
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATATAATATAATTA
Found at i:4217069 original size:19 final size:19
Alignment explanation
Indices: 4217017--4217076 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
4217007 TACTCTATTT
4217017 TAAATATAATATAATT-TA
1 TAAATATAATATAATTATA
* *
4217035 -AAAAATAAT-T-A-CATA
1 TAAATATAATATAATTATA
4217050 TAAATATAATATAATTATA
1 TAAATATAATATAATTATA
4217069 TAAATATA
1 TAAATATA
4217077 TCAAAATACT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
15 3 0.09
16 9 0.27
17 9 0.27
18 1 0.03
19 11 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATATAATATAATTATA
Found at i:4218302 original size:20 final size:20
Alignment explanation
Indices: 4218264--4218300 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4218254 TTATAAATAT
4218264 TTGTTTTTTCTTTCTTTTTC
1 TTGTTTTTTCTTTCTTTTTC
4218284 TTGTTTTTT-TTT-TTTTT
1 TTGTTTTTTCTTTCTTTTT
4218301 TTTACATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 3 0.18
20 9 0.53
ACGTcount: A:0.00, C:0.08, G:0.05, T:0.86
Consensus pattern (20 bp):
TTGTTTTTTCTTTCTTTTTC
Found at i:4219100 original size:21 final size:22
Alignment explanation
Indices: 4219060--4219111 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
4219050 AGATATTTTT
* *
4219060 ATATTATAAATATATTTAAA-A
1 ATATTATATATATATATAAATA
*
4219081 ATATTATATATTTATATAAATA
1 ATATTATATATATATATAAATA
*
4219103 ATAATATAT
1 ATATTATAT
4219112 TAATAATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATATTATATATATATATAAATA
Found at i:4220335 original size:2 final size:2
Alignment explanation
Indices: 4220328--4220372 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
4220318 AGTTTCCCTT
*
4220328 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4220370 TA T
1 TA T
4220373 TTCACTAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4221836 original size:23 final size:22
Alignment explanation
Indices: 4221794--4221847 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
4221784 GGTGTAAAGA
* *
4221794 TTTTTT-AAAAAATTAGGTAAG
1 TTTTTTAAAAAAAATAAGTAAG
*
4221815 TTTTTTAAAAATAAATAAGTAAT
1 TTTTTTAAAAA-AAATAAGTAAG
4221838 TTTTTTAAAA
1 TTTTTTAAAA
4221848 TTTTATTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 6 0.21
22 4 0.14
23 18 0.64
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (22 bp):
TTTTTTAAAAAAAATAAGTAAG
Found at i:4221848 original size:22 final size:23
Alignment explanation
Indices: 4221794--4221848 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
4221784 GGTGTAAAGA
* *
4221794 TTTTTTAAAA-AATTAGGTAAGT
1 TTTTTTAAAATAAATAAGTAAGT
*
4221816 TTTTTAAAAATAAATAAGTAA-T
1 TTTTTTAAAATAAATAAGTAAGT
4221838 TTTTTTAAAAT
1 TTTTTTAAAAT
4221849 TTTATTATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (23 bp):
TTTTTTAAAATAAATAAGTAAGT
Found at i:4222306 original size:35 final size:35
Alignment explanation
Indices: 4222260--4222328 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
4222250 CTCGTTAAAG
4222260 GTTTGATTCTTCTGCATCCAATTGTTATTCTTATT
1 GTTTGATTCTTCTGCATCCAATTGTTATTCTTATT
4222295 GTTTGATTCTTCTGCATCCAATTGTTATTCTTAT
1 GTTTGATTCTTCTGCATCCAATTGTTATTCTTAT
4222329 ATTTTTCACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.54
Consensus pattern (35 bp):
GTTTGATTCTTCTGCATCCAATTGTTATTCTTATT
Found at i:4222585 original size:14 final size:16
Alignment explanation
Indices: 4222552--4222584 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4222542 GCCAGATCGA
4222552 TTGAACTTTTATTCTTT
1 TTGAA-TTTTATTCTTT
4222569 TTGAATTTTATT-TTT
1 TTGAATTTTATTCTTT
4222584 T
1 T
4222585 GTATTTAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 7 0.44
17 5 0.31
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (16 bp):
TTGAATTTTATTCTTT
Found at i:4231144 original size:2 final size:2
Alignment explanation
Indices: 4231137--4231169 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4231127 TGCGAATTTT
4231137 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
4231170 TTACACAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4240292 original size:2 final size:2
Alignment explanation
Indices: 4240285--4240309 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4240275 CTGAGGGGAT
4240285 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
4240310 TCCCTTTATT
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:4242601 original size:2 final size:2
Alignment explanation
Indices: 4242596--4242621 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4242586 AAGTTTTTTC
4242596 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
4242622 TGTATCCATG
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:4243380 original size:2 final size:2
Alignment explanation
Indices: 4243373--4243402 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4243363 ATTGATGGAC
4243373 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4243403 GTATGGGGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4245930 original size:17 final size:17
Alignment explanation
Indices: 4245910--4245942 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4245900 TTTTATTTTA
4245910 TATTTATTA-TTTTTAAT
1 TATTT-TTACTTTTTAAT
4245927 TATTTTTACTTTTTAA
1 TATTTTTACTTTTTAA
4245943 ATAATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
TATTTTTACTTTTTAAT
Found at i:4245956 original size:9 final size:10
Alignment explanation
Indices: 4245937--4245996 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
4245927 TATTTTTACT
*
4245937 TTTTAAATAA
1 TTTTAATTAA
4245947 TTTTAA-TAA
1 TTTTAATTAA
4245956 -TTTAATTAA
1 TTTTAATTAA
*
4245965 TATTAATTAA
1 TTTTAATTAA
*
4245975 TTAATAATATAA
1 TT-TTAAT-TAA
*
4245987 ATTTAATTAA
1 TTTTAATTAA
4245997 AAATATTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
8 5 0.12
9 6 0.15
10 18 0.44
11 8 0.20
12 4 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TTTTAATTAA
Found at i:4245959 original size:18 final size:19
Alignment explanation
Indices: 4245938--4246009 Score: 66
Period size: 18 Copynumber: 4.1 Consensus size: 19
4245928 ATTTTTACTT
*
4245938 TTTAAATAATTTTAA-TAA
1 TTTAAATAATATTAATTAA
*
4245956 TTTAATTAATATTAATTAA
1 TTTAAATAATATTAATTAA
*
4245975 -TT-AATAATATAAATTTAA
1 TTTAAATAATATTAA-TTAA
4245993 -TTAAA-AATATT-ATTAA
1 TTTAAATAATATTAATTAA
4246009 T
1 T
4246010 AATACAAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
16 4 0.09
17 10 0.22
18 26 0.58
19 5 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTAAATAATATTAATTAA
Found at i:4246636 original size:53 final size:53
Alignment explanation
Indices: 4246520--4246636 Score: 132
Period size: 53 Copynumber: 2.2 Consensus size: 53
4246510 CAAATATATT
* * * *
4246520 AAATA-TTTTTATTATATAAATAATTATGTATTTTATAATTAAAGTTAAATAA
1 AAATATTTTTTATTATATAAATAATAATGTATATTATAATCAAACTTAAATAA
* * *
4246572 AAATATTTTTTATTATATTAATAATAATTTATATTA-AATCAAACTT-ACTAA
1 AAATATTTTTTATTATATAAATAATAATGTATATTATAATCAAACTTAAATAA
4246623 CAAATATTCTTTTA
1 -AAATATT-TTTTA
4246637 ACTTAACAGG
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
51 4 0.07
52 20 0.36
53 31 0.56
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (53 bp):
AAATATTTTTTATTATATAAATAATAATGTATATTATAATCAAACTTAAATAA
Found at i:4247642 original size:16 final size:15
Alignment explanation
Indices: 4247614--4247653 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
4247604 TATTTGTAAA
4247614 TATAAATTTTAAAAT
1 TATAAATTTTAAAAT
4247629 TATAAATATTTAAAAT
1 TATAAAT-TTTAAAAT
*
4247645 TAAAAATTT
1 TATAAATTT
4247654 GTAGTCATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATAAATTTTAAAAT
Found at i:4249046 original size:3 final size:3
Alignment explanation
Indices: 4249038--4249081 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
4249028 CCAATCAAAT
4249038 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4249082 TGGGGATAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4251104 original size:1 final size:1
Alignment explanation
Indices: 4251100--4251136 Score: 56
Period size: 1 Copynumber: 37.0 Consensus size: 1
4251090 TGCTTTTTTG
* *
4251100 CCCCCTCCCTCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
4251137 AACCCCTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.95, G:0.00, T:0.05
Consensus pattern (1 bp):
C
Found at i:4253518 original size:24 final size:24
Alignment explanation
Indices: 4253491--4253572 Score: 75
Period size: 24 Copynumber: 3.6 Consensus size: 24
4253481 GCTTTAATTG
4253491 AAATTATAAATATATTTTTTATTT
1 AAATTATAAATATATTTTTTATTT
* * *
4253515 AAATTATAATTATA-ATTATATTTT
1 AAATTATAAATATATTTTTTA-TTT
**
4253539 AAATTAT-TTTATATTTTTTA--T
1 AAATTATAAATATATTTTTTATTT
4253560 -AATTATAAATATA
1 AAATTATAAATATA
4253573 ATAAATATTA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
20 6 0.13
21 5 0.11
23 9 0.19
24 27 0.57
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
AAATTATAAATATATTTTTTATTT
Found at i:4253583 original size:38 final size:40
Alignment explanation
Indices: 4253495--4253590 Score: 101
Period size: 38 Copynumber: 2.5 Consensus size: 40
4253485 TAATTGAAAT
* *
4253495 TATAAATA-TATTTTTTATTTAAATTATAATTATAATTATA
1 TATAAATATTATTTTATATTT-AATTATAATTATAAATATA
* * *
4253535 TTTTAA-ATTATTTTATATTT-TTTATAATTATAAATATA
1 TATAAATATTATTTTATATTTAATTATAATTATAAATATA
4253573 -ATAAATATTATTATTATA
1 TATAAATATTATT-TTATA
4253591 AATGTAAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
37 3 0.07
38 22 0.48
39 6 0.13
40 15 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (40 bp):
TATAAATATTATTTTATATTTAATTATAATTATAAATATA
Found at i:4253588 original size:24 final size:24
Alignment explanation
Indices: 4253556--4253603 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4253546 TTTATATTTT
*
4253556 TTATAATTATAAATATAATAAATA
1 TTATAATTATAAATATAAAAAATA
* *
4253580 TTATTATTATAAATGTAAAAAATA
1 TTATAATTATAAATATAAAAAATA
4253604 AAAAAATTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
TTATAATTATAAATATAAAAAATA
Found at i:4253849 original size:21 final size:21
Alignment explanation
Indices: 4253817--4253901 Score: 61
Period size: 23 Copynumber: 4.0 Consensus size: 21
4253807 ATATGAATAT
*
4253817 TATATAAA-AAAATAATTAAAA
1 TATA-AAATAAAATAATCAAAA
4253838 TATAAAATAAAATACATACAAAA
1 TATAAAATAAAATA-AT-CAAAA
* * *
4253861 TAAAAAATAATATAAAT-ATAA
1 TATAAAATAAAAT-AATCAAAA
*
4253882 T-CAAAAT-AAATAATCAAAA
1 TATAAAATAAAATAATCAAAA
4253901 T
1 T
4253902 TTTATATAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
18 3 0.06
19 7 0.13
20 8 0.15
21 14 0.27
22 2 0.04
23 17 0.33
24 1 0.02
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (21 bp):
TATAAAATAAAATAATCAAAA
Found at i:4253875 original size:28 final size:27
Alignment explanation
Indices: 4253833--4253901 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
4253823 AAAAAATAAT
*
4253833 TAAAATATAAAATAAA-ATACATACAAAA
1 TAAAAAATAAAATAAATATA-AT-CAAAA
*
4253861 TAAAAAATAATATAAATATAATCAAAA
1 TAAAAAATAAAATAAATATAATCAAAA
*
4253888 TAAATAATCAAAAT
1 TAAAAAAT-AAAAT
4253902 TTTATATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 12 0.34
28 20 0.57
29 3 0.09
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.25
Consensus pattern (27 bp):
TAAAAAATAAAATAAATATAATCAAAA
Found at i:4254532 original size:2 final size:2
Alignment explanation
Indices: 4254525--4254552 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4254515 TTATAAGCGG
4254525 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4254553 TGATATTCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4260406 original size:26 final size:27
Alignment explanation
Indices: 4260371--4260442 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
4260361 AATTTTTAAT
4260371 TTAATTATA-TAAATAAAAATATTATTA
1 TTAATTATATTAAATAAAAAT-TTATTA
*
4260398 TTAA-TATATTAAATATAAATTTATTA
1 TTAATTATATTAAATAAAAATTTATTA
* *
4260424 TTTTATTACATTAAATAAA
1 -TTAATTATATTAAATAAA
4260443 GGTTTATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
26 10 0.26
27 17 0.45
28 11 0.29
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (27 bp):
TTAATTATATTAAATAAAAATTTATTA
Found at i:4268915 original size:25 final size:25
Alignment explanation
Indices: 4268866--4268915 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
4268856 GGATATAAAT
** *
4268866 ATATTATAAAAAATATTAAATATAA
1 ATATTATAAAAAATAAAAAAAATAA
4268891 ATATTATAAAAAATAAAAAAAATAA
1 ATATTATAAAAAATAAAAAAAATAA
4268916 CGTAGGATGC
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (25 bp):
ATATTATAAAAAATAAAAAAAATAA
Found at i:4269687 original size:15 final size:15
Alignment explanation
Indices: 4269667--4269713 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
4269657 TTGATCAATT
4269667 AATTTAATAATATTA
1 AATTTAATAATATTA
*
4269682 AATTTAATAAAACTTA
1 AATTTAATAATA-TTA
*
4269698 TA-TTAATAATA-TA
1 AATTTAATAATATTA
4269711 AAT
1 AAT
4269714 AAATATGACA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
13 3 0.12
15 19 0.73
16 4 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTTAATAATATTA
Found at i:4270040 original size:2 final size:2
Alignment explanation
Indices: 4270033--4270057 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4270023 CATAAAAATA
4270033 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
4270058 AAAGGAATTT
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:4271685 original size:3 final size:3
Alignment explanation
Indices: 4271679--4271725 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
4271669 CGGTGCCGCC
*
4271679 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GGT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
4271726 GCTGGAGGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:4272083 original size:2 final size:2
Alignment explanation
Indices: 4272070--4272123 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
4272060 TTGTTGCTTC
*
4272070 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4272112 AT AT AT AT AT AT
1 AT AT AT AT AT AT
4272124 TCCTGGAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4274140 original size:2 final size:2
Alignment explanation
Indices: 4274133--4274158 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4274123 GAATGATGAT
4274133 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
4274159 AGCATGCGCT
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:4276565 original size:22 final size:20
Alignment explanation
Indices: 4276523--4276565 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
4276513 AAAATAATAT
* *
4276523 AATAAAAAATATATTTTTTA
1 AATAAAAAATATAATTCTTA
4276543 AATAAAAAATAAATAATTCTTA
1 AATAAAAAAT--ATAATTCTTA
4276565 A
1 A
4276566 TCAATGCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 10 0.53
22 9 0.47
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
AATAAAAAATATAATTCTTA
Found at i:4277281 original size:2 final size:2
Alignment explanation
Indices: 4277270--4277308 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
4277260 TAACCTTCAC
*
4277270 TA TA -A TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4277309 GCTTGGCCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4277502 original size:20 final size:19
Alignment explanation
Indices: 4277477--4277577 Score: 63
Period size: 18 Copynumber: 5.4 Consensus size: 19
4277467 ATTATAATAT
4277477 AATATAATAAAAAATATT-A
1 AATATAAT-AAAAATATTAA
4277496 AA-AT-ATAAAAATATTAA
1 AATATAATAAAAATATTAA
* * *
4277513 AATTTATATAAAATTTTTTTAA
1 AATATA-ATAAAA--ATATTAA
4277535 AATAT-ATAAAAATA-TATA
1 AATATAATAAAAATATTA-A
* *
4277553 AATAT-ATAAATAT-TTTA
1 AATATAATAAAAATATTAA
4277570 AATATAAT
1 AATATAAT
4277578 TAATTAATTA
Statistics
Matches: 65, Mismatches: 8, Indels: 19
0.71 0.09 0.21
Matches are distributed among these distances:
16 9 0.14
17 13 0.20
18 20 0.31
19 2 0.03
20 12 0.18
22 9 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AATATAATAAAAATATTAA
Found at i:4277514 original size:25 final size:26
Alignment explanation
Indices: 4277448--4277515 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 26
4277438 CATTATTAGG
*
4277448 TAATCAAATATAAAAAATAATTATAATA
1 TAAT-AAATAT-AAAAATAATTAAAATA
4277476 TAATATAATA-AAAAAT-ATTAAAATA
1 TAATA-AATATAAAAATAATTAAAATA
*
4277501 TAA-AAATATTAAAAT
1 TAATAAATATAAAAAT
4277516 TTATATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
23 4 0.11
24 6 0.17
25 11 0.31
26 6 0.17
27 1 0.03
28 8 0.22
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (26 bp):
TAATAAATATAAAAATAATTAAAATA
Found at i:4277548 original size:10 final size:10
Alignment explanation
Indices: 4277453--4277560 Score: 64
Period size: 10 Copynumber: 10.7 Consensus size: 10
4277443 TTAGGTAATC
4277453 AAATATA-AA
1 AAATATATAA
4277462 AAATAATTATAA
1 AAAT-A-TATAA
4277474 TATAATATAATAA
1 -A-AATAT-ATAA
*
4277487 AAA-ATAT-T
1 AAATATATAA
4277495 AAA-ATATAA
1 AAATATATAA
4277504 AAATAT-TAA
1 AAATATATAA
*
4277513 AATTTATATAA
1 AA-ATATATAA
* * * *
4277524 AATTTTTTTA
1 AAATATATAA
4277534 AAATATATAA
1 AAATATATAA
4277544 AAATATATAA
1 AAATATATAA
*
4277554 ATATATA
1 AAATATA
4277561 AATATTTTAA
Statistics
Matches: 78, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
8 7 0.09
9 14 0.18
10 35 0.45
11 9 0.12
12 4 0.05
13 6 0.08
14 3 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
AAATATATAA
Found at i:4279322 original size:29 final size:30
Alignment explanation
Indices: 4279275--4279339 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
4279265 AAAAGTAAAT
*
4279275 AAATTAAAATACTAAATTTA-ATCATATAA
1 AAATTAAAATACTAAATTTATATAATATAA
* **
4279304 AAATTAAAATATTCTATTTATTATAATATAA
1 AAATTAAAATACTAAATTTA-TATAATATAA
4279335 AAATT
1 AAATT
4279340 GTTAGTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 17 0.57
31 13 0.43
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (30 bp):
AAATTAAAATACTAAATTTATATAATATAA
Found at i:4279681 original size:28 final size:29
Alignment explanation
Indices: 4279648--4279709 Score: 83
Period size: 28 Copynumber: 2.1 Consensus size: 29
4279638 ATAATAAAAA
4279648 AATATTTTAATATT-ATATTATTAAA-TTT
1 AATATTTTAAT-TTAATATTATTAAATTTT
*
4279676 AATATTTTAATTTCAATATTTTTAAATTTT
1 AATATTTTAATTT-AATATTATTAAATTTT
4279706 AATA
1 AATA
4279710 AATAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 2 0.07
28 11 0.37
29 10 0.33
30 7 0.23
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (29 bp):
AATATTTTAATTTAATATTATTAAATTTT
Found at i:4280732 original size:17 final size:18
Alignment explanation
Indices: 4280710--4280744 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4280700 GTAATCAATA
*
4280710 AAATTTTTAAA-AAATTT
1 AAATTTTAAAATAAATTT
4280727 AAATTTTAAAATAAATTT
1 AAATTTTAAAATAAATTT
4280745 TTTAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATTTTAAAATAAATTT
Found at i:4287998 original size:15 final size:14
Alignment explanation
Indices: 4287974--4288022 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
4287964 CTTATTTTTT
4287974 TATTTATATTATAA
1 TATTTATATTATAA
*
4287988 TATTATATATTATAT
1 TATT-TATATTATAA
* *
4288003 TTTTTATATGATAA
1 TATTTATATTATAA
*
4288017 AATTTA
1 TATTTA
4288023 AAATTAATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TATTTATATTATAA
Found at i:4289550 original size:20 final size:21
Alignment explanation
Indices: 4289522--4289566 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
4289512 ATAACAATTA
*
4289522 AATACTTAATTT-T-TTAATAT
1 AATAATTAATTTATATTAA-AT
4289542 AATAATTAATTTATATTAAAT
1 AATAATTAATTTATATTAAAT
4289563 AATA
1 AATA
4289567 TGTTACATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 7 0.32
22 4 0.18
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
AATAATTAATTTATATTAAAT
Found at i:4290827 original size:28 final size:27
Alignment explanation
Indices: 4290784--4290837 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
4290774 ATATTAAGGG
* *
4290784 TTTATTTAATATAAATTTAAATTTAAA
1 TTTATTTAATATAAATTAAAAATTAAA
*
4290811 TTTATTTTGATATAAATTAAAAATTAA
1 TTTA-TTTAATATAAATTAAAAATTAA
4290838 TGATATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (27 bp):
TTTATTTAATATAAATTAAAAATTAAA
Found at i:4291431 original size:27 final size:28
Alignment explanation
Indices: 4291401--4291463 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
4291391 TATTTTTATG
*
4291401 TATTATATTTAAAGT-AATATGT-ATTTA
1 TATTATATTTAAA-TAAATATATAATTTA
* *
4291428 TATTA-ATTTTAATAAATTTATAATTTA
1 TATTATATTTAAATAAATATATAATTTA
4291455 TATTATATT
1 TATTATATT
4291464 AATTTTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 1 0.03
26 11 0.37
27 15 0.50
28 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (28 bp):
TATTATATTTAAATAAATATATAATTTA
Found at i:4291448 original size:20 final size:18
Alignment explanation
Indices: 4291425--4291493 Score: 58
Period size: 20 Copynumber: 3.9 Consensus size: 18
4291415 TAATATGTAT
4291425 TTATATTAATTTTAATAAA
1 TTATATTAATTTTAAT-AA
4291444 TT-TA-TAA-TTT-AT-A
1 TTATATTAATTTTAATAA
*
4291457 TTATATTAATTTTTATATAT
1 TTATATTAA-TTTTA-ATAA
4291477 TTATATTAAATTTTAAT
1 TTATATT-AATTTTAAT
4291494 TATAATATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 16
0.71 0.02 0.28
Matches are distributed among these distances:
13 3 0.07
14 2 0.05
15 5 0.12
16 3 0.07
17 6 0.15
18 2 0.05
19 6 0.15
20 12 0.29
21 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATATTAATTTTAATAA
Found at i:4291473 original size:66 final size:68
Alignment explanation
Indices: 4291341--4291474 Score: 150
Period size: 66 Copynumber: 2.0 Consensus size: 68
4291331 GCTTAAATTA
* * * * *
4291341 AAAGTAATATGATATATTTGATATTAAATTTTTTAATTTTTTAATTTATATATTTTTATGTATTA
1 AAAGTAATATG--ATATTTGATATTAAATTTTATAAATTTATAATTTATATATATTAATGTATTA
4291406 TATTT
64 TATTT
*
4291411 AAAGTAATATG-TATTT-ATATT-AATTTTAATAAATTTATAATTTATATTATATTAAT-TTTTA
1 AAAGTAATATGATATTTGATATTAAATTTT-ATAAATTTATAATTTATA-TATATTAATGTATTA
4291472 TAT
64 TAT
4291475 ATTTATATTA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
65 6 0.11
66 27 0.48
67 12 0.21
70 11 0.20
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (68 bp):
AAAGTAATATGATATTTGATATTAAATTTTATAAATTTATAATTTATATATATTAATGTATTATA
TTT
Found at i:4291501 original size:27 final size:26
Alignment explanation
Indices: 4291422--4291505 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 26
4291412 AAGTAATATG
4291422 TATTTATATTAATTTTAA-TA-AATTTA
1 TATTTATATTAATTTTAATTATAA--TA
* * *
4291448 TAATTTATATT-ATATTAATTTTTATA
1 T-ATTTATATTAATTTTAATTATAATA
4291474 TATTTATATTAAATTTTAATTATAATA
1 TATTTATATT-AATTTTAATTATAATA
4291501 TATTT
1 TATTT
4291506 TTTTTTCGTG
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
25 9 0.19
26 10 0.21
27 27 0.57
28 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TATTTATATTAATTTTAATTATAATA
Found at i:4292873 original size:19 final size:20
Alignment explanation
Indices: 4292832--4292873 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
4292822 TTATTTGAGT
*
4292832 TTAAATATTAATTTTTATAA
1 TTAAATATTAATTTTAATAA
*
4292852 TTAAA-ATTAATTTTAATTA
1 TTAAATATTAATTTTAATAA
4292871 TTA
1 TTA
4292874 TTTAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAAATATTAATTTTAATAA
Found at i:4292930 original size:29 final size:28
Alignment explanation
Indices: 4292864--4292944 Score: 69
Period size: 29 Copynumber: 2.9 Consensus size: 28
4292854 AAAATTAATT
*
4292864 TTAATTATT--ATTTAAATATTAAAATA
1 TTAATTATTAAATTTAAATATAAAAATA
** *
4292890 TTTTTTATTTAAATTTAATTATAAAAATA
1 TTAATTA-TTAAATTTAAATATAAAAATA
* *
4292919 TATAATTATT-AATATAAAAATAAAAA
1 T-TAATTATTAAATTTAAATATAAAAA
4292945 ATTTAATATT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
26 5 0.12
27 2 0.05
28 13 0.31
29 18 0.43
30 4 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TTAATTATTAAATTTAAATATAAAAATA
Done.