Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold258
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: 5730937
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 25
Found at i:617524 original size:20 final size:19
Alignment explanation
Indices: 617483--617525 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
617473 ATCTTTTGCA
617483 AAATACTTGTTCTTCACTTC
1 AAATACTTGTTCTTCAC-TC
617503 AAATAACTTCGTTCTTCA-TC
1 AAAT-ACTT-GTTCTTCACTC
617523 AAA
1 AAA
617526 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (19 bp):
AAATACTTGTTCTTCACTC
Found at i:619867 original size:20 final size:20
Alignment explanation
Indices: 619844--619916 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
619834 ACAATTCAAA
619844 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
619864 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
619885 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
619905 GTATCGATACAT
1 GTATCGATACAT
619917 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:619888 original size:21 final size:21
Alignment explanation
Indices: 619862--619937 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
619852 ACATGTTGCA
619862 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
619883 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
619903 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
619924 ATGTATCGATACAT
1 ATGTATCGATACAT
619938 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:619895 original size:41 final size:41
Alignment explanation
Indices: 619844--619937 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
619834 ACAATTCAAA
*
619844 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
619885 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
619926 GTATCGATACAT
1 GTATCGATACAT
619938 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:619994 original size:13 final size:13
Alignment explanation
Indices: 619976--620001 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
619966 TACAGCAAGT
619976 ATGTATCGATACA
1 ATGTATCGATACA
619989 ATGTATCGATACA
1 ATGTATCGATACA
620002 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:620901 original size:14 final size:16
Alignment explanation
Indices: 620871--620903 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
620861 ATATGCACAT
620871 CATATAAATACATATA
1 CATATAAATACATATA
620887 CATATAAA-A-ATATA
1 CATATAAATACATATA
620901 CAT
1 CAT
620904 GAAATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 1 0.06
16 8 0.47
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (16 bp):
CATATAAATACATATA
Found at i:621706 original size:11 final size:11
Alignment explanation
Indices: 621669--621707 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
621659 AAATATTTAA
621669 AATATAACATG
1 AATATAACATG
* *
621680 AAAATAATATG
1 AATATAACATG
*
621691 TATATAACATG
1 AATATAACATG
621702 AATATA
1 AATATA
621708 TATACATATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (11 bp):
AATATAACATG
Found at i:621750 original size:18 final size:20
Alignment explanation
Indices: 621727--621768 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
621717 AAAAATATAC
*
621727 ATAAAAAA-TTAT-CAATAT
1 ATAAAAAATTTATACAAAAT
621745 ATAAAAAATTTATACAAAAT
1 ATAAAAAATTTATACAAAAT
621765 ATAA
1 ATAA
621769 TATTTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 4 0.19
20 9 0.43
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAAAAAATTTATACAAAAT
Found at i:621806 original size:29 final size:28
Alignment explanation
Indices: 621731--621807 Score: 68
Period size: 29 Copynumber: 2.6 Consensus size: 28
621721 ATATACATAA
**
621731 AAAATTATCAATATATAAA-AAATTTATAC
1 AAAA-TAT-AATATATAAATAAAAATATAC
*
621760 AAAATATAATATTTTAAATAAAAATA-AC
1 AAAATATAATA-TATAAATAAAAATATAC
621788 ATAAATATAAATATATAAAT
1 A-AAATAT-AATATATAAAT
621808 TTTTTTCTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
27 4 0.10
28 11 0.28
29 21 0.52
30 4 0.10
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (28 bp):
AAAATATAATATATAAATAAAAATATAC
Found at i:621820 original size:4 final size:4
Alignment explanation
Indices: 621811--621865 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
621801 TATAAATTTT
* * *
621811 TTTC TTTC TTTC TTTTT TTTC TTT- TTT- TCTC TTTC TTTTT TTTC TTTC
1 TTTC TTTC TTTC -TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTTC TTTC
621859 TTTC TTT
1 TTTC TTT
621866 TTCGGCTGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
3 5 0.12
4 31 0.74
5 6 0.14
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (4 bp):
TTTC
Found at i:621829 original size:17 final size:17
Alignment explanation
Indices: 621807--621868 Score: 79
Period size: 17 Copynumber: 3.5 Consensus size: 17
621797 AATATATAAA
621807 TTTTTTTCTTTCTTTCT
1 TTTTTTTCTTTCTTTCT
*
621824 TTTTTTTCTTTTTTTCT
1 TTTTTTTCTTTCTTTCT
*
621841 CTTTCTTTTTTTTCTTTCT
1 -TTT-TTTTCTTTCTTTCT
621860 TTCTTTTTC
1 TT-TTTTTC
621869 GGCTGAACCC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
17 16 0.42
18 9 0.24
19 13 0.34
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTCTTTCTTTCT
Found at i:621835 original size:23 final size:23
Alignment explanation
Indices: 621809--621865 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
621799 TATATAAATT
621809 TTTTTCTTTCTTTCTTTTTTTTC
1 TTTTTCTTTCTTTCTTTTTTTTC
621832 TTTTT-TTCTCTTTCTTTTTTTTC
1 TTTTTCTT-TCTTTCTTTTTTTTC
621855 --TTTCTTTCTTT
1 TTTTTCTTTCTTT
621866 TTCGGCTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
21 8 0.25
22 4 0.12
23 20 0.62
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTTCTTTCTTTCTTTTTTTTC
Found at i:622768 original size:2 final size:2
Alignment explanation
Indices: 622763--622798 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
622753 CATGTGTGTG
622763 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
622799 CTATGTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:622864 original size:2 final size:2
Alignment explanation
Indices: 622857--622890 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
622847 AAGGACACTA
622857 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
622891 GAACTTATTC
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:622977 original size:2 final size:2
Alignment explanation
Indices: 622972--623008 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
622962 CATGTGTGTG
622972 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 T
623009 CCTAATATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:623666 original size:7 final size:7
Alignment explanation
Indices: 623654--623678 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
623644 TTATTTGAAT
623654 ATTTAAA
1 ATTTAAA
623661 ATTTAAA
1 ATTTAAA
623668 ATTTAAA
1 ATTTAAA
623675 ATTT
1 ATTT
623679 TTTATATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
ATTTAAA
Found at i:627838 original size:12 final size:12
Alignment explanation
Indices: 627821--627845 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
627811 CAAATTAACA
627821 AGCCTCGGGGAC
1 AGCCTCGGGGAC
627833 AGCCTCGGGGAC
1 AGCCTCGGGGAC
627845 A
1 A
627846 CAGATGCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.32, G:0.40, T:0.08
Consensus pattern (12 bp):
AGCCTCGGGGAC
Found at i:650568 original size:38 final size:38
Alignment explanation
Indices: 650526--650602 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
650516 CATTCTGAGC
* * * **
650526 TCTCAGTTTTGCTTTCTGATGTAATGGTGGTTATTTGA
1 TCTCAATTTTACTTACTGATGTAAACGTGGTTATTTGA
650564 TCTCAATTTTACTTACTGATGTAAACGTGGTTATTTGA
1 TCTCAATTTTACTTACTGATGTAAACGTGGTTATTTGA
650602 T
1 T
650603 TTTGGAGCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (38 bp):
TCTCAATTTTACTTACTGATGTAAACGTGGTTATTTGA
Found at i:653001 original size:20 final size:20
Alignment explanation
Indices: 652962--653002 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
652952 AATATTAACC
** *
652962 AAATATATATTATTATTAAA
1 AAATATATATTAAGAATAAA
652982 AAATATATATTAAGAATAAA
1 AAATATATATTAAGAATAAA
653002 A
1 A
653003 TAAAATTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAATATATATTAAGAATAAA
Found at i:653034 original size:21 final size:20
Alignment explanation
Indices: 653010--653048 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
653000 AAATAAAATT
*
653010 TTAAATTATTTAAATTAAAAA
1 TTAAAATATTT-AATTAAAAA
653031 TTAAAATATTTAATTAAA
1 TTAAAATATTTAATTAAA
653049 TTTATTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAAAATATTTAATTAAAAA
Found at i:653364 original size:2 final size:2
Alignment explanation
Indices: 653357--653387 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
653347 CTTGCTTTTC
653357 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
653388 GAAGACTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:669788 original size:2 final size:2
Alignment explanation
Indices: 669781--669808 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
669771 AATCTGTTTC
669781 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
669809 TCATGTTTTA
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:672725 original size:2 final size:2
Alignment explanation
Indices: 672720--672746 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
672710 TGTGTGTGTG
672720 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 T
672747 TAGGCTGGGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:678119 original size:15 final size:15
Alignment explanation
Indices: 678096--678125 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
678086 TTAGCTGTCG
678096 ATTTAATTAATTAAA
1 ATTTAATTAATTAAA
*
678111 ATTTTATTAATTAAA
1 ATTTAATTAATTAAA
678126 TTAATCAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTAATTAATTAAA
Found at i:679842 original size:29 final size:31
Alignment explanation
Indices: 679804--679867 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
679794 GTGAAAAAAA
*
679804 AATATTTTAATCATTATATTATT-AAA-TTC
1 AATATGTTAATCATTATATTATTAAAATTTC
* *
679833 AATATGTTAATCTTTATATTTTTAAAATTTC
1 AATATGTTAATCATTATATTATTAAAATTTC
679864 AATA
1 AATA
679868 AATAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 20 0.67
30 3 0.10
31 7 0.23
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.52
Consensus pattern (31 bp):
AATATGTTAATCATTATATTATTAAAATTTC
Found at i:683232 original size:2 final size:2
Alignment explanation
Indices: 683225--683261 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
683215 TTTTCTGCCA
683225 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
683262 CCCCCCTCTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:685830 original size:17 final size:17
Alignment explanation
Indices: 685808--685840 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
685798 TTCATCATTG
*
685808 ATATATATTTTTAATTT
1 ATATATATATTTAATTT
685825 ATATATATATTTAATT
1 ATATATATATTTAATT
685841 ATTTTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATATATATATTTAATTT
Found at i:685862 original size:22 final size:22
Alignment explanation
Indices: 685835--685888 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
685825 ATATATATAT
* *
685835 TTAATTATTTTATAATTTAAAA
1 TTAATTATTTTAAAATTCAAAA
*
685857 TTAATT-TCTTTAAAATTCATAA
1 TTAATTAT-TTTAAAATTCAAAA
685879 -TAATTATTTT
1 TTAATTATTTT
685889 TTAAAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATTTTAAAATTCAAAA
Found at i:692424 original size:2 final size:2
Alignment explanation
Indices: 692417--692441 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
692407 AGAAACGAAA
692417 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
692442 CCAGTAGATT
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:693002 original size:2 final size:2
Alignment explanation
Indices: 692990--693027 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
692980 TAGAAAAGAC
692990 AG AG AG A- AG AG AG A- AG AG AG A- 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 AG AG AG AG A
693028 AATGCTACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:693002 original size:7 final size:7
Alignment explanation
Indices: 692990--693025 Score: 63
Period size: 7 Copynumber: 5.0 Consensus size: 7
692980 TAGAAAAGAC
692990 AGAGAGA
1 AGAGAGA
692997 AGAGAGA
1 AGAGAGA
693004 AGAGAGA
1 AGAGAGA
693011 AGAGAGA
1 AGAGAGA
693018 GAGAGAGA
1 -AGAGAGA
693026 GAAATGCTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 21 0.75
8 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (7 bp):
AGAGAGA
Found at i:701921 original size:3 final size:3
Alignment explanation
Indices: 701908--701959 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
701898 CGATTAGGAA
701908 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
701955 AAT AA
1 AAT AA
701960 AAAGAAGGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:702633 original size:17 final size:17
Alignment explanation
Indices: 702613--702654 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
702603 TAGATTTGAT
702613 AATTTATTTA-ATTATTA
1 AATTTATTTATATTA-TA
702630 AATTTAAATTTATATTATA
1 AATTT--ATTTATATTATA
702649 AATTTA
1 AATTTA
702655 AATATTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 6 0.27
19 12 0.55
20 4 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AATTTATTTATATTATA
Found at i:702650 original size:13 final size:13
Alignment explanation
Indices: 702634--702672 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
702624 TTATTAAATT
702634 TAAATTTATATTA
1 TAAATTTATATTA
702647 TAAATTTAAATATTA
1 TAAATTT--ATATTA
*
702662 TATATTTATAT
1 TAAATTTATAT
702673 ATTAATCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 11 0.48
15 12 0.52
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TAAATTTATATTA
Found at i:702659 original size:15 final size:15
Alignment explanation
Indices: 702641--702676 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
702631 ATTTAAATTT
702641 ATATTATAAATTTAA
1 ATATTATAAATTTAA
* *
702656 ATATTATATATTTAT
1 ATATTATAAATTTAA
702671 ATATTA
1 ATATTA
702677 ATCTAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTATAAATTTAA
Found at i:702662 original size:20 final size:20
Alignment explanation
Indices: 702618--702664 Score: 71
Period size: 19 Copynumber: 2.4 Consensus size: 20
702608 TTGATAATTT
702618 ATTTA-ATTATTAAATTTAA
1 ATTTATATTATTAAATTTAA
702637 ATTTATATTA-TAAATTTAA
1 ATTTATATTATTAAATTTAA
702656 ATATTATAT
1 AT-TTATAT
702665 ATTTATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTATATTATTAAATTTAA
Found at i:705436 original size:3 final size:3
Alignment explanation
Indices: 705428--705471 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
705418 ACGGAGGGAT
705428 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
705472 GACGCGATGC
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:711975 original size:2 final size:2
Alignment explanation
Indices: 711968--712014 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
711958 TCCTCTTAAA
*
711968 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
712010 AT AT A
1 AT AT A
712015 AACCCTGAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:716693 original size:12 final size:12
Alignment explanation
Indices: 716663--716712 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
716653 TGATATATAA
716663 TTATATTCATATAT
1 TTATATT-ATAT-T
716677 TTATAATT-TATT
1 TTAT-ATTATATT
716689 TTATATTATATT
1 TTATATTATATT
716701 TTA-ATTA-ATT
1 TTATATTATATT
716711 TT
1 TT
716713 TTGCATCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 5 0.15
11 7 0.21
12 12 0.35
13 3 0.09
14 4 0.12
15 3 0.09
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (12 bp):
TTATATTATATT
Found at i:716707 original size:11 final size:11
Alignment explanation
Indices: 716672--716712 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
716662 ATTATATTCA
716672 TATATTTATAAT
1 TATATTT-TAAT
716684 T-TATTTTATAT
1 TATATTTTA-AT
716695 TATATTTTAAT
1 TATATTTTAAT
716706 TA-ATTTT
1 TATATTTT
716713 TTGCATCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 12 0.44
12 8 0.30
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TATATTTTAAT
Found at i:717509 original size:20 final size:21
Alignment explanation
Indices: 717466--717519 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
717456 TAGCACTCCT
* *
717466 TTAAAAATTTAAATAATATAA
1 TTAAAAATTAAAATAAAATAA
*
717487 TTAAAAA-TAAAATAAAATTA
1 TTAAAAATTAAAATAAAATAA
*
717507 TT-AATATTAAAAT
1 TTAAAAATTAAAAT
717520 TTAAAATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 3 0.11
20 18 0.64
21 7 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TTAAAAATTAAAATAAAATAA
Found at i:718164 original size:5 final size:5
Alignment explanation
Indices: 718154--718182 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
718144 TAGAAAAGCC
718154 ATCTG ATCTG ATCTG ATCTG ATCTG ATCT
1 ATCTG ATCTG ATCTG ATCTG ATCTG ATCT
718183 TCCCCCAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (5 bp):
ATCTG
Found at i:719913 original size:16 final size:15
Alignment explanation
Indices: 719892--719930 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
719882 TAAAATTTTT
719892 AAATTTTATAAATAAA
1 AAATTTTAT-AATAAA
* *
719908 AAATTTAATATTAAA
1 AAATTTTATAATAAA
719923 AAATTTTA
1 AAATTTTA
719931 CTCTCATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATTTTATAATAAA
Found at i:719960 original size:15 final size:16
Alignment explanation
Indices: 719939--719979 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
719929 TACTCTCATA
719939 ATAAATTAATTTAATT
1 ATAAATTAATTTAATT
*
719955 -TAAATTAAATTAATT
1 ATAAATTAATTTAATT
*
719970 AAAAATTAAT
1 ATAAATTAAT
719980 AAACTTTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAAATTAATTTAATT
Found at i:720020 original size:5 final size:5
Alignment explanation
Indices: 720010--720045 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
720000 TAAAATTTTG
**
720010 ATAAA ATAAA ACCAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
720046 GTTGTTCACG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.17
Consensus pattern (5 bp):
ATAAA
Found at i:720385 original size:73 final size:75
Alignment explanation
Indices: 720301--720439 Score: 203
Period size: 74 Copynumber: 1.9 Consensus size: 75
720291 ATTGCAGCTT
* * *
720301 TCAAAAATGTGACTTT-AGACATTTTGAATTAGA-TTCTGTTGGTT-AATAGTGATGACTTTAGA
1 TCAAAAATGTGACTTTAAGACATTTTGAATTAGACTT-TGTTGGTTAAATACTGATAACTTGAGA
720363 ATGACTGGTGA
65 ATGACTGGTGA
* *
720374 TCAAAATTGTGACTTTAAGACATTTTGAATTAGACTTTGTTTGTTAAATACTGATAACTTGAGAA
1 TCAAAAATGTGACTTTAAGACATTTTGAATTAGACTTTGTTGGTTAAATACTGATAACTTGAGAA
720439 T
66 T
720440 TGAGCTGCAT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
73 15 0.26
74 24 0.41
75 19 0.33
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (75 bp):
TCAAAAATGTGACTTTAAGACATTTTGAATTAGACTTTGTTGGTTAAATACTGATAACTTGAGAA
TGACTGGTGA
Found at i:721285 original size:3 final size:3
Alignment explanation
Indices: 721279--721308 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
721269 GTATTTGTGA
*
721279 ATT ATT ATT ATG ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
721309 TGCATATGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:726265 original size:22 final size:22
Alignment explanation
Indices: 726248--726291 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
726238 GTAAGGACAT
*
726248 CAAACTTTAGTTTAAAGGGAAA
1 CAAACCTTAGTTTAAAGGGAAA
*
726270 CAAACCTTAGTTTATAGGGAAA
1 CAAACCTTAGTTTAAAGGGAAA
726292 ATGCAGGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.27
Consensus pattern (22 bp):
CAAACCTTAGTTTAAAGGGAAA
Found at i:726683 original size:18 final size:19
Alignment explanation
Indices: 726646--726691 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
726636 ATAATAAATA
726646 ATAATAT-TTAAATATAAT
1 ATAATATATTAAATATAAT
*
726664 ATGATATATTAAATAT-AT
1 ATAATATATTAAATATAAT
726682 ATAATATATT
1 ATAATATATT
726692 TTTGTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
ATAATATATTAAATATAAT
Found at i:738949 original size:2 final size:2
Alignment explanation
Indices: 738942--738978 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
738932 AAAAACTTTC
*
738942 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
738979 CAAACACATA
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:750296 original size:45 final size:46
Alignment explanation
Indices: 750234--750335 Score: 145
Period size: 47 Copynumber: 2.2 Consensus size: 46
750224 ACATGATCTC
* *
750234 TCAAATGGCAACTTTTTTTTATAA-ATTTTTTT-GGTGTATAACAT
1 TCAAAAGGCAACTTTTTTTTATAATATTTTTTTCGGTGTATAAAAT
* *
750278 TCAAAAGGCAACCTTTTTTTTATAATTTTTTTTTCTGTGTATAAAAT
1 TCAAAAGGCAA-CTTTTTTTTATAATATTTTTTTCGGTGTATAAAAT
750325 TCAAAAGGCAA
1 TCAAAAGGCAA
750336 GTTAACTGCA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
44 10 0.20
45 13 0.25
46 7 0.14
47 21 0.41
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (46 bp):
TCAAAAGGCAACTTTTTTTTATAATATTTTTTTCGGTGTATAAAAT
Found at i:757082 original size:31 final size:30
Alignment explanation
Indices: 757004--757084 Score: 74
Period size: 31 Copynumber: 2.7 Consensus size: 30
756994 TATTCAAAAT
* *
757004 TTTAAATAAAATTTTAACTTTTAATTTATA
1 TTTAAATAAAATATTAATTTTTAATTTATA
* * * *
757034 CTAAAAT-AATTATTTAATTATTTAATTTTTA
1 TTTAAATAAAATA-TTAATT-TTTAATTTATA
*
757065 TTTAAATAAACTATTAATTT
1 TTTAAATAAAATATTAATTT
757085 AAATTTCAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
29 3 0.08
30 11 0.28
31 21 0.54
32 4 0.10
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (30 bp):
TTTAAATAAAATATTAATTTTTAATTTATA
Found at i:760734 original size:2 final size:2
Alignment explanation
Indices: 760721--760757 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
760711 AAAGAATCTC
*
760721 GT GT GT GA GT GT GT GT -T GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
760758 ATATATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.03, C:0.00, G:0.49, T:0.49
Consensus pattern (2 bp):
GT
Found at i:760880 original size:2 final size:2
Alignment explanation
Indices: 760875--760908 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
760865 TGTCTCACTG
760875 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
760909 AAGAAATTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:761228 original size:14 final size:14
Alignment explanation
Indices: 761204--761246 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
761194 TAGAGGTGTC
*
761204 TTTGTTTTTTTATT
1 TTTGATTTTTTATT
*
761218 ATTT-ATTTTTTGTT
1 -TTTGATTTTTTATT
761232 TTTGATTTTTTATT
1 TTTGATTTTTTATT
761246 T
1 T
761247 ATAAAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 3 0.12
14 18 0.75
15 3 0.12
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.81
Consensus pattern (14 bp):
TTTGATTTTTTATT
Found at i:761243 original size:21 final size:22
Alignment explanation
Indices: 761204--761246 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
761194 TAGAGGTGTC
*
761204 TTTGTTTTTTTATTATTTATTT
1 TTTGTTTTTTGATTATTTATTT
*
761226 TTTG-TTTTTGATTTTTTATTT
1 TTTGTTTTTTGATTATTTATTT
761247 ATAAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.81
Consensus pattern (22 bp):
TTTGTTTTTTGATTATTTATTT
Found at i:762849 original size:2 final size:2
Alignment explanation
Indices: 762842--762866 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
762832 CCAATACAAT
762842 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
762867 CATTTAAAAT
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:763064 original size:2 final size:2
Alignment explanation
Indices: 763057--763095 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
763047 TGATTATTTG
* *
763057 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
763096 AGTAGCTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:763498 original size:25 final size:23
Alignment explanation
Indices: 763469--763540 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 23
763459 TTTATTTTAA
763469 ATTTTTTATATATTTAAAATATTAT
1 ATTTTTTATATATTT-AAATATT-T
*
763494 ATTTTATATTTATATTTAAATATTT
1 ATTTT-T-TATATATTTAAATATTT
***
763519 ATTAGATATATATTTTAAATAT
1 ATTTTTTATATA-TTTAAATAT
763541 AAATAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
23 5 0.13
24 9 0.23
25 9 0.23
26 8 0.21
27 8 0.21
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (23 bp):
ATTTTTTATATATTTAAATATTT
Found at i:763508 original size:13 final size:14
Alignment explanation
Indices: 763477--763520 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
763467 AAATTTTTTA
763477 TATATTTAAA-ATAT
1 TATATTTAAATAT-T
*
763491 TATATTT-TATATT
1 TATATTTAAATATT
763504 TATATTTAAATATT
1 TATATTTAAATATT
763518 TAT
1 TAT
763521 TAGATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATATTTAAATATT
Found at i:763528 original size:27 final size:24
Alignment explanation
Indices: 763475--763540 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 24
763465 TTAAATTTTT
763475 TATATATTTAAAATATTATATTTTATA
1 TATATATTT-AAATATTATA--TTATA
* *
763502 TTTATATTTAAATATT-TATTAGA
1 TATATATTTAAATATTATATTATA
763525 TATATATTTTAAATAT
1 TATATA-TTTAAATAT
763541 AAATAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 9 0.26
24 9 0.26
25 2 0.06
26 7 0.20
27 8 0.23
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TATATATTTAAATATTATATTATA
Found at i:763540 original size:13 final size:13
Alignment explanation
Indices: 763475--763541 Score: 59
Period size: 13 Copynumber: 5.3 Consensus size: 13
763465 TTAAATTTTT
*
763475 TATATATTTAAAA
1 TATATATTTTAAA
*
763488 TATTATATTTTATA
1 TA-TATATTTTAAA
*
763502 TTTATA-TTTAAA
1 TATATATTTTAAA
* *
763514 TAT-T-TATTAGA
1 TATATATTTTAAA
763525 TATATATTTTAAA
1 TATATATTTTAAA
763538 TATA
1 TATA
763542 AATAAAAAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
11 8 0.20
12 8 0.20
13 15 0.37
14 10 0.24
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (13 bp):
TATATATTTTAAA
Found at i:764440 original size:2 final size:2
Alignment explanation
Indices: 764433--764458 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
764423 AAATACCAAC
764433 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
764459 GGAAGTTTAA
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:766266 original size:2 final size:2
Alignment explanation
Indices: 766259--766287 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
766249 AGAAAGTATA
766259 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 T
766288 ATATATATGA
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:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:768254 original size:2 final size:2
Alignment explanation
Indices: 768241--768270 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
768231 AAACCAAAAC
*
768241 AT AT AT AC 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
768271 GATAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:778019 original size:18 final size:19
Alignment explanation
Indices: 777979--778025 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
777969 TGATAACATT
*
777979 ATAAAATAA-TTTATCTAA
1 ATAAAATAATTTTATCAAA
777997 A-AAAATAATTTTAT-AAA
1 ATAAAATAATTTTATCAAA
*
778014 ATAAAATTATTT
1 ATAAAATAATTT
778026 AATCTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAAAATAATTTTATCAAA
Found at i:778026 original size:17 final size:18
Alignment explanation
Indices: 777979--778026 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
777969 TGATAACATT
*
777979 ATAAAATAATTTATCTAA
1 ATAAAATAATTTATCAAA
777997 A-AAAATAATTTTAT-AAA
1 ATAAAATAA-TTTATCAAA
*
778014 ATAAAATTATTTA
1 ATAAAATAATTTA
778027 ATCTCATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAAATAATTTATCAAA
Found at i:778112 original size:10 final size:10
Alignment explanation
Indices: 778052--778145 Score: 59
Period size: 10 Copynumber: 9.1 Consensus size: 10
778042 GTAAAATAAC
778052 TATA-TTTTA
1 TATATTTTTA
* *
778061 AATAATTTTA
1 TATATTTTTA
*
778071 TTTATTTTTA
1 TATATTTTTA
778081 -ATAATTTTTA
1 TAT-ATTTTTA
*
778091 AACTATTTTTA
1 TA-TATTTTTA
778102 TATATTTTTA
1 TATATTTTTA
*
778112 TAT-TTAAATTA
1 TATATT--TTTA
778123 TATAATTATTTA
1 TAT-ATT-TTTA
*
778135 AATATTTTTA
1 TATATTTTTA
778145 T
1 T
778146 GTTTTTATAG
Statistics
Matches: 67, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
9 6 0.09
10 34 0.51
11 18 0.27
12 7 0.10
13 2 0.03
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (10 bp):
TATATTTTTA
Found at i:778151 original size:41 final size:44
Alignment explanation
Indices: 778081--778161 Score: 116
Period size: 41 Copynumber: 1.9 Consensus size: 44
778071 TTTATTTTTA
778081 ATAATTTTTAAACTATTTTTATATATTTTTATA-TTTAAATTAT
1 ATAATTTTTAAACTATTTTTATATATTTTTATAGTTTAAATTAT
*
778124 ATAATTATTTAAA-TA-TTTT-TATGTTTTTATAGTTTAAA
1 ATAATT-TTTAAACTATTTTTATATATTTTTATAGTTTAAA
778162 ACTTTAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
41 11 0.31
42 10 0.29
43 8 0.23
44 6 0.17
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.59
Consensus pattern (44 bp):
ATAATTTTTAAACTATTTTTATATATTTTTATAGTTTAAATTAT
Found at i:778968 original size:13 final size:13
Alignment explanation
Indices: 778950--778974 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
778940 AAGAGAATAA
778950 AAAATATTAAAAT
1 AAAATATTAAAAT
778963 AAAATATTAAAA
1 AAAATATTAAAA
778975 GAAATTATAG
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAATATTAAAAT
Found at i:779006 original size:7 final size:7
Alignment explanation
Indices: 778994--779029 Score: 54
Period size: 7 Copynumber: 4.9 Consensus size: 7
778984 GTAATAAACT
778994 TTTATTA
1 TTTATTA
779001 TTTATTA
1 TTTATTA
779008 TTTACTTTA
1 TTTA--TTA
779017 TTTATTA
1 TTTATTA
779024 TTTATT
1 TTTATT
779030 TTATAATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 20 0.74
9 7 0.26
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATTA
Found at i:779017 original size:16 final size:16
Alignment explanation
Indices: 778998--779033 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
778988 TAAACTTTTA
778998 TTATTTATTATTTACT
1 TTATTTATTATTTACT
*
779014 TTATTTATTATTTATT
1 TTATTTATTATTTACT
779030 TTAT
1 TTAT
779034 AATACATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TTATTTATTATTTACT
Found at i:783110 original size:14 final size:14
Alignment explanation
Indices: 783070--783111 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
783060 AGCTATTTTC
*
783070 TATATATACAAACA
1 TATATATACACACA
* *
783084 TATACATATACACA
1 TATATATACACACA
783098 TATATATACACACA
1 TATATATACACACA
783112 CATGATCTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (14 bp):
TATATATACACACA
Found at i:788274 original size:13 final size:14
Alignment explanation
Indices: 788257--788358 Score: 108
Period size: 14 Copynumber: 7.6 Consensus size: 14
788247 GAAGTATTAT
788257 TGCCAAAGTACCT-
1 TGCCAAAGTACCTG
788270 TGCC-AAGTACCTG
1 TGCCAAAGTACCTG
788283 TGGCCAAAGTACCT-
1 T-GCCAAAGTACCTG
**
788297 TGCC-AAGTAGTTG
1 TGCCAAAGTACCTG
* *
788310 TGCTAAA-TACTTG
1 TGCCAAAGTACCTG
788323 TGCCAAAGTACCT-
1 TGCCAAAGTACCTG
788336 TGGCCAAAGTACCTG
1 T-GCCAAAGTACCTG
788351 TGCCAAAG
1 TGCCAAAG
788359 AGTATTATTG
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
12 14 0.19
13 23 0.31
14 29 0.39
15 9 0.12
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (14 bp):
TGCCAAAGTACCTG
Found at i:788289 original size:27 final size:28
Alignment explanation
Indices: 788258--788356 Score: 118
Period size: 27 Copynumber: 3.7 Consensus size: 28
788248 AAGTATTATT
788258 GCCAAAGTACCT-TGCCAAGTACCTGTG
1 GCCAAAGTACCTGTGCCAAGTACCTGTG
**
788285 GCCAAAGTACCT-TGCCAAGTAGTTGT-
1 GCCAAAGTACCTGTGCCAAGTACCTGTG
* *
788311 GCTAAA-TACTTGTGCCAAAGTACCT-TG
1 GCCAAAGTACCTGTGCC-AAGTACCTGTG
788338 GCCAAAGTACCTGTGCCAA
1 GCCAAAGTACCTGTGCCAA
788357 AGAGTATTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
25 4 0.07
26 10 0.17
27 37 0.62
28 9 0.15
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.24
Consensus pattern (28 bp):
GCCAAAGTACCTGTGCCAAGTACCTGTG
Found at i:792436 original size:15 final size:16
Alignment explanation
Indices: 792372--792446 Score: 71
Period size: 15 Copynumber: 4.4 Consensus size: 16
792362 TATTTTTTAT
792372 TTTAAATAAAAAATTA
1 TTTAAATAAAAAATTA
792388 TTTAAAATTAATAAAATATAA
1 TTT-AAA-TAA-AAAAT-T-A
* *
792409 ATTAAATTAAAAATTA
1 TTTAAATAAAAAATTA
792425 TTTAAAT-AAAAATTA
1 TTTAAATAAAAAATTA
*
792440 TTAAAAT
1 TTTAAAT
792447 TTTATTTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
15 14 0.28
16 10 0.20
17 4 0.08
18 8 0.16
19 7 0.14
20 4 0.08
21 3 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TTTAAATAAAAAATTA
Found at i:792458 original size:26 final size:25
Alignment explanation
Indices: 792367--792459 Score: 89
Period size: 26 Copynumber: 3.5 Consensus size: 25
792357 ATAATTATTT
792367 TTTATTTTAAATAAAAAATTATTTAAAA
1 TTTA-TTTAAAT-AAAAATTA-TTAAAA
* * *
792395 -TTAATAAAATATAAATTAAATTAAAA
1 TTTATTTAAATAAAAATT--ATTAAAA
*
792421 ATTATTTAAATAAAAATTATTAAAA
1 TTTATTTAAATAAAAATTATTAAAA
792446 TTTTATTTAAATAA
1 -TTTATTTAAATAA
792460 TTAAAAATAA
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
25 13 0.24
26 23 0.43
27 18 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTATTTAAATAAAAATTATTAAAA
Found at i:798450 original size:35 final size:33
Alignment explanation
Indices: 798358--798450 Score: 78
Period size: 34 Copynumber: 2.7 Consensus size: 33
798348 GATTATAAGT
* * *
798358 ATTTTTTAATTTTATAAGTAAAAAATTAAATTAA
1 ATTTTTTAATTTTA-AAATAAAATATTAAAGTAA
*** *
798392 ATTTTTTAAAAATAATAAAAAAATATGTAAAAGTAA
1 ATTTTTTAATTTTAA-AATAAAATAT-T-AAAGTAA
*
798428 TTTTTTTAATTTTAAAATAAAAT
1 ATTTTTTAATTTTAAAATAAAAT
798451 TGATAACAGA
Statistics
Matches: 44, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
33 1 0.02
34 18 0.41
35 8 0.18
36 17 0.39
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (33 bp):
ATTTTTTAATTTTAAAATAAAATATTAAAGTAA
Found at i:798978 original size:2 final size:2
Alignment explanation
Indices: 798967--799000 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
798957 TCTCTCTCTC
* *
798967 TA TA TC TA TA TA TG 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
799001 ACACGTCATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:808115 original size:24 final size:23
Alignment explanation
Indices: 808088--808160 Score: 67
Period size: 26 Copynumber: 3.0 Consensus size: 23
808078 TTTTAATTTG
808088 AAAAAGTTTTATTTTAAAAATAAT
1 AAAAA-TTTTATTTTAAAAATAAT
* *
808112 AAAAAATTTTAAATTTTAAAATTATT
1 -AAAAATTTT--ATTTTAAAAATAAT
*
808138 AAATATTATT-TTTTAAAAATAAT
1 AAAAATT-TTATTTTAAAAATAAT
808161 TATATGATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
23 11 0.28
24 4 0.10
25 11 0.28
26 14 0.35
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (23 bp):
AAAAATTTTATTTTAAAAATAAT
Found at i:810149 original size:19 final size:20
Alignment explanation
Indices: 810127--810167 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
810117 TTGGTTTATG
*
810127 AATTTTTAAA-TTATTTAAA
1 AATTTATAAATTTATTTAAA
*
810146 AA-TTATAAATTTTTTTAAA
1 AATTTATAAATTTATTTAAA
810165 AAT
1 AAT
810168 AATATGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 3
0.78 0.09 0.13
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTTATAAATTTATTTAAA
Found at i:810764 original size:14 final size:14
Alignment explanation
Indices: 810747--810774 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
810737 AGCTACACAT
810747 TTATCGCTAGGCTC
1 TTATCGCTAGGCTC
810761 TTATCGCTAGGCTC
1 TTATCGCTAGGCTC
810775 GAGACCAGCT
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:0.14, C:0.29, G:0.21, T:0.36
Consensus pattern (14 bp):
TTATCGCTAGGCTC
Found at i:829660 original size:16 final size:18
Alignment explanation
Indices: 829617--829660 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
829607 AAAAATTTTT
829617 ATTTAAATT-TAAATTTA
1 ATTTAAATTATAAATTTA
*
829634 ATTTAATTTATAAA-TTA
1 ATTTAAATTATAAATTTA
829651 A-TTAAATTAT
1 ATTTAAATTAT
829661 TATTTTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.33
17 12 0.50
18 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTAAATTATAAATTTA
Found at i:829999 original size:30 final size:29
Alignment explanation
Indices: 829944--830021 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 29
829934 TTTGGTATAT
* *
829944 TGATATATAAATTTATAAATTAAATTAAATG
1 TGATATAT-AA-TTAAAAATAAAATTAAATG
*
829975 ATGATATATAATTAAAAATAAAATTATATG
1 -TGATATATAATTAAAAATAAAATTAAATG
* *
830005 T-ATTTATATTTAAAAAT
1 TGATATATAATTAAAAAT
830022 TTTTAATAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 14 0.34
29 1 0.02
30 16 0.39
31 2 0.05
32 8 0.20
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (29 bp):
TGATATATAATTAAAAATAAAATTAAATG
Found at i:831276 original size:6 final size:6
Alignment explanation
Indices: 831265--831290 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
831255 GCCCAATATT
831265 AACATC AACATC AACATC AACATC AA
1 AACATC AACATC AACATC AACATC AA
831291 ATTGCAGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (6 bp):
AACATC
Found at i:833250 original size:6 final size:6
Alignment explanation
Indices: 833241--833267 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
833231 CACCACTACC
833241 GCCACT GCCACT GCCACT GCCACT GCC
1 GCCACT GCCACT GCCACT GCCACT GCC
833268 GACACGAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.52, G:0.19, T:0.15
Consensus pattern (6 bp):
GCCACT
Found at i:834728 original size:2 final size:2
Alignment explanation
Indices: 834723--834752 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
834713 TATGAATGTA
834723 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
834753 GTTCATTTAA
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:835222 original size:2 final size:2
Alignment explanation
Indices: 835215--835246 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
835205 ACTCTTCTTT
835215 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
835247 AAGTTTTAAA
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:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:838668 original size:39 final size:39
Alignment explanation
Indices: 838614--838692 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
838604 TTAAGCGCAG
*
838614 AATCTATGTAGTACTGAATACTGATAGATCAGTTATATA
1 AATCTATGCAGTACTGAATACTGATAGATCAGTTATATA
*
838653 AATCTATGCAGTACTGAATACTGATAGATCGGTTATATA
1 AATCTATGCAGTACTGAATACTGATAGATCAGTTATATA
838692 A
1 A
838693 TAATAGCAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.34
Consensus pattern (39 bp):
AATCTATGCAGTACTGAATACTGATAGATCAGTTATATA
Found at i:859513 original size:53 final size:52
Alignment explanation
Indices: 859433--859532 Score: 164
Period size: 53 Copynumber: 1.9 Consensus size: 52
859423 AATAAAGTGG
*
859433 AAGTCTGAACAGAAGAGGCATGAACTTTTAGTAGATATACCTGCTTTTAATGA
1 AAGTCTGAACAGAAAAGGCATGAACTTTTAGT-GATATACCTGCTTTTAATGA
* *
859486 AAGTCTGAAGAGAAAAGGCATGAACTTTTTGTGATATACCTGCTTTT
1 AAGTCTGAACAGAAAAGGCATGAACTTTTAGTGATATACCTGCTTTT
859533 CTTTTTGCAG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 15 0.34
53 29 0.66
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (52 bp):
AAGTCTGAACAGAAAAGGCATGAACTTTTAGTGATATACCTGCTTTTAATGA
Found at i:861765 original size:3 final size:3
Alignment explanation
Indices: 861757--861788 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
861747 TGAGACAGTA
861757 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
861789 ATTTATCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:862432 original size:21 final size:21
Alignment explanation
Indices: 862402--862441 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
862392 ATAATATTAA
**
862402 TAAATAAACACTAAGAAAATG
1 TAAATAAACAAAAAGAAAATG
*
862423 TAAATTAACAAAAAGAAAA
1 TAAATAAACAAAAAGAAAA
862442 AAATGTTTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.68, C:0.07, G:0.07, T:0.17
Consensus pattern (21 bp):
TAAATAAACAAAAAGAAAATG
Found at i:864671 original size:21 final size:19
Alignment explanation
Indices: 864628--864672 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
864618 TTATTTACAA
*
864628 ATAATATTTTACGTAACTT
1 ATAATATTTTACGTAAATT
*
864647 ATAATATTTTTATGTAATATT
1 ATAATA-TTTTACGTAA-ATT
864668 ATAAT
1 ATAAT
864673 GTTTAATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 9 0.41
21 7 0.32
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (19 bp):
ATAATATTTTACGTAAATT
Found at i:864935 original size:20 final size:20
Alignment explanation
Indices: 864912--864956 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
864902 ATGTTTTACT
* * *
864912 TAATTTGGTACTATTTTATG
1 TAATTTAGTAATATTATATG
864932 TAATTTAGTAATATTATATG
1 TAATTTAGTAATATTATATG
864952 TAATT
1 TAATT
864957 ATGAAGAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.53
Consensus pattern (20 bp):
TAATTTAGTAATATTATATG
Found at i:865026 original size:77 final size:74
Alignment explanation
Indices: 864925--865172 Score: 212
Period size: 77 Copynumber: 3.2 Consensus size: 74
864915 TTTGGTACTA
* * *
864925 TTTTATGTAATTT-AGTAATATTATATGTAATTATGAAGAAACGTTCGTAGATAATGTTTTACAT
1 TTTTATGTAATTTGA-TAATGTTATATGTAATTATGAAGAAA-GTT-GTAGATAATATTTTACGT
*
864989 AATTAGTTAATTT
63 AATT-GTTAATAT
* * * * *
865002 TTTTATGTAATTTGATAATGTTATATATAATTTTGATGTAAAGTTTTTAGGTAATATTTTACGTA
1 TTTTATGTAATTTGATAATGTTATATGTAATTATGAAG-AAAG-TTGTAGATAATATTTTACGTA
*
865067 ATTGGATAATAT
64 ATT-GTTAATAT
* * * * * * *
865079 TTGTATGTAATTCGGTAAGGTTTTATGTAATTAT-AATGAAAAGTTGTTGAGCAATATTTTACGT
1 TTTTATGTAATTTGATAATGTTATATGTAATTATGAA-G-AAAGTTGTAGA-TAATATTTTACGT
*
865143 AATTTTGTAATAT
63 AATTGT-TAATAT
*
865156 TTATATGTAATTTGATA
1 TTTTATGTAATTTGATA
865173 CTATTATAAA
Statistics
Matches: 136, Mismatches: 29, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
76 5 0.04
77 125 0.92
78 6 0.04
ACGTcount: A:0.34, C:0.03, G:0.15, T:0.48
Consensus pattern (74 bp):
TTTTATGTAATTTGATAATGTTATATGTAATTATGAAGAAAGTTGTAGATAATATTTTACGTAAT
TGTTAATAT
Found at i:865139 original size:154 final size:153
Alignment explanation
Indices: 864895--865172 Score: 330
Period size: 154 Copynumber: 1.8 Consensus size: 153
864885 TTTTACGTAA
* * * * * *
864895 TTAGGTGATGTTTTACTTAATTTGGTACTATTTTATGTAATTTAGTAATATTATATGTAATTATG
1 TTAGGTAATATTTTACGTAATTTGGTAATATTTTATGTAATTCAGTAAGATTATATGTAATTATG
* * * * *
864960 AAGAAACGTTCGTAGATAATGTTTTACATAATTAGT-TAATTTTTTTATGTAATTTGATAATGTT
66 AAGAAAAGTTCGTAGACAATATTTTACATAATT-GTGTAATATTTATATGTAATTTGATAATGTT
865024 ATATATAATTTTGATGTAAAGTTT
130 ATATATAATTTTGATGTAAAGTTT
* * *
865048 TTAGGTAATATTTTACGTAA-TTGGATAATATTTGTATGTAATTCGGTAAGGTTTTATGTAATTA
1 TTAGGTAATATTTTACGTAATTTGG-TAATATTT-TATGTAATTCAGTAAGATTATATGTAATTA
* * *
865112 T-AATGAAAAGTT-GTTGAGCAATATTTTACGTAATTTTGTAATATTTATATGTAATTTGATA
64 TGAA-GAAAAGTTCGTAGA-CAATATTTTACATAATTGTGTAATATTTATATGTAATTTGATA
865173 CTATTATAAA
Statistics
Matches: 103, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
152 4 0.04
153 31 0.30
154 68 0.66
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.48
Consensus pattern (153 bp):
TTAGGTAATATTTTACGTAATTTGGTAATATTTTATGTAATTCAGTAAGATTATATGTAATTATG
AAGAAAAGTTCGTAGACAATATTTTACATAATTGTGTAATATTTATATGTAATTTGATAATGTTA
TATATAATTTTGATGTAAAGTTT
Found at i:865417 original size:18 final size:18
Alignment explanation
Indices: 865385--865436 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
865375 AAAAGAAGTG
* *
865385 ATTAATCTAATTTTAAAT
1 ATTAATATAAATTTAAAT
* *
865403 GTTAATATAAATTTAATT
1 ATTAATATAAATTTAAAT
*
865421 ATTTATATAAATTTAA
1 ATTAATATAAATTTAA
865437 TTTTATATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
ATTAATATAAATTTAAAT
Found at i:866218 original size:25 final size:22
Alignment explanation
Indices: 866169--866215 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
866159 TTATTAATTT
*
866169 TAATTATTTATAAAATATATAA
1 TAATTATTTATAAAATAAATAA
*
866191 TAATATATTTTTAAAATAAATAA
1 TAAT-TATTTATAAAATAAATAA
866214 TA
1 TA
866216 TAACAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATTATTTATAAAATAAATAA
Found at i:866235 original size:17 final size:17
Alignment explanation
Indices: 866213--866263 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 17
866203 AAAATAAATA
866213 ATATAACAAATATTTAC
1 ATATAACAAATATTTAC
* *
866230 ATATAACATATATATATAT
1 ATATAACA-A-ATATTTAC
866249 ATAATAACAAATATT
1 AT-ATAACAAATATT
866264 AATTATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 8 0.29
18 5 0.18
19 9 0.32
20 6 0.21
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (17 bp):
ATATAACAAATATTTAC
Found at i:868721 original size:21 final size:20
Alignment explanation
Indices: 868655--868723 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
868645 TATTTTAAAG
*
868655 TTAATTTTTAAATGATAAAAATT
1 TTAATTTTTAAAT--T-ATAATT
* * * *
868678 TTAATTTTTTATTTATTAGT
1 TTAATTTTTAAATTATAATT
868698 TTAAGTTTTTAAATTATAATT
1 TTAA-TTTTTAAATTATAATT
868719 TTAAT
1 TTAAT
868724 AGTAAAAATT
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
20 8 0.22
21 17 0.47
23 11 0.31
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
TTAATTTTTAAATTATAATT
Found at i:873144 original size:18 final size:17
Alignment explanation
Indices: 873123--873164 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
873113 ATGAATTAAT
* *
873123 AATATTTTAATTTTTATA
1 AATATTATAATATTT-TA
873141 AATA-TATAATATTTTA
1 AATATTATAATATTTTA
873157 AATATTAT
1 AATATTAT
873165 TATAATGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 6 0.29
17 11 0.52
18 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AATATTATAATATTTTA
Found at i:875374 original size:23 final size:23
Alignment explanation
Indices: 875348--875398 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
875338 AATCTATTTA
*
875348 ATTTTTAGAT-AATTTTAAATTAG
1 ATTTTTAGATCAA-GTTAAATTAG
* *
875371 ATTTTTTGATCAAGTTAATTTAG
1 ATTTTTAGATCAAGTTAAATTAG
875394 ATTTT
1 ATTTT
875399 AGTCATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (23 bp):
ATTTTTAGATCAAGTTAAATTAG
Found at i:875545 original size:2 final size:2
Alignment explanation
Indices: 875538--875567 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
875528 TATTCAAATT
875538 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
875568 CACGCTATTG
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):
TA
Found at i:876080 original size:17 final size:17
Alignment explanation
Indices: 876042--876082 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 17
876032 AAGAATTATA
876042 ACTTATT-AAAATATTT
1 ACTTATTAAAAATATTT
876058 --TTATTAAAAATATTT
1 ACTTATTAAAAATATTT
876073 ACTTATTAAA
1 ACTTATTAAA
876083 TAAATTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.23
15 9 0.41
17 8 0.36
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (17 bp):
ACTTATTAAAAATATTT
Found at i:876089 original size:17 final size:16
Alignment explanation
Indices: 876042--876089 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
876032 AAGAATTATA
*
876042 ACTTATTAAAATATTT
1 ACTTATTAAAAAATTT
876058 --TTATTAAAAATATTT
1 ACTTATTAAAAA-ATTT
876073 ACTTATTAAATAAATTT
1 ACTTATTAAA-AAATTT
876090 TATACTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 9 0.33
15 4 0.15
17 12 0.44
18 2 0.07
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (16 bp):
ACTTATTAAAAAATTT
Found at i:877715 original size:2 final size:2
Alignment explanation
Indices: 877708--877733 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
877698 TACCTACCCA
877708 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
877734 TGGTGACGTA
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:878153 original size:2 final size:2
Alignment explanation
Indices: 878146--878175 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
878136 TCTTTTCTTA
878146 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
878176 CTATTACGTA
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:886427 original size:24 final size:25
Alignment explanation
Indices: 886370--886431 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 25
886360 ATAATATTTA
* *
886370 ATTAAATATAT-ATTTTTATTAAAT
1 ATTAAATATTTAATTATTATTAAAT
886394 ATTAAATATTTAATTATTATT-AAT
1 ATTAAATATTTAATTATTATTAAAT
**
886418 ATTATTTATTTAAT
1 ATTAAATATTTAAT
886432 ATTTAAATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 25 0.76
25 8 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
ATTAAATATTTAATTATTATTAAAT
Found at i:887154 original size:34 final size:35
Alignment explanation
Indices: 887107--887174 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 35
887097 GTGTTTTAAA
* *
887107 TTTTATGTTAATAT-TATTTAAAATTTTTAAAATT
1 TTTTATATAAATATATATTTAAAATTTTTAAAATT
**
887141 TTTTATATAAATATAATATTTAATTTTTTTAAAA
1 TTTTATATAAATAT-ATATTTAAAATTTTTAAAA
887175 AAATTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 12 0.43
36 16 0.57
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (35 bp):
TTTTATATAAATATATATTTAAAATTTTTAAAATT
Found at i:887219 original size:24 final size:25
Alignment explanation
Indices: 887137--887223 Score: 92
Period size: 24 Copynumber: 3.6 Consensus size: 25
887127 AAATTTTTAA
* *
887137 AATTTTTTATATAAATATAATATTT
1 AATTTTTTATAAAAATAAAATATTT
* *
887162 AATTTTTT-TAAAAA-AATTATTTTT
1 AATTTTTTATAAAAATAA-AATATTT
887186 AATTTATTTATAAAAATAAAATATTT
1 AATTT-TTTATAAAAATAAAATATTT
887212 -ATTTTTTA-AAAA
1 AATTTTTTATAAAA
887224 TTATTTAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
23 5 0.10
24 19 0.37
25 15 0.29
26 11 0.21
27 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
AATTTTTTATAAAAATAAAATATTT
Found at i:913402 original size:15 final size:14
Alignment explanation
Indices: 913375--913409 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
913365 TTTATTATAA
913375 AAATATTAATAATTT
1 AAAT-TTAATAATTT
913390 AAATTTAATTAATTT
1 AAATTTAA-TAATTT
913405 AAATT
1 AAATT
913410 AAAAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AAATTTAATAATTT
Found at i:913458 original size:16 final size:16
Alignment explanation
Indices: 913382--913482 Score: 91
Period size: 16 Copynumber: 6.4 Consensus size: 16
913372 TAAAAATATT
913382 AATAATTTAAATTT-A
1 AATAATTTAAATTTAA
* *
913397 ATTAATTTAAATTAAA
1 AATAATTTAAATTTAA
* * **
913413 AATAAATCAAATAAAA
1 AATAATTTAAATTTAA
* *
913429 AAT-ATATGAATTTAA
1 AATAATTTAAATTTAA
*
913444 ATTAATTTAAATTTAA
1 AATAATTTAAATTTAA
913460 AATAATTTAAA-TTAA
1 AATAATTTAAATTTAA
913475 ATATAATT
1 A-ATAATT
913483 GTATTTCAAA
Statistics
Matches: 67, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
15 25 0.37
16 42 0.63
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (16 bp):
AATAATTTAAATTTAA
Found at i:914572 original size:17 final size:19
Alignment explanation
Indices: 914536--914596 Score: 56
Period size: 17 Copynumber: 3.4 Consensus size: 19
914526 TATTAATGAT
914536 TAATATTATATAAATTTTA
1 TAATATTATATAAATTTTA
*
914555 TAATATTA-AT-ATTTTTA
1 TAATATTATATAAATTTTA
* * * *
914572 TATTATT-TTTATATTATA
1 TAATATTATATAAATTTTA
914590 TAATATT
1 TAATATT
914597 TTATTTTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
17 13 0.39
18 12 0.36
19 8 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TAATATTATATAAATTTTA
Found at i:914580 original size:11 final size:11
Alignment explanation
Indices: 914564--914588 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
914554 ATAATATTAA
914564 TATTTTTATAT
1 TATTTTTATAT
914575 TATTTTTATAT
1 TATTTTTATAT
914586 TAT
1 TAT
914589 ATAATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTTTTATAT
Found at i:914581 original size:28 final size:29
Alignment explanation
Indices: 914511--914598 Score: 83
Period size: 28 Copynumber: 3.0 Consensus size: 29
914501 ATTTATGTTC
914511 ATATAAA-TTTA-AATATATTAATGATTAATATT
1 ATATAAATTTTATAATATA-TAAT-ATT--T-TT
914543 ATATAAATTTTATAATAT-TAATATTTTT
1 ATATAAATTTTATAATATATAATATTTTT
* * *
914571 ATATTATTTTTATATTATATAATATTTT
1 ATATAAATTTTATAATATATAATATTTT
914599 ATTTTTTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
28 17 0.34
29 10 0.20
31 3 0.06
32 11 0.22
33 4 0.08
34 5 0.10
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (29 bp):
ATATAAATTTTATAATATATAATATTTTT
Found at i:914588 original size:16 final size:17
Alignment explanation
Indices: 914538--914600 Score: 68
Period size: 16 Copynumber: 4.1 Consensus size: 17
914528 TTAATGATTA
914538 ATATTATATAA-ATTTT
1 ATATTATATAATATTTT
*
914554 ATAATAT-TAATATTTT
1 ATATTATATAATATTTT
914570 -TA-TAT-T-AT-TTTT
1 ATATTATATAATATTTT
914582 ATATTATATAATATTTT
1 ATATTATATAATATTTT
914599 AT
1 AT
914601 TTTTTTTTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
12 4 0.10
13 4 0.10
14 7 0.17
15 6 0.15
16 13 0.32
17 6 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATTATATAATATTTT
Found at i:914615 original size:28 final size:29
Alignment explanation
Indices: 914561--914625 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 29
914551 TTTATAATAT
*
914561 TAATATTTTTATATTATTTTTATATTA-TA
1 TAATA-TTTTATATTATTTTTAAATTAGTA
*
914590 TAATATTTTAT-TTTTTTTTCAAATTATGTA
1 TAATATTTTATATTATTTTT-AAATTA-GTA
914620 TAATAT
1 TAATAT
914626 ATATAATGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 7 0.23
28 11 0.35
29 5 0.16
30 8 0.26
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (29 bp):
TAATATTTTATATTATTTTTAAATTAGTA
Found at i:915771 original size:24 final size:24
Alignment explanation
Indices: 915737--915782 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
915727 TTACAGGAAA
*
915737 ATGGGGCTGAT-TTCGGGGATTTTT
1 ATGGGGATGATCTTC-GGGATTTTT
915761 ATGGGGATGATCTTCGGGATTT
1 ATGGGGATGATCTTCGGGATTT
915783 CATTGATGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.15, C:0.09, G:0.37, T:0.39
Consensus pattern (24 bp):
ATGGGGATGATCTTCGGGATTTTT
Found at i:921890 original size:14 final size:13
Alignment explanation
Indices: 921857--921903 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 13
921847 ATTAATAATA
921857 ATTTATATTATAT
1 ATTTATATTATAT
**
921870 AAATATAATTATAT
1 ATTTAT-ATTATAT
921884 ATTTATATTA-AT
1 ATTTATATTATAT
921896 A-TTATATT
1 ATTTATATT
921904 TAAATTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 7 0.24
12 3 0.10
13 8 0.28
14 11 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTTATATTATAT
Found at i:921902 original size:27 final size:26
Alignment explanation
Indices: 921844--921893 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
921834 TTTTAATATG
921844 TAAAT-TAATAATAATTTATATTATA
1 TAAATATAATAATAATTTATATTATA
*
921869 TAAATATAATTATATATTTATATTA
1 TAAATATAATAATA-ATTTATATTA
921894 ATATTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 7 0.32
27 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TAAATATAATAATAATTTATATTATA
Done.