Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 58 of 290
Found at i:19256705 original size:21 final size:21
Alignment explanation
Indices: 19256681--19256773 Score: 86
Period size: 21 Copynumber: 4.5 Consensus size: 21
19256671 ATTAATTAAG
19256681 TTTAATATTATTACTATTA-TT
1 TTTAAT-TTATTACTATTATTT
*
19256702 TTT-ATTT-TTATTATT-TTT
1 TTTAATTTATTACTATTATTT
* *
19256720 ATTATTTTATTTACTATTATTT
1 TTTAATTTA-TTACTATTATTT
* * *
19256742 TTTAATGTACTATTATTATTT
1 TTTAATTTATTACTATTATTT
19256763 TTTAATTTATT
1 TTTAATTTATT
19256774 GTTATTATCA
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
18 11 0.20
19 5 0.09
20 2 0.04
21 29 0.52
22 9 0.16
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (21 bp):
TTTAATTTATTACTATTATTT
Found at i:19256706 original size:15 final size:15
Alignment explanation
Indices: 19256688--19256723 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
19256678 AAGTTTAATA
19256688 TTATTACTATTATTT
1 TTATTACTATTATTT
**
19256703 TTATTTTTATTATTT
1 TTATTACTATTATTT
19256718 TTATTA
1 TTATTA
19256724 TTTTATTTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (15 bp):
TTATTACTATTATTT
Found at i:19256707 original size:9 final size:9
Alignment explanation
Indices: 19256681--19256727 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
19256671 ATTAATTAAG
*
19256681 TTTAATATT
1 TTTATTATT
* *
19256690 ATTACTATT
1 TTTATTATT
19256699 ATTT-TTATT
1 -TTTATTATT
19256708 TTTATTATT
1 TTTATTATT
19256717 TTTATTATT
1 TTTATTATT
19256726 TT
1 TT
19256728 ATTTACTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 3 0.09
9 27 0.84
10 2 0.06
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTATTATT
Found at i:19256722 original size:24 final size:24
Alignment explanation
Indices: 19256681--19256743 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
19256671 ATTAATTAAG
* **
19256681 TTTAATATTATTACTATTATTTTTA
1 TTTACTATTATTTTTATTA-TTTTA
*
19256706 TTT-TTATTATTTTTATTATTTTA
1 TTTACTATTATTTTTATTATTTTA
19256729 TTTACTATTATTTTT
1 TTTACTATTATTTTT
19256744 TAATGTACTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 8 0.24
24 22 0.67
25 3 0.09
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTACTATTATTTTTATTATTTTA
Found at i:19256739 original size:18 final size:19
Alignment explanation
Indices: 19256718--19256763 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
19256708 TTTATTATTT
*
19256718 TTATTATTTT-ATTTACTA
1 TTATTATTTTAATGTACTA
19256736 TTATT-TTTTAATGTACTA
1 TTATTATTTTAATGTACTA
19256754 TTATTATTTT
1 TTATTATTTT
19256764 TTAATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 4 0.16
18 17 0.68
19 4 0.16
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (19 bp):
TTATTATTTTAATGTACTA
Found at i:19256761 original size:39 final size:39
Alignment explanation
Indices: 19256691--19256771 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 39
19256681 TTTAATATTA
* * * *
19256691 TTACTATTATTTTTATTTTTATTATTTTTATTATTTT-AT
1 TTACTATTATTTTTATATGTACTATTATTATT-TTTTAAT
19256730 TTACTATTATTTTT-TAATGTACTATTATTATTTTTTAAT
1 TTACTATTATTTTTAT-ATGTACTATTATTATTTTTTAAT
19256769 TTA
1 TTA
19256772 TTGTTATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
38 5 0.14
39 31 0.86
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (39 bp):
TTACTATTATTTTTATATGTACTATTATTATTTTTTAAT
Found at i:19256773 original size:18 final size:18
Alignment explanation
Indices: 19256712--19256779 Score: 66
Period size: 18 Copynumber: 3.6 Consensus size: 18
19256702 TTTATTTTTA
*
19256712 TTATTTTTATTATTTT-AT
1 TTATTATTATT-TTTTAAT
*
19256730 TTACTATTATTTTTTAAT
1 TTATTATTATTTTTTAAT
19256748 GTACTATTATTATTTTTTAAT
1 -T--TATTATTATTTTTTAAT
*
19256769 TTATTGTTATT
1 TTATTATTATT
19256780 ATCACTATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
17 4 0.10
18 20 0.48
19 1 0.02
20 1 0.02
21 16 0.38
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (18 bp):
TTATTATTATTTTTTAAT
Found at i:19257113 original size:14 final size:14
Alignment explanation
Indices: 19257094--19257140 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
19257084 ATTATTTGTG
19257094 CTATTAATTATGTT
1 CTATTAATTATGTT
* *
19257108 CTATT-ATTCTGTG
1 CTATTAATTATGTT
19257121 CTATTAATTATGTT
1 CTATTAATTATGTT
19257135 CTATTA
1 CTATTA
19257141 TTCTTTCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 11 0.39
14 17 0.61
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.55
Consensus pattern (14 bp):
CTATTAATTATGTT
Found at i:19257123 original size:27 final size:27
Alignment explanation
Indices: 19257083--19257144 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
19257073 ATTGACATTG
19257083 TATTATT-TGTGCTATTAATTATGTTC
1 TATTATTCTGTGCTATTAATTATGTTC
19257109 TATTATTCTGTGCTATTAATTATGTTC
1 TATTATTCTGTGCTATTAATTATGTTC
19257136 TATTATTCT
1 TATTATTCT
19257145 TTCTTTTGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 7 0.20
27 28 0.80
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.58
Consensus pattern (27 bp):
TATTATTCTGTGCTATTAATTATGTTC
Found at i:19257126 original size:13 final size:13
Alignment explanation
Indices: 19257083--19257142 Score: 68
Period size: 14 Copynumber: 4.5 Consensus size: 13
19257073 ATTGACATTG
19257083 TATTATT-TGTGC
1 TATTATTATGTGC
*
19257095 TATTAATTATGTTC
1 TATT-ATTATGTGC
*
19257109 TATTATTCTGTGC
1 TATTATTATGTGC
*
19257122 TATTAATTATGTTC
1 TATT-ATTATGTGC
19257136 TATTATT
1 TATTATT
19257143 CTTTCTTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
12 4 0.10
13 17 0.43
14 19 0.47
ACGTcount: A:0.23, C:0.08, G:0.10, T:0.58
Consensus pattern (13 bp):
TATTATTATGTGC
Found at i:19259579 original size:23 final size:24
Alignment explanation
Indices: 19259551--19259596 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
19259541 ACGCTAATTT
19259551 CATTAG-C-AAAACTTTTAATTTAC
1 CATTAGACTAAAA-TTTTAATTTAC
*
19259574 CATTAGACTAAAATTTTATTTTA
1 CATTAGACTAAAATTTTAATTTA
19259597 ATATTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 10 0.50
25 4 0.20
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.43
Consensus pattern (24 bp):
CATTAGACTAAAATTTTAATTTAC
Found at i:19260287 original size:8 final size:8
Alignment explanation
Indices: 19260274--19260302 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
19260264 TGAAATATAT
19260274 TTTAATTA
1 TTTAATTA
19260282 TTTAATTA
1 TTTAATTA
19260290 TTTAATTA
1 TTTAATTA
19260298 TTTAA
1 TTTAA
19260303 ATTAGATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTTAATTA
Found at i:19268965 original size:6 final size:6
Alignment explanation
Indices: 19268949--19268983 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
19268939 TATCTCACAC
19268949 TCCCA- TCCCAT TCCCAT TCCCAT TCCCAT TCCCAT
1 TCCCAT TCCCAT TCCCAT TCCCAT TCCCAT TCCCAT
19268984 ATGCCATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.17, C:0.51, G:0.00, T:0.31
Consensus pattern (6 bp):
TCCCAT
Found at i:19270419 original size:10 final size:10
Alignment explanation
Indices: 19270404--19270431 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
19270394 ATGTGGAATC
19270404 ACAATTCCAT
1 ACAATTCCAT
19270414 ACAATTCCAT
1 ACAATTCCAT
19270424 ACAATTCC
1 ACAATTCC
19270432 TTCTCCTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (10 bp):
ACAATTCCAT
Found at i:19285555 original size:40 final size:41
Alignment explanation
Indices: 19285497--19285587 Score: 123
Period size: 40 Copynumber: 2.2 Consensus size: 41
19285487 TAAAATTAGA
* * * *
19285497 TTTAATACAATAAGATATTTGTTATATTTAT-TTGTGTTTT
1 TTTAATATAATAAAATATTTATTATATTTATGTAGTGTTTT
19285537 TTTAATATAATAAAATATTTATTATATTTATGGTAGTGTTTT
1 TTTAATATAATAAAATATTTATTATATTTAT-GTAGTGTTTT
19285579 TTT-ATATAA
1 TTTAATATAA
19285588 ATACTTTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
40 28 0.62
41 6 0.13
42 11 0.24
ACGTcount: A:0.34, C:0.01, G:0.09, T:0.56
Consensus pattern (41 bp):
TTTAATATAATAAAATATTTATTATATTTATGTAGTGTTTT
Found at i:19287199 original size:33 final size:33
Alignment explanation
Indices: 19287162--19287253 Score: 130
Period size: 33 Copynumber: 2.8 Consensus size: 33
19287152 TTCTGACCCA
* * *
19287162 TATCCACCGCTGTACTCTACTCCTCTCGGCCCG
1 TATCCACCGCCGTACTCCACTCCTCCCGGCCCG
* **
19287195 TATCCACCGCCATACTCCACTCCTCCCGGCTTG
1 TATCCACCGCCGTACTCCACTCCTCCCGGCCCG
19287228 TATCCACCGCCGTACTCCACTCCTCC
1 TATCCACCGCCGTACTCCACTCCTCC
19287254 TGGCTTAAGT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.14, C:0.49, G:0.12, T:0.25
Consensus pattern (33 bp):
TATCCACCGCCGTACTCCACTCCTCCCGGCCCG
Found at i:19287497 original size:25 final size:24
Alignment explanation
Indices: 19287463--19287511 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
19287453 TACTGAATTT
19287463 TTTGGTATTTTATTAATCAATTTAA
1 TTTGGTATTTT-TTAATCAATTTAA
* **
19287488 TTTGTTATTTTTTTTTCAATTTAA
1 TTTGGTATTTTTTAATCAATTTAA
19287512 ATAGTCAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (24 bp):
TTTGGTATTTTTTAATCAATTTAA
Found at i:19287602 original size:80 final size:80
Alignment explanation
Indices: 19287426--19287603 Score: 225
Period size: 80 Copynumber: 2.2 Consensus size: 80
19287416 TTTAGGGGGT
* * ** **
19287426 TTTAATATAAATAACTTAGTATTTATGTACTGAATTTTTTGGTATTTTATTAATCAATTTAATTT
1 TTTAA-ATAAATAACTTTGTATTTATGTAATGAATTTTTTGCCATTTTATTAATCAATTTAATGG
19287491 GTTATTTTTTTTTCAA
65 GTTATTTTTTTTTCAA
* * * *
19287507 TTTAAAT-AGTCAACTTTGTATTTATGTAATGACTTTTTTGCCATTTTATTTATCAATTTTATGG
1 TTTAAATAAAT-AACTTTGTATTTATGTAATGAATTTTTTGCCATTTTATTAATCAATTTAATGG
19287571 GTT-TTTTTTTTTCAA
65 GTTATTTTTTTTTCAA
19287586 TTTAAATAAATAAACTTT
1 TTTAAATAAAT-AACTTT
19287604 ATACTAACTT
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
79 21 0.25
80 57 0.69
81 5 0.06
ACGTcount: A:0.30, C:0.07, G:0.08, T:0.56
Consensus pattern (80 bp):
TTTAAATAAATAACTTTGTATTTATGTAATGAATTTTTTGCCATTTTATTAATCAATTTAATGGG
TTATTTTTTTTTCAA
Found at i:19310955 original size:13 final size:12
Alignment explanation
Indices: 19310926--19310952 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19310916 AAAGATTTTT
19310926 AAACTTTAAAAA
1 AAACTTTAAAAA
19310938 AAACTTTAAAAA
1 AAACTTTAAAAA
19310950 AAA
1 AAA
19310953 ACTAGTAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (12 bp):
AAACTTTAAAAA
Found at i:19313973 original size:21 final size:19
Alignment explanation
Indices: 19313949--19314003 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 19
19313939 GTTTGGGTTT
19313949 TTTTTTATAATTTTTAATATA
1 TTTTTTA-AATTTTTAATA-A
*
19313970 TTTTTAACAATTATTT-ATAA
1 TTTTTTA-AATT-TTTAATAA
19313990 -TTTTTAAATTTTTA
1 TTTTTTAAATTTTTA
19314004 TAGGTTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
17 3 0.10
18 4 0.14
19 5 0.17
20 1 0.03
21 13 0.45
22 3 0.10
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTTAAATTTTTAATAA
Found at i:19313991 original size:10 final size:9
Alignment explanation
Indices: 19313950--19314005 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 9
19313940 TTTGGGTTTT
19313950 TTTTTATAA
1 TTTTTATAA
19313959 TTTTTAATATA
1 TTTTT-ATA-A
*
19313970 TTTTTAACAA
1 TTTTT-ATAA
19313980 TTATTTATAA
1 TT-TTTATAA
19313990 TTTTTA-AA
1 TTTTTATAA
19313998 TTTTTATA
1 TTTTTATA
19314006 GGTTTATACT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 8 0.20
9 10 0.24
10 11 0.27
11 12 0.29
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:19317182 original size:21 final size:20
Alignment explanation
Indices: 19317129--19317182 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
19317119 TACCATCCAC
19317129 CTTTTTCTC-TCATTCATTAA
1 CTTTTTCTCTTC-TTCATTAA
* * *
19317149 CTCTTTCTTTTCTTCATTCAT
1 CTTTTTCTCTTCTTCATT-AA
19317170 CTTTTTCTCTTCT
1 CTTTTTCTCTTCT
19317183 CAGTTTAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.11, C:0.28, G:0.00, T:0.61
Consensus pattern (20 bp):
CTTTTTCTCTTCTTCATTAA
Found at i:19342888 original size:15 final size:14
Alignment explanation
Indices: 19342855--19342906 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
19342845 TTAATAAGTT
*
19342855 TAAAAATAGTGATA
1 TAAAAATAATGATA
*
19342869 AAAAAATAATGATA
1 TAAAAATAATGATA
*
19342883 TTAAAAATAAATAATA
1 -TAAAAAT-AATGATA
19342899 TAAAAATA
1 TAAAAATA
19342907 TGCAATACGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 13 0.41
15 13 0.41
16 6 0.19
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (14 bp):
TAAAAATAATGATA
Found at i:19350662 original size:12 final size:12
Alignment explanation
Indices: 19350645--19350670 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19350635 TTGTATATAG
19350645 AAAAAAACAAAA
1 AAAAAAACAAAA
19350657 AAAAAAACAAAA
1 AAAAAAACAAAA
19350669 AA
1 AA
19350671 TTGAGCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:19359657 original size:17 final size:17
Alignment explanation
Indices: 19359632--19359665 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
19359622 ATTGAATTGG
19359632 TTTTTATAATTT-TTTA
1 TTTTTATAATTTATTTA
19359648 TTTTTAATAATTTATTTA
1 TTTTT-ATAATTTATTTA
19359666 CTTTGAATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 7 0.44
18 4 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTATAATTTATTTA
Found at i:19359934 original size:17 final size:17
Alignment explanation
Indices: 19359882--19359936 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
19359872 GAAATTTTTG
*
19359882 TTTATATTTTAAAATCATTT
1 TTTAT-TTTTAAAA--ATTA
* *
19359902 TTTATTTTTCATAATTA
1 TTTATTTTTAAAAATTA
19359919 TTTATTTTTAAAAATTA
1 TTTATTTTTAAAAATTA
19359936 T
1 T
19359937 AAGTATTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 19 0.63
19 6 0.20
20 5 0.17
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATTTTTAAAAATTA
Found at i:19366516 original size:54 final size:54
Alignment explanation
Indices: 19366451--19366585 Score: 270
Period size: 54 Copynumber: 2.5 Consensus size: 54
19366441 CCTTATAGTG
19366451 GGATTACCAGTCCAGGCTAAATCCCCTATAATATAAACTCATAGAGTATTGTCA
1 GGATTACCAGTCCAGGCTAAATCCCCTATAATATAAACTCATAGAGTATTGTCA
19366505 GGATTACCAGTCCAGGCTAAATCCCCTATAATATAAACTCATAGAGTATTGTCA
1 GGATTACCAGTCCAGGCTAAATCCCCTATAATATAAACTCATAGAGTATTGTCA
19366559 GGATTACCAGTCCAGGCTAAATCCCCT
1 GGATTACCAGTCCAGGCTAAATCCCCT
19366586 GCAACGACAA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (54 bp):
GGATTACCAGTCCAGGCTAAATCCCCTATAATATAAACTCATAGAGTATTGTCA
Found at i:19378851 original size:14 final size:14
Alignment explanation
Indices: 19378832--19378858 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19378822 ACTCAAAATC
19378832 CTAAATCCGTAAAA
1 CTAAATCCGTAAAA
19378846 CTAAATCCGTAAA
1 CTAAATCCGTAAA
19378859 CTGGTGACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.22
Consensus pattern (14 bp):
CTAAATCCGTAAAA
Found at i:19382168 original size:19 final size:20
Alignment explanation
Indices: 19382146--19382195 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
19382136 AATGGAACTT
* *
19382146 GAGATCAAAAATTGAA-ATC
1 GAGATCAAAAAATCAAGATC
19382165 GAGAAT-AAAAAATCAAGATC
1 GAG-ATCAAAAAATCAAGATC
19382185 GAGATTCAAAA
1 GAGA-TCAAAA
19382196 CTAGTCGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 12 0.48
20 9 0.36
21 4 0.16
ACGTcount: A:0.56, C:0.10, G:0.16, T:0.18
Consensus pattern (20 bp):
GAGATCAAAAAATCAAGATC
Found at i:19383623 original size:13 final size:13
Alignment explanation
Indices: 19383607--19383631 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19383597 TGTAAAAAGC
19383607 AAAAGAAAAAAAA
1 AAAAGAAAAAAAA
19383620 AAAAGAAAAAAA
1 AAAAGAAAAAAA
19383632 GAAGAAGAAG
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAAA
Found at i:19386117 original size:18 final size:20
Alignment explanation
Indices: 19386077--19386125 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
19386067 TATTATAAAA
19386077 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAATAATTTAT
*
19386096 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTTAT
19386115 AAAAATTCAAA
1 AAAAATTCAAA
19386126 TTTTTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:19389262 original size:19 final size:19
Alignment explanation
Indices: 19389240--19389280 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
19389230 CATTTTATTA
* *
19389240 TTAAAAATTTTAAATATAT
1 TTAAAAATATAAAATATAT
*
19389259 TTAAAAATATAAAATATTT
1 TTAAAAATATAAAATATAT
19389278 TTA
1 TTA
19389281 GTTGATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAAAAATATAAAATATAT
Found at i:19390123 original size:13 final size:14
Alignment explanation
Indices: 19390107--19390139 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
19390097 TTTTAGTCTC
*
19390107 ATTTTTT-ATTTTT
1 ATTTTTTAATATTT
19390120 ATTTTTTAATATTT
1 ATTTTTTAATATTT
19390134 ATTTTT
1 ATTTTT
19390140 ATGTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
ATTTTTTAATATTT
Found at i:19390172 original size:25 final size:23
Alignment explanation
Indices: 19390111--19390174 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 23
19390101 AGTCTCATTT
*
19390111 TTTATTTTTAT-TTTT-TA-ATA
1 TTTATTTTTATATTTTAAATATA
*
19390131 TTTATTTTTATGTTTTAAATATA
1 TTTATTTTTATATTTTAAATATA
19390154 TTTGATTTATTATATTTTAAA
1 TTT-ATTT-TTATATTTTAAA
19390175 ATTTTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.30
21 4 0.11
22 1 0.03
23 6 0.16
24 4 0.11
25 11 0.30
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (23 bp):
TTTATTTTTATATTTTAAATATA
Found at i:19390794 original size:19 final size:20
Alignment explanation
Indices: 19390770--19390815 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
19390760 AACATGATTC
19390770 TTTAAATCTAATT-TTAAAA
1 TTTAAATCTAATTATTAAAA
* * *
19390789 TTTAAATTTAATTATTTAAT
1 TTTAAATCTAATTATTAAAA
19390809 TTTAAAT
1 TTTAAAT
19390816 AATATATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTAAATCTAATTATTAAAA
Found at i:19395051 original size:64 final size:64
Alignment explanation
Indices: 19394950--19395131 Score: 364
Period size: 64 Copynumber: 2.8 Consensus size: 64
19394940 TTCACACATC
19394950 TGTAACACCTCAATTCTAAATTTGTTTAGTAATTTCTTAAAATTTTAATATTTTACAACAAAAT
1 TGTAACACCTCAATTCTAAATTTGTTTAGTAATTTCTTAAAATTTTAATATTTTACAACAAAAT
19395014 TGTAACACCTCAATTCTAAATTTGTTTAGTAATTTCTTAAAATTTTAATATTTTACAACAAAAT
1 TGTAACACCTCAATTCTAAATTTGTTTAGTAATTTCTTAAAATTTTAATATTTTACAACAAAAT
19395078 TGTAACACCTCAATTCTAAATTTGTTTAGTAATTTCTTAAAATTTTAATATTTT
1 TGTAACACCTCAATTCTAAATTTGTTTAGTAATTTCTTAAAATTTTAATATTTT
19395132 TAGTAATTTA
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 118 1.00
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (64 bp):
TGTAACACCTCAATTCTAAATTTGTTTAGTAATTTCTTAAAATTTTAATATTTTACAACAAAAT
Found at i:19396108 original size:16 final size:17
Alignment explanation
Indices: 19396089--19396121 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
19396079 CATTCACGAT
*
19396089 TAAAAACATT-AATTAA
1 TAAAAAAATTCAATTAA
19396105 TAAAAAAATTCAATTAA
1 TAAAAAAATTCAATTAA
19396122 AATATAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAAAAATTCAATTAA
Found at i:19396322 original size:16 final size:16
Alignment explanation
Indices: 19396301--19396337 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
19396291 TACTGGAATT
19396301 GAATAGGGCTATAATA
1 GAATAGGGCTATAATA
* *
19396317 GAATAGGGTTATAATG
1 GAATAGGGCTATAATA
19396333 GAATA
1 GAATA
19396338 AAACTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.03, G:0.27, T:0.27
Consensus pattern (16 bp):
GAATAGGGCTATAATA
Found at i:19396579 original size:11 final size:10
Alignment explanation
Indices: 19396535--19396592 Score: 62
Period size: 10 Copynumber: 5.4 Consensus size: 10
19396525 ATTATTATTA
19396535 AATATAATTT
1 AATATAATTT
*
19396545 AATAAAATTAT
1 AATATAATT-T
19396556 AATAAATAATTT
1 AAT--ATAATTT
*
19396568 AATCATATTTT
1 AAT-ATAATTT
19396579 AATATAATTT
1 AATATAATTT
19396589 AATA
1 AATA
19396593 GAAATAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 18 0.45
11 13 0.32
12 4 0.10
13 5 0.12
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (10 bp):
AATATAATTT
Found at i:19399926 original size:20 final size:20
Alignment explanation
Indices: 19399901--19399951 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
19399891 ATTTTGATAA
*
19399901 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
19399921 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
*
19399941 ACATGAGATGT
1 ACATGACATGT
19399952 TCATAAATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ACATGACATGTATGATATGC
Found at i:19400095 original size:23 final size:24
Alignment explanation
Indices: 19399997--19400101 Score: 144
Period size: 23 Copynumber: 4.4 Consensus size: 24
19399987 GAGGAAGTGC
19399997 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
19400021 -AAAGGGCTTATGCCCCAGTTATGAT
1 AAAAGGGCTTATGCCCCAGTTAT--T
19400046 AAAA-GGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
19400069 AAAAGGGCTT-TGCCCTAGTCATT
1 AAAAGGGCTTATGCCCCAGTTATT
19400092 AAAAGAGGCT
1 AAAAG-GGCT
19400102 AGCCCTCCAG
Statistics
Matches: 74, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
23 43 0.58
24 9 0.12
25 19 0.26
26 3 0.04
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:19400101 original size:48 final size:48
Alignment explanation
Indices: 19399997--19400101 Score: 144
Period size: 48 Copynumber: 2.2 Consensus size: 48
19399987 GAGGAAGTGC
*
19399997 AAAAG-GGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATG
1 AAAAGAGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTCATG
* *
19400044 ATAAA-AGGCTTATGCCCCAGTTATTAAAAGGGCTT-TGCCCTAGTCATT
1 A-AAAGAGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTCATG
19400092 AAAAGAGGCT
1 AAAAGAGGCT
19400102 AGCCCTCCAG
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
47 4 0.08
48 38 0.75
49 9 0.18
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAAGAGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTCATG
Found at i:19400115 original size:48 final size:48
Alignment explanation
Indices: 19399997--19400090 Score: 145
Period size: 48 Copynumber: 1.9 Consensus size: 48
19399987 GAGGAAGTGC
*
19399997 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGAT
1 AAAA-GGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTCATGAT
*
19400046 AAAAGGCTTATGCCCCAGTTATTAAAAGGGCTT-TGCCCTAGTCAT
1 AAAAGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTCAT
19400091 TAAAAGAGGC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
48 29 0.69
49 13 0.31
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (48 bp):
AAAAGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTCATGAT
Found at i:19400345 original size:31 final size:31
Alignment explanation
Indices: 19400310--19400373 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
19400300 CGTTTACAGT
19400310 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
19400341 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
19400372 AA
1 AA
19400374 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:19400546 original size:24 final size:25
Alignment explanation
Indices: 19400494--19400546 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 25
19400484 AAACTCACCA
*
19400494 AGGCTTATGCCCCAGTTATTAAAAG
1 AGGCTTATGCCCCAGTCATTAAAAG
*
19400519 -GGCTT-TGCCCTAGTCATTAAAAG
1 AGGCTTATGCCCCAGTCATTAAAAG
19400542 AGGCT
1 AGGCT
19400547 AGCCCTCCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (25 bp):
AGGCTTATGCCCCAGTCATTAAAAG
Found at i:19400551 original size:23 final size:23
Alignment explanation
Indices: 19400495--19400552 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
19400485 AACTCACCAA
* *
19400495 GGCTTATGCCCCAGTTATTAAAAG
1 GGCTTA-GCCCTAGTCATTAAAAG
*
19400519 GGCTTTGCCCTAGTCATTAAAAG
1 GGCTTAGCCCTAGTCATTAAAAG
19400542 AGGC-TAGCCCT
1 -GGCTTAGCCCT
19400553 CCAGTTATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 21 0.72
24 8 0.28
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (23 bp):
GGCTTAGCCCTAGTCATTAAAAG
Found at i:19403502 original size:22 final size:22
Alignment explanation
Indices: 19403476--19403530 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
19403466 TGCACTATTG
*
19403476 AACAGAAAGCACTAAAGTGCTA
1 AACAGAAAGCACGAAAGTGCTA
* * *
19403498 TACAGAGAGCACGAATGTGCTA
1 AACAGAAAGCACGAAAGTGCTA
*
19403520 AACGGAAAGCA
1 AACAGAAAGCA
19403531 GTAATGTACT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (22 bp):
AACAGAAAGCACGAAAGTGCTA
Found at i:19403536 original size:22 final size:22
Alignment explanation
Indices: 19403476--19403542 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
19403466 TGCACTATTG
* *
19403476 AACAGAAAGCACTAAAGTGCTA
1 AACAGAAAGCAGTAATGTGCTA
* *
19403498 TACAGAGAGCACG-AATGTGCTA
1 AACAGAAAGCA-GTAATGTGCTA
* *
19403520 AACGGAAAGCAGTAATGTACTA
1 AACAGAAAGCAGTAATGTGCTA
19403542 A
1 A
19403543 TAATCGTAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.97
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.16
Consensus pattern (22 bp):
AACAGAAAGCAGTAATGTGCTA
Found at i:19414364 original size:56 final size:56
Alignment explanation
Indices: 19414277--19414404 Score: 220
Period size: 56 Copynumber: 2.3 Consensus size: 56
19414267 AGAGAGCTAC
19414277 CTTATATCTTTAATTTTGTTTTCTCTAAAAATGAGCTGAGATATCAGATTCACTAA
1 CTTATATCTTTAATTTTGTTTTCTCTAAAAATGAGCTGAGATATCAGATTCACTAA
* * *
19414333 CTTATATCTTTAATTTTGTTTTCTCTGAAAATGAGCTGAGATATCAGATTCATTAC
1 CTTATATCTTTAATTTTGTTTTCTCTAAAAATGAGCTGAGATATCAGATTCACTAA
*
19414389 CTTGTATCTTTAATTT
1 CTTATATCTTTAATTT
19414405 GCCTTGCTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 68 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (56 bp):
CTTATATCTTTAATTTTGTTTTCTCTAAAAATGAGCTGAGATATCAGATTCACTAA
Found at i:19423051 original size:24 final size:24
Alignment explanation
Indices: 19423005--19423054 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
19422995 AATATAGTAT
*
19423005 TAGAAATATATACATGGGATAATA
1 TAGAAATATATACATGAGATAATA
*
19423029 TAGAAATATGTACAT-AGAGTAATA
1 TAGAAATATATACATGAGA-TAATA
19423053 TA
1 TA
19423055 TACAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.50, C:0.04, G:0.16, T:0.30
Consensus pattern (24 bp):
TAGAAATATATACATGAGATAATA
Found at i:19423083 original size:21 final size:21
Alignment explanation
Indices: 19423059--19423140 Score: 58
Period size: 21 Copynumber: 3.7 Consensus size: 21
19423049 AATATATACA
19423059 AAAATATAACTAATAATATTT
1 AAAATATAACTAATAATATTT
*** *
19423080 AAAATAATAA-TAGGGATATTA
1 AAAAT-ATAACTAATAATATTT
* *
19423101 AAAATACTTAGTATATAATATTT
1 AAAATA-TAACTA-ATAATATTT
19423124 AAAATATATACATAATA
1 AAAATATA-AC-TAATA
19423141 CAAAAACATA
Statistics
Matches: 44, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
20 1 0.02
21 19 0.43
22 7 0.16
23 15 0.34
24 2 0.05
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAATATAACTAATAATATTT
Found at i:19423146 original size:42 final size:39
Alignment explanation
Indices: 19423048--19423146 Score: 92
Period size: 44 Copynumber: 2.4 Consensus size: 39
19423038 GTACATAGAG
*
19423048 TAATATATACAAAAATATAACTAATAATATTTAAAATAA
1 TAATAGATACAAAAATATAACTAATAATATTTAAAATAA
* * *
19423087 TAATAGGGATATTAAAAATACTTAGTATATAATATTTAAAATATA
1 TAATA--GATA-CAAAAATA-TAACTA-ATAATATTTAAAATA-A
19423132 TACATA-ATACAAAAA
1 TA-ATAGATACAAAAA
19423147 CATATATAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
39 5 0.10
41 3 0.06
42 12 0.25
43 7 0.15
44 15 0.31
45 3 0.06
46 3 0.06
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (39 bp):
TAATAGATACAAAAATATAACTAATAATATTTAAAATAA
Found at i:19423317 original size:22 final size:22
Alignment explanation
Indices: 19423273--19423317 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
19423263 TATATAAAGT
* *
19423273 ATAATATTAAAAACACATGTAC
1 ATAATATTAAAAACAAATATAC
19423295 ATAATATATAAAAA-AAATATAC
1 ATAATAT-TAAAAACAAATATAC
19423317 A
1 A
19423318 CGTATAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.27
Consensus pattern (22 bp):
ATAATATTAAAAACAAATATAC
Found at i:19425841 original size:19 final size:18
Alignment explanation
Indices: 19425817--19425859 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
19425807 ATAATTTAAT
*
19425817 TTAATTCTATTTTAAAAAA
1 TTAATTCTA-ATTAAAAAA
*
19425836 TTAATTTTAATTAAAAAA
1 TTAATTCTAATTAAAAAA
19425854 TATAAT
1 T-TAAT
19425860 GTATCACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTCTAATTAAAAAA
Found at i:19426026 original size:19 final size:19
Alignment explanation
Indices: 19426003--19426040 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
19425993 TGTCACTAGT
*
19426003 ATTTTTTA-GTACTAATAA
1 ATTTTTTATATACTAATAA
*
19426021 ATTTTTTATATATTAATAA
1 ATTTTTTATATACTAATAA
19426040 A
1 A
19426041 AATTAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (19 bp):
ATTTTTTATATACTAATAA
Found at i:19426063 original size:16 final size:18
Alignment explanation
Indices: 19426030--19426064 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
19426020 AATTTTTTAT
19426030 ATATTAATAAAAATTAAA
1 ATATTAATAAAAATTAAA
19426048 ATATTAA-AAAAA-TAAA
1 ATATTAATAAAAATTAAA
19426064 A
1 A
19426065 AAAAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 5 0.29
18 7 0.41
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
ATATTAATAAAAATTAAA
Found at i:19426066 original size:18 final size:18
Alignment explanation
Indices: 19426030--19426065 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
19426020 AATTTTTTAT
*
19426030 ATATTAATAAAAATTAAA
1 ATATTAATAAAAATAAAA
19426048 ATATTAA-AAAAATAAAA
1 ATATTAATAAAAATAAAA
19426065 A
1 A
19426066 AAAATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
ATATTAATAAAAATAAAA
Found at i:19432647 original size:19 final size:19
Alignment explanation
Indices: 19432623--19432664 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
19432613 AAAACTGTGA
19432623 TTTTATGTTATTTTTATTC
1 TTTTATGTTATTTTTATTC
19432642 TTTTATGTTATTTTTATTC
1 TTTTATGTTATTTTTATTC
19432661 TTTT
1 TTTT
19432665 TTAATAGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTTATGTTATTTTTATTC
Found at i:19440545 original size:21 final size:21
Alignment explanation
Indices: 19440520--19440563 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
19440510 TTTTTTTATA
*
19440520 TTAAAAT-ATATATATATTTTT
1 TTAAAATAAAATAT-TATTTTT
19440541 TT-AAATAAAATATTATTTTT
1 TTAAAATAAAATATTATTTTT
19440561 TTA
1 TTA
19440564 TTTTCGGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTAAAATAAAATATTATTTTT
Found at i:19440734 original size:15 final size:16
Alignment explanation
Indices: 19440716--19440750 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
19440706 AATAAAAAAA
19440716 ATTATAT-AAAATTAC
1 ATTATATAAAAATTAC
19440731 ATTATATAAAAATTAC
1 ATTATATAAAAATTAC
19440747 ATTA
1 ATTA
19440751 AAAAATACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTATATAAAAATTAC
Found at i:19443180 original size:38 final size:38
Alignment explanation
Indices: 19443138--19443213 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
19443128 TGGTGCTCAT
19443138 ATAATTTGTAAAAGACAGATAACTTATAGGGAACTGTA
1 ATAATTTGTAAAAGACAGATAACTTATAGGGAACTGTA
19443176 ATAATTTGTAAAAGACAGATAACTTATAGGGAACTGTA
1 ATAATTTGTAAAAGACAGATAACTTATAGGGAACTGTA
19443214 CTTTCGGTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (38 bp):
ATAATTTGTAAAAGACAGATAACTTATAGGGAACTGTA
Found at i:19449583 original size:43 final size:42
Alignment explanation
Indices: 19449519--19449706 Score: 214
Period size: 43 Copynumber: 4.4 Consensus size: 42
19449509 AAAAAAAAAT
* * *
19449519 GCCGCTAAAAGCCATGACTTTTAGCGGCGCTTTTCACACAAAC
1 GCCGCTAAAAACAATGACTTTTAGCGGCACTTTTC-CACAAAC
* * * *
19449562 GCCGCTAAAAACCATGGCTTTTAGTGGCACTTTTGTCACAAAC
1 GCCGCTAAAAACAATGACTTTTAGCGGCACTTTT-CCACAAAC
* *
19449605 GCCACTAAAAACAATGACTTTTAGCAGCACTTTTGCCACAAAC
1 GCCGCTAAAAACAATGACTTTTAGCGGCACTTTT-CCACAAAC
* * *
19449648 ACCGCTAAAAACAATAACTTTTAGCGACACTTTTTCCACAAAC
1 GCCGCTAAAAACAATGACTTTTAGCGGCAC-TTTTCCACAAAC
*
19449691 GCCACTAAAGAACAAT
1 GCCGCTAAA-AACAAT
19449707 ACATTAAAAA
Statistics
Matches: 124, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
43 114 0.92
44 10 0.08
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.24
Consensus pattern (42 bp):
GCCGCTAAAAACAATGACTTTTAGCGGCACTTTTCCACAAAC
Found at i:19449669 original size:86 final size:86
Alignment explanation
Indices: 19449523--19449706 Score: 237
Period size: 86 Copynumber: 2.1 Consensus size: 86
19449513 AAAAATGCCG
* * * * * * ** *
19449523 CTAAAAGCCATGACTTTTAGCGGCGCTTTTCACACAAACGCCGCTAAAAACCATGGCTTTTAGTG
1 CTAAAAACAATGACTTTTAGCAGCACTTTTCACACAAACACCGCTAAAAACAATAACTTTTAGCG
*
19449588 GCACTTTTGT-CACAAACGCCA
66 ACACTTTT-TCCACAAACGCCA
19449609 CTAAAAACAATGACTTTTAGCAGCACTTTTGC-CACAAACACCGCTAAAAACAATAACTTTTAGC
1 CTAAAAACAATGACTTTTAGCAGCACTTTT-CACACAAACACCGCTAAAAACAATAACTTTTAGC
19449673 GACACTTTTTCCACAAACGCCA
65 GACACTTTTTCCACAAACGCCA
19449695 CTAAAGAACAAT
1 CTAAA-AACAAT
19449707 ACATTAAAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
85 1 0.01
86 77 0.91
87 7 0.08
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.24
Consensus pattern (86 bp):
CTAAAAACAATGACTTTTAGCAGCACTTTTCACACAAACACCGCTAAAAACAATAACTTTTAGCG
ACACTTTTTCCACAAACGCCA
Found at i:19449887 original size:12 final size:12
Alignment explanation
Indices: 19449866--19449899 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
19449856 ACATAAACAT
*
19449866 TAATTCAATATG
1 TAATTTAATATG
19449878 TAATTTAATATG
1 TAATTTAATATG
19449890 TAATTTAATA
1 TAATTTAATA
19449900 CATTTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (12 bp):
TAATTTAATATG
Found at i:19450786 original size:70 final size:70
Alignment explanation
Indices: 19450666--19450799 Score: 162
Period size: 70 Copynumber: 1.9 Consensus size: 70
19450656 AACCGCATAG
* * * *
19450666 ATATATTACAGATAACTGCAAAGCAATACAACTAGAAAAAATTCCAAGCCATATTAATATTCACA
1 ATATATTACAGAGAACTGAAAAGAAATACAACTAGAAAAAATTCCAAGCCATATTAACATTCACA
19450731 TAGAT
66 TAGAT
* * * * * *
19450736 ATATATTATAGAGAACTGAAAAGAAATATAACTTGAAAAAGA-TGCGAGCCATATTGACATTCAC
1 ATATATTACAGAGAACTGAAAAGAAATACAACTAGAAAAA-ATTCCAAGCCATATTAACATTCAC
19450800 CATTTAGTCC
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
70 52 0.98
71 1 0.02
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.25
Consensus pattern (70 bp):
ATATATTACAGAGAACTGAAAAGAAATACAACTAGAAAAAATTCCAAGCCATATTAACATTCACA
TAGAT
Found at i:19454043 original size:20 final size:20
Alignment explanation
Indices: 19454006--19454064 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 20
19453996 GACTAAAATA
19454006 TTAAATATTTAAGTTTTTTATTT
1 TTAAAT-TTTAA--TTTTTATTT
*
19454029 TTAAATTTTTATTTTTATTT
1 TTAAATTTTAATTTTTATTT
19454049 TTAAATTTTAATTTTT
1 TTAAATTTTAATTTTT
19454065 TTGAAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 24 0.71
22 4 0.12
23 6 0.18
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTAAATTTTAATTTTTATTT
Found at i:19454062 original size:14 final size:14
Alignment explanation
Indices: 19454006--19454064 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 14
19453996 GACTAAAATA
19454006 TTAAATATTTAAGTTT
1 TTAAAT-TTTAA-TTT
* *
19454022 TTTATTTTTAAATTT
1 TTAAATTTT-AATTT
*
19454037 TT--ATTTTTATTT
1 TTAAATTTTAATTT
19454049 TTAAATTTTAATTT
1 TTAAATTTTAATTT
19454063 TT
1 TT
19454065 TTGAAAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
12 6 0.17
13 4 0.11
14 11 0.31
15 8 0.23
16 6 0.17
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (14 bp):
TTAAATTTTAATTT
Found at i:19454082 original size:9 final size:8
Alignment explanation
Indices: 19454006--19454090 Score: 56
Period size: 8 Copynumber: 10.9 Consensus size: 8
19453996 GACTAAAATA
*
19454006 TTAAATAT
1 TTAAATTT
*
19454014 TTAAGTTT
1 TTAAATTT
*
19454022 TT-TATTT
1 TTAAATTT
19454029 TTAAATTT
1 TTAAATTT
19454037 TT--ATTT
1 TTAAATTT
19454043 TT--ATTT
1 TTAAATTT
19454049 TTAAA-TT
1 TTAAATTT
*
19454056 TTAATTTTT
1 TTAA-ATTT
19454065 TTGAAAATTT
1 TT--AAATTT
19454075 TTATAATTT
1 TTA-AATTT
19454084 TTAAATT
1 TTAAATT
19454091 ATATAAGATA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
6 12 0.19
7 11 0.18
8 20 0.32
9 12 0.19
10 5 0.08
11 2 0.03
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (8 bp):
TTAAATTT
Found at i:19454429 original size:25 final size:23
Alignment explanation
Indices: 19454401--19454452 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 23
19454391 ATACATCCAT
* *
19454401 ATATTTCTATATTCAATAAATATAA
1 ATATTTATATATGCAAT--ATATAA
*
19454426 ATATTTATGTATGCAATATATAA
1 ATATTTATATATGCAATATATAA
19454449 ATAT
1 ATAT
19454453 AAAATGATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 10 0.42
25 14 0.58
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (23 bp):
ATATTTATATATGCAATATATAA
Found at i:19454884 original size:14 final size:14
Alignment explanation
Indices: 19454848--19454899 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
19454838 AGAGGTTAGT
*
19454848 TTTAAGGCTTGGGG
1 TTTAAGGGTTGGGG
19454862 TTTAAGGGTTGGGG
1 TTTAAGGGTTGGGG
** *
19454876 TTTCGGGGTTGGAGT
1 TTTAAGGGTTGG-GG
19454891 TTTAAGGGT
1 TTTAAGGGT
19454900 ATATGGTTTG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
14 23 0.74
15 8 0.26
ACGTcount: A:0.13, C:0.04, G:0.44, T:0.38
Consensus pattern (14 bp):
TTTAAGGGTTGGGG
Found at i:19454979 original size:22 final size:22
Alignment explanation
Indices: 19454882--19454979 Score: 69
Period size: 22 Copynumber: 4.6 Consensus size: 22
19454872 GGGGTTTCGG
* * *
19454882 GGTTGGAGTTTTAAGGGTATAT
1 GGTTTGAGATTTAAGGGTTTAT
* *
19454904 GGTTTGAGATTT-AGGGCTT-G
1 GGTTTGAGATTTAAGGGTTTAT
* *
19454924 GGGTTGGGA-TTAA-GGTTTAT
1 GGTTTGAGATTTAAGGGTTTAT
* *
19454944 TGTTTAGAGTTTTAAGGGTTTAT
1 GGTTT-GAGATTTAAGGGTTTAT
*
19454967 GATTTGAGATTTA
1 GGTTTGAGATTTA
19454980 GGGACCAGTG
Statistics
Matches: 55, Mismatches: 16, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
19 6 0.11
20 11 0.20
21 7 0.13
22 21 0.38
23 10 0.18
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.44
Consensus pattern (22 bp):
GGTTTGAGATTTAAGGGTTTAT
Found at i:19455673 original size:41 final size:41
Alignment explanation
Indices: 19455614--19455728 Score: 221
Period size: 41 Copynumber: 2.8 Consensus size: 41
19455604 AGTTTAGATC
*
19455614 TATAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTGTACT
1 TATAGCGGCGTTTCTTAAAAAAGCGCCGCTAAAAGTGTACT
19455655 TATAGCGGCGTTTCTTAAAAAAGCGCCGCTAAAAGTGTACT
1 TATAGCGGCGTTTCTTAAAAAAGCGCCGCTAAAAGTGTACT
19455696 TATAGCGGCGTTTCTTAAAAAAGCGCCGCTAAA
1 TATAGCGGCGTTTCTTAAAAAAGCGCCGCTAAA
19455729 TCCACTAAAA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (41 bp):
TATAGCGGCGTTTCTTAAAAAAGCGCCGCTAAAAGTGTACT
Found at i:19455907 original size:39 final size:40
Alignment explanation
Indices: 19455814--19455924 Score: 127
Period size: 40 Copynumber: 2.8 Consensus size: 40
19455804 AGGTCAAGCA
*
19455814 TTAGCGGCGTTTTTTAAAAAACGCCGCTAAAGATGTAAAT
1 TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGATGTAAAT
* * * * **
19455854 ATAGCGGCGCTTTTTAAAAAACGGCGCTAATGCT-TGATCT
1 TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGATGT-AAAT
*
19455894 TTAGCGGCG-TTTTTAAAAAGCGCCGCTAAAG
1 TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAG
19455925 CCATTAAAGG
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
39 20 0.34
40 39 0.66
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (40 bp):
TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGATGTAAAT
Found at i:19455952 original size:195 final size:197
Alignment explanation
Indices: 19455616--19455980 Score: 498
Period size: 195 Copynumber: 1.9 Consensus size: 197
19455606 TTTAGATCTA
**
19455616 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTGTACTTATAGCGGCGTTTCTTAAAAAAGCGC
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTGTAAATATAGCGGCGTTTCTTAAAAAAGCGC
*
19455681 CGCTAAAAGTGTACTTATAGCGGCGTTTCTTAAAAAAGCGCCGCTAAATCCACTAAAAGGTCAAT
66 CGCTAAAAGTGTACTTATAGCGGCGTTTCTTAAAAAAGCGCCGCTAAAGCCACTAAAAGGTCAAT
*
19455746 ACAAAACGACGACATTTTGTAAAATTCGTTTTGCGGCGTTTTCTGAAAATGCTGCTAAAGGTCAA
131 ACAAAACGACGACATTGTGT-AAATT-GTTTTGCGGCGTTTTCTGAAAATGCTGCTAAAGGTCAA
19455811 GCAT
194 GCAT
19455815 TAGCGGCGTTTTTTAAAAAA-CGCCGCT-AAAGATGTAAATATAGCGGCGCTTT-TTAAAAAA-C
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAG-TGTAAATATAGCGGCG-TTTCTTAAAAAAGC
* * *
19455876 GGCGCT-AATGCT-TGATCTT-TAGCGGCGTTT-TT-AAAAAGCGCCGCTAAAGCCA-TTAAAGG
64 GCCGCTAAAAG-TGT-A-CTTATAGCGGCGTTTCTTAAAAAAGCGCCGCTAAAGCCACTAAAAGG
* * *
19455935 CTCAATACAAAACGACGACGTTGTGTTAATTTTTTTGCGGCGTTTT
126 -TCAATACAAAACGACGACATTGTGTAAATTGTTTTGCGGCGTTTT
19455981 TCAATATTAA
Statistics
Matches: 150, Mismatches: 10, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
193 14 0.09
194 10 0.07
195 42 0.28
196 6 0.04
197 23 0.15
198 32 0.21
199 23 0.15
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (197 bp):
TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTGTAAATATAGCGGCGTTTCTTAAAAAAGCGC
CGCTAAAAGTGTACTTATAGCGGCGTTTCTTAAAAAAGCGCCGCTAAAGCCACTAAAAGGTCAAT
ACAAAACGACGACATTGTGTAAATTGTTTTGCGGCGTTTTCTGAAAATGCTGCTAAAGGTCAAGC
AT
Found at i:19456074 original size:39 final size:40
Alignment explanation
Indices: 19456000--19456086 Score: 106
Period size: 39 Copynumber: 2.2 Consensus size: 40
19455990 AGCATTAGTG
*
19456000 GCGTTTTTAAAAAAGCTCTGCTAGTACTCGATCTTTAGCA
1 GCGTTTTTAAAAAAGCTCTGCTAATACTCGATCTTTAGCA
* ** *
19456040 GCGTTTTT-AAAAAGCGTC-GCTAATGCTCTTTCTTTAGCG
1 GCGTTTTTAAAAAAGC-TCTGCTAATACTCGATCTTTAGCA
19456079 GCGTTTTT
1 GCGTTTTT
19456087 CATTCAAACG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 31 0.76
40 10 0.24
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (40 bp):
GCGTTTTTAAAAAAGCTCTGCTAATACTCGATCTTTAGCA
Found at i:19462787 original size:2 final size:2
Alignment explanation
Indices: 19462780--19462812 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
19462770 GTGAAAGATC
19462780 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
19462813 CTACAATTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:19468124 original size:3 final size:3
Alignment explanation
Indices: 19468118--19468170 Score: 70
Period size: 3 Copynumber: 17.3 Consensus size: 3
19468108 CATTACTACT
* *
19468118 TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA TCA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
19468164 TCA TTA T
1 TTA TTA T
19468171 ACTTATACTC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:19468138 original size:16 final size:16
Alignment explanation
Indices: 19468079--19468164 Score: 72
Period size: 16 Copynumber: 5.4 Consensus size: 16
19468069 ATTTTCTTAC
*
19468079 TATTATTTATTATCAT
1 TATTATTTATTATTAT
19468095 T-TCT-TCTTATT-TTCAT
1 TAT-TAT-TTATTATT-AT
*
19468111 TACTACTTTATTATTAT
1 TATTA-TTTATTATTAT
19468128 TATTATTTATTATTAT
1 TATTATTTATTATTAT
* *
19468144 TATTA-TCATTATTAC
1 TATTATTTATTATTAT
19468159 TATTAT
1 TATTAT
19468165 CATTATACTT
Statistics
Matches: 57, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
15 16 0.28
16 27 0.47
17 11 0.19
18 3 0.05
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTATTTATTATTAT
Found at i:19468481 original size:26 final size:24
Alignment explanation
Indices: 19468423--19468482 Score: 59
Period size: 28 Copynumber: 2.3 Consensus size: 24
19468413 TTCCTTTTTA
19468423 TATTTA-TTTACTTGTTACTTCAT
1 TATTTATTTTACTTGTTACTTCAT
*
19468446 TACTAATTATTTTGACTTGTTATTATCAT
1 TA-T--TTATTTT-ACTTGTTACT-TCAT
19468475 TATTTATT
1 TATTTATT
19468483 GTTATTATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
23 2 0.07
24 1 0.03
26 8 0.27
27 3 0.10
28 10 0.33
29 6 0.20
ACGTcount: A:0.25, C:0.10, G:0.05, T:0.60
Consensus pattern (24 bp):
TATTTATTTTACTTGTTACTTCAT
Found at i:19469774 original size:19 final size:18
Alignment explanation
Indices: 19469726--19469774 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
19469716 ATTTATAAGA
19469726 AAATGTATAAAACAAATTT
1 AAAT-TATAAAACAAATTT
* * *
19469745 AAAATACAAAAGAAATTAT
1 AAATTATAAAACAAATT-T
19469764 AAATTATAAAA
1 AAATTATAAAA
19469775 AATTATGTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATTATAAAACAAATTT
Found at i:19470450 original size:31 final size:31
Alignment explanation
Indices: 19470390--19470460 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
19470380 GAGAGTGGTT
*
19470390 AAAATAGAAATGATCTAAAACGTGAGTGACC
1 AAAATAGAAATGATCTAAAACATGAGTGACC
* ** *
19470421 AAAATAGAAATGATTTAAAACATTTGTGACT
1 AAAATAGAAATGATCTAAAACATGAGTGACC
19470452 AAAAT-GAAA
1 AAAATAGAAA
19470461 ATTTTCATAG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 4 0.11
31 31 0.89
ACGTcount: A:0.52, C:0.08, G:0.15, T:0.24
Consensus pattern (31 bp):
AAAATAGAAATGATCTAAAACATGAGTGACC
Found at i:19470996 original size:15 final size:16
Alignment explanation
Indices: 19470962--19471010 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
19470952 TATGTTGTAA
19470962 ATATGTATCAAATATG
1 ATATGTATCAAATATG
* *
19470978 ATATGTA-CATATTTG
1 ATATGTATCAAATATG
*
19470993 ATA--TATCAAACATG
1 ATATGTATCAAATATG
19471007 ATAT
1 ATAT
19471011 ATACACAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
13 2 0.08
14 8 0.31
15 9 0.35
16 7 0.27
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (16 bp):
ATATGTATCAAATATG
Found at i:19472962 original size:16 final size:16
Alignment explanation
Indices: 19472941--19473008 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
19472931 TTTGGTTCGT
19472941 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
19472957 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
19472973 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
19472989 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
19473005 TGTA
1 TGTA
19473009 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:19473048 original size:45 final size:41
Alignment explanation
Indices: 19472989--19473098 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
19472979 GGATTAGAGG
*
19472989 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
19473031 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
19473074 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
19473099 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:19473261 original size:16 final size:16
Alignment explanation
Indices: 19473224--19473265 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
19473214 TTAATCATAT
*
19473224 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
19473240 TT-AAATATATTATAA
1 TTAAAATATATTATAA
19473255 TTAAAATATAT
1 TTAAAATATAT
19473266 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:19473272 original size:14 final size:15
Alignment explanation
Indices: 19473233--19473274 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
19473223 TTTAAACATA
*
19473233 ATTATTATTAAATAT
1 ATTATAATTAAATAT
19473248 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
19473262 A-TATAATTTAATA
1 ATTATAATTAAATA
19473275 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:19473391 original size:18 final size:17
Alignment explanation
Indices: 19473364--19473398 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19473354 TTAATATTAA
*
19473364 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
19473382 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
19473399 TCTTAACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:19475853 original size:29 final size:31
Alignment explanation
Indices: 19475812--19475888 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
19475802 TTTGTTTCCA
*
19475812 GTTATATTTTAGTCATTTATG-T-TTGAATT
1 GTTACATTTTAGTCATTTATGTTATTGAATT
* *
19475841 GTTACATTTTAGTCACTTATGTTATTGTATT
1 GTTACATTTTAGTCATTTATGTTATTGAATT
*
19475872 GTAACATTTTAGTCATT
1 GTTACATTTTAGTCATT
19475889 GAGTCATTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
29 19 0.46
30 1 0.02
31 21 0.51
ACGTcount: A:0.25, C:0.08, G:0.13, T:0.55
Consensus pattern (31 bp):
GTTACATTTTAGTCATTTATGTTATTGAATT
Found at i:19485343 original size:25 final size:22
Alignment explanation
Indices: 19485280--19485344 Score: 62
Period size: 25 Copynumber: 2.8 Consensus size: 22
19485270 ATGTACACGG
19485280 AATAGTATATAAAA-ATATAACT
1 AATA-TATATAAAATATATAACT
19485302 AATA-ATATTGAAAATATATATACAT
1 AATATATA-T-AAAATATATA-AC-T
19485327 AATATATATAAACATATA
1 AATATATATAAA-ATATA
19485345 CGATATATAC
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
20 3 0.08
21 1 0.03
22 8 0.22
23 5 0.14
24 5 0.14
25 11 0.31
26 3 0.08
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (22 bp):
AATATATATAAAATATATAACT
Found at i:19485358 original size:15 final size:15
Alignment explanation
Indices: 19485317--19485360 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
19485307 TATTGAAAAT
*
19485317 ATATATACATAATA-T
1 ATATATACAT-ATACG
*
19485332 ATATAAACATATACG
1 ATATATACATATACG
19485347 ATATATACATATAC
1 ATATATACATATAC
19485361 ATTAGAAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 3 0.12
15 22 0.88
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (15 bp):
ATATATACATATACG
Found at i:19485362 original size:21 final size:21
Alignment explanation
Indices: 19485319--19485362 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
19485309 TTGAAAATAT
*
19485319 ATATACATAATATATATAAAC
1 ATATACATAATATACATAAAC
*
19485340 ATATACGAT-ATATACATATAC
1 ATATAC-ATAATATACATAAAC
19485361 AT
1 AT
19485363 TAGAAATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (21 bp):
ATATACATAATATACATAAAC
Found at i:19485733 original size:17 final size:17
Alignment explanation
Indices: 19485700--19485733 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19485690 TAATGTTTCA
*
19485700 TAAATATATAAATATAT
1 TAAATATATAAACATAT
*
19485717 TAAATATATACACATAT
1 TAAATATATAAACATAT
19485734 ATGTACATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATATATAAACATAT
Found at i:19486317 original size:21 final size:19
Alignment explanation
Indices: 19486273--19486319 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
19486263 ATCATTTGGT
19486273 GAGGAGA-AAAGAAAAAAA
1 GAGGAGAGAAAGAAAAAAA
*
19486291 -AAGAGAGAAAGAAGAAAGAA
1 GAGGAGAGAAAGAA-AAA-AA
19486311 GAGGAGAGA
1 GAGGAGAGA
19486320 GAGAGGGAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 3 0.13
20 2 0.09
21 7 0.30
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (19 bp):
GAGGAGAGAAAGAAAAAAA
Found at i:19487156 original size:756 final size:756
Alignment explanation
Indices: 19486163--19487678 Score: 2919
Period size: 756 Copynumber: 2.0 Consensus size: 756
19486153 GGTCGGACGG
19486163 TTTGGGTCATGCTCAAAACAACGTCGTTTGGGGTTAAAAGACAGCCCCCAAAACGACGTCGTTTT
1 TTTGGGTCATGCTCAAAACAACGTCGTTTGGGGTTAAAAGACAGCCCCCAAAACGACGTCGTTTT
*
19486228 GTAGGGCTATATAAGGCCCTAAATTGACAAAAAAAATCATTTGGTGAGGAGAAAAGAAAAAAAAA
66 GGAGGGCTATATAAGGCCCTAAATTGACAAAAAAAATCATTTGGTGAGGAGAAAAGAAAAAAAAA
19486293 GAGAGAAAGAAGAAAGAAGAGGAGAGAGAGAGGGAGCTCCGGCCAGGGGAGAATCCGGCCAGCAG
131 GAGAGAAAGAAGAAAGAAGAGGAGAGAGAGAGGGAGCTCCGGCCAGGGGAGAATCCGGCCAGCAG
19486358 CATAATAAATCAGTGATAATGCTTTGGTGAACAACGAGCAATGATGCCTCAAGCATTTTTTACCA
196 CATAATAAATCAGTGATAATGCTTTGGTGAACAACGAGCAATGATGCCTCAAGCATTTTTTACCA
19486423 AGAAAAAGAAAAAAGAAAAGATCATTTAAAAAAGATCATTTTCATTTTTTGCATTCATATATCAT
261 AGAAAAAGAAAAAAGAAAAGATCATTTAAAAAAGATCATTTTCATTTTTTGCATTCATATATCAT
19486488 TCATCACATCTAGTTAGATGCATTTGATTCATTTCGATAATAACATCCTAATTATTTGGGTCATG
326 TCATCACATCTAGTTAGATGCATTTGATTCATTTCGATAATAACATCCTAATTATTTGGGTCATG
19486553 CTCAAAACAACGTCGTTTGGGGTTAAAAGGCAGCCCCCAAAACGACGTCGTTTTGGAGGGCTATA
391 CTCAAAACAACGTCGTTTGGGGTTAAAAGGCAGCCCCCAAAACGACGTCGTTTTGGAGGGCTATA
19486618 TAAGGCCCTAAATTGACAAAAAAATCATTTGGTGAGGAGAAAAGAAAAAAAAAAGAGAGAAAGAA
456 TAAGGCCCTAAATTGACAAAAAAATCATTTGGTGAGGAGAAAAG--AAAAAAAAGAGAGAAAGAA
* *
19486683 GAAAGAAGAGGAGAGAGAGAGGGAGCTCCGGCCAGGGGGGAATCCGGCCAGCAGCATAATAAATC
519 GAAAGAAGAGGAAAGAGAGAGGGAGCTCCGGCCAGGGGGGAATCCGGCCAGCAACATAATAAATC
19486748 AGTGATAATGCTTTGGTGAACAACGAGCAATGATGCCTCAAGCATTTTTTACCAAGAAAAAGAAA
584 AGTGATAATGCTTTGGTGAACAACGAGCAATGATGCCTCAAGCATTTTTTACCAAGAAAAAGAAA
19486813 AAAGAAAAGATCATTTAAAAAAGATCATTTTCATTTTTTGCATTCATATATCATTCATCACATCT
649 AAAGAAAAGATCATTTAAAAAAGATCATTTTCATTTTTTGCATTCATATATCATTCATCACATCT
19486878 AGTTAGATGCATTTGATTCATTTCGATAATAACATCCTAATTA
714 AGTTAGATGCATTTGATTCATTTCGATAATAACATCCTAATTA
*
19486921 TTTGGGTCATGCTCAAAACAACGTCGTTTGGGGTTAAAAGGCAGCCCCCAAAACGACGTCGTTTT
1 TTTGGGTCATGCTCAAAACAACGTCGTTTGGGGTTAAAAGACAGCCCCCAAAACGACGTCGTTTT
19486986 GGAGGGCTATATAAGGCCCTAAATTGAC-AAAAAAATCATTTGGTGAGGAGAAAAG-AAAAAAAA
66 GGAGGGCTATATAAGGCCCTAAATTGACAAAAAAAATCATTTGGTGAGGAGAAAAGAAAAAAAAA
* *
19487049 GAGAGAAAGAAGAAAGAAGGGGAGAGAGAGAGGGAGCTCCGGCCAGGGGGGAATCCGGCCAGCAG
131 GAGAGAAAGAAGAAAGAAGAGGAGAGAGAGAGGGAGCTCCGGCCAGGGGAGAATCCGGCCAGCAG
19487114 CATAATAAATCAGTGATAATGCTTTGGTGAACAACGAGCAATGATGCCTCAAGCATTTTTTACCA
196 CATAATAAATCAGTGATAATGCTTTGGTGAACAACGAGCAATGATGCCTCAAGCATTTTTTACCA
19487179 AGAAAAAGAAAAAAGAAAAGATCATTTAAAAAAGATCATTTTCATTTTTTGCATTCATATATCAT
261 AGAAAAAGAAAAAAGAAAAGATCATTTAAAAAAGATCATTTTCATTTTTTGCATTCATATATCAT
19487244 TCATCACATCTAGTTAGATGCATTTGATTCATTTCGATAATAACATCCTAATTATTTGGGTCATG
326 TCATCACATCTAGTTAGATGCATTTGATTCATTTCGATAATAACATCCTAATTATTTGGGTCATG
19487309 CTCAAAACAACGTCGTTTGGGGTTAAAAGGCAGCCCCCAAAACGACGTCGTTTTGGAGGGCTATA
391 CTCAAAACAACGTCGTTTGGGGTTAAAAGGCAGCCCCCAAAACGACGTCGTTTTGGAGGGCTATA
19487374 TAAGGCCCTAAATTGACAAAAAAATCATTTGGTGAGGAGAAAAGAAAAAAAAGAGAGAAAGAAGA
456 TAAGGCCCTAAATTGACAAAAAAATCATTTGGTGAGGAGAAAAGAAAAAAAAGAGAGAAAGAAGA
*
19487439 AAGAAGGGGAAAGAGAGAGGGAGCTCCGGCCAGGGGGGAATCCGGCCAGCAACATAATAAATCAG
521 AAGAAGAGGAAAGAGAGAGGGAGCTCCGGCCAGGGGGGAATCCGGCCAGCAACATAATAAATCAG
19487504 TGATAATGCTTTGGTGAACAACGAGCAATGATGCCTCAAGCATTTTTTACCAAGAAAAAGAAAAA
586 TGATAATGCTTTGGTGAACAACGAGCAATGATGCCTCAAGCATTTTTTACCAAGAAAAAGAAAAA
19487569 AGAAAAGATCATTTAAAAAAGATCATTTTCATTTTTTGCATTCATATATCATTCATCACATCTAG
651 AGAAAAGATCATTTAAAAAAGATCATTTTCATTTTTTGCATTCATATATCATTCATCACATCTAG
**
19487634 TTAGATGCATTTGATTCATTTCGATAATAGGATCCTAATTA
716 TTAGATGCATTTGATTCATTTCGATAATAACATCCTAATTA
19487675 TTTG
1 TTTG
19487679 ACATCAGTAT
Statistics
Matches: 749, Mismatches: 9, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
754 256 0.34
756 375 0.50
757 27 0.04
758 91 0.12
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.24
Consensus pattern (756 bp):
TTTGGGTCATGCTCAAAACAACGTCGTTTGGGGTTAAAAGACAGCCCCCAAAACGACGTCGTTTT
GGAGGGCTATATAAGGCCCTAAATTGACAAAAAAAATCATTTGGTGAGGAGAAAAGAAAAAAAAA
GAGAGAAAGAAGAAAGAAGAGGAGAGAGAGAGGGAGCTCCGGCCAGGGGAGAATCCGGCCAGCAG
CATAATAAATCAGTGATAATGCTTTGGTGAACAACGAGCAATGATGCCTCAAGCATTTTTTACCA
AGAAAAAGAAAAAAGAAAAGATCATTTAAAAAAGATCATTTTCATTTTTTGCATTCATATATCAT
TCATCACATCTAGTTAGATGCATTTGATTCATTTCGATAATAACATCCTAATTATTTGGGTCATG
CTCAAAACAACGTCGTTTGGGGTTAAAAGGCAGCCCCCAAAACGACGTCGTTTTGGAGGGCTATA
TAAGGCCCTAAATTGACAAAAAAATCATTTGGTGAGGAGAAAAGAAAAAAAAGAGAGAAAGAAGA
AAGAAGAGGAAAGAGAGAGGGAGCTCCGGCCAGGGGGGAATCCGGCCAGCAACATAATAAATCAG
TGATAATGCTTTGGTGAACAACGAGCAATGATGCCTCAAGCATTTTTTACCAAGAAAAAGAAAAA
AGAAAAGATCATTTAAAAAAGATCATTTTCATTTTTTGCATTCATATATCATTCATCACATCTAG
TTAGATGCATTTGATTCATTTCGATAATAACATCCTAATTA
Found at i:19487358 original size:377 final size:378
Alignment explanation
Indices: 19486163--19487678 Score: 2919
Period size: 377 Copynumber: 4.0 Consensus size: 378
19486153 GGTCGGACGG
*
19486163 TTTGGGTCATGCTCAAAACAACGTCGTTTGGGGTTAAAAGACAGCCCCCAAAACGACGTCGTTTT
1 TTTGGGTCATGCTCAAAACAACGTCGTTTGGGGTTAAAAGGCAGCCCCCAAAACGACGTCGTTTT
*
19486228 GTAGGGCTATATAAGGCCCTAAATTGACAAAAAAAATCATTTGGTGAGGAGAAAAGAAAAAAAAA
66 GGAGGGCTATATAAGGCCCTAAATTGAC-AAAAAAATCATTTGGTGAGGAGAAAAGAAAAAAAAA
*
19486293 GAGAGAAAGAAGAAAGAAGAGGAGAGAGAGAGGGAGCTCCGGCCAGGGGAGAATCCGGCCAGCAG
130 GAGAGAAAGAAGAAAGAAGAGGAGAGAGAGAGGGAGCTCCGGCCAGGGGGGAATCCGGCCAGCAG
19486358 CATAATAAATCAGTGATAATGCTTTGGTGAACAACGAGCAATGATGCCTCAAGCATTTTTTACCA
195 CATAATAAATCAGTGATAATGCTTTGGTGAACAACGAGCAATGATGCCTCAAGCATTTTTTACCA
19486423 AGAAAAAGAAAAAAGAAAAGATCATTTAAAAAAGATCATTTTCATTTTTTGCATTCATATATCAT
260 AGAAAAAGAAAAAAGAAAAGATCATTTAAAAAAGATCATTTTCATTTTTTGCATTCATATATCAT
19486488 TCATCACATCTAGTTAGATGCATTTGATTCATTTCGATAATAACATCCTAATTA
325 TCATCACATCTAGTTAGATGCATTTGATTCATTTCGATAATAACATCCTAATTA
19486542 TTTGGGTCATGCTCAAAACAACGTCGTTTGGGGTTAAAAGGCAGCCCCCAAAACGACGTCGTTTT
1 TTTGGGTCATGCTCAAAACAACGTCGTTTGGGGTTAAAAGGCAGCCCCCAAAACGACGTCGTTTT
19486607 GGAGGGCTATATAAGGCCCTAAATTGACAAAAAAATCATTTGGTGAGGAGAAAAGAAAAAAAAAA
66 GGAGGGCTATATAAGGCCCTAAATTGACAAAAAAATCATTTGGTGAGGAGAAAAG-AAAAAAAAA
19486672 GAGAGAAAGAAGAAAGAAGAGGAGAGAGAGAGGGAGCTCCGGCCAGGGGGGAATCCGGCCAGCAG
130 GAGAGAAAGAAGAAAGAAGAGGAGAGAGAGAGGGAGCTCCGGCCAGGGGGGAATCCGGCCAGCAG
19486737 CATAATAAATCAGTGATAATGCTTTGGTGAACAACGAGCAATGATGCCTCAAGCATTTTTTACCA
195 CATAATAAATCAGTGATAATGCTTTGGTGAACAACGAGCAATGATGCCTCAAGCATTTTTTACCA
19486802 AGAAAAAGAAAAAAGAAAAGATCATTTAAAAAAGATCATTTTCATTTTTTGCATTCATATATCAT
260 AGAAAAAGAAAAAAGAAAAGATCATTTAAAAAAGATCATTTTCATTTTTTGCATTCATATATCAT
19486867 TCATCACATCTAGTTAGATGCATTTGATTCATTTCGATAATAACATCCTAATTA
325 TCATCACATCTAGTTAGATGCATTTGATTCATTTCGATAATAACATCCTAATTA
19486921 TTTGGGTCATGCTCAAAACAACGTCGTTTGGGGTTAAAAGGCAGCCCCCAAAACGACGTCGTTTT
1 TTTGGGTCATGCTCAAAACAACGTCGTTTGGGGTTAAAAGGCAGCCCCCAAAACGACGTCGTTTT
19486986 GGAGGGCTATATAAGGCCCTAAATTGACAAAAAAATCATTTGGTGAGGAGAAAAG-AAAAAAAAG
66 GGAGGGCTATATAAGGCCCTAAATTGACAAAAAAATCATTTGGTGAGGAGAAAAGAAAAAAAAAG
*
19487050 AGAGAAAGAAGAAAGAAGGGGAGAGAGAGAGGGAGCTCCGGCCAGGGGGGAATCCGGCCAGCAGC
131 AGAGAAAGAAGAAAGAAGAGGAGAGAGAGAGGGAGCTCCGGCCAGGGGGGAATCCGGCCAGCAGC
19487115 ATAATAAATCAGTGATAATGCTTTGGTGAACAACGAGCAATGATGCCTCAAGCATTTTTTACCAA
196 ATAATAAATCAGTGATAATGCTTTGGTGAACAACGAGCAATGATGCCTCAAGCATTTTTTACCAA
19487180 GAAAAAGAAAAAAGAAAAGATCATTTAAAAAAGATCATTTTCATTTTTTGCATTCATATATCATT
261 GAAAAAGAAAAAAGAAAAGATCATTTAAAAAAGATCATTTTCATTTTTTGCATTCATATATCATT
19487245 CATCACATCTAGTTAGATGCATTTGATTCATTTCGATAATAACATCCTAATTA
326 CATCACATCTAGTTAGATGCATTTGATTCATTTCGATAATAACATCCTAATTA
19487298 TTTGGGTCATGCTCAAAACAACGTCGTTTGGGGTTAAAAGGCAGCCCCCAAAACGACGTCGTTTT
1 TTTGGGTCATGCTCAAAACAACGTCGTTTGGGGTTAAAAGGCAGCCCCCAAAACGACGTCGTTTT
19487363 GGAGGGCTATATAAGGCCCTAAATTGACAAAAAAATCATTTGGTGAGGAGAAAAG-AAAAAAAAG
66 GGAGGGCTATATAAGGCCCTAAATTGACAAAAAAATCATTTGGTGAGGAGAAAAGAAAAAAAAAG
* * *
19487427 AGAGAAAGAAGAAAGAAGGGGAAAGAGAGAGGGAGCTCCGGCCAGGGGGGAATCCGGCCAGCAAC
131 AGAGAAAGAAGAAAGAAGAGGAGAGAGAGAGGGAGCTCCGGCCAGGGGGGAATCCGGCCAGCAGC
19487492 ATAATAAATCAGTGATAATGCTTTGGTGAACAACGAGCAATGATGCCTCAAGCATTTTTTACCAA
196 ATAATAAATCAGTGATAATGCTTTGGTGAACAACGAGCAATGATGCCTCAAGCATTTTTTACCAA
19487557 GAAAAAGAAAAAAGAAAAGATCATTTAAAAAAGATCATTTTCATTTTTTGCATTCATATATCATT
261 GAAAAAGAAAAAAGAAAAGATCATTTAAAAAAGATCATTTTCATTTTTTGCATTCATATATCATT
**
19487622 CATCACATCTAGTTAGATGCATTTGATTCATTTCGATAATAGGATCCTAATTA
326 CATCACATCTAGTTAGATGCATTTGATTCATTTCGATAATAACATCCTAATTA
19487675 TTTG
1 TTTG
19487679 ACATCAGTAT
Statistics
Matches: 1128, Mismatches: 8, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
377 633 0.56
378 27 0.02
379 468 0.41
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.24
Consensus pattern (378 bp):
TTTGGGTCATGCTCAAAACAACGTCGTTTGGGGTTAAAAGGCAGCCCCCAAAACGACGTCGTTTT
GGAGGGCTATATAAGGCCCTAAATTGACAAAAAAATCATTTGGTGAGGAGAAAAGAAAAAAAAAG
AGAGAAAGAAGAAAGAAGAGGAGAGAGAGAGGGAGCTCCGGCCAGGGGGGAATCCGGCCAGCAGC
ATAATAAATCAGTGATAATGCTTTGGTGAACAACGAGCAATGATGCCTCAAGCATTTTTTACCAA
GAAAAAGAAAAAAGAAAAGATCATTTAAAAAAGATCATTTTCATTTTTTGCATTCATATATCATT
CATCACATCTAGTTAGATGCATTTGATTCATTTCGATAATAACATCCTAATTA
Found at i:19488127 original size:147 final size:147
Alignment explanation
Indices: 19487860--19488243 Score: 662
Period size: 147 Copynumber: 2.6 Consensus size: 147
19487850 TCAAAGATTA
* * *
19487860 CAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGATGAAGATTGAAGTCTTATCTTCCTTAAGT
1 CAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGT
* * *
19487925 AGCAAGGAAGCAGACTGAAGATTGAAGATTGGAAGAGGCAAATCTTATCTCCATGTATCGGCAAT
66 AGCAAGGAAGCAGACTGAAGATTGAAGATTAGAACACGCAAATCTTATCTCCATGTATCGGCAAT
19487990 GGAGCAGATTTAAGCCC
131 GGAGCAGATTTAAGCCC
*
19488007 CAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTGTCTTCCTGAGGT
1 CAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGT
19488072 AGCAAGGAAGCAGACTGAAGATTGAAGATTAGAACACGCAAATCTTATCTCCATGTATCGGCAAT
66 AGCAAGGAAGCAGACTGAAGATTGAAGATTAGAACACGCAAATCTTATCTCCATGTATCGGCAAT
19488137 GGAGCAGATTTAAGCCC
131 GGAGCAGATTTAAGCCC
* * *
19488154 CAAGCCTTGTCTCTCTGAGGTAACAAGAGAGCAGGTTGAAGAATG-AGTCTTATCTTCCTGAGGT
1 CAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGT
*
19488218 AGCAAGGAAACAGACTGAAGATTGAA
66 AGCAAGGAAGCAGACTGAAGATTGAA
19488244 TATCTTATCT
Statistics
Matches: 225, Mismatches: 12, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
146 43 0.19
147 182 0.81
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (147 bp):
CAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGT
AGCAAGGAAGCAGACTGAAGATTGAAGATTAGAACACGCAAATCTTATCTCCATGTATCGGCAAT
GGAGCAGATTTAAGCCC
Found at i:19488781 original size:176 final size:176
Alignment explanation
Indices: 19488530--19489102 Score: 748
Period size: 176 Copynumber: 3.3 Consensus size: 176
19488520 AGTTGCAGTA
* * * * *
19488530 GAGCAGATTGAAGATGGTGAATTTTATCTCCATGTATCGGCAATGGAGCAAATTTTA-CCACCAA
1 GAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCA-CTA
* * * *
19488594 GCCTTATCTCTCTAACGTAGTAAGAGAGCAGGTTAAAGAATGAGTCTTATCTTCCTGAGGAAGCA
65 GCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAGGAAGCA
*
19488659 AGGAAGCAGACTGAAAATTAAAGATCTTATCTCCTTAAGCAGTAGCG
130 AGGAAGCAGACTGAAAATTGAAGATCTTATCTCCTTAAGCAGTAGCG
* * * * * *
19488706 GAGCATATTGAAAATGGCGAATCTTCTCTCCATGTA-CAGGCAATGGAGCAGATTTTAGCTACTG
1 GAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATC-GGCAATGGAGCAGATTTTAGCCACTA
* * * *
19488770 GCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGCA
65 GCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAGGAAGCA
* *
19488835 AGAAAGCAGACTGAAGATTGAAGATCTTATCT-CTCTAAGCAGTAGCG
130 AGGAAGCAGACTGAAAATTGAAGATCTTATCTCCT-TAAGCAGTAGCG
* * *
19488882 GAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTATTGGTAATGGAGCAGATTTTAGCCACTAG
1 GAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAG
**
19488947 CCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGCCGATTGTAGTCTTATCTTCCTGAGGTAA-C
66 CCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATTG-AGTCTTATCTTCCTGAGG-AAGC
* * * *
19489011 AAGGAAGCAGACT-AAAGATTGAAGATC-TATTTCCCTAAGCAGTTGTG
129 AAGGAAGCAGACTGAAA-ATTGAAGATCTTATCTCCTTAAGCAGTAGCG
*
19489058 GAGC--ATCGAGGATGGCGAATCTTATCTCCATGTATCGGCAATGGA
1 GAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGA
19489103 AAAGATTTAA
Statistics
Matches: 344, Mismatches: 45, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
174 37 0.11
175 3 0.01
176 260 0.76
177 43 0.12
178 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (176 bp):
GAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAG
CCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAGGAAGCAA
GGAAGCAGACTGAAAATTGAAGATCTTATCTCCTTAAGCAGTAGCG
Found at i:19488820 original size:43 final size:45
Alignment explanation
Indices: 19488772--19488870 Score: 139
Period size: 43 Copynumber: 2.2 Consensus size: 45
19488762 AGCTACTGGC
* * **
19488772 CTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAGATTG-AG-T
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGAT
*
19488815 CTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGAT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGAT
19488860 CTTATCTCTCT
1 CTTATCTCTCT
19488871 AAGCAGTAGC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
43 35 0.73
44 2 0.04
45 11 0.23
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (45 bp):
CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGAT
Found at i:19489020 original size:88 final size:86
Alignment explanation
Indices: 19488752--19489021 Score: 205
Period size: 88 Copynumber: 3.1 Consensus size: 86
19488742 CAGGCAATGG
* * *
19488752 AGCAGATTTTAGCTACTGGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAGATTGAGTCT
1 AGCAGATTTTAGC-ACTAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCT
* * *
19488817 TATCTTTCTGAGGTAGCAAGAA
65 TATCTTCCTGAGGTAACAAGGA
* ** * * * * *
19488839 AGCAGACTGAAG-ATTGAAGATCTTATCTCTCTAAGCAGTAGC--G-GAGCAGATCGAAGATGGC
1 AGCAGATTTTAGCACT--AG-CCTTATCTCTCTAAG--GTAGCAAGAGAGCAGGTTGAAGAT--T
*
19488900 GAGTCTTATC-TCCATGTATTGGT-A-ATGG-
59 GAGTCTTATCTTCC-TG-A--GGTAACAAGGA
**
19488928 AGCAGATTTTAGCCACTAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGCCGATTGTAGTC
1 AGCAGATTTTAG-CACTAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATTG-AGTC
19488993 TTATCTTCCTGAGGTAACAAGGA
64 TTATCTTCCTGAGGTAACAAGGA
19489016 AGCAGA
1 AGCAGA
19489022 CTAAAGATTG
Statistics
Matches: 136, Mismatches: 26, Indels: 41
0.67 0.13 0.20
Matches are distributed among these distances:
85 5 0.04
86 6 0.04
87 27 0.20
88 48 0.35
89 37 0.27
90 8 0.06
91 2 0.01
92 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (86 bp):
AGCAGATTTTAGCACTAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTT
ATCTTCCTGAGGTAACAAGGA
Found at i:19496682 original size:27 final size:28
Alignment explanation
Indices: 19496644--19496701 Score: 109
Period size: 27 Copynumber: 2.1 Consensus size: 28
19496634 CTTTGCCTTA
19496644 ATATTACATTTGGTGGTACAA-TTTTTC
1 ATATTACATTTGGTGGTACAATTTTTTC
19496671 ATATTACATTTGGTGGTACAATTTTTTC
1 ATATTACATTTGGTGGTACAATTTTTTC
19496699 ATA
1 ATA
19496702 ATTTGATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 21 0.70
28 9 0.30
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (28 bp):
ATATTACATTTGGTGGTACAATTTTTTC
Found at i:19498313 original size:21 final size:21
Alignment explanation
Indices: 19498284--19498338 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
19498274 TTAGAAACAA
*
19498284 GAAATTATAGATACCTTTAAG
1 GAAAGTATAGATACCTTTAAG
* * *
19498305 GAAAGTATAAATACTTTTAGG
1 GAAAGTATAGATACCTTTAAG
* *
19498326 GTAAGTATGGATA
1 GAAAGTATAGATA
19498339 TTTCAAGATC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (21 bp):
GAAAGTATAGATACCTTTAAG
Found at i:19500293 original size:21 final size:20
Alignment explanation
Indices: 19500263--19500310 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
19500253 AACTCTTTAT
*
19500263 AATA-ATTTGGAATAAACTCA
1 AATACATTTGGAAGAAA-TCA
*
19500283 AATACATTTGGTAGAAATCA
1 AATACATTTGGAAGAAATCA
19500303 AAT-CATTT
1 AATACATTT
19500311 TAAAAACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.20
20 10 0.40
21 10 0.40
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (20 bp):
AATACATTTGGAAGAAATCA
Found at i:19502952 original size:11 final size:11
Alignment explanation
Indices: 19502915--19502954 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
19502905 GATACTCTAG
* *
19502915 TAATTGAATTC
1 TAATTAAATTA
*
19502926 TAATCAAATTA
1 TAATTAAATTA
19502937 TAATTAAATTA
1 TAATTAAATTA
19502948 TAATTAA
1 TAATTAA
19502955 TGATGGGCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (11 bp):
TAATTAAATTA
Found at i:19504009 original size:37 final size:37
Alignment explanation
Indices: 19503948--19504093 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
19503938 TACGTATGAT
* *
19503948 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
19503983 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19504020 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
19504057 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19504094 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:19504110 original size:46 final size:46
Alignment explanation
Indices: 19504057--19504325 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
19504047 TAAGTGTAGC
* **
19504057 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
19504103 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
19504149 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
19504201 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
19504247 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
19504299 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
19504326 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:19504176 original size:52 final size:52
Alignment explanation
Indices: 19504100--19504319 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
19504090 TAGCTAAAGC
* *
19504100 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
19504153 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
19504205 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
19504251 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
19504303 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
19504320 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:19504222 original size:98 final size:98
Alignment explanation
Indices: 19504057--19504325 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
19504047 TAAGTGTAGC
* * *
19504057 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
19504122 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
19504156 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
19504221 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
19504254 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
19504319 GATCAGA
66 GATCAGA
19504326 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:19509603 original size:16 final size:16
Alignment explanation
Indices: 19509580--19509618 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
19509570 ACACATGGAT
19509580 ATGAAAAG-TATTAAA
1 ATGAAAAGATATTAAA
19509595 ATAGAAAAGATATTAAA
1 AT-GAAAAGATATTAAA
19509612 ATGAAAA
1 ATGAAAA
19509619 AGAAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.09
16 11 0.50
17 9 0.41
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.23
Consensus pattern (16 bp):
ATGAAAAGATATTAAA
Found at i:19511512 original size:23 final size:22
Alignment explanation
Indices: 19511484--19511533 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
19511474 AAGGAAATTA
19511484 AAAAAATAAAAAGGTTTTTCTAT
1 AAAAAATAAAAA-GTTTTTCTAT
** *
19511507 AAAAAATTTAAATTTTTTCTAT
1 AAAAAATAAAAAGTTTTTCTAT
19511529 AAAAA
1 AAAAA
19511534 CCTAAGTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (22 bp):
AAAAAATAAAAAGTTTTTCTAT
Found at i:19511719 original size:25 final size:25
Alignment explanation
Indices: 19511666--19511730 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
19511656 TTTTTTTCTA
* * *
19511666 TAAAATAAAAAAAATTAAAATTAATT
1 TAAAA-AAATAAAATTAAAATAAAAT
19511692 TAAAAAAATGAAAATT-AAATAAAAT
1 TAAAAAAAT-AAAATTAAAATAAAAT
*
19511717 TAAAAAGATAAAAT
1 TAAAAAAATAAAAT
19511731 GAGACCCAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 5 0.15
25 18 0.53
26 11 0.32
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (25 bp):
TAAAAAAATAAAATTAAAATAAAAT
Found at i:19517001 original size:18 final size:19
Alignment explanation
Indices: 19516973--19517008 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
19516963 GTTGTGTATT
19516973 TATATGATATGATATTGTC
1 TATATGATATGATATTGTC
19516992 TATA-GATATGATATTGT
1 TATATGATATGATATTGT
19517009 AGATAGGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (19 bp):
TATATGATATGATATTGTC
Found at i:19517014 original size:18 final size:18
Alignment explanation
Indices: 19516978--19517014 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
19516968 GTATTTATAT
**
19516978 GATATGATATTGTCTATA
1 GATATGATATTGTAGATA
19516996 GATATGATATTGTAGATA
1 GATATGATATTGTAGATA
19517014 G
1 G
19517015 GTTTTATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.41
Consensus pattern (18 bp):
GATATGATATTGTAGATA
Found at i:19519432 original size:52 final size:48
Alignment explanation
Indices: 19519413--19519615 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
19519403 TGACAAGTGG
* *
19519413 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
19519459 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
19519511 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
19519557 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
19519603 AAAGTGATAAGTG
1 AAAGTGATAAGTG
19519616 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:19519467 original size:98 final size:98
Alignment explanation
Indices: 19519347--19519615 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
19519337 TTTGAGTACT
*
19519347 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
19519412 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
19519445 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
19519510 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
19519543 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
19519608 GATAAGTG
65 GAAAAGTG
19519616 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:19519623 original size:37 final size:37
Alignment explanation
Indices: 19519579--19519724 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
19519569 GATAGCTTTA
*
19519579 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
19519616 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
19519653 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
19519690 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
19519725 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:19521055 original size:58 final size:58
Alignment explanation
Indices: 19520978--19521145 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
19520968 CATGTGAACA
19520978 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
19521037 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
19521093 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
19521144 TG
1 TG
19521146 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:19521087 original size:28 final size:28
Alignment explanation
Indices: 19520997--19521087 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
19520987 GTGATTCCGT
19520997 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
19521025 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
19521054 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
19521083 GTAAG
1 GTAAG
19521088 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:19521110 original size:49 final size:49
Alignment explanation
Indices: 19521038--19521180 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
19521028 AGTGATATGT
* *
19521038 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
19521087 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
19521136 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
19521181 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:19524391 original size:52 final size:48
Alignment explanation
Indices: 19524372--19524574 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
19524362 TGACAAGTGG
* *
19524372 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
19524418 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
19524470 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
19524516 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
19524562 AAAGTGATAAGTG
1 AAAGTGATAAGTG
19524575 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:19524426 original size:98 final size:98
Alignment explanation
Indices: 19524306--19524574 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
19524296 TTTGAGTACT
*
19524306 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
19524371 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
19524404 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
19524469 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
19524502 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
19524567 GATAAGTG
65 GAAAAGTG
19524575 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Done.