Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 151 of 168
Found at i:44634297 original size:19 final size:19
Alignment explanation
Indices: 44634273--44634311 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
44634263 AATAATTAAC
* * *
44634273 TTTATATTTCATATAATTT
1 TTTATAATTAATAAAATTT
44634292 TTTATAATTAATAAAATTT
1 TTTATAATTAATAAAATTT
44634311 T
1 T
44634312 ATAATGTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTATAATTAATAAAATTT
Found at i:44643056 original size:7 final size:7
Alignment explanation
Indices: 44643044--44643069 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
44643034 TTTAGTGATT
44643044 TATTTTC
1 TATTTTC
44643051 TATTTTC
1 TATTTTC
44643058 TATTTTC
1 TATTTTC
44643065 TATTT
1 TATTT
44643070 GCAGGGATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (7 bp):
TATTTTC
Found at i:44644348 original size:20 final size:21
Alignment explanation
Indices: 44644306--44644348 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
44644296 TTGAGAGTGG
**
44644306 ATATTTTTAATTTAATTTTAA
1 ATATTTTTAATTTAATTAAAA
44644327 ATATTTTT-ATTTAATTAAAA
1 ATATTTTTAATTTAATTAAAA
44644347 AT
1 AT
44644349 GTCGCATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATATTTTTAATTTAATTAAAA
Found at i:44653676 original size:9 final size:9
Alignment explanation
Indices: 44653664--44653742 Score: 88
Period size: 9 Copynumber: 8.8 Consensus size: 9
44653654 AAAAATTAAC
44653664 CGAATTACT
1 CGAATTACT
*
44653673 CGAATTACC
1 CGAATTACT
*
44653682 CGAATTAAT
1 CGAATTACT
*
44653691 CGAATTATT
1 CGAATTACT
44653700 CGAATTACT
1 CGAATTACT
*
44653709 CGAATTATT
1 CGAATTACT
* *
44653718 TGAATTACC
1 CGAATTACT
44653727 CGAATTAAC-
1 CGAATT-ACT
44653736 CGAATTA
1 CGAATTA
44653743 TCCTAATTGA
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
8 1 0.02
9 56 0.95
10 2 0.03
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (9 bp):
CGAATTACT
Found at i:44653684 original size:18 final size:18
Alignment explanation
Indices: 44653657--44653742 Score: 100
Period size: 18 Copynumber: 4.8 Consensus size: 18
44653647 TTTGGTTAAA
44653657 AATTAACCGAATTACTCG
1 AATTAACCGAATTACTCG
* *
44653675 AATTACCCGAATTAATCG
1 AATTAACCGAATTACTCG
**
44653693 AATTATTCGAATTACTCG
1 AATTAACCGAATTACTCG
*** *
44653711 AATTATTTGAATTACCCG
1 AATTAACCGAATTACTCG
44653729 AATTAACCGAATTA
1 AATTAACCGAATTA
44653743 TCCTAATTGA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 58 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (18 bp):
AATTAACCGAATTACTCG
Found at i:44653695 original size:27 final size:27
Alignment explanation
Indices: 44653657--44653742 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 27
44653647 TTTGGTTAAA
*
44653657 AATTAACCGAATTACTCGAATTACCCG
1 AATTAATCGAATTACTCGAATTACCCG
* *
44653684 AATTAATCGAATTATTCGAATTACTCG
1 AATTAATCGAATTACTCGAATTACCCG
* * * *
44653711 AATTATTTGAATTACCCGAATTAACCG
1 AATTAATCGAATTACTCGAATTACCCG
44653738 AATTA
1 AATTA
44653743 TCCTAATTGA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (27 bp):
AATTAATCGAATTACTCGAATTACCCG
Found at i:44653876 original size:13 final size:13
Alignment explanation
Indices: 44653858--44653892 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
44653848 TATGATTGGG
44653858 TTGGGTTGGGTAA
1 TTGGGTTGGGTAA
44653871 TTGGGTTGGGTAA
1 TTGGGTTGGGTAA
*
44653884 TTGTGTTGG
1 TTGGGTTGG
44653893 ATTGAATACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.11, C:0.00, G:0.46, T:0.43
Consensus pattern (13 bp):
TTGGGTTGGGTAA
Found at i:44659750 original size:35 final size:35
Alignment explanation
Indices: 44659704--44659775 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
44659694 GTGAAATTTT
44659704 TTACTACATAAGTATCATGATATTAATAATCAATG
1 TTACTACATAAGTATCATGATATTAATAATCAATG
44659739 TTACTACATAAGTATCATGATATTAATAATCAATG
1 TTACTACATAAGTATCATGATATTAATAATCAATG
44659774 TT
1 TT
44659776 GGGATGTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (35 bp):
TTACTACATAAGTATCATGATATTAATAATCAATG
Found at i:44662059 original size:19 final size:17
Alignment explanation
Indices: 44662035--44662069 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
44662025 ATACATAGAT
44662035 ACAAATTATAAAATATAAA
1 ACAAA-TATAAAA-ATAAA
44662054 ACAAATATAAAAATAA
1 ACAAATATAAAAATAA
44662070 GTATATACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 7 0.44
19 5 0.31
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (17 bp):
ACAAATATAAAAATAAA
Found at i:44663014 original size:58 final size:56
Alignment explanation
Indices: 44662907--44663025 Score: 177
Period size: 58 Copynumber: 2.1 Consensus size: 56
44662897 GTTTTGTTAA
*
44662907 AAAAAGTAGAAAACAAACAACAAAATAAAATAAAATAAACAAAAATGCAAGAACAG
1 AAAAAGTAGAAAACAAACAACAAAATAAAAAAAAATAAACAAAAATGCAAGAACAG
* *
44662963 AAAAGGTAGAAAACAGAC-ACAAAAATAAATAAATAAATAAACAAAAATGCAAGAACAG
1 AAAAAGTAGAAAACAAACAAC-AAAATAAA-AAA-AAATAAACAAAAATGCAAGAACAG
44663021 AAAAA
1 AAAAA
44663026 ATTTGGAGTC
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
55 2 0.04
56 24 0.43
57 2 0.04
58 28 0.50
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.09
Consensus pattern (56 bp):
AAAAAGTAGAAAACAAACAACAAAATAAAAAAAAATAAACAAAAATGCAAGAACAG
Found at i:44663361 original size:15 final size:15
Alignment explanation
Indices: 44663325--44663374 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
44663315 CTTGGGCATT
**
44663325 GGTTTGGGCTG-AAG
1 GGTTTGGGCTGTTCG
44663339 GGTATTGGGCTGTTCG
1 GGT-TTGGGCTGTTCG
*
44663355 GGTTTGGGCTATTCG
1 GGTTTGGGCTGTTCG
44663370 GGTTT
1 GGTTT
44663375 TGCTAGTTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 3 0.10
15 24 0.77
16 4 0.13
ACGTcount: A:0.08, C:0.10, G:0.44, T:0.38
Consensus pattern (15 bp):
GGTTTGGGCTGTTCG
Found at i:44663862 original size:41 final size:41
Alignment explanation
Indices: 44663795--44664036 Score: 164
Period size: 41 Copynumber: 5.7 Consensus size: 41
44663785 GTATCTTTGG
* * *
44663795 TCTACTCCACTGTGACTTCATGGAGATAAGACCTGATGCGA
1 TCTACTCCACTGTAACTTCAGGGAGATAAGACCTGATTCGA
* * * **
44663836 TCTACTCCACTGTAACTTCAGAGAGATGAGATCCCTTATTTTAA
1 TCTACTCCACTGTAACTTCAGGGAGATAAGA--CCTGA-TTCGA
** * * ** *
44663880 TCCGCCCCACTGTAAAC-TCAGGGAGATAGGATAGTGTCTTCGA
1 TCTACTCCACTGT-AACTTCAGGGAGATAAGA-CCTG-ATTCGA
* * * *
44663923 TCTACTCCGCTGTAA-TCTCAGGGAGACAAGATCTGAAATTCTTCGG
1 TCTACTCCACTGTAACT-TCAGGGAGATAAGACCTG--A---TTCGA
* *
44663969 TCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGA
1 TCTACTCCACTGTAACTTCAGGGAGATAAGACCTGATTCGA
*
44664010 TCTACTCCACTGTAACTTCAGAGAGAT
1 TCTACTCCACTGTAACTTCAGGGAGAT
44664037 GAGATCCTTT
Statistics
Matches: 149, Mismatches: 40, Indels: 24
0.70 0.19 0.11
Matches are distributed among these distances:
41 55 0.37
42 4 0.03
43 29 0.19
44 24 0.16
45 3 0.02
46 34 0.23
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (41 bp):
TCTACTCCACTGTAACTTCAGGGAGATAAGACCTGATTCGA
Found at i:44663943 original size:43 final size:43
Alignment explanation
Indices: 44663889--44664124 Score: 167
Period size: 43 Copynumber: 5.4 Consensus size: 43
44663879 ATCCGCCCCA
*
44663889 CTGTAAACTCAGGGAGATAGGATAGTGTCTTCGATCTACTCCG
1 CTGTAAACTCAGGGAGATAGGATACTGTCTTCGATCTACTCCG
* * * * *
44663932 CTGTAATCTCAGGGAGACAAGAT-CTGAAATTCTTCGGTCTACTCCA
1 CTGTAAACTCAGGGAGATAGGATACTG----TCTTCGATCTACTCCG
* * * * * *
44663978 CTGTAACCTCAGGGAGATAAGA-CCTG-ATGCGATCTACTCCA
1 CTGTAAACTCAGGGAGATAGGATACTGTCTTCGATCTACTCCG
* * * * ** **
44664019 CTGT-AACTTCAGAGAGAT-GAGATCCTTTATTTTAATCCGCTCCG
1 CTGTAAAC-TCAGGGAGATAG-GATACTGT-CTTCGATCTACTCCG
*
44664063 CTGTAAACTCAGGGAGATAGGATAGTGTCTTCGATCTACTCCG
1 CTGTAAACTCAGGGAGATAGGATACTGTCTTCGATCTACTCCG
* *
44664106 CTGTAATCTTAGGGAGATA
1 CTGTAAACTCAGGGAGATA
44664125 AGATCTCTGG
Statistics
Matches: 148, Mismatches: 33, Indels: 24
0.72 0.16 0.12
Matches are distributed among these distances:
40 2 0.01
41 27 0.18
42 5 0.03
43 47 0.32
44 26 0.18
45 4 0.03
46 37 0.25
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (43 bp):
CTGTAAACTCAGGGAGATAGGATACTGTCTTCGATCTACTCCG
Found at i:44663955 original size:87 final size:87
Alignment explanation
Indices: 44663833--44664129 Score: 314
Period size: 87 Copynumber: 3.4 Consensus size: 87
44663823 AGACCTGATG
* *
44663833 CGATCTACTCCACTGTAACTTCAGAGAGATGAGATCCCTTATTTTAATCCGCCCCACTGTAAACT
1 CGATCTACTCCACTGTAACTTCAGAGAGATAAGATCCCTTATTTTAATCCGCTCCACTGTAAACT
44663898 CAGGGAGATAGGATAGTGTCTT
66 CAGGGAGATAGGATAGTGTCTT
* * * **** ** **
44663920 CGATCTACTCCGCTGTAA-TCTCAGGGAGACAAGATCTGAAATTCTTCGGTCTACTCCACTGTAA
1 CGATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCCTTATT-TT-AATCCGCTCCACTGTAA
* * ** * *
44663984 CCTCAGGGAGATAAGA-CCTG-ATG
63 ACTCAGGGAGATAGGATAGTGTCTT
* * *
44664007 CGATCTACTCCACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAATCCGCTCCGCTGTAAACT
1 CGATCTACTCCACTGTAACTTCAGAGAGATAAGATCCCTTATTTTAATCCGCTCCACTGTAAACT
44664072 CAGGGAGATAGGATAGTGTCTT
66 CAGGGAGATAGGATAGTGTCTT
* *
44664094 CGATCTACTCCGCTGTAATCTT-AGGGAGATAAGATC
1 CGATCTACTCCACTGTAA-CTTCAGAGAGATAAGATC
44664130 TCTGGCTTCA
Statistics
Matches: 162, Mismatches: 41, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
85 26 0.16
86 5 0.03
87 97 0.60
88 8 0.05
89 26 0.16
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (87 bp):
CGATCTACTCCACTGTAACTTCAGAGAGATAAGATCCCTTATTTTAATCCGCTCCACTGTAAACT
CAGGGAGATAGGATAGTGTCTT
Found at i:44663982 original size:46 final size:46
Alignment explanation
Indices: 44663916--44664035 Score: 133
Period size: 46 Copynumber: 2.7 Consensus size: 46
44663906 TAGGATAGTG
* * *
44663916 TCTTCGATCTACTCCGCTGTAATCTCAGGGAGACAAGATCTGAAAT
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGACAAGACCTGAAAT
* *
44663962 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG--A-
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGACAAGACCTGAAAT
* * *
44664005 --TGCGATCTACTCCACTGTAACTTCAGAGAGA
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGA
44664036 TGAGATCCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
41 27 0.42
44 1 0.02
46 37 0.57
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (46 bp):
TCTTCGATCTACTCCACTGTAACCTCAGGGAGACAAGACCTGAAAT
Found at i:44664083 original size:174 final size:174
Alignment explanation
Indices: 44663788--44664130 Score: 605
Period size: 174 Copynumber: 2.0 Consensus size: 174
44663778 AATACTTGTA
* * * *
44663788 TCTTTGGTCTACTCCACTGTGACTTCATGGAGATAAGACCTGATGCGATCTACTCCACTGTAACT
1 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCCACTGTAACT
44663853 TCAGAGAGATGAGATCCCTTATTTTAATCCGCCCCACTGTAAACTCAGGGAGATAGGATAGTGTC
66 TCAGAGAGATGAGATCCCTTATTTTAATCCGCCCCACTGTAAACTCAGGGAGATAGGATAGTGTC
44663918 TTCGATCTACTCCGCTGTAATCTCAGGGAGACAAGATCTGAAAT
131 TTCGATCTACTCCGCTGTAATCTCAGGGAGACAAGATCTGAAAT
44663962 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCCACTGTAACT
1 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCCACTGTAACT
* * *
44664027 TCAGAGAGATGAGATCCTTTATTTTAATCCGCTCCGCTGTAAACTCAGGGAGATAGGATAGTGTC
66 TCAGAGAGATGAGATCCCTTATTTTAATCCGCCCCACTGTAAACTCAGGGAGATAGGATAGTGTC
* *
44664092 TTCGATCTACTCCGCTGTAATCTTAGGGAGATAAGATCT
131 TTCGATCTACTCCGCTGTAATCTCAGGGAGACAAGATCT
44664131 CTGGCTTCAA
Statistics
Matches: 160, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 160 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (174 bp):
TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCCACTGTAACT
TCAGAGAGATGAGATCCCTTATTTTAATCCGCCCCACTGTAAACTCAGGGAGATAGGATAGTGTC
TTCGATCTACTCCGCTGTAATCTCAGGGAGACAAGATCTGAAAT
Found at i:44678772 original size:107 final size:107
Alignment explanation
Indices: 44678579--44678783 Score: 315
Period size: 107 Copynumber: 1.9 Consensus size: 107
44678569 TGCCATTGTT
44678579 GATTATGAAGAAGAACTAGATTGTAAAGTTTAATTGTTAGTTTTGTACATAAGAACTAAAATGTA
1 GATTATGAAGAAGAACTAGATTGTAAAGTTTAATTGTTAGTTTTGTACATAAGAACTAAAATGTA
*
44678644 TAAATGGTGAAATTTCAGTGAAATTTCAGTAATCTAAGCTTA
66 TAAATGATGAAATTTCAGTGAAATTTCAGTAATCTAAGCTTA
* * * *
44678686 GATTATGGAA-AAGGACTAGATTGTAAAGTTTAATTGTTAGTTTTGTGCTTAAGGACTAAAATGT
1 GATTAT-GAAGAAGAACTAGATTGTAAAGTTTAATTGTTAGTTTTGTACATAAGAACTAAAATGT
* *
44678750 ATAAATGATGAAA-TTGAGGTGAAATTTTAGTAAT
65 ATAAATGATGAAATTTCA-GTGAAATTTCAGTAAT
44678784 AATAGACAGT
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
106 3 0.03
107 83 0.93
108 3 0.03
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (107 bp):
GATTATGAAGAAGAACTAGATTGTAAAGTTTAATTGTTAGTTTTGTACATAAGAACTAAAATGTA
TAAATGATGAAATTTCAGTGAAATTTCAGTAATCTAAGCTTA
Found at i:44679827 original size:3 final size:3
Alignment explanation
Indices: 44679819--44679861 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
44679809 AAAATTCACC
44679819 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
44679862 GATTTGCCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:44682360 original size:2 final size:2
Alignment explanation
Indices: 44682355--44682379 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44682345 TAAAAAAAAA
44682355 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
44682380 GGTCGTGAAA
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:44703193 original size:99 final size:99
Alignment explanation
Indices: 44703017--44703215 Score: 362
Period size: 99 Copynumber: 2.0 Consensus size: 99
44703007 TCCGGGGCTT
44703017 TGGCACCAAAAATGCAGATCTCAGTTATTTAACTTTCTTGGTAATTTATAAATTAGTTGCAGAAC
1 TGGCACCAAAAATGCAGATCTCAGTTATTTAACTTTCTTGGTAATTTATAAATTAGTTGCAGAAC
44703082 ATTGTTGCGAACTTGGTCATTGTATTTGTCTCCC
66 ATTGTTGCGAACTTGGTCATTGTATTTGTCTCCC
*
44703116 TGGCACCAAAAATGCAGATCTCAGTTATTTAACTTTCTTGGTAATTTATAATTTAGTTGCAGAAC
1 TGGCACCAAAAATGCAGATCTCAGTTATTTAACTTTCTTGGTAATTTATAAATTAGTTGCAGAAC
* * *
44703181 ATTTTTGGGAACTTGGTCATTGTATTTGTGTCCC
66 ATTGTTGCGAACTTGGTCATTGTATTTGTCTCCC
44703215 T
1 T
44703216 ACCAATATAT
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 96 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.40
Consensus pattern (99 bp):
TGGCACCAAAAATGCAGATCTCAGTTATTTAACTTTCTTGGTAATTTATAAATTAGTTGCAGAAC
ATTGTTGCGAACTTGGTCATTGTATTTGTCTCCC
Found at i:44706667 original size:18 final size:18
Alignment explanation
Indices: 44706652--44706717 Score: 51
Period size: 20 Copynumber: 3.4 Consensus size: 18
44706642 TATATTTTTG
44706652 TTTATATATTATTTTTAATA
1 TTTATATATT-TTTTT-ATA
* *
44706672 TTTATATATTTTTTGAAA
1 TTTATATATTTTTTTATA
* *
44706690 TTTTATGTATTTTTATTTTGA
1 -TTTATATATTTTT-TTAT-A
44706711 TTTATAT
1 TTTATAT
44706718 TTATAATTAC
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 2 0.06
19 16 0.44
20 17 0.47
21 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTATATATTTTTTTATA
Found at i:44706694 original size:19 final size:19
Alignment explanation
Indices: 44706652--44706703 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
44706642 TATATTTTTG
*
44706652 TTTATATATTATTTTTAATA
1 TTTATATATT-TTTTAAATA
44706672 TTTATATATTTTTTGAAAT-
1 TTTATATATTTTTT-AAATA
*
44706691 TTTATGTATTTTT
1 TTTATATATTTTT
44706704 ATTTTGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTATATATTTTTTAAATA
Found at i:44713143 original size:22 final size:21
Alignment explanation
Indices: 44713096--44713148 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
44713086 TGTACAAAAT
** *
44713096 AAAAAAAAATTAAAGATTTTT
1 AAAAAAAAATTAAAGAAATTG
*
44713117 CAAAAAAAATTAAAAGAAATTG
1 AAAAAAAAATT-AAAGAAATTG
44713139 AAAAAGAAAA
1 AAAAA-AAAA
44713149 GAGAGGAGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 10 0.40
22 11 0.44
23 4 0.16
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.21
Consensus pattern (21 bp):
AAAAAAAAATTAAAGAAATTG
Found at i:44716897 original size:11 final size:11
Alignment explanation
Indices: 44716879--44716919 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
44716869 ATAATAACAA
44716879 CAAAATAATAG
1 CAAAATAATAG
*
44716890 CAACATAATAG
1 CAAAATAATAG
* *
44716901 TAAAATAGTAG
1 CAAAATAATAG
44716912 CAAAATAA
1 CAAAATAA
44716920 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.61, C:0.10, G:0.10, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:44717896 original size:28 final size:28
Alignment explanation
Indices: 44717852--44717905 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
44717842 TAACATCATA
* *
44717852 AACTTATGGATTGATTACTTGAATTTAGT
1 AACTTATGGATTAATTAATT-AATTTAGT
44717881 AACTTAT-GATTAATTAATTAATTTA
1 AACTTATGGATTAATTAATTAATTTA
44717906 ATTTGATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 10 0.43
29 7 0.30
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (28 bp):
AACTTATGGATTAATTAATTAATTTAGT
Found at i:44718301 original size:2 final size:2
Alignment explanation
Indices: 44718294--44718378 Score: 147
Period size: 2 Copynumber: 43.0 Consensus size: 2
44718284 GGTACGTAGT
44718294 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44718336 TA TA TA TA TA -A TA TA TA TA TA -A TA TA TA TA TA TA TA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
44718377 TA
1 TA
44718379 ATAATTTATT
Statistics
Matches: 80, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.03
2 76 0.95
3 2 0.03
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (2 bp):
TA
Found at i:44718507 original size:2 final size:2
Alignment explanation
Indices: 44718500--44718911 Score: 639
Period size: 2 Copynumber: 206.0 Consensus size: 2
44718490 NNNNNNNNNN
44718500 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44718542 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44718584 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
** **
44718626 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GG GG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
44718668 TA TA TA TA TA TA TA TA TA TA TA TA TC TA TC TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
44718710 TA TA TA TA TA TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
44718752 TA TA TA TA TGG TA TA TA TA TA TA TA GA TA TC TG TA TA TA TA TA
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
44718795 TA TA TA TA TA TC TA TC TA TA TA GA TA TA TA CA TA GA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44718837 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
44718879 TA TA TA TA TA TA TGA TA T- TA AA TA TA -A TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
44718912 AATTATAACT
Statistics
Matches: 377, Mismatches: 29, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
1 2 0.01
2 372 0.99
3 3 0.01
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:44722635 original size:43 final size:43
Alignment explanation
Indices: 44722556--44722742 Score: 213
Period size: 43 Copynumber: 4.3 Consensus size: 43
44722546 ACGTCGCTAA
* * *
44722556 CTTTTGCGGCGCTTACAGAAAAAAAAGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAC-GAAGAAAACGCCGCTAAAGATCATGTT
44722600 CTTTAGCGGCGCTTACGAAGAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTACGAAGAAAACGCCGCTAAAGATCATGTT
* *
44722643 CTTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTTACGAAGAAAACGCCGCTAAAGA-TCATGTT
* * *
44722686 CTATAGCGGCGCTT-GGTCA-AAAACGCCGCTAACAG-T-AGTGTT
1 CTTTAGCGGCGCTTACG-AAGAAAACGCCGCTAA-AGATCA-TGTT
*
44722728 CTTTAGCGGCACTTA
1 CTTTAGCGGCGCTTA
44722743 TTTCACAAAC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
41 1 0.01
42 33 0.26
43 79 0.62
44 15 0.12
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (43 bp):
CTTTAGCGGCGCTTACGAAGAAAACGCCGCTAAAGATCATGTT
Found at i:44723234 original size:12 final size:12
Alignment explanation
Indices: 44723179--44723240 Score: 88
Period size: 12 Copynumber: 5.2 Consensus size: 12
44723169 TTTGAACCTT
*
44723179 TGCTTCTATCAC
1 TGCTTCTATCGC
*
44723191 TGCTTCTATCAC
1 TGCTTCTATCGC
44723203 TGCTTCTATCGC
1 TGCTTCTATCGC
*
44723215 TGCTTCTCTCGC
1 TGCTTCTATCGC
*
44723227 TGCTTCTCTCGC
1 TGCTTCTATCGC
44723239 TG
1 TG
44723241 TAGCCTCTAC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 48 1.00
ACGTcount: A:0.08, C:0.35, G:0.15, T:0.42
Consensus pattern (12 bp):
TGCTTCTATCGC
Found at i:44723267 original size:21 final size:21
Alignment explanation
Indices: 44723229--44723269 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
44723219 TCTCTCGCTG
* *
44723229 CTTCTCTCGCTGTAGCCTCTA
1 CTTCCCTCGCTGCAGCCTCTA
*
44723250 CTTCCCTCGCTGCCGCCTCT
1 CTTCCCTCGCTGCAGCCTCT
44723270 GCTTTAAGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.05, C:0.46, G:0.15, T:0.34
Consensus pattern (21 bp):
CTTCCCTCGCTGCAGCCTCTA
Found at i:44728741 original size:9 final size:9
Alignment explanation
Indices: 44728727--44728939 Score: 151
Period size: 9 Copynumber: 24.2 Consensus size: 9
44728717 TTTTTATGTA
44728727 TTATGTAAG
1 TTATGTAAG
*
44728736 TTATGTAAC
1 TTATGTAAG
*
44728745 TTAGGTAAG
1 TTATGTAAG
* *
44728754 TTAT-CAAA
1 TTATGTAAG
*
44728762 TTAATGTATG
1 TT-ATGTAAG
44728772 TTATGTAAG
1 TTATGTAAG
44728781 -T-TGTAAG
1 TTATGTAAG
*
44728788 TTAT-TATG
1 TTATGTAAG
44728796 TATTATGTAAG
1 --TTATGTAAG
44728807 TTATGTAAG
1 TTATGTAAG
44728816 TTATGT-A-
1 TTATGTAAG
*
44728823 TTATGTAGG
1 TTATGTAAG
44728832 TTATGTAAG
1 TTATGTAAG
*
44728841 TTGTGTAAG
1 TTATGTAAG
* *
44728850 ATATTTAAG
1 TTATGTAAG
44728859 TTATGTAAG
1 TTATGTAAG
*
44728868 TTTTGTAA-
1 TTATGTAAG
44728876 -TATGTAAG
1 TTATGTAAG
*
44728884 TTATGTATG
1 TTATGTAAG
*
44728893 CTATGT-A-
1 TTATGTAAG
*
44728900 TAATGTAAGTTG
1 TTATGTAA---G
*
44728912 TTATGTTA-
1 TTATGTAAG
44728920 TTATGTAAG
1 TTATGTAAG
*
44728929 TTATGCAAG
1 TTATGTAAG
44728938 TT
1 TT
44728940 TAAATATAAG
Statistics
Matches: 156, Mismatches: 31, Indels: 34
0.71 0.14 0.15
Matches are distributed among these distances:
7 22 0.14
8 18 0.12
9 100 0.64
10 7 0.04
11 3 0.02
12 6 0.04
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:44728796 original size:19 final size:19
Alignment explanation
Indices: 44728772--44728810 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
44728762 TTAATGTATG
44728772 TTATGTAAGT-TGTAAGTTA
1 TTATGT-AGTATGTAAGTTA
*
44728791 TTATGTATTATGTAAGTTA
1 TTATGTAGTATGTAAGTTA
44728810 T
1 T
44728811 GTAAGTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
TTATGTAGTATGTAAGTTA
Found at i:44728825 original size:25 final size:25
Alignment explanation
Indices: 44728791--44728910 Score: 141
Period size: 25 Copynumber: 4.7 Consensus size: 25
44728781 TTGTAAGTTA
44728791 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
44728816 TTATGTATTATGTAGGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* * *
44728841 TTGTGTAAGATATTTAAGTTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
* * *
44728868 TTTTGTAATATGTAAGTTATGTATG
1 TTATGTATTATGTAAGTTATGTAAG
* *
44728893 CTATGTATAATGTAAGTT
1 TTATGTATTATGTAAGTT
44728911 GTTATGTTAT
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
25 59 0.73
26 2 0.02
27 20 0.25
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:44729071 original size:13 final size:15
Alignment explanation
Indices: 44729052--44729092 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
44729042 CATATAAGTT
44729052 TATGTAAGTTATG-A
1 TATGTAAGTTATGTA
44729066 -ATGTAAGTTATGTA
1 TATGTAAGTTATGTA
44729080 TTATGTAAGTTAT
1 -TATGTAAGTTAT
44729093 TTAAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (15 bp):
TATGTAAGTTATGTA
Found at i:44729087 original size:16 final size:16
Alignment explanation
Indices: 44729051--44729129 Score: 74
Period size: 16 Copynumber: 5.0 Consensus size: 16
44729041 ACATATAAGT
44729051 TTATGTAAGTTATG-A
1 TTATGTAAGTTATGTA
44729066 --ATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
44729080 TTATGTAAGTTATTTAAA
1 TTATGTAAGTTATGT--A
* *
44729098 TTATTTAAGTTGTGTA
1 TTATGTAAGTTATGTA
* *
44729114 TTATATAAGTCATGTA
1 TTATGTAAGTTATGTA
44729130 GGCTATGTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
13 12 0.23
14 1 0.02
16 26 0.50
18 13 0.25
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.48
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:44729205 original size:21 final size:21
Alignment explanation
Indices: 44729181--44729227 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
44729171 TTTTTCAAAT
*
44729181 ATATCAATAAAATTTTA-ATAA
1 ATAT-AATAAAATTGTATATAA
*
44729202 ATATATTAAAATTGTATATAA
1 ATATAATAAAATTGTATATAA
44729223 ATATA
1 ATATA
44729228 TATATCAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
ATATAATAAAATTGTATATAA
Found at i:44729213 original size:20 final size:21
Alignment explanation
Indices: 44729188--44729228 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
44729178 AATATATCAA
*
44729188 TAAAATTTTA-ATAAATATAT
1 TAAAATTGTATATAAATATAT
44729208 TAAAATTGTATATAAATATAT
1 TAAAATTGTATATAAATATAT
44729229 ATATCAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TAAAATTGTATATAAATATAT
Found at i:44729229 original size:23 final size:22
Alignment explanation
Indices: 44729177--44729230 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
44729167 TAAATTTTTC
* *
44729177 AAATATATCAATAAAATTTTAAT
1 AAATATAT-ATTAAAATTGTAAT
44729200 -AA-ATATATTAAAATTGTATAT
1 AAATATATATTAAAATTGTA-AT
44729221 AAATATATAT
1 AAATATATAT
44729231 ATCAAAGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 10 0.38
21 6 0.23
22 4 0.15
23 6 0.23
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
AAATATATATTAAAATTGTAAT
Found at i:44734476 original size:41 final size:40
Alignment explanation
Indices: 44734412--44734610 Score: 137
Period size: 41 Copynumber: 4.9 Consensus size: 40
44734402 TTTTGTTACT
* * *
44734412 ATTAGCGGCGCTTCGGCAAAAACGCCGCTAAAGGTAAATGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGTAGA-GC
* * * * *
44734453 ATTAGCGGCGCTTAGATATAAACGTCGCTAAAGGCCAGAGA
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGG-TAGAGC
* * * * * * * *
44734494 ATTAGTGGCACTCAGATAAATACGCCACTAAAGATCCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGT-AGAGC
* * * *
44734535 ATTAGCGGCGCTTAGACAAAAACGCCGCTAACGGCCATAGG
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGG-TAGAGC
* * * * *
44734576 ATTAGTGACGCTCAAATAAAAACGCCGCTAAAGGT
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGT
44734611 TTAAAAATCG
Statistics
Matches: 117, Mismatches: 38, Indels: 7
0.72 0.23 0.04
Matches are distributed among these distances:
41 115 0.98
42 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (40 bp):
ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGTAGAGC
Found at i:44734549 original size:82 final size:82
Alignment explanation
Indices: 44734451--44734608 Score: 217
Period size: 82 Copynumber: 1.9 Consensus size: 82
44734441 AAAGGTAAAT
* * * * * *
44734451 GCATTAGCGGCGCTTAGATATAAACGTCGCTAAAGGCCAGAGAATTAGTGGCACTCAGATAAATA
1 GCATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCCAGAGAATTAGTGACACTCAAATAAAAA
44734516 CGCCACTAAAGATCCGA
66 CGCCACTAAAGATCCGA
* * * *
44734533 GCATTAGCGGCGCTTAGACAAAAACGCCGCTAACGGCCATAGGATTAGTGACGCTCAAATAAAAA
1 GCATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCCAGAGAATTAGTGACACTCAAATAAAAA
*
44734598 CGCCGCTAAAG
66 CGCCACTAAAG
44734609 GTTTAAAAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
82 65 1.00
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (82 bp):
GCATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCCAGAGAATTAGTGACACTCAAATAAAAA
CGCCACTAAAGATCCGA
Found at i:44735197 original size:31 final size:29
Alignment explanation
Indices: 44735159--44735235 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
44735149 TTAACGGCTC
* *
44735159 AGTGACTAAAATGTTACAACATGATAACATA
1 AGTGACTAAAATGTAAC-ACATCA-AACATA
* **
44735190 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACACATCAAACATA
44735219 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
44735236 TTGAACCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 3 0.08
31 15 0.38
ACGTcount: A:0.48, C:0.14, G:0.13, T:0.25
Consensus pattern (29 bp):
AGTGACTAAAATGTAACACATCAAACATA
Found at i:44742765 original size:15 final size:14
Alignment explanation
Indices: 44742742--44742787 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
44742732 ATAATTTAAA
*
44742742 TTCAGTACTTAAATT
1 TTCAATACTT-AATT
44742757 TTCAATACTTAATAT
1 TTCAATACTTAAT-T
*
44742772 TTCAACACTTAATT
1 TTCAATACTTAATT
44742786 TT
1 TT
44742788 TTTTAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 6 0.21
15 22 0.79
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (14 bp):
TTCAATACTTAATT
Found at i:44749318 original size:5 final size:5
Alignment explanation
Indices: 44749308--44749362 Score: 110
Period size: 5 Copynumber: 11.0 Consensus size: 5
44749298 ATTACTTAAT
44749308 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
44749358 ATATA
1 ATATA
44749363 CATAGAAAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 50 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:44750876 original size:6 final size:6
Alignment explanation
Indices: 44750860--44750889 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
44750850 TTTAATTACA
44750860 ATAATAT ATAAAT ATAAAT ATAAAT ATAAA
1 ATAA-AT ATAAAT ATAAAT ATAAAT ATAAA
44750890 ATTATTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATAAAT
Found at i:44752203 original size:19 final size:19
Alignment explanation
Indices: 44752179--44752222 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
44752169 TAAAAGCAAC
44752179 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAATAA
* **
44752198 ACAACATGATTCCAAATAA
1 ACAACATCAACCCAAATAA
44752217 ACAACA
1 ACAACA
44752223 AAAATAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.27, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAACATCAACCCAAATAA
Found at i:44754690 original size:30 final size:31
Alignment explanation
Indices: 44754636--44754694 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
44754626 GAATTACTAT
*
44754636 TAGTGTATTTTAGAAATAAAAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAAAATATATG
44754667 TAGTGTATTTTAAAAAT-AAAAAAATATA
1 TAGTGTATTTTAAAAATAAAAAAAATATA
44754695 GTTTATATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (31 bp):
TAGTGTATTTTAAAAATAAAAAAAATATATG
Found at i:44755274 original size:22 final size:23
Alignment explanation
Indices: 44755222--44755275 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
44755212 GGCGCCAATG
44755222 AATATTTTTTTTGTTTGAATAAA
1 AATATTTTTTTTGTTTGAATAAA
*
44755245 ATATTATTTTTTATT-TTT-ATTAAA
1 A-A-TATTTTTT-TTGTTTGAATAAA
44755269 AATATTT
1 AATATTT
44755276 AAATATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
22 5 0.19
23 2 0.07
24 7 0.26
25 11 0.41
26 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (23 bp):
AATATTTTTTTTGTTTGAATAAA
Found at i:44755819 original size:60 final size:60
Alignment explanation
Indices: 44755740--44755872 Score: 203
Period size: 60 Copynumber: 2.2 Consensus size: 60
44755730 ATTGTAATTT
* * *
44755740 TTTTTGCTTTTTATAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAAA
1 TTTTTG-TATTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
* *
44755801 TTTTTGTGTTTATAATTATTTTAAAATTAATTTATTCGTAATTTAGGATTAAGTTATAAA
1 TTTTTGTATTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
*
44755861 TTGTTGTATTTA
1 TTTTTGTATTTA
44755873 GTTTAATATT
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
60 60 0.91
61 6 0.09
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.56
Consensus pattern (60 bp):
TTTTTGTATTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
Found at i:44756232 original size:53 final size:54
Alignment explanation
Indices: 44756169--44756279 Score: 152
Period size: 53 Copynumber: 2.1 Consensus size: 54
44756159 GAATCAATTT
* *
44756169 AAAAAAAAATTTAATCGCGCTTATCTGACAGACACGAAT-AAATATTTATATTA
1 AAAAAAAAATTTAATCGCGCCTATCTAACAGACACGAATCAAATATTTATATTA
* ** * *
44756222 AAAAAAAAATTTAATCGCGCCTATCTAACAGGCGTGAATCAATTTTTTATATTA
1 AAAAAAAAATTTAATCGCGCCTATCTAACAGACACGAATCAAATATTTATATTA
44756276 AAAA
1 AAAA
44756280 TATTTTTTGT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 34 0.68
54 16 0.32
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.31
Consensus pattern (54 bp):
AAAAAAAAATTTAATCGCGCCTATCTAACAGACACGAATCAAATATTTATATTA
Found at i:44757178 original size:35 final size:35
Alignment explanation
Indices: 44757138--44757205 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
44757128 TTTTGTTGGC
* * *
44757138 ATTTTATTTATTAATTTAATTTTTTTTGCCTTTTA
1 ATTTTATTTATCAATTTAATTTATGTTGCCTTTTA
44757173 ATTTTATTTATCAATTTAATTTATGTTGCCTTT
1 ATTTTATTTATCAATTTAATTTATGTTGCCTTT
44757206 GCAATTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.65
Consensus pattern (35 bp):
ATTTTATTTATCAATTTAATTTATGTTGCCTTTTA
Found at i:44757192 original size:18 final size:18
Alignment explanation
Indices: 44757138--44757194 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
44757128 TTTTGTTGGC
*
44757138 ATTTTATTTATTAATTTA
1 ATTTTATTTATCAATTTA
**
44757156 ATTTT-TTT-TGCCTTTTA
1 ATTTTATTTAT-CAATTTA
44757173 ATTTTATTTATCAATTTA
1 ATTTTATTTATCAATTTA
44757191 ATTT
1 ATTT
44757195 ATGTTGCCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 1 0.03
17 12 0.39
18 17 0.55
19 1 0.03
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (18 bp):
ATTTTATTTATCAATTTA
Found at i:44757195 original size:17 final size:17
Alignment explanation
Indices: 44757140--44757196 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
44757130 TTGTTGGCAT
*
44757140 TTTATTTATTAATTTAA
1 TTTATTTATCAATTTAA
* **
44757157 TTT-TTTTTGCCTTTTAA
1 TTTATTTAT-CAATTTAA
44757174 TTTTATTTATCAATTTAA
1 -TTTATTTATCAATTTAA
44757192 TTTAT
1 TTTAT
44757197 GTTGCCTTTG
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
16 4 0.13
17 13 0.43
18 9 0.30
19 4 0.13
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATTTATCAATTTAA
Found at i:44760485 original size:43 final size:43
Alignment explanation
Indices: 44760431--44760588 Score: 200
Period size: 43 Copynumber: 3.7 Consensus size: 43
44760421 GCCAACGTCT
* *
44760431 CAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCC
1 CAGACATGGTCTTACACGTAATCACATATCGATGCCACTGTCC
* * *
44760474 CAGACAGGGTCTTACACG-AATCAAATA-CGATGCCAATGTCC
1 CAGACATGGTCTTACACGTAATCACATATCGATGCCACTGTCC
*
44760515 CAGACATGGTCTTACACGTAAACACA-AGTCGATGCCAAC-GTCC
1 CAGACATGGTCTTACACGTAATCACATA-TCGATGCC-ACTGTCC
44760558 CAGACATGGTCTTACACGATAA-CACATATCG
1 CAGACATGGTCTTACACG-TAATCACATATCG
44760589 GAAATCCTAT
Statistics
Matches: 100, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
41 31 0.31
42 13 0.13
43 51 0.51
44 5 0.05
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (43 bp):
CAGACATGGTCTTACACGTAATCACATATCGATGCCACTGTCC
Found at i:44760560 original size:84 final size:84
Alignment explanation
Indices: 44760419--44760576 Score: 230
Period size: 84 Copynumber: 1.9 Consensus size: 84
44760409 GACTTGTACA
* * * *
44760419 ATGCCAACGTCTCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAGACAGGGT
44760484 CTTACACGAATCAAATACG
66 CTTACACGAATCAAATACG
* *
44760503 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCGATGCCAAC-GTCCCAGACATG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCGATGCC-ACTGTCCCAGACAGG
44760566 GTCTTACACGA
64 GTCTTACACGA
44760577 TAACACATAT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
83 1 0.02
84 63 0.95
85 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAGACAGGGT
CTTACACGAATCAAATACG
Found at i:44765110 original size:10 final size:10
Alignment explanation
Indices: 44765097--44765138 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
44765087 GGGCTTTTAG
44765097 TTTCTTTTCC
1 TTTCTTTTCC
*
44765107 TTTCTTTTCT
1 TTTCTTTTCC
44765117 TTTCTTTT-C
1 TTTCTTTTCC
44765126 TTTCCTTTTCC
1 TTT-CTTTTCC
44765137 TT
1 TT
44765139 CTCATCTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTCTTTTCC
Found at i:44765117 original size:15 final size:15
Alignment explanation
Indices: 44765097--44765138 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
44765087 GGGCTTTTAG
44765097 TTTCTTTTCCTTTCT
1 TTTCTTTTCCTTTCT
*
44765112 TTTCTTTTCTTTTCT
1 TTTCTTTTCCTTTCT
*
44765127 TTCCTTTTCCTT
1 TTTCTTTTCCTT
44765139 CTCATCTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTCTTTTCCTTTCT
Found at i:44765146 original size:5 final size:5
Alignment explanation
Indices: 44765138--44765165 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
44765128 TCCTTTTCCT
44765138 TCTCA TCTCA TCTCA TCTCA TCTCA TCT
1 TCTCA TCTCA TCTCA TCTCA TCTCA TCT
44765166 TATGTTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.39, G:0.00, T:0.43
Consensus pattern (5 bp):
TCTCA
Found at i:44765507 original size:2 final size:2
Alignment explanation
Indices: 44765500--44765526 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44765490 AAAATGGATA
44765500 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 T
44765527 TCATGATTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:44774131 original size:21 final size:20
Alignment explanation
Indices: 44774091--44774132 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
44774081 TTGAAAATTT
* *
44774091 TAATAAATTTTTTTATTAAA
1 TAATAAATTTGTTTAATAAA
44774111 TAATAAATTTGGTTTAATAAA
1 TAATAAATTT-GTTTAATAAA
44774132 T
1 T
44774133 TTTAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
TAATAAATTTGTTTAATAAA
Found at i:44776323 original size:2 final size:2
Alignment explanation
Indices: 44776316--44776351 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
44776306 CCCTTTCAAG
*
44776316 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44776352 ACAGGCAGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:44784025 original size:39 final size:40
Alignment explanation
Indices: 44783945--44784028 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 40
44783935 TTTATTGCTA
44783945 AAACAGAAGAAAAGGAATTTCTCATGACTCATTTAAAGTTT
1 AAACAGAAGAAAAGGAATTTCTCA-GACTCATTTAAAGTTT
44783986 AAACAGAAGAAAAGGAATTTCTCA-ACTCATTTAAAGTTT
1 AAACAGAAGAAAAGGAATTTCTCAGACTCATTTAAAGTTT
44784025 AAAC
1 AAAC
44784029 TTCCAGATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
39 19 0.44
41 24 0.56
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.27
Consensus pattern (40 bp):
AAACAGAAGAAAAGGAATTTCTCAGACTCATTTAAAGTTT
Found at i:44789729 original size:40 final size:40
Alignment explanation
Indices: 44789664--44789835 Score: 197
Period size: 40 Copynumber: 4.5 Consensus size: 40
44789654 GGCCCATTTT
*
44789664 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAA-TTAAAAAAATTAAAAAAAGTATTTTAAAAA
44789706 TATTTTAAAATTAAAAAAATTAAAAAAA-TATTTT--AAA
1 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
44789743 -A--TT---A--AAAAAAATTAAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATT-AAAAAAAGTATTTTAAAAA
* *
44789776 TATTTTAAAATTTAAAAAAATT-AAAAAAGTATGTAAAAAA
1 TATTTTAAAA-TTAAAAAAATTAAAAAAAGTATTTTAAAAA
44789816 TATTTTAAAATTAAAAAAAT
1 TATTTTAAAATTAAAAAAAT
44789836 AAATATATTT
Statistics
Matches: 114, Mismatches: 3, Indels: 29
0.78 0.02 0.20
Matches are distributed among these distances:
29 9 0.08
30 7 0.06
31 7 0.06
33 3 0.03
34 3 0.03
36 3 0.03
37 3 0.03
39 17 0.15
40 43 0.38
41 4 0.04
42 15 0.13
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:44789730 original size:8 final size:9
Alignment explanation
Indices: 44789712--44789762 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
44789702 AAAATATTTT
44789712 AAAATTAAA
1 AAAATTAAA
44789721 AAAATTAAA
1 AAAATTAAA
***
44789730 AAAATATTTT
1 AAAAT-TAAA
44789740 AAAATTAAAA
1 AAAATT-AAA
44789750 AAAATTAAA
1 AAAATTAAA
44789759 AAAA
1 AAAA
44789763 AGTATTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
9 22 0.65
10 12 0.35
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (9 bp):
AAAATTAAA
Found at i:44789731 original size:10 final size:10
Alignment explanation
Indices: 44789712--44789763 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
44789702 AAAATATTTT
44789712 AAAATT-AAA
1 AAAATTAAAA
44789721 AAAATTAAAA
1 AAAATTAAAA
**
44789731 AAATATT--TT
1 AAA-ATTAAAA
44789740 AAAATTAAAA
1 AAAATTAAAA
44789750 AAAATTAAAA
1 AAAATTAAAA
44789760 AAAA
1 AAAA
44789764 GTATTTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
8 3 0.09
9 9 0.26
10 20 0.57
11 3 0.09
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (10 bp):
AAAATTAAAA
Found at i:44789733 original size:28 final size:30
Alignment explanation
Indices: 44789701--44789774 Score: 125
Period size: 28 Copynumber: 2.5 Consensus size: 30
44789691 AAAGTATTTT
44789701 AAAAATATTTTAAAATT-AAAAAAATT-AA
1 AAAAATATTTTAAAATTAAAAAAAATTAAA
44789729 AAAAATATTTTAAAATTAAAAAAAATTAAA
1 AAAAATATTTTAAAATTAAAAAAAATTAAA
44789759 AAAAAGTATTTTAAAA
1 AAAAA-TATTTTAAAA
44789775 ATATTTTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
28 17 0.40
29 9 0.21
30 7 0.16
31 10 0.23
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (30 bp):
AAAAATATTTTAAAATTAAAAAAAATTAAA
Found at i:44789739 original size:70 final size:71
Alignment explanation
Indices: 44789664--44789834 Score: 249
Period size: 70 Copynumber: 2.4 Consensus size: 71
44789654 GGCCCATTTT
44789664 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA-TTAAAAAAATTA
1 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTTAAAAAAATTA
44789728 AAAAAA
66 AAAAAA
**
44789734 TATTTT-AAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTTAAAAAAATT
1 TATTTTAAAAATTTTAAAAAATT-AAAAAAAGTATTTTAAAAATATTTTAAAATTTAAAAAAATT
*
44789798 AAAAAAG
65 AAAAAAA
* * *
44789805 TATGTAAAAAATATTT-TAAAATTAAAAAAA
1 TATTTTAAAAAT-TTTAAAAAATTAAAAAAA
44789835 TAAATATATT
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
69 14 0.16
70 35 0.39
71 28 0.31
72 11 0.12
73 1 0.01
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (71 bp):
TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTTAAAAAAATTA
AAAAAA
Found at i:44789795 original size:10 final size:10
Alignment explanation
Indices: 44789670--44789803 Score: 50
Period size: 10 Copynumber: 13.4 Consensus size: 10
44789660 TTTTTATTTT
*
44789670 AAAAATTTTA
1 AAAAATTTAA
*
44789680 AAAAATTAAA
1 AAAAATTTAA
44789690 AAAAGTATTTTAA
1 AAAA--A-TTTAA
*
44789703 AAATATTT--
1 AAAAATTTAA
*
44789711 TAAAA-TTAA
1 AAAAATTTAA
44789720 AAAAA-TTAA
1 AAAAATTTAA
*
44789729 AAAAATATT-T
1 AAAAAT-TTAA
* *
44789739 TAAAATTAAA
1 AAAAATTTAA
*
44789749 AAAAATTAAAA
1 AAAAATT-TAA
44789760 AAAAGTATTTTAA
1 AAAA--A-TTTAA
*
44789773 AAATATTT--
1 AAAAATTTAA
*
44789781 TAAAATTTAA
1 AAAAATTTAA
44789791 AAAAA-TTAA
1 AAAAATTTAA
44789800 AAAA
1 AAAA
44789804 GTATGTAAAA
Statistics
Matches: 93, Mismatches: 17, Indels: 29
0.67 0.12 0.21
Matches are distributed among these distances:
7 2 0.02
8 9 0.10
9 22 0.24
10 33 0.35
11 11 0.12
12 1 0.01
13 13 0.14
14 2 0.02
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:44789826 original size:10 final size:11
Alignment explanation
Indices: 44789664--44789715 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 11
44789654 GGCCCATTTT
44789664 TATTTT-AAAA
1 TATTTTAAAAA
44789674 -ATTTTAAAAA
1 TATTTTAAAAA
**
44789684 -ATTAAAAAAA
1 TATTTTAAAAA
44789694 GTATTTTAAAAA
1 -TATTTTAAAAA
44789706 TATTTTAAAA
1 TATTTTAAAA
44789716 TTAAAAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 5 0.14
10 12 0.34
11 10 0.29
12 8 0.23
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:44794625 original size:31 final size:31
Alignment explanation
Indices: 44794587--44794645 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
44794577 AATAAAAGCA
44794587 ATATTAAT-TGAATATTAATTAATATGGTAGT
1 ATATTAATGTGAA-ATTAATTAATATGGTAGT
*
44794618 ATATTAATGTGAAATTAATTAATTTGGT
1 ATATTAATGTGAAATTAATTAATATGGT
44794646 CATATCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.46
Consensus pattern (31 bp):
ATATTAATGTGAAATTAATTAATATGGTAGT
Found at i:44794961 original size:24 final size:24
Alignment explanation
Indices: 44794926--44794975 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
44794916 GTACTTTCCA
44794926 TGTATGTAAATTTTGAAATTCATC
1 TGTATGTAAATTTTGAAATTCATC
* *
44794950 TGTATGTGAATTTTGAAATTGATC
1 TGTATGTAAATTTTGAAATTCATC
44794974 TG
1 TG
44794976 ATCATTAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.46
Consensus pattern (24 bp):
TGTATGTAAATTTTGAAATTCATC
Found at i:44798705 original size:31 final size:32
Alignment explanation
Indices: 44798661--44798735 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 32
44798651 TTAACTTTTT
44798661 CATAATGATAAATA-TAAAAATATATATTTAA
1 CATAATGATAAATATTAAAAATATATATTTAA
*
44798692 CATAATGGA-AAATATTAAAAATATAT-TTTTA
1 CATAAT-GATAAATATTAAAAATATATATTTAA
* *
44798723 TATAATTATAAAT
1 CATAATGATAAAT
44798736 TTATTTATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
30 1 0.03
31 24 0.63
32 13 0.34
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.39
Consensus pattern (32 bp):
CATAATGATAAATATTAAAAATATATATTTAA
Found at i:44798730 original size:22 final size:21
Alignment explanation
Indices: 44798705--44798755 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
44798695 AATGGAAAAT
*
44798705 ATTAAAAATATATTTTTATATA
1 ATTAAAAATATATTTATATA-A
* *
44798727 ATTATAAATTTATTTATATAA
1 ATTAAAAATATATTTATATAA
*
44798748 ATAAAAAA
1 ATTAAAAA
44798756 GTTATTAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTAAAAATATATTTATATAA
Found at i:44801936 original size:29 final size:29
Alignment explanation
Indices: 44801881--44801937 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
44801871 GTTTAATGTG
* *
44801881 TAATTTTATACGTGAATTTTGATTTTGAA
1 TAATTTTATACATGAATTTTGAATTTGAA
*
44801910 TAATTTTATATATGAAATTTT-AATTTGA
1 TAATTTTATACATG-AATTTTGAATTTGA
44801938 TTCAATTCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.35, C:0.02, G:0.11, T:0.53
Consensus pattern (29 bp):
TAATTTTATACATGAATTTTGAATTTGAA
Found at i:44805078 original size:14 final size:16
Alignment explanation
Indices: 44805049--44805085 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
44805039 TTCTATTTAC
44805049 ATTTGTTATCTTCAAT-
1 ATTT-TTATCTTCAATA
44805065 ATTTTTAT-TTCAATA
1 ATTTTTATCTTCAATA
44805080 ATTTTT
1 ATTTTT
44805086 TATTAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 6 0.30
15 10 0.50
16 4 0.20
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (16 bp):
ATTTTTATCTTCAATA
Found at i:44807837 original size:81 final size:80
Alignment explanation
Indices: 44807715--44807878 Score: 319
Period size: 81 Copynumber: 2.0 Consensus size: 80
44807705 GATCCTGTTT
44807715 TTTTTTTTCTTTCTTTCTTTTGATGGATCCACTAATTCAACAAAGGGTATATATATATATATATA
1 TTTTTTTTCTTTCTTTCTTTTGATGGATCCACTAATTCAACAAAGGGTATATATATATATATATA
44807780 TATATTGACTCTAGA
66 TATATTGACTCTAGA
44807795 TTTTTTTTCTTTTCTTTCTTTTGATGGATCCACTAATTCAACAAAGGGTATATATATATATATAT
1 TTTTTTTTC-TTTCTTTCTTTTGATGGATCCACTAATTCAACAAAGGGTATATATATATATATAT
44807860 ATATATTGACTCTAGA
65 ATATATTGACTCTAGA
44807876 TTT
1 TTT
44807879 AGGTTGATAT
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
80 9 0.11
81 74 0.89
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (80 bp):
TTTTTTTTCTTTCTTTCTTTTGATGGATCCACTAATTCAACAAAGGGTATATATATATATATATA
TATATTGACTCTAGA
Found at i:44808329 original size:155 final size:154
Alignment explanation
Indices: 44807862--44808330 Score: 762
Period size: 153 Copynumber: 3.0 Consensus size: 154
44807852 ATATATATAT
*
44807862 ATATTGACTCTAGATTTAGGTTGATATTTTATTTTTTTTGACTTAATTATATCTAGATTTGAAAT
1 ATATTGCCTCTAGATTTAGGTTGATATTTTA-TTTTTTT-ACTTAATTATATCTAGATTTGAAAT
* * * * *
44807927 TTGTTGTATTTGACATCTCTATCATAACACTATTAGAATATGATGACATGATATTATCGTTCAAT
64 TCGTCGCATTTGGCATCTCTATCATAACATTATTAGAATATGATGACATGATATTATCGTTCAAT
44807992 ATTATGATAATACTTGGCAAGCATAA
129 ATTATGATAATACTTGGCAAGCATAA
44808018 ATATTGCCTCTAGATTTAGGTTGATA-TTT-TTTTTTTACTTAATTATATCTAGATTTGAAATTT
1 ATATTGCCTCTAGATTTAGGTTGATATTTTATTTTTTTACTTAATTATATCTAGATTTGAAA-TT
* * *
44808081 CGTCGCATTTGGCATCTCTGTCGTAACATTATTAGAATACGATGACATGATATTATCGTTCAATA
65 CGTCGCATTTGGCATCTCTATCATAACATTATTAGAATATGATGACATGATATTATCGTTCAATA
44808146 TTATGATAATACTTGGCAAGCATAA
130 TTATGATAATACTTGGCAAGCATAA
44808171 ATATTGCCTCTAGATTTAGGTTGATATTTTATTTTATTTACTTAATTATATCTAGATTTGAAATT
1 ATATTGCCTCTAGATTTAGGTTGATATTTTATTTT-TTTACTTAATTATATCTAGATTTGAAATT
* *
44808236 CGTCGCATTTGGCATATCTATCCTAACATTATTAGAATATGATGACATGATATTATCGTTCAATA
65 CGTCGCATTTGGCATCTCTATCATAACATTATTAGAATATGATGACATGATATTATCGTTCAATA
** *
44808301 TTACAATAACACTTGGCAAGCATAA
130 TTATGATAATACTTGGCAAGCATAA
44808326 ATATT
1 ATATT
44808331 TTTTAAATAT
Statistics
Matches: 293, Mismatches: 16, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
152 24 0.08
153 117 0.40
154 3 0.01
155 97 0.33
156 52 0.18
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (154 bp):
ATATTGCCTCTAGATTTAGGTTGATATTTTATTTTTTTACTTAATTATATCTAGATTTGAAATTC
GTCGCATTTGGCATCTCTATCATAACATTATTAGAATATGATGACATGATATTATCGTTCAATAT
TATGATAATACTTGGCAAGCATAA
Found at i:44810432 original size:15 final size:15
Alignment explanation
Indices: 44810414--44810450 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
44810404 AATAAAGGGA
44810414 AAAAAAAAAGAAAAG
1 AAAAAAAAAGAAAAG
*
44810429 AAAAAAACAGAAAAG
1 AAAAAAAAAGAAAAG
44810444 AAAAAAA
1 AAAAAAA
44810451 TTAAATTGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAAAAG
Found at i:44818610 original size:22 final size:22
Alignment explanation
Indices: 44818567--44818610 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
44818557 GTTGTTGTTG
* *
44818567 TTTGCTGCCACTTTGATGTTAT
1 TTTGCTACCACTTTGATATTAT
*
44818589 TTTGCTACCACTTTGCTATTAT
1 TTTGCTACCACTTTGATATTAT
44818611 ATTGATATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.20, G:0.14, T:0.50
Consensus pattern (22 bp):
TTTGCTACCACTTTGATATTAT
Found at i:44826649 original size:2 final size:2
Alignment explanation
Indices: 44826642--44826674 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
44826632 GCTAACATAA
44826642 AT AT AT AT AT AT AT AT AT AGT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT A
44826675 ATGCTGATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 26 0.90
3 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:44843723 original size:29 final size:29
Alignment explanation
Indices: 44843681--44843742 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
44843671 TAACACCGAA
44843681 GATGCACTCAAGTATTTTTACTTATGCAT
1 GATGCACTCAAGTATTTTTACTTATGCAT
44843710 GATGCACTCAAGTATTTTTACTTATGCAT
1 GATGCACTCAAGTATTTTTACTTATGCAT
44843739 GATG
1 GATG
44843743 TAAACACAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (29 bp):
GATGCACTCAAGTATTTTTACTTATGCAT
Found at i:44855274 original size:32 final size:33
Alignment explanation
Indices: 44855202--44855274 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
44855192 TAGAAAAACT
*
44855202 AATATTTTCTGATGTTTGGATGAATTTGTGTAA
1 AATATTTTCTGATGTTTGGATGAACTTGTGTAA
*
44855235 AATATTTTCTGCTGTTT-GAT-AGACTTGCTG-AA
1 AATATTTTCTGATGTTTGGATGA-ACTTG-TGTAA
44855267 AATATTTT
1 AATATTTT
44855275 ATAAAAGTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
31 1 0.03
32 17 0.47
33 18 0.50
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.48
Consensus pattern (33 bp):
AATATTTTCTGATGTTTGGATGAACTTGTGTAA
Found at i:44859885 original size:14 final size:14
Alignment explanation
Indices: 44859866--44859898 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
44859856 GTTACTTTTT
44859866 TGTTCTATATCAAA
1 TGTTCTATATCAAA
44859880 TGTTCTATATCAAA
1 TGTTCTATATCAAA
44859894 T-TTCT
1 TGTTCT
44859899 CTTCATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.30, C:0.15, G:0.06, T:0.48
Consensus pattern (14 bp):
TGTTCTATATCAAA
Found at i:44871265 original size:13 final size:13
Alignment explanation
Indices: 44871226--44871267 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
44871216 AAAATAAGAG
44871226 AATTAAATTATATCA
1 AATTAAATTATA--A
44871241 AATTATAA-TATAA
1 AATTA-AATTATAA
44871254 AATTAAATTATAA
1 AATTAAATTATAA
44871267 A
1 A
44871268 TTTTTACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.08
13 12 0.48
15 9 0.36
16 2 0.08
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
AATTAAATTATAA
Found at i:44875990 original size:39 final size:41
Alignment explanation
Indices: 44875916--44876005 Score: 148
Period size: 39 Copynumber: 2.2 Consensus size: 41
44875906 AAAAAAGTGT
*
44875916 TTATATTAAAAAACACTATCATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACTATAATAAATATAATAAATATTTTA
44875957 TTATATTAAAAAACAC-A-AATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACTATAATAAATATAATAAATATTTTA
*
44875996 TTGTATTAAA
1 TTATATTAAA
44876006 TATAATTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 30 0.64
40 1 0.02
41 16 0.34
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (41 bp):
TTATATTAAAAAACACTATAATAAATATAATAAATATTTTA
Found at i:44877522 original size:3 final size:3
Alignment explanation
Indices: 44877501--44877558 Score: 75
Period size: 3 Copynumber: 19.7 Consensus size: 3
44877491 TAAATAATAA
* *
44877501 ATT A-T ATT AATT GTT ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
44877546 ATT ATT A-T ATT AT
1 ATT ATT ATT ATT AT
44877559 GAAATAAGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 4 0.08
3 41 0.85
4 3 0.06
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:44878277 original size:22 final size:24
Alignment explanation
Indices: 44878249--44878292 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
44878239 TATGACAATA
44878249 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGCTAGAAAAGTAAGTATG
44878271 AATTAAGCTAGAAAAGTAAGTA
1 AATTAAGCTAGAAAAGTAAGTA
44878293 AGCTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.02, G:0.20, T:0.23
Consensus pattern (24 bp):
AATTAAGCTAGAAAAGTAAGTATG
Found at i:44878570 original size:24 final size:23
Alignment explanation
Indices: 44878543--44878589 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
44878533 TAACCATGAG
44878543 ACATTT-AAAGTAAGGTAAGTAATA
1 ACATTTGAAAGTAA-GTAAG-AATA
*
44878567 ACATTTGAAATTAAGTAAGAATA
1 ACATTTGAAAGTAAGTAAGAATA
44878590 TGTGTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 11 0.52
25 6 0.29
ACGTcount: A:0.51, C:0.04, G:0.15, T:0.30
Consensus pattern (23 bp):
ACATTTGAAAGTAAGTAAGAATA
Found at i:44878936 original size:22 final size:23
Alignment explanation
Indices: 44878892--44878936 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
44878882 GGATTTATAT
*
44878892 TATTCTAGGTGTGTTAGGTTGGA
1 TATTCTAGGTGTGTTAGGGTGGA
*
44878915 TATTCT-GGTGTGTTTGGGTGGA
1 TATTCTAGGTGTGTTAGGGTGGA
44878937 ATCCATGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.13, C:0.04, G:0.38, T:0.44
Consensus pattern (23 bp):
TATTCTAGGTGTGTTAGGGTGGA
Found at i:44879190 original size:47 final size:47
Alignment explanation
Indices: 44879121--44879215 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
44879111 TGAAGTGATA
*
44879121 TATAATTATGTATAATTAGTTTAAATGATTTTTTTAAAGGTTTATGG
1 TATAATTATGTATAATTAGTTTAAATGATTTTTTTAAAGGCTTATGG
44879168 TATAATTATGTATAATTAGTTTAAATGATTTTTTTAAAGGCTTATGG
1 TATAATTATGTATAATTAGTTTAAATGATTTTTTTAAAGGCTTATGG
44879215 T
1 T
44879216 TGATGTTTGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.34, C:0.01, G:0.15, T:0.51
Consensus pattern (47 bp):
TATAATTATGTATAATTAGTTTAAATGATTTTTTTAAAGGCTTATGG
Found at i:44879437 original size:2 final size:2
Alignment explanation
Indices: 44879430--44879480 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
44879420 ACACGAGTCG
*
44879430 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
44879472 AA TA TA TA T
1 TA TA TA TA T
44879481 GCTAAATGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:44881767 original size:11 final size:11
Alignment explanation
Indices: 44881733--44881806 Score: 58
Period size: 11 Copynumber: 6.6 Consensus size: 11
44881723 TAAATATCTC
*
44881733 TAAAATAATAG
1 TAAAATAATAA
*
44881744 CAAAATTAATAA
1 TAAAA-TAATAA
44881756 TAAAATAATAA
1 TAAAATAATAA
* * * *
44881767 TTACACAATAT
1 TAAAATAATAA
* * *
44881778 TTAAACAACAA
1 TAAAATAATAA
44881789 TAAAATAATAA
1 TAAAATAATAA
44881800 TAAAATA
1 TAAAATA
44881807 GTAAAATGGT
Statistics
Matches: 49, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
11 40 0.82
12 9 0.18
ACGTcount: A:0.65, C:0.07, G:0.01, T:0.27
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:44884500 original size:13 final size:13
Alignment explanation
Indices: 44884482--44884506 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44884472 TAATCACACT
44884482 AACAAATAAATAA
1 AACAAATAAATAA
44884495 AACAAATAAATA
1 AACAAATAAATA
44884507 TCTTCAGAGG
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:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (13 bp):
AACAAATAAATAA
Found at i:44886876 original size:22 final size:22
Alignment explanation
Indices: 44886823--44886884 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 22
44886813 AAATATATAT
*
44886823 TAAAAAATTTAAAAAAATTCAA
1 TAAAAATTTTAAAAAAATTCAA
44886845 TAAAACATTTTGAAAAGAAA-TCAA
1 TAAAA-ATTTT-AAAA-AAATTCAA
* *
44886869 TAAAATTTTTTAAAAA
1 TAAAAATTTTAAAAAA
44886885 TGATTAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 2 0.06
22 8 0.24
23 8 0.24
24 13 0.38
25 3 0.09
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (22 bp):
TAAAAATTTTAAAAAAATTCAA
Found at i:44887135 original size:25 final size:27
Alignment explanation
Indices: 44887098--44887148 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
44887088 TTTAATTTCT
44887098 AAAATTTTAAAAAAATTTATG-TTTTG
1 AAAATTTTAAAAAAATTTATGATTTTG
* *
44887124 AAAA-TTTCAAAATATTTATGATTTT
1 AAAATTTTAAAAAAATTTATGATTTT
44887149 TTAATTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (27 bp):
AAAATTTTAAAAAAATTTATGATTTTG
Found at i:44891126 original size:6 final size:6
Alignment explanation
Indices: 44891115--44891145 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
44891105 CTCATTCAGG
44891115 TACAAA TACAAA TACAAA TACAAA TACAAA T
1 TACAAA TACAAA TACAAA TACAAA TACAAA T
44891146 CATTGTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.65, C:0.16, G:0.00, T:0.19
Consensus pattern (6 bp):
TACAAA
Found at i:44893310 original size:12 final size:12
Alignment explanation
Indices: 44893295--44893319 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44893285 TGGGCGTCAC
44893295 GTTGGGCTTGAG
1 GTTGGGCTTGAG
44893307 GTTGGGCTTGAG
1 GTTGGGCTTGAG
44893319 G
1 G
44893320 GAGTGAAGGG
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:0.08, C:0.08, G:0.52, T:0.32
Consensus pattern (12 bp):
GTTGGGCTTGAG
Found at i:44894473 original size:170 final size:170
Alignment explanation
Indices: 44894182--44894532 Score: 533
Period size: 170 Copynumber: 2.1 Consensus size: 170
44894172 AAGAGAGTAA
*
44894182 CAGTGGCTGAAAATTTTGAACTTTTGCATGTTCCCAAAACTGAAACAATTGCTAAGATTCTTCTT
1 CAGTGGCTGAAAAATTTGAACTTTTGCATGTTCCCAAAACTGAAACAATTGCTAAGATTCTTCTT
** * * * * *
44894247 CTTCTACTGTTTAGCCCAATTAGAGTTCTTAAATTGGGGCCGTTTACACTATGGGATGACATGTC
66 CTTCTACTGTCCAGCCCAACTAGAGTTCTTAAATTAGGGCCGTTTAAACCATGGGATGACAGGTC
* **
44894312 AGCTTTCCGTTATGGACATAAAGAAAAATGGTGAAAAGTT
131 AACTTTCCGTTACAGACATAAAGAAAAATGGTGAAAAGTT
*
44894352 TAGTGGCTGAAAAATTTGAACTTTTGCATGTTCCCAAAACTGAAACAATTG-TAAGGATTCTTCT
1 CAGTGGCTGAAAAATTTGAACTTTTGCATGTTCCCAAAACTGAAACAATTGCTAA-GATTCTTCT
* *
44894416 TCTTTTACTGTCCAGCCCAACTAGGGTTCTTAAATTAGGGCCGTTTAAACCATGGGATGACAGGT
65 TCTTCTACTGTCCAGCCCAACTAGAGTTCTTAAATTAGGGCCGTTTAAACCATGGGATGACAGGT
* *
44894481 CAACTTTCCGTTACAGACGTAACGAAAAATGGTGAAAAGTT
130 CAACTTTCCGTTACAGACATAAAGAAAAATGGTGAAAAGTT
*
44894522 CAATGGCTGAA
1 CAGTGGCTGAA
44894533 TTGTAACTTT
Statistics
Matches: 162, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
169 3 0.02
170 159 0.98
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (170 bp):
CAGTGGCTGAAAAATTTGAACTTTTGCATGTTCCCAAAACTGAAACAATTGCTAAGATTCTTCTT
CTTCTACTGTCCAGCCCAACTAGAGTTCTTAAATTAGGGCCGTTTAAACCATGGGATGACAGGTC
AACTTTCCGTTACAGACATAAAGAAAAATGGTGAAAAGTT
Found at i:44900038 original size:14 final size:15
Alignment explanation
Indices: 44900016--44900092 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
44900006 CAATCAAACA
44900016 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
44900030 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
44900045 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
44900065 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
44900079 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
44900093 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:44900057 original size:20 final size:20
Alignment explanation
Indices: 44900032--44900071 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
44900022 AATATTTTCC
*
44900032 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
44900052 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
44900072 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:44900077 original size:34 final size:35
Alignment explanation
Indices: 44900020--44900086 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
44900010 CAAACACCAG
*
44900020 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
44900055 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
44900087 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:44900364 original size:36 final size:36
Alignment explanation
Indices: 44900317--44900393 Score: 154
Period size: 36 Copynumber: 2.1 Consensus size: 36
44900307 AGTTCGAGTC
44900317 TTATCATGTGTGATTATTATGTATAAATCTTTAATT
1 TTATCATGTGTGATTATTATGTATAAATCTTTAATT
44900353 TTATCATGTGTGATTATTATGTATAAATCTTTAATT
1 TTATCATGTGTGATTATTATGTATAAATCTTTAATT
44900389 TTATC
1 TTATC
44900394 GTCAGTAGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.30, C:0.06, G:0.10, T:0.53
Consensus pattern (36 bp):
TTATCATGTGTGATTATTATGTATAAATCTTTAATT
Found at i:44900406 original size:36 final size:36
Alignment explanation
Indices: 44900317--44900407 Score: 121
Period size: 36 Copynumber: 2.5 Consensus size: 36
44900307 AGTTCGAGTC
**
44900317 TTATCATGTGTGATTATTATGTATAAATCTTTAATT
1 TTATCATCAGTGATTATTATGTATAAATCTTTAATT
**
44900353 TTATCATGTGTGATTATTATGTATAAATCTTTAATT
1 TTATCATCAGTGATTATTATGTATAAATCTTTAATT
*
44900389 TTATCGTCAGT-AGTTATTA
1 TTATCATCAGTGA-TTATTA
44900408 CGTGAGAGTT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
35 1 0.02
36 50 0.98
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.52
Consensus pattern (36 bp):
TTATCATCAGTGATTATTATGTATAAATCTTTAATT
Found at i:44906098 original size:23 final size:23
Alignment explanation
Indices: 44906072--44906120 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
44906062 TATTGTTATT
*
44906072 ATTGCTATTATATTAT-AAATTAA
1 ATTGATATTATATTATGAAA-TAA
44906095 ATTGATATTATATTATGAAATAA
1 ATTGATATTATATTATGAAATAA
44906118 ATT
1 ATT
44906121 AAGAAATGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (23 bp):
ATTGATATTATATTATGAAATAA
Found at i:44906362 original size:20 final size:20
Alignment explanation
Indices: 44906333--44906370 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
44906323 GTACATTTGC
* *
44906333 AATATTTATATTTGTTATTA
1 AATATATATATTTATTATTA
44906353 AATATATATATTTATTAT
1 AATATATATATTTATTAT
44906371 AATAATTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
AATATATATATTTATTATTA
Found at i:44906607 original size:16 final size:16
Alignment explanation
Indices: 44906586--44906617 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
44906576 CAAAAAAAGA
44906586 AATAGAAACGAAACAG
1 AATAGAAACGAAACAG
44906602 AATAGAAACGAAACAG
1 AATAGAAACGAAACAG
44906618 GGAGAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.12, G:0.19, T:0.06
Consensus pattern (16 bp):
AATAGAAACGAAACAG
Found at i:44907536 original size:41 final size:37
Alignment explanation
Indices: 44907485--44907585 Score: 112
Period size: 41 Copynumber: 2.6 Consensus size: 37
44907475 ACTTCGACAT
*
44907485 TAAGTTGATGAGACACTAGGTGTCACTATTTTACTTCGGA
1 TAAGTTGATGAGACACTGGGTGTCAC---TTTACTTCGGA
* * * *
44907525 TAGATTTGATGAGATACTGGGTATCACTTTACTTCGGT
1 TA-AGTTGATGAGACACTGGGTGTCACTTTACTTCGGA
*
44907563 TAAGTCGATGAGACACTGGGTGT
1 TAAGTTGATGAGACACTGGGTGT
44907586 TAGCTTTGCT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
37 17 0.33
38 12 0.24
40 2 0.04
41 20 0.39
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.35
Consensus pattern (37 bp):
TAAGTTGATGAGACACTGGGTGTCACTTTACTTCGGA
Found at i:44911655 original size:24 final size:24
Alignment explanation
Indices: 44911627--44911680 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
44911617 TATCTCATGA
44911627 ACATTTAGTTCATGCTTTCTATTC
1 ACATTTAGTTCATGCTTTCTATTC
44911651 ACATTTAGTTCATGCTTTCTATTC
1 ACATTTAGTTCATGCTTTCTATTC
44911675 ACATTT
1 ACATTT
44911681 TCATATTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.22, C:0.20, G:0.07, T:0.50
Consensus pattern (24 bp):
ACATTTAGTTCATGCTTTCTATTC
Found at i:44911712 original size:19 final size:20
Alignment explanation
Indices: 44911670--44911712 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
44911660 TCATGCTTTC
*
44911670 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
44911690 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
44911708 TATTC
1 TATTC
44911713 CACAATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:44912112 original size:18 final size:17
Alignment explanation
Indices: 44912066--44912119 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 17
44912056 TTTCCAATTC
44912066 TCAATTCAAATTCACTT
1 TCAATTCAAATTCACTT
* *
44912083 TCATTTCAAAATTTACTT
1 TCAATTC-AAATTCACTT
44912101 TCAATATCAAATTCACTT
1 TCAAT-TCAAATTCACTT
44912119 T
1 T
44912120 TTCATTCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 6 0.19
18 23 0.74
19 2 0.06
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.44
Consensus pattern (17 bp):
TCAATTCAAATTCACTT
Found at i:44912128 original size:18 final size:17
Alignment explanation
Indices: 44912069--44912134 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 17
44912059 CCAATTCTCA
44912069 ATTC-AAATTCACTTTC
1 ATTCAAAATTCACTTTC
*
44912085 ATTTCAAAATTTACTTTC
1 A-TTCAAAATTCACTTTC
44912103 AATATC-AAATTCACTTTTTC
1 -AT-TCAAAATTCAC--TTTC
44912123 ATTCAAAATTCA
1 ATTCAAAATTCA
44912135 ATTCAATACT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
16 1 0.02
17 3 0.07
18 21 0.51
19 12 0.29
20 4 0.10
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTCAAAATTCACTTTC
Found at i:44912140 original size:36 final size:36
Alignment explanation
Indices: 44912066--44912142 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
44912056 TTTCCAATTC
* *
44912066 TCAAT-TCAAATTCACTTTCATTTCAAAATTTACTT
1 TCAATATCAAATTCACTTTCATTTCAAAATTCACAT
44912101 TCAATATCAAATTCACTTTTTCA-TTCAAAATTCA-AT
1 TCAATATCAAATTCAC--TTTCATTTCAAAATTCACAT
44912137 TCAATA
1 TCAATA
44912143 CTAACACATT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
35 5 0.14
36 17 0.46
37 10 0.27
38 5 0.14
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.43
Consensus pattern (36 bp):
TCAATATCAAATTCACTTTCATTTCAAAATTCACAT
Found at i:44912846 original size:12 final size:12
Alignment explanation
Indices: 44912829--44912880 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
44912819 GCCCTTTTTC
44912829 TTTTCTTTCTTT
1 TTTTCTTTCTTT
* *
44912841 TTTTCTCTGTTT
1 TTTTCTTTCTTT
*
44912853 CTTTCTATTTCTTT
1 -TTT-TCTTTCTTT
*
44912867 TTTTGTTTCTTT
1 TTTTCTTTCTTT
44912879 TT
1 TT
44912881 ATGCTTTCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 20 0.62
13 6 0.19
14 6 0.19
ACGTcount: A:0.02, C:0.15, G:0.04, T:0.79
Consensus pattern (12 bp):
TTTTCTTTCTTT
Found at i:44913237 original size:33 final size:32
Alignment explanation
Indices: 44913188--44913259 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 32
44913178 TATTTATCAT
*
44913188 ATAAAA-ATCTTTTACTAATTA-ATAATAAATA
1 ATAAAATATCTTTTACTAACTATAT-ATAAATA
44913219 ATAAAATATCTTTTTACTAACTATATATAAATA
1 ATAAAATATC-TTTTACTAACTATATATAAATA
44913252 ATACAAAT
1 ATA-AAAT
44913260 GTACTCATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
31 6 0.17
32 3 0.08
33 21 0.58
34 6 0.17
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (32 bp):
ATAAAATATCTTTTACTAACTATATATAAATA
Found at i:44913344 original size:23 final size:23
Alignment explanation
Indices: 44913318--44913366 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 23
44913308 GCCTTTTCTT
44913318 AATTT-ATTTCATAATATAATAAC
1 AATTTAATTT-ATAATATAATAAC
44913341 AATTTAATTTATAATATAATAAC
1 AATTTAATTTATAATATAATAAC
44913364 AAT
1 AAT
44913367 AATAACAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTTAATTTATAATATAATAAC
Found at i:44913370 original size:9 final size:9
Alignment explanation
Indices: 44913356--44913380 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
44913346 AATTTATAAT
44913356 ATAATAACA
1 ATAATAACA
44913365 ATAATAACA
1 ATAATAACA
44913374 ATAATAA
1 ATAATAA
44913381 TATATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:44913377 original size:23 final size:23
Alignment explanation
Indices: 44913328--44913379 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
44913318 AATTTATTTC
* **
44913328 ATAATATAATAACAATTTAATTT
1 ATAATATAATAACAATATAATCA
44913351 ATAATATAATAACAATAATAA-CA
1 ATAATATAATAACAAT-ATAATCA
44913374 ATAATA
1 ATAATA
44913380 ATATATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (23 bp):
ATAATATAATAACAATATAATCA
Found at i:44920778 original size:21 final size:21
Alignment explanation
Indices: 44920753--44920795 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
44920743 TTGAGAAGTA
44920753 AAGAGTTTGATATTATCACCT
1 AAGAGTTTGATATTATCACCT
44920774 AAGAGTTTGATATTATCACCT
1 AAGAGTTTGATATTATCACCT
44920795 A
1 A
44920796 TCTTACTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (21 bp):
AAGAGTTTGATATTATCACCT
Found at i:44923369 original size:22 final size:23
Alignment explanation
Indices: 44923316--44923371 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
44923306 CCCGTTTTTA
* * *
44923316 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
44923339 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
44923361 ATTAAAATTAA
1 ATTAAAATTAA
44923372 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:44923384 original size:16 final size:16
Alignment explanation
Indices: 44923347--44923386 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
44923337 TTAATAAAAT
* *
44923347 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
44923363 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
44923379 TAAAATTA
1 TAAAATTA
44923387 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:44923492 original size:9 final size:9
Alignment explanation
Indices: 44923459--44923486 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
44923449 TTTATCAAAT
44923459 TATTAATTG
1 TATTAATTG
44923468 TATTAATTG
1 TATTAATTG
44923477 TATTAATTG
1 TATTAATTG
44923486 T
1 T
44923487 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Done.