Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 101 of 167
Found at i:33398956 original size:14 final size:14
Alignment explanation
Indices: 33398937--33398965 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
33398927 ATAATTTGAG
33398937 TTTAATATAAATTT
1 TTTAATATAAATTT
33398951 TTTAATATAAATTT
1 TTTAATATAAATTT
33398965 T
1 T
33398966 CTCAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTAATATAAATTT
Found at i:33399363 original size:1 final size:1
Alignment explanation
Indices: 33399310--33399343 Score: 68
Period size: 1 Copynumber: 34.0 Consensus size: 1
33399300 CCCCCCCCCC
33399310 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
33399344 CCATTTTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:33402416 original size:47 final size:47
Alignment explanation
Indices: 33402345--33402605 Score: 222
Period size: 46 Copynumber: 5.6 Consensus size: 47
33402335 GGGTGTAATA
* *
33402345 CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCATCCATCAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATCAAG
** * *
33402392 TTGATGCCATGTCCTAGACATGGTCTTACACTGACT-ATCGAAATCGAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATC--CATC-AAG
*
33402441 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACAT-C-TCATAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATCA-AG
** *
33402487 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGTTTACAT-C-TCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-GACT-CATCCATC-AAG
* *
33402533 CCGATG-CATATCCCAGACAT-ATCTTACACT-AGCTC-TCTTC-TCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCATC--CATCAA-G
*
33402579 CCGTTGCCATGTCCCAGACATGGTCTT
1 CCGATGCCATGTCCCAGACATGGTCTT
33402606 GTACTGGCTC
Statistics
Matches: 176, Mismatches: 23, Indels: 29
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 11 0.06
45 18 0.10
46 57 0.32
47 45 0.26
48 7 0.04
49 35 0.20
50 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATCAAG
Found at i:33402461 original size:49 final size:47
Alignment explanation
Indices: 33402345--33402656 Score: 214
Period size: 46 Copynumber: 6.7 Consensus size: 47
33402335 GGGTGTAATA
* * *
33402345 CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCATC-CATCAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAATCAAG
** *
33402392 TTGATGCCATGTCCTAGACATGGTCTTACACTGACTATCGAAATCGAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTATC-AAATC-AAG
**
33402441 CCGATGCCATGTCCCAGACATGGTCTTACACTGAC-A-CATCTCATAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAATCA-AG
* * ** *
33402487 CCGATG-CATGTCCCAGACAT-GTCTTACACT-AGTTTACATCTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTAT-CAAATC-AAG
* * * ***
33402533 CCGATG-CATATCCCAGACAT-ATCTTACACT-AGCTCTCTTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCAAATCAA-G
* ** * * ***
33402579 CCGTTGCCATGTCCCAGACATGGTCTTGTACTGGCTCTCATAATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCA-AATCAAG
*
33402627 CCAATG-CATGTCCCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
33402657 AGCGCACAAA
Statistics
Matches: 215, Mismatches: 36, Indels: 29
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.00
44 10 0.05
45 16 0.07
46 69 0.32
47 62 0.29
48 21 0.10
49 36 0.17
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAATCAAG
Found at i:33409960 original size:30 final size:30
Alignment explanation
Indices: 33409924--33409983 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
33409914 ACAAAAGAAA
33409924 GAAGATGACAGTCTTTTGTTATTTGTTATT
1 GAAGATGACAGTCTTTTGTTATTTGTTATT
*
33409954 GAAGATGATAGTCTTTTGTTATTTGTTATT
1 GAAGATGACAGTCTTTTGTTATTTGTTATT
33409984 TATTTATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.23, C:0.05, G:0.20, T:0.52
Consensus pattern (30 bp):
GAAGATGACAGTCTTTTGTTATTTGTTATT
Found at i:33410413 original size:41 final size:41
Alignment explanation
Indices: 33410341--33410418 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
33410331 ATCTATTACA
*
33410341 TTGTGCCTAGCAAGCTTCGTACCGGTGTATTATATCATGCT
1 TTGTGCCTAGCAAGCTTCGTACCGGTATATTATATCATGCT
* * ***
33410382 TTGTTCCTAGCAAGCTTCTTGTTGGTATATTATATCA
1 TTGTGCCTAGCAAGCTTCGTACCGGTATATTATATCA
33410419 AGTAAGTTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (41 bp):
TTGTGCCTAGCAAGCTTCGTACCGGTATATTATATCATGCT
Found at i:33412425 original size:47 final size:47
Alignment explanation
Indices: 33412316--33412418 Score: 127
Period size: 47 Copynumber: 2.2 Consensus size: 47
33412306 CTGGGATAAG
* * * *
33412316 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCAGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
33412363 CACAAAGTACTTCATCAGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCAGAACAAATCCGAAACTTTAACAGTA-TAGTA
33412410 CACATAGTG
1 CACATAGTG
33412419 TCTCATCGAC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
47 44 0.96
48 2 0.04
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCAGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:33416352 original size:36 final size:35
Alignment explanation
Indices: 33416312--33416383 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 35
33416302 AAAATATTTA
33416312 AAAAATAAAAAGTAGAAGAGAAGACAAAAACAACAC
1 AAAAATAAAAAGTAGAAGAGAAGAC-AAAACAACAC
33416348 AAAAATAAAAAGTAGAAGAGAAGACAAAACAACAC
1 AAAAATAAAAAGTAGAAGAGAAGACAAAACAACAC
33416383 A
1 A
33416384 TAATTATCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 11 0.31
36 25 0.69
ACGTcount: A:0.69, C:0.11, G:0.14, T:0.06
Consensus pattern (35 bp):
AAAAATAAAAAGTAGAAGAGAAGACAAAACAACAC
Found at i:33417970 original size:21 final size:21
Alignment explanation
Indices: 33417908--33417978 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
33417898 AACATTACAT
*
33417908 AAACATATACCT-ATATGTATTA
1 AAACATATA-CTAATAT-TAATA
*
33417930 AAGATATATACATAA-A-TAATA
1 AA-ACATATAC-TAATATTAATA
33417951 AAACATATACTAATATTAATA
1 AAACATATACTAATATTAATA
33417972 ATAACAT
1 A-AACAT
33417979 GGATAATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
19 3 0.08
20 8 0.20
21 12 0.30
22 8 0.20
23 8 0.20
24 1 0.03
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.32
Consensus pattern (21 bp):
AAACATATACTAATATTAATA
Found at i:33419322 original size:10 final size:10
Alignment explanation
Indices: 33419289--33419329 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
33419279 AAATTTCCCC
33419289 TTTTT-TATA
1 TTTTTATATA
33419298 TTTTTATTATA
1 TTTTTA-TATA
*
33419309 TTTTTATATG
1 TTTTTATATA
33419319 TTTTTATATA
1 TTTTTATATA
33419329 T
1 T
33419330 ATATAGGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 5 0.18
10 13 0.46
11 10 0.36
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (10 bp):
TTTTTATATA
Found at i:33419769 original size:18 final size:18
Alignment explanation
Indices: 33419746--33419789 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
33419736 TTTGGGTAGC
33419746 TTGGGTTGTTGGGTTAAA
1 TTGGGTTGTTGGGTTAAA
* *
33419764 TTGGGTTATTGGGTTTAA
1 TTGGGTTGTTGGGTTAAA
33419782 TT-GGTTGT
1 TTGGGTTGT
33419790 ATTGGATGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (18 bp):
TTGGGTTGTTGGGTTAAA
Found at i:33423386 original size:62 final size:62
Alignment explanation
Indices: 33423262--33423386 Score: 135
Period size: 62 Copynumber: 2.0 Consensus size: 62
33423252 TCTTAAATAT
* * * * * * *
33423262 AAAAAATTCAACATATTTAGCCCTCAATGTTTACAAAATTTTTAATTTTAATTATAATTCTA
1 AAAAAATTCAACAAATTTAGCCCTCAATATTTACAAAACTATCAATTTTAATCATAACTCTA
* * * *
33423324 AAAAAATTCAATAAATTTGGCCCTCAATATTTACAAAACCTATCAA-TTTAGTCCTAACTCTA
1 AAAAAATTCAACAAATTTAGCCCTCAATATTTACAAAA-CTATCAATTTTAATCATAACTCTA
33423386 A
1 A
33423387 CAATTAATAA
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
62 47 0.92
63 4 0.08
ACGTcount: A:0.42, C:0.17, G:0.04, T:0.37
Consensus pattern (62 bp):
AAAAAATTCAACAAATTTAGCCCTCAATATTTACAAAACTATCAATTTTAATCATAACTCTA
Found at i:33424842 original size:27 final size:28
Alignment explanation
Indices: 33424790--33424851 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
33424780 GTATATAATA
*
33424790 AAAATATAAAAAATTTATAA-TGTTTTGT
1 AAAA-ATAAAAAATTCATAATTGTTTTGT
* *
33424818 AAAAATAAAAAATTCATAGTTTTTTTGT
1 AAAAATAAAAAATTCATAATTGTTTTGT
33424846 ATAAAA
1 A-AAAA
33424852 AATTACAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 13 0.45
28 12 0.41
29 4 0.14
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (28 bp):
AAAAATAAAAAATTCATAATTGTTTTGT
Found at i:33440876 original size:40 final size:40
Alignment explanation
Indices: 33440778--33440995 Score: 275
Period size: 40 Copynumber: 5.5 Consensus size: 40
33440768 TGGATGATAA
*
33440778 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* * *
33440819 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
33440859 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
33440899 CCGGGCTAAGTCCCGAAGGCAATGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
33440939 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
33440978 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
33440996 TACTTGGCTT
Statistics
Matches: 159, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 15 0.09
39 15 0.09
40 102 0.64
41 23 0.14
42 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:33442577 original size:17 final size:17
Alignment explanation
Indices: 33442555--33442596 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
33442545 CACCTGTGTG
33442555 GGCCCACATGCCCATGT
1 GGCCCACATGCCCATGT
*
33442572 GGCCCACATGCCCGTGT
1 GGCCCACATGCCCATGT
33442589 GGCCCACA
1 GGCCCACA
33442597 CGGCTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.17, C:0.43, G:0.26, T:0.14
Consensus pattern (17 bp):
GGCCCACATGCCCATGT
Found at i:33444897 original size:28 final size:28
Alignment explanation
Indices: 33444865--33444956 Score: 87
Period size: 28 Copynumber: 3.2 Consensus size: 28
33444855 TTTTATTTAG
33444865 TTAATTTTGCAATATTCCAATTTTACCC
1 TTAATTTTGCAATATTCCAATTTTACCC
* * ** ****
33444893 TTAATTTAT-CAATTTTTCTGTTTATTTAG
1 TTAATTT-TGCAATATTCCAATTT-TACCC
33444922 TTAATTTTGCAATATTCCAATTTTACCC
1 TTAATTTTGCAATATTCCAATTTTACCC
33444950 TTAATTT
1 TTAATTT
33444957 ATTAATTTTT
Statistics
Matches: 45, Mismatches: 16, Indels: 6
0.67 0.24 0.09
Matches are distributed among these distances:
28 26 0.58
29 19 0.42
ACGTcount: A:0.27, C:0.15, G:0.04, T:0.53
Consensus pattern (28 bp):
TTAATTTTGCAATATTCCAATTTTACCC
Found at i:33444927 original size:57 final size:57
Alignment explanation
Indices: 33444856--33444968 Score: 217
Period size: 57 Copynumber: 2.0 Consensus size: 57
33444846 TAGTCCTAGT
33444856 TTTATTTAGTTAATTTTGCAATATTCCAATTTTACCCTTAATTTATCAATTTTTCTG
1 TTTATTTAGTTAATTTTGCAATATTCCAATTTTACCCTTAATTTATCAATTTTTCTG
*
33444913 TTTATTTAGTTAATTTTGCAATATTCCAATTTTACCCTTAATTTATTAATTTTTCT
1 TTTATTTAGTTAATTTTGCAATATTCCAATTTTACCCTTAATTTATCAATTTTTCT
33444969 ACTGATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.27, C:0.13, G:0.04, T:0.56
Consensus pattern (57 bp):
TTTATTTAGTTAATTTTGCAATATTCCAATTTTACCCTTAATTTATCAATTTTTCTG
Found at i:33450046 original size:46 final size:46
Alignment explanation
Indices: 33449979--33450071 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
33449969 ATTTGAAAGA
33449979 AGGCTGTTTTTGCCTCCTCCCCTCGACCCTCTGTCTCGAGCCGTTT
1 AGGCTGTTTTTGCCTCCTCCCCTCGACCCTCTGTCTCGAGCCGTTT
*
33450025 AGGCTGTTTTTGCCTCCTCCCCTCGACCCTCTGTCTCGAGCCTTTT
1 AGGCTGTTTTTGCCTCCTCCCCTCGACCCTCTGTCTCGAGCCGTTT
33450071 A
1 A
33450072 CTGCTAGTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.08, C:0.39, G:0.18, T:0.35
Consensus pattern (46 bp):
AGGCTGTTTTTGCCTCCTCCCCTCGACCCTCTGTCTCGAGCCGTTT
Found at i:33453713 original size:15 final size:15
Alignment explanation
Indices: 33453693--33453724 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33453683 TCGGACTTAC
33453693 TTTAGACTCAAATTT
1 TTTAGACTCAAATTT
*
33453708 TTTAGACTCATATTT
1 TTTAGACTCAAATTT
33453723 TT
1 TT
33453725 CGAGCTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.12, G:0.06, T:0.53
Consensus pattern (15 bp):
TTTAGACTCAAATTT
Found at i:33454675 original size:24 final size:26
Alignment explanation
Indices: 33454636--33454704 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
33454626 TAATGGATTC
* *
33454636 AAATGATTTTGAATTTTATAA-GTTAT
1 AAATCATTTT-AATTTTATAATGTAAT
33454662 AAAT-ATTTTAATTTTA-AATGTAAT
1 AAATCATTTTAATTTTATAATGTAAT
* *
33454686 AATTCATTTTACTTTTATA
1 AAATCATTTTAATTTTATA
33454705 CGATAACAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
23 2 0.05
24 14 0.38
25 16 0.43
26 5 0.14
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (26 bp):
AAATCATTTTAATTTTATAATGTAAT
Found at i:33455105 original size:40 final size:41
Alignment explanation
Indices: 33455049--33455176 Score: 197
Period size: 41 Copynumber: 3.2 Consensus size: 41
33455039 AAAAAATGCT
*
33455049 GCTAAAAA-CAGAGCATTAGCGGCGCTTTTGGTAAAAC-CA
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCC
* *
33455088 GCTAAAAACCAGAGCATTAGCGGCACTTTTGGAAAAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCC
* *
33455129 GCTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCC
33455170 GCTAAAA
1 GCTAAAA
33455177 GTCATATAAT
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 8 0.10
40 27 0.34
41 45 0.56
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (41 bp):
GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCC
Found at i:33455247 original size:54 final size:55
Alignment explanation
Indices: 33455189--33455301 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 55
33455179 CATATAATCC
* *
33455189 CTAAAACC-CTAAACCCAAAAAAATAATAAACACTAATCTATAACCCCTAAAACA
1 CTAAAACCTCTAAACCCAAAAAAACAATAAACACTAAACTATAACCCCTAAAACA
** * * ** *
33455243 CT-AAACCTCTAAAGTCTAAAAACCCCTAAACACTAAACTATAACCCCTAAAACC
1 CTAAAACCTCTAAACCCAAAAAAACAATAAACACTAAACTATAACCCCTAAAACA
33455297 CTAAA
1 CTAAA
33455302 CTCCAAAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
53 5 0.10
54 41 0.85
55 2 0.04
ACGTcount: A:0.51, C:0.30, G:0.01, T:0.18
Consensus pattern (55 bp):
CTAAAACCTCTAAACCCAAAAAAACAATAAACACTAAACTATAACCCCTAAAACA
Found at i:33455248 original size:46 final size:46
Alignment explanation
Indices: 33455181--33455311 Score: 129
Period size: 54 Copynumber: 2.7 Consensus size: 46
33455171 CTAAAAGTCA
* *
33455181 TATAATCCCTAAAACCCTAAACCCAAAAAAATA-ATAAACACTAATC
1 TATAACCCCTAAAACCCTAAACCCAAAAAAA-ACATAAACACTAAAC
* *
33455227 TATAACCCCTAAAACACTAAACCTCTAAAGTCTAAAAACCCCTAAACACTAAAC
1 TATAACCCCTAAAACCCTAAACC-C-AAA----AAAAA--CATAAACACTAAAC
33455281 TATAACCCCTAAAACCCTAAACTCCAAAAAA
1 TATAACCCCTAAAACCCTAAAC-CCAAAAAA
33455312 CATCATATGG
Statistics
Matches: 70, Mismatches: 5, Indels: 17
0.76 0.05 0.18
Matches are distributed among these distances:
46 21 0.30
47 1 0.01
48 3 0.04
49 3 0.04
51 1 0.01
52 4 0.06
53 3 0.04
54 33 0.47
55 1 0.01
ACGTcount: A:0.51, C:0.30, G:0.01, T:0.18
Consensus pattern (46 bp):
TATAACCCCTAAAACCCTAAACCCAAAAAAAACATAAACACTAAAC
Found at i:33455289 original size:21 final size:22
Alignment explanation
Indices: 33455263--33455303 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
33455253 AAAGTCTAAA
33455263 AACCCCT-AAACACTAAACTAT
1 AACCCCTAAAACACTAAACTAT
*
33455284 AACCCCTAAAACCCTAAACT
1 AACCCCTAAAACACTAAACT
33455304 CCAAAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (22 bp):
AACCCCTAAAACACTAAACTAT
Found at i:33456711 original size:14 final size:13
Alignment explanation
Indices: 33456685--33456718 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
33456675 ATTGGAACGT
33456685 CTAAAAT-TTCCCC
1 CTAAAATCTT-CCC
33456698 CTAAAATCTTCCC
1 CTAAAATCTTCCC
33456711 CTAAAATC
1 CTAAAATC
33456719 GGTATCCCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 18 0.90
14 2 0.10
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (13 bp):
CTAAAATCTTCCC
Found at i:33456863 original size:14 final size:14
Alignment explanation
Indices: 33456844--33456873 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
33456834 ATTTCTTGCT
33456844 TCTCTAAATCTCCA
1 TCTCTAAATCTCCA
33456858 TCTCTAAATCTCCA
1 TCTCTAAATCTCCA
33456872 TC
1 TC
33456874 CCTTTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.37, G:0.00, T:0.37
Consensus pattern (14 bp):
TCTCTAAATCTCCA
Found at i:33461025 original size:6 final size:6
Alignment explanation
Indices: 33460985--33461038 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
33460975 ATTTAATCTA
* *
33460985 ATTTTT ATTATTT A-TTTT AGTTTTG ATTCTAT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATT-TTT ATTTTT A-TTTTT ATT-TTT ATTTTT ATTTTT ATTTTT
33461035 ATTT
1 ATTT
33461039 GATAATGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 4 0.10
6 24 0.60
7 12 0.30
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (6 bp):
ATTTTT
Found at i:33461891 original size:21 final size:21
Alignment explanation
Indices: 33461848--33461905 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
33461838 CAAATCTTTA
* * *
33461848 AACCCTGAACACTAAA-CTAT
1 AACCATGAACCCTAAACCCAT
*
33461868 AA-CATGTAACCTTAAACCCAT
1 AACCATG-AACCCTAAACCCAT
33461889 AACCATGAACCCTAAAC
1 AACCATGAACCCTAAAC
33461906 ATTAAATCCT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
19 3 0.10
20 9 0.30
21 14 0.47
22 4 0.13
ACGTcount: A:0.45, C:0.31, G:0.05, T:0.19
Consensus pattern (21 bp):
AACCATGAACCCTAAACCCAT
Found at i:33461940 original size:28 final size:27
Alignment explanation
Indices: 33461889--33461947 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
33461879 TTAAACCCAT
*
33461889 AACCATGAACCCTAAACATTAAATCCTA
1 AACCATGAACCCTAAACATCAAAT-CTA
*
33461917 AACCATGAACCTTAAATC-TCAAATCTA
1 AACCATGAACCCTAAA-CATCAAATCTA
33461944 AACC
1 AACC
33461948 TTAAACCTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 7 0.25
28 20 0.71
29 1 0.04
ACGTcount: A:0.46, C:0.29, G:0.03, T:0.22
Consensus pattern (27 bp):
AACCATGAACCCTAAACATCAAATCTA
Found at i:33462193 original size:17 final size:18
Alignment explanation
Indices: 33462171--33462204 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33462161 TTGTTTATAA
33462171 TTTAAA-AAATTAATTAT
1 TTTAAATAAATTAATTAT
*
33462188 TTTAAATAATTTAATTA
1 TTTAAATAAATTAATTA
33462205 AAGTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAAATAAATTAATTAT
Found at i:33462481 original size:7 final size:7
Alignment explanation
Indices: 33462469--33462501 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
33462459 ATAGTAGTAC
33462469 ATTATAT
1 ATTATAT
33462476 ATTATAT
1 ATTATAT
*
33462483 ATTAAAT
1 ATTATAT
33462490 ATTAT-T
1 ATTATAT
33462496 ATTATA
1 ATTATA
33462502 CTAATAGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATTATAT
Found at i:33478245 original size:40 final size:40
Alignment explanation
Indices: 33478190--33478414 Score: 263
Period size: 40 Copynumber: 5.6 Consensus size: 40
33478180 TATTCGGATG
33478190 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
33478230 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
33478273 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * * **
33478313 ATTTCCAGGCTAAGACCCGAAGGCATGTGTGTGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * * *
33478353 ATATCCGGGTTAAGTACCGAAGGCATTTGTGCGAGTTGCG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
33478393 ATATCC-GTCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
33478415 TACTTGGTTT
Statistics
Matches: 156, Mismatches: 26, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
39 12 0.08
40 106 0.68
41 1 0.01
43 37 0.24
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:33478333 original size:83 final size:80
Alignment explanation
Indices: 33478194--33478384 Score: 256
Period size: 83 Copynumber: 2.4 Consensus size: 80
33478184 CGGATGATAT
* * *
33478194 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCAGGCTAAGACCCGAAGGCA--TG
*
33478259 TGCGAGTAGTTGCTATAC
64 TGCGAG-AGTTACTATAC
* *
33478277 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATTTCCAGGCTAAGACCCGAAGGCATGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCAGGCTAAGACCCGAAGGCATGTG
* * *
33478342 TGTGAGTTACTATAT
66 CGAGAGTTACTATAC
* *
33478357 CCGGGTTAAGTACCGAAGGCATTTGTGC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC
33478385 GAGTTGCGAT
Statistics
Matches: 97, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
80 35 0.36
81 6 0.06
83 56 0.58
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCAGGCTAAGACCCGAAGGCATGTG
CGAGAGTTACTATAC
Found at i:33489498 original size:39 final size:39
Alignment explanation
Indices: 33489419--33489645 Score: 327
Period size: 39 Copynumber: 5.8 Consensus size: 39
33489409 NNNNNNNNNN
* *
33489419 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTATC
1 TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATC
33489459 TCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATC
1 TCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATC
33489498 TCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATC
1 TCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATC
33489537 TCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATC
1 TCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATC
* *
33489576 TCGCACAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-C
1 TCGCACAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC
*
33489616 TTAGCAC-AA-GCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGG-CTTAGCCCGGA
33489646 CATCATTCAA
Statistics
Matches: 175, Mismatches: 7, Indels: 11
0.91 0.04 0.06
Matches are distributed among these distances:
39 132 0.75
40 34 0.19
41 9 0.05
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
TCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATC
Found at i:33490428 original size:154 final size:155
Alignment explanation
Indices: 33490252--33490566 Score: 587
Period size: 158 Copynumber: 2.0 Consensus size: 155
33490242 CATATTATAC
33490252 TCAATACGCATCCATCATTTAATCCATAACCGAAGCACCATCATGTGCAATC-ATATATATATAT
1 TCAATACGCATCCATCATTTAATCCATAACCGAAGCACCATCATGTGCAATCAATATATATATAT
33490316 GTGCAAGAGCCGAATCCCAAATTTTGATTACAACCAAATTTAAACATATATCCAAAACATAAATC
66 GTGCAAGAGCCGAATCCCAAATTTTGATTACAACCAAATTTAAACATATATCCAAAACATAAATC
33490381 TTACCTACCATGCAATAAGCATAAA
131 TTACCTACCATGCAATAAGCATAAA
33490406 TCAATACGCATCCATCATTTAATCCATAACCGAAGCACCATCATGTGCAATCATATATATATATA
1 TCAATACGCATCCATCATTTAATCCATAACCGAAGCACCATCATGTGCAATC--A-ATATATATA
*
33490471 TATGTGCAAGAGCCGAATCCCAAATTTTGATTATAACCAAATTTAAACATATATCCAAAACATAA
63 TATGTGCAAGAGCCGAATCCCAAATTTTGATTACAACCAAATTTAAACATATATCCAAAACATAA
33490536 ATCTTACCTACCATGCAATAAGCATAAA
128 ATCTTACCTACCATGCAATAAGCATAAA
33490564 TCA
1 TCA
33490567 CACTCATGGA
Statistics
Matches: 156, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
154 52 0.33
158 104 0.67
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (155 bp):
TCAATACGCATCCATCATTTAATCCATAACCGAAGCACCATCATGTGCAATCAATATATATATAT
GTGCAAGAGCCGAATCCCAAATTTTGATTACAACCAAATTTAAACATATATCCAAAACATAAATC
TTACCTACCATGCAATAAGCATAAA
Found at i:33491092 original size:156 final size:156
Alignment explanation
Indices: 33490808--33491118 Score: 595
Period size: 156 Copynumber: 2.0 Consensus size: 156
33490798 TATCTCACCG
33490808 ACACAACATCAACACCAAGCAAGAATGATGCATCCATGGCCGAGTGTCATTTCCATCACATAGCA
1 ACACAACATCAACACCAAGCAAGAATGATGCATCCATGGCCGAGTGTCATTTCCATCACATAGCA
**
33490873 AGATTTAGACCATGGGCTAGGTAGAACTTTAGCTAACAACTAAAACATGCATGCATCTCATGGAA
66 AGATTTAGACCATGGGCTAGGTAGAACTCAAGCTAACAACTAAAACATGCATGCATCTCATGGAA
33490938 CATCATCAAACATACCTTAGCCTAGA
131 CATCATCAAACATACCTTAGCCTAGA
*
33490964 ACACAACATCAACACCAAGCAAGAATGATGCATCCATGGCCGAGTGTCATTTCCTTCACATAGCA
1 ACACAACATCAACACCAAGCAAGAATGATGCATCCATGGCCGAGTGTCATTTCCATCACATAGCA
33491029 AGATTTAGACCATGGGCTAGGTAGAACTCAAGCTAACAACTAAAACATGCATGCATCTCATGGAA
66 AGATTTAGACCATGGGCTAGGTAGAACTCAAGCTAACAACTAAAACATGCATGCATCTCATGGAA
33491094 CATCATCAAACATACCTTAGCCTAG
131 CATCATCAAACATACCTTAGCCTAG
33491119 TTACATGCAT
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
156 152 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (156 bp):
ACACAACATCAACACCAAGCAAGAATGATGCATCCATGGCCGAGTGTCATTTCCATCACATAGCA
AGATTTAGACCATGGGCTAGGTAGAACTCAAGCTAACAACTAAAACATGCATGCATCTCATGGAA
CATCATCAAACATACCTTAGCCTAGA
Found at i:33497898 original size:45 final size:45
Alignment explanation
Indices: 33497848--33497977 Score: 158
Period size: 44 Copynumber: 2.9 Consensus size: 45
33497838 CTATAACTTT
* ** * *
33497848 AGGGAGATAGGATTTGTTTA-CTTTCAACCTATTCCACTGCTGACC
1 AGGGAGATAGGATTTCTCAATC-TTCAACCTATTCCACTACTGACA
*
33497893 AGGGAGATAGGA-TTCTCAATCTTCAACCTATTCCACTATTGACA
1 AGGGAGATAGGATTTCTCAATCTTCAACCTATTCCACTACTGACA
* *
33497937 AGGGAGATAGGA-TTCACAATCTTCAATCTATTCCACTACTG
1 AGGGAGATAGGATTTCTCAATCTTCAACCTATTCCACTACTG
33497978 CCCAGTGAAG
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
44 62 0.83
45 13 0.17
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (45 bp):
AGGGAGATAGGATTTCTCAATCTTCAACCTATTCCACTACTGACA
Found at i:33497927 original size:44 final size:44
Alignment explanation
Indices: 33497870--33497982 Score: 172
Period size: 44 Copynumber: 2.6 Consensus size: 44
33497860 TTTGTTTACT
* *
33497870 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCTCAATC
1 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATC
* *
33497914 TTCAACCTATTCCACTATTGACAAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATC
* *
33497958 TTCAATCTATTCCACTACTGCCCAG
1 TTCAACCTATTCCACTACTGACCAG
33497983 TGAAGTAGAA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATC
Found at i:33498264 original size:132 final size:132
Alignment explanation
Indices: 33497937--33498984 Score: 1697
Period size: 132 Copynumber: 7.9 Consensus size: 132
33497927 ACTATTGACA
* * ** *
33497937 AGGGAGATAGGAT-TCACAATCTTCAATCTATTCCACTACTGCCCAGTGAAGTAGAATTACTGGC
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGC
* * * * * *
33498001 TTCTATGTACTCCGCTGTAACCACAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCGCTATTT
65 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCACTACTG
33498066 CTT
130 CTT
*
33498069 -GGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* * * *
33498133 TTAATGTACTCCACTATAACCACAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCGCTACTGC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCACTACTGC
33498198 TT
131 TT
*
33498200 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAAGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* * * *
33498265 TCAATGTACTCCAGTGTAACTACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCGCTACTGC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCACTACTGC
33498330 TT
131 TT
* *
33498332 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCATTGTTGCCTAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* * *
33498397 TCAATGTACTTCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCTACTACTGC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCACTACTGC
33498462 TT
131 TT
*
33498464 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTCTTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* *
33498529 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTAC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCACTACTGC
33498594 TT
131 TT
*
33498596 AGGGAGATAAGATCTGAAATCTTCAATCTATTACACTGTTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* * *
33498661 TTAATGTACTCCACTGTAACCACAGGGAGCTAAAATCCACCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCACTACTGC
33498726 TT
131 TT
*
33498728 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAATAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* * *
33498793 TCAATGTACTCCGCTGTAACCATAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCACTACTGC
33498858 TT
131 TT
*
33498860 AGGGAGATAAGATCTGAAATCTTCAATCTATTCTACTGTTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* *
33498925 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCT-CCATCTTCGATCTACTCCACT
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-CTACCATCTTCGATCTGCTCCACT
33498985 GTCAATGCAG
Statistics
Matches: 859, Mismatches: 54, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
131 116 0.14
132 742 0.86
133 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:33498512 original size:44 final size:44
Alignment explanation
Indices: 33498464--33498644 Score: 104
Period size: 44 Copynumber: 4.1 Consensus size: 44
33498454 ACTACTGCTT
* *
33498464 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTCTTGCCC
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTCTTACCC
* * * *
33498508 AGGGA-AGT-AGAATTACTG---GCTTCAATGTACTCCACTGTAACCAC
1 AGGGAGA-TAAG-A-T-CTGAAATCTTCAATCTACTCCACTCTTACC-C
* * ** * * **
33498552 AGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAC-TACTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACT-CTTACCC
* * * *
33498596 AGGGAGATAAGATCTGAAATCTTCAATCTATTACACTGTTGCCC
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTCTTACCC
33498640 AGGGA
1 AGGGA
33498645 AGTAGAATTA
Statistics
Matches: 97, Mismatches: 28, Indels: 24
0.65 0.19 0.16
Matches are distributed among these distances:
42 3 0.03
43 22 0.23
44 51 0.53
45 18 0.19
46 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (44 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTCTTACCC
Found at i:33500358 original size:6 final size:6
Alignment explanation
Indices: 33500347--33500379 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
33500337 GTCCTCTCCT
33500347 TTTTTC TTTTTC TTTGTT- TTTTTC TTTTTC TTT
1 TTTTTC TTTTTC TTT-TTC TTTTTC TTTTTC TTT
33500380 GCTATTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 2 0.08
6 21 0.84
7 2 0.08
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:33500369 original size:18 final size:18
Alignment explanation
Indices: 33500346--33500380 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
33500336 TGTCCTCTCC
33500346 TTTTTTCTTTTTCTTTGT
1 TTTTTTCTTTTTCTTTGT
33500364 TTTTTTCTTTTTCTTTG
1 TTTTTTCTTTTTCTTTG
33500381 CTATTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (18 bp):
TTTTTTCTTTTTCTTTGT
Found at i:33501368 original size:25 final size:26
Alignment explanation
Indices: 33501317--33501377 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
33501307 AAGAAAATCC
* **
33501317 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
33501343 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
33501368 AAAATGAATG
1 AAAA-GAATG
33501378 CAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:33504463 original size:17 final size:16
Alignment explanation
Indices: 33504426--33504466 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
33504416 AATTCGCATT
*
33504426 CGTATATATTTAAATA
1 CGTATATATGTAAATA
33504442 CGTATATATGTACAATA
1 CGTATATATGTA-AATA
*
33504459 TGTATATA
1 CGTATATA
33504467 AAATAATAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (16 bp):
CGTATATATGTAAATA
Found at i:33504724 original size:23 final size:22
Alignment explanation
Indices: 33504685--33504729 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
33504675 AGCTCAAAAA
*
33504685 AATATATCTATGTTAAAAATATG
1 AATATATCTATATT-AAAATATG
33504708 AATATAT-TATATATAAAATATG
1 AATATATCTATAT-TAAAATATG
33504730 CGTATGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (22 bp):
AATATATCTATATTAAAATATG
Found at i:33504778 original size:13 final size:12
Alignment explanation
Indices: 33504755--33504804 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
33504745 AGAAAGTACA
33504755 ATAGTAATAATG
1 ATAGTAATAATG
33504767 ATAGTAAATAATG
1 ATAGT-AATAATG
* *
33504780 -TAATAATAATA
1 ATAGTAATAATG
*
33504791 ATGGT-ATAATG
1 ATAGTAATAATG
33504802 ATA
1 ATA
33504805 ATATCATAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
11 13 0.43
12 10 0.33
13 7 0.23
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (12 bp):
ATAGTAATAATG
Found at i:33507880 original size:46 final size:45
Alignment explanation
Indices: 33507793--33507888 Score: 115
Period size: 46 Copynumber: 2.1 Consensus size: 45
33507783 AATGGTTTAT
* *
33507793 CCACATATTTTTATTTGGCAGCTTGGATGGAATATAGTGGCTTCA
1 CCACATATTTTTATTTGGCAGCTTGGATGCAATATAATGGCTTCA
* *
33507838 CCACATATTTTTGTTTTGGCAG-TTGAGATGCAAT-TCAATGGCTTGA
1 CCACATATTTTT-ATTTGGCAGCTTG-GATGCAATAT-AATGGCTTCA
33507884 CCACA
1 CCACA
33507889 ATTATCTGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
45 16 0.36
46 28 0.64
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (45 bp):
CCACATATTTTTATTTGGCAGCTTGGATGCAATATAATGGCTTCA
Found at i:33517473 original size:23 final size:22
Alignment explanation
Indices: 33517446--33517505 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
33517436 TGTACTGTAA
33517446 AAACCCTATATGTGTTTACATGC
1 AAACCCTATATGT-TTTACATGC
* ** * *
33517469 GAACCCTGGATGTTATATATGC
1 AAACCCTATATGTTTTACATGC
33517491 AAACCCTATATGTTT
1 AAACCCTATATGTTT
33517506 ATTACATGAA
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (22 bp):
AAACCCTATATGTTTTACATGC
Found at i:33517503 original size:22 final size:22
Alignment explanation
Indices: 33517446--33517513 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
33517436 TGTACTGTAA
*
33517446 AAACCCTATATGTGTTTACATGC
1 AAACCCTATATGT-TATACATGC
* ** *
33517469 GAACCCTGGATGTTATATATGC
1 AAACCCTATATGTTATACATGC
33517491 AAACCCTATATGTTTATTACATG
1 AAACCCTATATG-TTA-TACATG
33517514 AACACTTAAG
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
22 16 0.47
23 13 0.38
24 5 0.15
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (22 bp):
AAACCCTATATGTTATACATGC
Found at i:33517589 original size:19 final size:21
Alignment explanation
Indices: 33517565--33517604 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
33517555 CCTCTTATGC
33517565 TAATT-ATA-CGAACCCTAGA
1 TAATTAATAGCGAACCCTAGA
33517584 TAATTAATATGCGAACCCTAG
1 TAATTAATA-GCGAACCCTAG
33517605 GGACATGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 3 0.17
22 10 0.56
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (21 bp):
TAATTAATAGCGAACCCTAGA
Found at i:33519897 original size:43 final size:42
Alignment explanation
Indices: 33519850--33519973 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 42
33519840 GTAATCACAG
33519850 ATCGATGCCACTATCCCAAATAG-GGTCTTACACGAAAACAAAA
1 ATCGATGCCAC-ATCCCAAA-AGTGGTCTTACACGAAAACAAAA
* * * *
33519893 ATCGATGCCAACGTCCCAGACGTGGTCTTACACGAAAACATAA
1 ATCGATGCC-ACATCCCAAAAGTGGTCTTACACGAAAACAAAA
* * *
33519936 ATCGATGCCAACGTCCCAAACGTGGTCTTACACAAAAA
1 ATCGATGCC-ACATCCCAAAAGTGGTCTTACACGAAAA
33519974 AACACATATC
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.01
43 70 0.96
44 2 0.03
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.19
Consensus pattern (42 bp):
ATCGATGCCACATCCCAAAAGTGGTCTTACACGAAAACAAAA
Found at i:33532954 original size:23 final size:23
Alignment explanation
Indices: 33532927--33532971 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
33532917 AAAAATCTTC
33532927 AAAAATGACAAAAATTAT-AAAAG
1 AAAAATGAC-AAAATTATCAAAAG
*
33532950 AAAAATTACAAAATTATCAAAA
1 AAAAATGACAAAATTATCAAAA
33532972 TTATTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.69, C:0.07, G:0.04, T:0.20
Consensus pattern (23 bp):
AAAAATGACAAAATTATCAAAAG
Found at i:33552443 original size:8 final size:8
Alignment explanation
Indices: 33552430--33552467 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
33552420 GTATAAATGA
33552430 AATTTTAT
1 AATTTTAT
33552438 AATTTTA-
1 AATTTTAT
33552445 ATATTTTAT
1 A-ATTTTAT
*
33552454 ATTTTTAT
1 AATTTTAT
33552462 AATTTT
1 AATTTT
33552468 TAAAAGGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 1 0.04
8 24 0.92
9 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
AATTTTAT
Found at i:33552482 original size:24 final size:24
Alignment explanation
Indices: 33552432--33552482 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
33552422 ATAAATGAAA
* **
33552432 TTTTATAATTTTAATATTTTATAT
1 TTTTATAATTTTAAAAGGTTATAT
33552456 TTTTATAATTTTTAAAAGGTTAT-T
1 TTTTATAA-TTTTAAAAGGTTATAT
33552480 TTT
1 TTT
33552483 AAGAGTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (24 bp):
TTTTATAATTTTAAAAGGTTATAT
Found at i:33553664 original size:17 final size:19
Alignment explanation
Indices: 33553638--33553688 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
33553628 TTAACTTTAT
33553638 TATTTA-TATATTTTT-AA
1 TATTTATTATATTTTTAAA
33553655 -ATTTATTATATATTTTAAA
1 TATTTATTATAT-TTTTAAA
33553674 TATTTATGTATATTT
1 TATTTAT-TATATTT
33553689 ATAATGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.17
17 5 0.17
18 4 0.14
19 2 0.07
20 8 0.28
21 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TATTTATTATATTTTTAAA
Found at i:33553665 original size:19 final size:20
Alignment explanation
Indices: 33553641--33553686 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
33553631 ACTTTATTAT
*
33553641 TTATATATTTTTAA-ATTTA
1 TTATATATTTTAAATATTTA
33553660 TTATATATTTTAAATATTTA
1 TTATATATTTTAAATATTTA
33553680 TGTATAT
1 T-TATAT
33553687 TTATAATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 13 0.54
20 6 0.25
21 5 0.21
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TTATATATTTTAAATATTTA
Found at i:33557799 original size:20 final size:20
Alignment explanation
Indices: 33557770--33557826 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
33557760 AATTATAAAT
*
33557770 AAAAAT-TTATCAAATTTTC
1 AAAAATATTATAAAATTTTC
**
33557789 AAAAATATTATAAAACATTC
1 AAAAATATTATAAAATTTTC
*
33557809 AAAAAAATTATAAAATTT
1 AAAAATATTATAAAATTT
33557827 ACTGAAATTG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATATTATAAAATTTTC
Found at i:33557852 original size:18 final size:18
Alignment explanation
Indices: 33557813--33557855 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
33557803 ACATTCAAAA
*
33557813 AAATTATAAAATTTACTG
1 AAATTATAAAATTTAATG
*
33557831 AAATTGATAAATTTTAAT-
1 AAATT-ATAAAATTTAATG
33557849 AAATTAT
1 AAATTAT
33557856 TTAAAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 10 0.45
19 10 0.45
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (18 bp):
AAATTATAAAATTTAATG
Found at i:33559875 original size:25 final size:25
Alignment explanation
Indices: 33559841--33559889 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
33559831 AGCATCCCAA
33559841 CAGGGTCCCCAGCGAACTATCTTTG
1 CAGGGTCCCCAGCGAACTATCTTTG
33559866 CAGGGTCCCCAGCGAACTATCTTT
1 CAGGGTCCCCAGCGAACTATCTTT
33559890 ATGGCGAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.33, G:0.22, T:0.24
Consensus pattern (25 bp):
CAGGGTCCCCAGCGAACTATCTTTG
Found at i:33562410 original size:69 final size:69
Alignment explanation
Indices: 33562334--33562619 Score: 340
Period size: 69 Copynumber: 4.1 Consensus size: 69
33562324 TTCACCTATG
* *
33562334 AGCCTTAATGTGACTGCTAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCACC
1 AGCCTTAATATGACAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCACC
33562399 TGCA
66 TGCA
* * * * *
33562403 AGCCTTAATATGACAG-TTGAGAACTTTGATCACGCTAACTGTGTTGAAGGCTGCGGCTCTTCAC
1 AGCCTTAATATGACAGCTAG-GAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCAC
* *
33562467 TTGCG
65 CTGCA
* * * * * *
33562472 AGTCTTAATATGACAGCTGGGAGCTTTACTCTCACTAACTGTGTTGGAGGTTGCAGCTCTTCACC
1 AGCCTTAATATGACAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCACC
33562537 TGCA
66 TGCA
* * * * * **
33562541 AGCCTTAATATGATAGTTAGGAGTTTTGTTCTCGCTAACTGTATTGGAGGCTATGGCTCTTCACC
1 AGCCTTAATATGACAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCACC
* *
33562606 TACG
66 TGCA
33562610 AGCCTTAATA
1 AGCCTTAATA
33562620 ACTGTGTTAA
Statistics
Matches: 179, Mismatches: 36, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
68 2 0.01
69 175 0.98
70 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.32
Consensus pattern (69 bp):
AGCCTTAATATGACAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCACC
TGCA
Found at i:33562547 original size:138 final size:138
Alignment explanation
Indices: 33562312--33562619 Score: 402
Period size: 138 Copynumber: 2.2 Consensus size: 138
33562302 ACTATTTTGG
* * * * * * *
33562312 AGGCTATGGTTCTTCACCTATGAGCCTTAATGTGACTGCTAGGAGCTTTGCTCTCGCTAACTGTG
1 AGGCTACGGCTCTTCACCTACGAGCCTTAATATGACAGCTAGGAGCTTTACTCTCACTAACTGTG
*
33562377 TTGGAGGCTGCGGCTCTTCACCTGCAAGCCTTAATATGACAGTT-GAGAACTTTGATCACGCTAA
66 TTGGAGGCTGCAGCTCTTCACCTGCAAGCCTTAATATGACAGTTAG-GAACTTTGATCACGCTAA
*
33562441 CTGTGTTGA
130 CTGTATTGA
* * * * *
33562450 AGGCTGCGGCTCTTCACTTGCGAGTCTTAATATGACAGCTGGGAGCTTTACTCTCACTAACTGTG
1 AGGCTACGGCTCTTCACCTACGAGCCTTAATATGACAGCTAGGAGCTTTACTCTCACTAACTGTG
* * ** * *
33562515 TTGGAGGTTGCAGCTCTTCACCTGCAAGCCTTAATATGATAGTTAGGAGTTTTGTTCTCGCTAAC
66 TTGGAGGCTGCAGCTCTTCACCTGCAAGCCTTAATATGACAGTTAGGAACTTTGATCACGCTAAC
*
33562580 TGTATTGG
131 TGTATTGA
*
33562588 AGGCTATGGCTCTTCACCTACGAGCCTTAATA
1 AGGCTACGGCTCTTCACCTACGAGCCTTAATA
33562620 ACTGTGTTAA
Statistics
Matches: 143, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
138 142 0.99
139 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.32
Consensus pattern (138 bp):
AGGCTACGGCTCTTCACCTACGAGCCTTAATATGACAGCTAGGAGCTTTACTCTCACTAACTGTG
TTGGAGGCTGCAGCTCTTCACCTGCAAGCCTTAATATGACAGTTAGGAACTTTGATCACGCTAAC
TGTATTGA
Found at i:33565825 original size:19 final size:19
Alignment explanation
Indices: 33565803--33565846 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
33565793 TTATGCCCCG
*
33565803 GCCCAAAACCAAGGACTAA
1 GCCCAAAACCAAAGACTAA
*
33565822 GCCC-AAACCAAAGACTCA
1 GCCCAAAACCAAAGACTAA
33565840 GCCCAAA
1 GCCCAAA
33565847 TGACTAGACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.45, C:0.36, G:0.14, T:0.05
Consensus pattern (19 bp):
GCCCAAAACCAAAGACTAA
Found at i:33567136 original size:9 final size:10
Alignment explanation
Indices: 33567113--33567151 Score: 50
Period size: 9 Copynumber: 4.3 Consensus size: 10
33567103 AATTTACGTA
33567113 TATATATACT
1 TATATATACT
33567123 T-TATAT-CT
1 TATATATACT
33567131 TATATAT-CT
1 TATATATACT
33567140 T-TATATACT
1 TATATATACT
33567149 TAT
1 TAT
33567152 TTTAATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
8 8 0.31
9 16 0.62
10 2 0.08
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (10 bp):
TATATATACT
Found at i:33567136 original size:18 final size:18
Alignment explanation
Indices: 33567113--33567151 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
33567103 AATTTACGTA
33567113 TATATATACTTTATAT-CT
1 TATATAT-CTTTATATACT
33567131 TATATATCTTTATATACT
1 TATATATCTTTATATACT
33567149 TAT
1 TAT
33567152 TTTAATTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATATCTTTATATACT
Found at i:33572614 original size:20 final size:20
Alignment explanation
Indices: 33572565--33572605 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
33572555 ATACATGAAA
33572565 TTAAAAAAATAACACTTAAT
1 TTAAAAAAATAACACTTAAT
33572585 TTAAAGAAAATAA-ACTTAAT
1 TTAAA-AAAATAACACTTAAT
33572605 T
1 T
33572606 ATTTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (20 bp):
TTAAAAAAATAACACTTAAT
Found at i:33573606 original size:24 final size:24
Alignment explanation
Indices: 33573549--33573607 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
33573539 CATTCCTCCC
**
33573549 CCCATGTTGTTGGCTGGCATACCT
1 CCCATGTTGTTGGAAGGCATACCT
* * * *
33573573 CCCCTATTGTTGTAAGGCATTCCT
1 CCCATGTTGTTGGAAGGCATACCT
33573597 CCCATGTTGTT
1 CCCATGTTGTT
33573608 AGGAGGCGGA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.14, C:0.29, G:0.20, T:0.37
Consensus pattern (24 bp):
CCCATGTTGTTGGAAGGCATACCT
Found at i:33573614 original size:24 final size:23
Alignment explanation
Indices: 33573510--33573614 Score: 57
Period size: 24 Copynumber: 4.1 Consensus size: 23
33573500 NNNNNGTGGC
*
33573510 GGCATCCCTCCCATATTGTTAGGAGGA
1 GGCATTCCTCCCATATTGTT----GGA
* *
33573537 GGCATTCCTCCCCCCATGTTGTTGGCT
1 GGCATTCCT---CCCATATTGTTGG-A
* * *
33573564 GGCATACCTCCCCTATTGTTGTAA
1 GGCATTCCTCCCATATTGTTG-GA
*
33573588 GGCATTCCTCCCATGTTGTTAGGA
1 GGCATTCCTCCCATATTGTT-GGA
33573612 GGC
1 GGC
33573615 GGACTTCCAG
Statistics
Matches: 60, Mismatches: 12, Indels: 15
0.69 0.14 0.17
Matches are distributed among these distances:
24 31 0.52
25 1 0.02
26 2 0.03
27 16 0.27
30 10 0.17
ACGTcount: A:0.16, C:0.30, G:0.24, T:0.30
Consensus pattern (23 bp):
GGCATTCCTCCCATATTGTTGGA
Found at i:33574235 original size:36 final size:36
Alignment explanation
Indices: 33574195--33574263 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
33574185 AGACACAGAA
*
33574195 AATAAACTGTAATTACAAAAGTAATGTACACATTTC
1 AATAAACTATAATTACAAAAGTAATGTACACATTTC
*
33574231 AATAAATTATAATTACAAAAGTAATGTACACAT
1 AATAAACTATAATTACAAAAGTAATGTACACAT
33574264 CTTGTCATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (36 bp):
AATAAACTATAATTACAAAAGTAATGTACACATTTC
Found at i:33584113 original size:343 final size:343
Alignment explanation
Indices: 33583487--33584173 Score: 1374
Period size: 343 Copynumber: 2.0 Consensus size: 343
33583477 ACTTTTTAGG
33583487 TACAGTTATATTCTAACCTTTGTTATCATATGAGGTTGCAGGAACGTGGCGTTATCTAGTCATGT
1 TACAGTTATATTCTAACCTTTGTTATCATATGAGGTTGCAGGAACGTGGCGTTATCTAGTCATGT
33583552 CTTTTTGTACTAATCATTTGGCACATTTGAAAGAATAAGAATCTTTTTATCTTTCAGAATGTTAC
66 CTTTTTGTACTAATCATTTGGCACATTTGAAAGAATAAGAATCTTTTTATCTTTCAGAATGTTAC
33583617 TTAGTTGGCAATTGAAATTGTCAAATCTTTTATTAGCTGGGCTCAACAATATGAATTAAGCCACA
131 TTAGTTGGCAATTGAAATTGTCAAATCTTTTATTAGCTGGGCTCAACAATATGAATTAAGCCACA
33583682 ATGGATATAAGAACAATGGCCACAATTTTAGCTATCAAACGACCTCTTGAGTAGTGGGTTCATTT
196 ATGGATATAAGAACAATGGCCACAATTTTAGCTATCAAACGACCTCTTGAGTAGTGGGTTCATTT
33583747 ATTCATTAATAGTGCAGTGGCTAGAATCACAGGAAATGCTTTTGCTGGTGATGTGTTACATGATT
261 ATTCATTAATAGTGCAGTGGCTAGAATCACAGGAAATGCTTTTGCTGGTGATGTGTTACATGATT
33583812 AGTTTAAAAATTGGATCT
326 AGTTTAAAAATTGGATCT
33583830 TACAGTTATATTCTAACCTTTGTTATCATATGAGGTTGCAGGAACGTGGCGTTATCTAGTCATGT
1 TACAGTTATATTCTAACCTTTGTTATCATATGAGGTTGCAGGAACGTGGCGTTATCTAGTCATGT
33583895 CTTTTTGTACTAATCATTTGGCACATTTGAAAGAATAAGAATCTTTTTATCTTTCAGAATGTTAC
66 CTTTTTGTACTAATCATTTGGCACATTTGAAAGAATAAGAATCTTTTTATCTTTCAGAATGTTAC
33583960 TTAGTTGGCAATTGAAATTGTCAAATCTTTTATTAGCTGGGCTCAACAATATGAATTAAGCCACA
131 TTAGTTGGCAATTGAAATTGTCAAATCTTTTATTAGCTGGGCTCAACAATATGAATTAAGCCACA
33584025 ATGGATATAAGAACAATGGCCACAATTTTAGCTATCAAACGACCTCTTGAGTAGTGGGTTCATTT
196 ATGGATATAAGAACAATGGCCACAATTTTAGCTATCAAACGACCTCTTGAGTAGTGGGTTCATTT
33584090 ATTCATTAATAGTGCAGTGGCTAGAATCACAGGAAATGCTTTTGCTGGTGATGTGTTACATGATT
261 ATTCATTAATAGTGCAGTGGCTAGAATCACAGGAAATGCTTTTGCTGGTGATGTGTTACATGATT
33584155 AGTTTAAAAATTGGATCT
326 AGTTTAAAAATTGGATCT
33584173 T
1 T
33584174 GGGATTTAAT
Statistics
Matches: 344, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
343 344 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (343 bp):
TACAGTTATATTCTAACCTTTGTTATCATATGAGGTTGCAGGAACGTGGCGTTATCTAGTCATGT
CTTTTTGTACTAATCATTTGGCACATTTGAAAGAATAAGAATCTTTTTATCTTTCAGAATGTTAC
TTAGTTGGCAATTGAAATTGTCAAATCTTTTATTAGCTGGGCTCAACAATATGAATTAAGCCACA
ATGGATATAAGAACAATGGCCACAATTTTAGCTATCAAACGACCTCTTGAGTAGTGGGTTCATTT
ATTCATTAATAGTGCAGTGGCTAGAATCACAGGAAATGCTTTTGCTGGTGATGTGTTACATGATT
AGTTTAAAAATTGGATCT
Found at i:33597353 original size:9 final size:9
Alignment explanation
Indices: 33597339--33597364 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
33597329 AAGAATCAGA
33597339 GGAGGTGGG
1 GGAGGTGGG
33597348 GGAGGTGGG
1 GGAGGTGGG
33597357 GGAGGTGG
1 GGAGGTGG
33597365 AGTGTTCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.77, T:0.12
Consensus pattern (9 bp):
GGAGGTGGG
Found at i:33599242 original size:49 final size:47
Alignment explanation
Indices: 33599133--33599255 Score: 158
Period size: 49 Copynumber: 2.6 Consensus size: 47
33599123 TAATGTTGAT
* * * *
33599133 GCCATGTCCTAGACATGGTCTTACACTGACTCATCCATCAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGCCGAC
* *
33599180 GCCATGTCCCAGACATAGTCTTACACTGACT-ATCGAAATCGAGGCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATC--AATC-AAGCCGAC
33599229 GCCATGTCCCAGACATGGTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
33599256 AGCTCTCACA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 3 0.05
47 29 0.44
48 3 0.05
49 31 0.47
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGCCGAC
Found at i:33599418 original size:46 final size:46
Alignment explanation
Indices: 33599322--33599489 Score: 146
Period size: 46 Copynumber: 3.6 Consensus size: 46
33599312 TCTCGTAGTC
* * * * * **
33599322 GATGCATGTCTCAAACATGTCTTACACTGGCT-TATGTCACAAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CGTCTCAATGAG
*
33599368 GATGCATGTCCCAGACATGTCTTACACTTGCTCTCGTCTCAATGAG
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAATGAG
* * * *
33599414 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTC--AT-AGTGTGG
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTCTCAATG-AG
33599460 TCGATGCATGTCCCAGACATGTCTTACACT
1 --GATGCATGTCCCAGACATGTCTTACACT
33599490 AGTGCACAAA
Statistics
Matches: 102, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
45 3 0.03
46 52 0.51
47 27 0.26
48 20 0.20
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAATGAG
Found at i:33602476 original size:168 final size:167
Alignment explanation
Indices: 33602198--33602532 Score: 643
Period size: 168 Copynumber: 2.0 Consensus size: 167
33602188 TCTTTGTCAT
33602198 GTACGCTTTCAACAAGTTCTCCAAACTGTTTGACGCCTCAGCTTGAAATGCTTTTAGAGCTTACT
1 GTACGCTTTCAACAAGTTCTCCAAACTGTTTGACGCCTCAGCTTGAAATGCTTTTAGAGCTTACT
*
33602263 TATTAAACCCTTGAGATTGGTTGTGTCTATGCTGCAATAAGTTGTGGTTCGATCCATTTCCTTGG
66 TATTAAACCCTTGAGATTGGTTGTGTCTATGCTACAATAAGTTGTGGTTCGATCCATTTCCTTGG
33602328 TTACTCTAAGAAAAGTTAGGATGATTACGCCATGAAGG
131 TTACTCTAAGAAAAGTTAGGATGA-TACGCCATGAAGG
*
33602366 GTACGCTTTCAACAAGTTCTCCAAACTGTTTGACGCCTCAGCTTGAAATGCTTTTAGAGCTTGCT
1 GTACGCTTTCAACAAGTTCTCCAAACTGTTTGACGCCTCAGCTTGAAATGCTTTTAGAGCTTACT
33602431 TATTAAACCCTTGAGATTGGTTGTGTCTATGCTACAATAAGTTGTGGTTCGATCCATTTCCTTGG
66 TATTAAACCCTTGAGATTGGTTGTGTCTATGCTACAATAAGTTGTGGTTCGATCCATTTCCTTGG
33602496 TTACTCTAAGAAAAGTTAGGATGATACGCCATGAAGG
131 TTACTCTAAGAAAAGTTAGGATGATACGCCATGAAGG
33602533 ATTATAGAAG
Statistics
Matches: 165, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
167 13 0.08
168 152 0.92
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (167 bp):
GTACGCTTTCAACAAGTTCTCCAAACTGTTTGACGCCTCAGCTTGAAATGCTTTTAGAGCTTACT
TATTAAACCCTTGAGATTGGTTGTGTCTATGCTACAATAAGTTGTGGTTCGATCCATTTCCTTGG
TTACTCTAAGAAAAGTTAGGATGATACGCCATGAAGG
Found at i:33603916 original size:39 final size:39
Alignment explanation
Indices: 33603861--33604043 Score: 276
Period size: 39 Copynumber: 4.7 Consensus size: 39
33603851 CCAACACATT
33603861 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
33603900 TGCCTTCGGGATTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* * * * * *
33603939 TGCCTTTGAGATTTAGCCCGGATATAAGACTAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* *
33603978 TGCCTTCGGGACATAGCCCGGATATAACACTAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
33604017 TGCCTTCGGGACTTAGCCCAGATATAA
1 TGCCTTCGGGACTTAGCCCGGATATAA
33604044 ATCTCACACA
Statistics
Matches: 130, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 130 1.00
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
Found at i:33612463 original size:53 final size:53
Alignment explanation
Indices: 33612283--33612489 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 53
33612273 ATTAGGGTTT
* * * *
33612283 AAGGATACCAAGTAAGACCATGCCAAGGCATGG-AATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAA-TGGTAAG-TTCATAAGGC
* * * * * * * *
33612337 AAGGAAATCATGTAAGACTATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
33612392 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
33612445 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
33612490 TAAAAAGGAA
Statistics
Matches: 120, Mismatches: 30, Indels: 7
0.76 0.19 0.04
Matches are distributed among these distances:
53 46 0.38
54 34 0.28
55 40 0.33
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:33616564 original size:26 final size:25
Alignment explanation
Indices: 33616516--33616568 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
33616506 CATTTAACAT
* * * *
33616516 CTAGGGGTATTTTGGTCATTTTTACC
1 CTAGGGGCATTTCGGTAAATTTT-CC
33616542 CTAGGGGCATTTCGGTAAATTTTCC
1 CTAGGGGCATTTCGGTAAATTTTCC
33616567 CT
1 CT
33616569 TAATTACGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.42
Consensus pattern (25 bp):
CTAGGGGCATTTCGGTAAATTTTCC
Found at i:33616906 original size:29 final size:28
Alignment explanation
Indices: 33616849--33616934 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 28
33616839 TACCTGTATT
* *
33616849 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
33616877 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* *
33616906 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
33616934 T
1 T
33616935 TAATGCTCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 26 0.51
29 25 0.49
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:33617187 original size:16 final size:16
Alignment explanation
Indices: 33617145--33617180 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
33617135 GTAGCCAAAC
*
33617145 TTTCAGCTTTTCGGCA
1 TTTCTGCTTTTCGGCA
*
33617161 TTTCTGTTTTTCGGCA
1 TTTCTGCTTTTCGGCA
33617177 TTTC
1 TTTC
33617181 GACTTTTGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.08, C:0.22, G:0.17, T:0.53
Consensus pattern (16 bp):
TTTCTGCTTTTCGGCA
Found at i:33618295 original size:17 final size:17
Alignment explanation
Indices: 33618256--33618291 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
33618246 ACAAAGAAAG
33618256 TTTGGGATTTCAGGATT
1 TTTGGGATTTCAGGATT
*
33618273 TTTGGG-TTTTAGGATT
1 TTTGGGATTTCAGGATT
33618289 TTT
1 TTT
33618292 TGGGCATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.14, C:0.03, G:0.28, T:0.56
Consensus pattern (17 bp):
TTTGGGATTTCAGGATT
Found at i:33625454 original size:42 final size:42
Alignment explanation
Indices: 33625394--33625514 Score: 145
Period size: 42 Copynumber: 2.9 Consensus size: 42
33625384 TAGGGTTATT
*
33625394 AAGACTACGTGTAAGACCATATCTGGGATATGGCATCGATAT
1 AAGACTACGTGTAAGACCATATCTGGGATATGGCATCGATAC
* * * * *
33625436 GAGACTATGTGTAAGACCATAGCTGGGCTATTGGCATTGATAC
1 AAGACTACGTGTAAGACCATATCTGGGATA-TGGCATCGATAC
* *
33625479 AAGA-TCACATGTAAGACCATATCTAGGATATGGCAT
1 AAGACT-ACGTGTAAGACCATATCTGGGATATGGCAT
33625515 TGGTATGGTA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 33 0.51
43 32 0.49
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (42 bp):
AAGACTACGTGTAAGACCATATCTGGGATATGGCATCGATAC
Found at i:33625711 original size:15 final size:16
Alignment explanation
Indices: 33625685--33625714 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
33625675 ATGAACCATC
33625685 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
33625701 AGTAA-GTTATGATT
1 AGTAAGGTTATGATT
33625715 TTAAGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:33648208 original size:27 final size:27
Alignment explanation
Indices: 33648177--33648354 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33648167 TAAATTGTAC
33648177 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33648204 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33648230 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33648258 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
33648286 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33648313 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33648340 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33648355 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33648291 original size:82 final size:81
Alignment explanation
Indices: 33648178--33648333 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33648168 AAATTGTACA
* *
33648178 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
33648242 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33648259 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
33648324 TGCGAGTTGA
65 TGCGAATTGA
33648334 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33648345 original size:82 final size:81
Alignment explanation
Indices: 33648174--33648354 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
33648164 GATTAAATTG
* *
33648174 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
33648239 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33648255 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
33648319 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33648337 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33648355 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33656270 original size:27 final size:27
Alignment explanation
Indices: 33656239--33656416 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33656229 TAAATTGTAC
33656239 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33656266 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33656292 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33656320 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
33656348 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33656375 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33656402 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33656417 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33656353 original size:82 final size:81
Alignment explanation
Indices: 33656240--33656395 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33656230 AAATTGTACA
* *
33656240 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
33656304 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33656321 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
33656386 TGCGAGTTGA
65 TGCGAATTGA
33656396 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33656407 original size:82 final size:81
Alignment explanation
Indices: 33656236--33656416 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
33656226 GATTAAATTG
* *
33656236 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
33656301 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33656317 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
33656381 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33656399 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33656417 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33661029 original size:191 final size:195
Alignment explanation
Indices: 33660701--33661076 Score: 546
Period size: 191 Copynumber: 1.9 Consensus size: 195
33660691 AAAACAAGTA
** *
33660701 TGCATGCCTGAGAAAGTGAACCATTCGTAATTGCGCATGATCATAGATGAACTCACCAATAACAT
1 TGCATGCCTGAGAAAGTGAACCATAAGTAATTGCGCATGATAATAGATGAAC-CACCAATAACAT
** * *
33660766 ATAAGGCATTTATGGGTGGAAATGTTAAATAAAGTATGAGTTTGAGTCCAATAATGTATAAAACT
65 ATAA-G-AACTATGGGTGGAAATGCTAAATAAAGCATGAGTTTGAGTCCAATAATGTATAAAACT
* *
33660831 TGGGTTTAAGCCTGTTTATACGCAATTGTGCATGACTCTTCTTCTCAAATAACTTAGCAAAACAA
128 TGGGTTTAAGCATATTTATACGCAATTGTGCATGACTCTTCTTCTCAAATAACTTAGCAAAACAA
33660896 ACG
193 ACG
* *
33660899 TGCATGCTTGAGAAAGTGAACCATAAGTAATTGCGCATGATAATAGATGAA-C-CCAATAATATA
1 TGCATGCCTGAGAAAGTGAACCATAAGTAATTGCGCATGATAATAGATGAACCACCAATAACATA
33660962 TAA-AACT-TGGGTGGAAATGCTAAATAAAGCACT-AGTTTGAGTCCAATAATGTATAAAACTTG
66 TAAGAACTATGGGTGGAAATGCTAAATAAAGCA-TGAGTTTGAGTCCAATAATGTATAAAACTTG
* * * *
33661024 GGTTTAAGTATATTTATACGCAATTGTGTATGCCTTTTCTTCTCAAATAACTT
130 GGTTTAAGCATATTTATACGCAATTGTGCATGACTCTTCTTCTCAAATAACTT
33661077 TAACAACCCC
Statistics
Matches: 162, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
191 98 0.60
192 3 0.02
195 13 0.08
196 1 0.01
198 47 0.29
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (195 bp):
TGCATGCCTGAGAAAGTGAACCATAAGTAATTGCGCATGATAATAGATGAACCACCAATAACATA
TAAGAACTATGGGTGGAAATGCTAAATAAAGCATGAGTTTGAGTCCAATAATGTATAAAACTTGG
GTTTAAGCATATTTATACGCAATTGTGCATGACTCTTCTTCTCAAATAACTTAGCAAAACAAACG
Found at i:33663896 original size:11 final size:12
Alignment explanation
Indices: 33663874--33663912 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
33663864 GATAATGTTA
33663874 TTTAATTAATAT
1 TTTAATTAATAT
33663886 TTTAATT-ATAT
1 TTTAATTAATAT
* *
33663897 TTTTAGTAATAT
1 TTTAATTAATAT
33663909 TTTA
1 TTTA
33663913 TTATTAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (12 bp):
TTTAATTAATAT
Found at i:33665156 original size:19 final size:20
Alignment explanation
Indices: 33665129--33665166 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
33665119 CAAGAAAATA
*
33665129 TTGATAAATAAAA-AATATG
1 TTGAAAAATAAAAGAATATG
33665148 TTGAAAAATAAAAGAATAT
1 TTGAAAAATAAAAGAATAT
33665167 ATGAATATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (20 bp):
TTGAAAAATAAAAGAATATG
Found at i:33665171 original size:19 final size:17
Alignment explanation
Indices: 33665123--33665171 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 17
33665113 AATTTACAAG
*
33665123 AAAATATTGATAAATAA
1 AAAATATTGAAAAATAA
33665140 AAAATATGTTGAAAAATAA
1 AAAATA--TTGAAAAATAA
33665159 AAGAATATATGAA
1 AA-AATAT-TGAA
33665172 TATTGTATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 6 0.22
18 1 0.04
19 16 0.59
20 4 0.15
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (17 bp):
AAAATATTGAAAAATAA
Found at i:33672254 original size:46 final size:47
Alignment explanation
Indices: 33672182--33672284 Score: 145
Period size: 46 Copynumber: 2.2 Consensus size: 47
33672172 GACAGGACAG
* * *
33672182 GACAGAAATGAGCCATGTAAGTCCATATCAGATATAT-GGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCAGATATATAGGCATTGGA
* *
33672228 GACAGGAATGAGCCATGTAAGCCCATATTATATATATACGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCAGATATATA-GGCATTGGA
33672276 GACAGGAAT
1 GACAGGAAT
33672285 AATTCATGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
46 33 0.66
48 17 0.34
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (47 bp):
GACAGGAATGAGCCATGTAAGCCCATATCAGATATATAGGCATTGGA
Found at i:33672293 original size:48 final size:46
Alignment explanation
Indices: 33672182--33672301 Score: 141
Period size: 46 Copynumber: 2.6 Consensus size: 46
33672172 GACAGGACAG
* * *
33672182 GACAGAAATGAGCCATGTAAGTCCATATCAGATATATGGCTTTGGA
1 GACAGGAATAAGCCATGTAAGTCCATATCAGATATATGGCATTGGA
* * * *
33672228 GACAGGAATGAGCCATGTAAGCCCATATTATATATATACGGCATTGGA
1 GACAGGAATAAGCCATGTAAGTCCATATCAGATATAT--GGCATTGGA
**
33672276 GACAGGAATAATTCATGTAAGTCCAT
1 GACAGGAATAAGCCATGTAAGTCCAT
33672302 GTCGAAGACA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 33 0.52
48 30 0.48
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.26
Consensus pattern (46 bp):
GACAGGAATAAGCCATGTAAGTCCATATCAGATATATGGCATTGGA
Found at i:33675451 original size:43 final size:42
Alignment explanation
Indices: 33675354--33675453 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 42
33675344 TGATTGAGAT
* * ** *
33675354 TTACATTTAAGACCATGTCTGGGACATCGGCATCGTATCTAA
1 TTACATGTAAGACCATGTCTGGAACAGAGGCATCGTATCGAA
* * * *
33675396 TTTCGTGTAAGACCCTGTTTGGAACAGAGGCATCGATATCGAA
1 TTACATGTAAGACCATGTCTGGAACAGAGGCATCG-TATCGAA
33675439 TTACATGTAAGACCA
1 TTACATGTAAGACCA
33675454 CGTTCGGGAC
Statistics
Matches: 45, Mismatches: 12, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
42 27 0.60
43 18 0.40
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGAACAGAGGCATCGTATCGAA
Found at i:33679879 original size:27 final size:27
Alignment explanation
Indices: 33679848--33680025 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33679838 TAAATTGTAC
33679848 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33679875 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33679901 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33679929 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
33679957 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33679984 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33680011 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33680026 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33679962 original size:82 final size:81
Alignment explanation
Indices: 33679849--33680004 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33679839 AAATTGTACA
* *
33679849 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
33679913 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33679930 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
33679995 TGCGAGTTGA
65 TGCGAATTGA
33680005 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33680016 original size:82 final size:81
Alignment explanation
Indices: 33679845--33680025 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
33679835 GATTAAATTG
* *
33679845 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
33679910 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33679926 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
33679990 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33680008 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33680026 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33688038 original size:174 final size:174
Alignment explanation
Indices: 33687738--33688067 Score: 572
Period size: 174 Copynumber: 1.9 Consensus size: 174
33687728 GTCATGAGAT
* * *
33687738 TGGCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGTGGTTGATTATTAAGCACTA
1 TGGCACTAAGTGTGCGAGTTTAAAGTGCACAGCACTAAGTGTGCGTGGTTGATTATTAAGCACTA
33687803 TGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCAACCTTACCGAGTC
66 TGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCAACCTTACCGAGTC
33687868 AATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCA
131 AATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCA
* **
33687912 TGGCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCT-GTTGATTATTAAGCACT
1 TGGCACTAAGTGTGCGAGTTTAAAGTGCACAGCACTAAGTGTGCG-TGGTTGATTATTAAGCACT
* *
33687976 ATGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGT
65 ATGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCAACCTTACCGAGT
33688041 CAATTTTGGACAGCGGAAAAGGTAAGT
130 CAATTTTGGACAGCGGAAAAGGTAAGT
33688068 ACCTTGAGTT
Statistics
Matches: 147, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
174 146 0.99
175 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (174 bp):
TGGCACTAAGTGTGCGAGTTTAAAGTGCACAGCACTAAGTGTGCGTGGTTGATTATTAAGCACTA
TGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCAACCTTACCGAGTC
AATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCA
Found at i:33692884 original size:34 final size:34
Alignment explanation
Indices: 33692841--33692906 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
33692831 TTTACCACAT
*
33692841 GTGGAGTTTGCGTATAATCGAGCTATTCACTCAG
1 GTGGAGTTTGCATATAATCGAGCTATTCACTCAG
*
33692875 GTGGAGTTTGCATATAATCGAGCTGTTCACTC
1 GTGGAGTTTGCATATAATCGAGCTATTCACTC
33692907 GGCTACCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (34 bp):
GTGGAGTTTGCATATAATCGAGCTATTCACTCAG
Found at i:33693705 original size:20 final size:20
Alignment explanation
Indices: 33693671--33693724 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
33693661 TAATTTGTCT
* *
33693671 TGTCTTAGTTAAATTAAATA
1 TGTCTTAATTTAATTAAATA
* * *
33693691 TGTCTTGATTTAATTAAGTT
1 TGTCTTAATTTAATTAAATA
33693711 TGTCTTAATTTAAT
1 TGTCTTAATTTAAT
33693725 ACATGTGTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (20 bp):
TGTCTTAATTTAATTAAATA
Found at i:33693920 original size:14 final size:14
Alignment explanation
Indices: 33693901--33693927 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33693891 TACATTGGAC
33693901 AGATTCATGCATGT
1 AGATTCATGCATGT
33693915 AGATTCATGCATG
1 AGATTCATGCATG
33693928 GGGAGATACA
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:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (14 bp):
AGATTCATGCATGT
Found at i:33698907 original size:28 final size:28
Alignment explanation
Indices: 33698867--33698999 Score: 176
Period size: 28 Copynumber: 4.8 Consensus size: 28
33698857 AACACACCAA
* * *
33698867 AAAATTGAAGCCTTTGTAGCGATCTAAG
1 AAAATGGAAGCCTTTGTGGCAATCTAAG
* * *
33698895 AAAAGGGAAGCCTTTGTGGCGATCTATG
1 AAAATGGAAGCCTTTGTGGCAATCTAAG
* *
33698923 AAAATGGAAGCATTTGTGGCAATTTAAG
1 AAAATGGAAGCCTTTGTGGCAATCTAAG
*
33698951 AAAATGGAAGCCTTTGTGGCAAACTAAG
1 AAAATGGAAGCCTTTGTGGCAATCTAAG
*
33698979 AAAATGGAATCCTTTGTGGCA
1 AAAATGGAAGCCTTTGTGGCA
33699000 TACTCTAAAG
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 92 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (28 bp):
AAAATGGAAGCCTTTGTGGCAATCTAAG
Found at i:33708826 original size:23 final size:23
Alignment explanation
Indices: 33708796--33708841 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
33708786 AGTAGTGTAA
33708796 GTACATGAGAGGCACTGAGAATT
1 GTACATGAGAGGCACTGAGAATT
33708819 GTACATGAGAGGCACTGAGAATT
1 GTACATGAGAGGCACTGAGAATT
33708842 TTTTTTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (23 bp):
GTACATGAGAGGCACTGAGAATT
Found at i:33709707 original size:22 final size:21
Alignment explanation
Indices: 33709679--33709730 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
33709669 AAGGTGGAAG
33709679 TTATGTGGTAGTTTATCTA-CAA
1 TTATGTGGTAG-TTATC-AGCAA
* *
33709701 TTATGTGGTCGTTATCAGGAA
1 TTATGTGGTAGTTATCAGCAA
33709722 TTATGTGGT
1 TTATGTGGT
33709731 GGCTTGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 1 0.04
21 16 0.59
22 10 0.37
ACGTcount: A:0.23, C:0.08, G:0.25, T:0.44
Consensus pattern (21 bp):
TTATGTGGTAGTTATCAGCAA
Found at i:33713066 original size:431 final size:431
Alignment explanation
Indices: 33712471--33713326 Score: 1426
Period size: 431 Copynumber: 2.0 Consensus size: 431
33712461 TTGCTTGTGG
*
33712471 TACGAGTCACAAATGCCCAACCAAAGCCCAAGAACGTGATGGGCTCAAATTACCACAAGGCCCAA
1 TACGAGTCACAAAGGCCCAACCAAAGCCCAAGAACGTGATGGGCTCAAATTACCACAAGGCCCAA
* *
33712536 TAACGAGATCAAAGGCCCGAAAAATGTGTTCCAAACTAAATGGGACCATCCAGGAGTTCGTTAGC
66 TAACAAGATCAAAGGCCCGAAAAATGTGCTCCAAACTAAATGGGACCATCCAGGAGTTCGTTAGC
* * * * *
33712601 AAGGCCTTAGATGCATATACGAGAGAAAGAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAA
131 AAGGCATTAGATGCATACACGAAAGAAAGAGAAAATCAAGATTCACTTTCCTATTTTCAAGAAAA
*
33712666 TCAAGAAACTGAATCTTAGCCCAATCTTACTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAG
196 TCAAGAAACCGAATCTTAGCCCAATCTTACTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAG
* *
33712731 ATTTCAAATCTTGGAAATCTTGGTCCAAGAAACCAAATCTTGAAGCCAAATCGCATTGGATCTTC
261 ATTTCAAATCTTGGAAATCTTGGTCCAAGAAACCAAATCTTGAAGCCAAAGCGCATTGGATCTCC
* *
33712796 GTTACGAGCCTCAACGACCCAATTTCGGTA-AGAGATGGAATACAAGCCCAAGTTCTTGAAGGCA
326 GTTACGAGCATCAACGAACCAATTTCGGTAGA-AGATGGAATACAAGCCCAAGTTCTTGAAGGCA
* *
33712860 AGGCCCAATAAGATGAGTCCAAGCCGAATCAAGAAGTCCTGA
390 AGGCCCAATAAGATGAGTCCAAGCCCAAACAAGAAGTCCTGA
*
33712902 TACGAGTCACAAAGGCCCAACCCAAGCCCAAGAACGTGATGGGCTCAAATTACCACAAGGCCCAA
1 TACGAGTCACAAAGGCCCAACCAAAGCCCAAGAACGTGATGGGCTCAAATTACCACAAGGCCCAA
* * *
33712967 TAACAAGATCAAAGGCCCGACAAATGTGCTCCAAACTAAATGGGACCATTCAGGAGTTTGTTAGC
66 TAACAAGATCAAAGGCCCGAAAAATGTGCTCCAAACTAAATGGGACCATCCAGGAGTTCGTTAGC
* * *
33713032 AAGGCATTGGATGCGTACATGAAAGAAAGAGAAAATCAAGATTCACTTTCCTATTTTCAAGAAAA
131 AAGGCATTAGATGCATACACGAAAGAAAGAGAAAATCAAGATTCACTTTCCTATTTTCAAGAAAA
* * *
33713097 TCAAGTAACCGAATCTTGGCCCAATCTTGCTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAG
196 TCAAGAAACCGAATCTTAGCCCAATCTTACTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAG
*
33713162 ATTTCAAATCTTGGAAATCTTGGTCCAAGAAACCAAATCTTGCAGCCAAAGCGCATTGGATCTCC
261 ATTTCAAATCTTGGAAATCTTGGTCCAAGAAACCAAATCTTGAAGCCAAAGCGCATTGGATCTCC
* *
33713227 GTTATGAGCATCAACGAACCAATTTTGGTAGAAGATGGAATACAAGCCCAAGTTCTTGAAGGCAA
326 GTTACGAGCATCAACGAACCAATTTCGGTAGAAGATGGAATACAAGCCCAAGTTCTTGAAGGCAA
* *
33713292 GGCCTAATAAGATGATTCCAAGCCCAAACAAGAAG
391 GGCCCAATAAGATGAGTCCAAGCCCAAACAAGAAG
33713327 ACAAACCATA
Statistics
Matches: 394, Mismatches: 30, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
431 393 1.00
432 1 0.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (431 bp):
TACGAGTCACAAAGGCCCAACCAAAGCCCAAGAACGTGATGGGCTCAAATTACCACAAGGCCCAA
TAACAAGATCAAAGGCCCGAAAAATGTGCTCCAAACTAAATGGGACCATCCAGGAGTTCGTTAGC
AAGGCATTAGATGCATACACGAAAGAAAGAGAAAATCAAGATTCACTTTCCTATTTTCAAGAAAA
TCAAGAAACCGAATCTTAGCCCAATCTTACTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAG
ATTTCAAATCTTGGAAATCTTGGTCCAAGAAACCAAATCTTGAAGCCAAAGCGCATTGGATCTCC
GTTACGAGCATCAACGAACCAATTTCGGTAGAAGATGGAATACAAGCCCAAGTTCTTGAAGGCAA
GGCCCAATAAGATGAGTCCAAGCCCAAACAAGAAGTCCTGA
Found at i:33720057 original size:20 final size:20
Alignment explanation
Indices: 33720032--33720085 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
33720022 CTTGAAGGCA
33720032 AGGCCCAATAAGATGAGTCC
1 AGGCCCAATAAGATGAGTCC
33720052 AGGCCCAATAAGATGAGTCC
1 AGGCCCAATAAGATGAGTCC
*
33720072 AAGCCCAATCAAGA
1 AGGCCCAAT-AAGA
33720086 AGTCCACCCC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 28 0.88
21 4 0.12
ACGTcount: A:0.39, C:0.26, G:0.22, T:0.13
Consensus pattern (20 bp):
AGGCCCAATAAGATGAGTCC
Found at i:33722767 original size:22 final size:22
Alignment explanation
Indices: 33722739--33722809 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
33722729 ATATAATATC
33722739 AAGATAAATTAATTAACATACT
1 AAGATAAATTAATTAACATACT
33722761 AAGATAAATT-A--AA-A-A--
1 AAGATAAATTAATTAACATACT
*
33722776 AAGACAAATTAATTAACATACT
1 AAGATAAATTAATTAACATACT
33722798 AAGATAAATTAA
1 AAGATAAATTAA
33722810 AAATGATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
15 9 0.22
16 1 0.03
17 1 0.03
18 3 0.08
19 3 0.08
20 1 0.03
21 1 0.03
22 21 0.52
ACGTcount: A:0.61, C:0.07, G:0.06, T:0.27
Consensus pattern (22 bp):
AAGATAAATTAATTAACATACT
Found at i:33722772 original size:18 final size:18
Alignment explanation
Indices: 33722749--33722809 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
33722739 AAGATAAATT
33722749 AATTAACATACTAAGATA
1 AATTAACATACTAAGATA
* * ** * *
33722767 AATTAAAAAAAGACAAATT
1 AATTAACATACTA-AGATA
33722786 AATTAACATACTAAGATA
1 AATTAACATACTAAGATA
33722804 AATTAA
1 AATTAA
33722810 AAATGATTAA
Statistics
Matches: 30, Mismatches: 12, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
18 18 0.60
19 12 0.40
ACGTcount: A:0.61, C:0.08, G:0.05, T:0.26
Consensus pattern (18 bp):
AATTAACATACTAAGATA
Found at i:33722794 original size:37 final size:37
Alignment explanation
Indices: 33722739--33722812 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
33722729 ATATAATATC
*
33722739 AAGATAAATTAATTAACATACTAAGATAAATTAAAAA
1 AAGACAAATTAATTAACATACTAAGATAAATTAAAAA
33722776 AAGACAAATTAATTAACATACTAAGATAAATTAAAAA
1 AAGACAAATTAATTAACATACTAAGATAAATTAAAAA
33722813 TGATTAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.26
Consensus pattern (37 bp):
AAGACAAATTAATTAACATACTAAGATAAATTAAAAA
Found at i:33727931 original size:286 final size:287
Alignment explanation
Indices: 33727412--33727979 Score: 935
Period size: 286 Copynumber: 2.0 Consensus size: 287
33727402 TATATATTCC
* *
33727412 TAAGGTTCAAACGGGACTCGATAGTCGTCGAAACATCATTGGATTTCCCGTCAAGGCATAATATG
1 TAAGGTTCAAACGAGACTCGATAGTCATCGAAACATCATTGGATTTCCCGTCAAGGCATAATATG
33727477 ATAAATAACATAATAGCAATTAAACCAAATACATTAAAACACTATTTAAACATACAAACTTACCT
66 ATAAATAACATAATAGCAATTAAACCAAATACATTAAAACACTATTTAAACATACAAACTTACCT
* ** *
33727542 CAATCACAAAAATAATGAAACAGGTTCGATTAGTCTGACACTTTATCTTTCCCTCGATCTAAGTC
131 CAATCACAAAAACAATGAAACAGGAACGATTAGTCCGACACTTTATCTTTCCCTCGATCTAAGTC
* *
33727607 TATAGGAGGCTTAACTTGATATAAATGAACAAATTAAATCCATTCAATGTTCGTTTTATTCAATT
196 TATAGGAGGCTTAACTTGATATAAATGAACAAATTAAATCCATTCAATGTTCATTCTATTCAATT
*
33727672 TAGTACAAAATACACACTTTTGCAACT
261 CAGTACAAAATACACACTTTTGCAACT
* *
33727699 TAAGGTTTAAACGAGACTCGATAGTCATTGAAACATCATTGGATTTCCCGTCAAGGCATAATATG
1 TAAGGTTCAAACGAGACTCGATAGTCATCGAAACATCATTGGATTTCCCGTCAAGGCATAATATG
*
33727764 ATAAATAACATAATAGCATTTAAACCAAATACATTAAAA-ACTATTTAAACATACAAACTTACCT
66 ATAAATAACATAATAGCAATTAAACCAAATACATTAAAACACTATTTAAACATACAAACTTACCT
* * *
33727828 CGAA-C-CTAAAAACGATGAAATAGGAACGATTAGTCCGACACTTTATCTTTCCCTCGATCTAGG
131 C-AATCAC-AAAAACAATGAAACAGGAACGATTAGTCCGACACTTTATCTTTCCCTCGATCTAAG
* * *
33727891 TCTGTATGAGGCTTAACTTGATCTAAATGAACAAATTAAATCCATTCAATGTTCATTCTATTCAA
194 TCTATAGGAGGCTTAACTTGATATAAATGAACAAATTAAATCCATTCAATGTTCATTCTATTCAA
33727956 TTCAGTACAAAATACACACTTTTG
259 TTCAGTACAAAATACACACTTTTG
33727980 GAAATTTACA
Statistics
Matches: 261, Mismatches: 18, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
285 1 0.00
286 159 0.61
287 101 0.39
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (287 bp):
TAAGGTTCAAACGAGACTCGATAGTCATCGAAACATCATTGGATTTCCCGTCAAGGCATAATATG
ATAAATAACATAATAGCAATTAAACCAAATACATTAAAACACTATTTAAACATACAAACTTACCT
CAATCACAAAAACAATGAAACAGGAACGATTAGTCCGACACTTTATCTTTCCCTCGATCTAAGTC
TATAGGAGGCTTAACTTGATATAAATGAACAAATTAAATCCATTCAATGTTCATTCTATTCAATT
CAGTACAAAATACACACTTTTGCAACT
Found at i:33739164 original size:20 final size:20
Alignment explanation
Indices: 33739136--33739174 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33739126 TCGCTTCTTC
* *
33739136 TTTACTTACTTTCTTACTTG
1 TTTAATTACTTGCTTACTTG
33739156 TTTAATTACTTGCTTACTT
1 TTTAATTACTTGCTTACTT
33739175 AAATAACTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTAATTACTTGCTTACTTG
Found at i:33739531 original size:50 final size:49
Alignment explanation
Indices: 33739433--33739576 Score: 146
Period size: 50 Copynumber: 2.9 Consensus size: 49
33739423 TCCTGTACTA
* * * ** *
33739433 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCCTATCGGTGG
1 CCAATGCCATGT-CCAGACATGGTCTTACGTGGGACATCTCATATCGGT-G
* * *
33739484 CC-ATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCC-AGACATGGTCTTACGTGGGACATCTCATATCGGTG
* *
33739533 CCAAAGTCATGTCACAGACATGGTCTTACGTGGGACATCTCATA
1 CCAATGCCATGTC-CAGACATGGTCTTACGTGGGACATCTCATA
33739577 ACCTCAATAA
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
49 5 0.06
50 69 0.90
51 3 0.04
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (49 bp):
CCAATGCCATGTCCAGACATGGTCTTACGTGGGACATCTCATATCGGTG
Found at i:33743565 original size:11 final size:11
Alignment explanation
Indices: 33743549--33743590 Score: 75
Period size: 11 Copynumber: 3.7 Consensus size: 11
33743539 TTTGAAATTC
33743549 TTTTTTTTGAA
1 TTTTTTTTGAA
33743560 TTTTTTTTTGAA
1 -TTTTTTTTGAA
33743572 TTTTTTTTGAA
1 TTTTTTTTGAA
33743583 TTTTTTTT
1 TTTTTTTT
33743591 TGAAACTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 19 0.63
12 11 0.37
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:33743566 original size:12 final size:12
Alignment explanation
Indices: 33743549--33743594 Score: 85
Period size: 12 Copynumber: 3.9 Consensus size: 12
33743539 TTTGAAATTC
33743549 TTTTTTTTGAAT
1 TTTTTTTTGAAT
33743561 TTTTTTTTGAA-
1 TTTTTTTTGAAT
33743572 TTTTTTTTGAAT
1 TTTTTTTTGAAT
33743584 TTTTTTTTGAA
1 TTTTTTTTGAA
33743595 ACTACAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.33
12 22 0.67
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (12 bp):
TTTTTTTTGAAT
Found at i:33743575 original size:23 final size:23
Alignment explanation
Indices: 33743549--33743594 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
33743539 TTTGAAATTC
33743549 TTTTTTTTGAATTTTTTTTTGAA
1 TTTTTTTTGAATTTTTTTTTGAA
33743572 TTTTTTTTGAATTTTTTTTTGAA
1 TTTTTTTTGAATTTTTTTTTGAA
33743595 ACTACAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (23 bp):
TTTTTTTTGAATTTTTTTTTGAA
Found at i:33757183 original size:50 final size:50
Alignment explanation
Indices: 33757056--33757290 Score: 192
Period size: 50 Copynumber: 4.7 Consensus size: 50
33757046 AATAATAACA
* * * * * *
33757056 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATGGTTCC-TGT-AC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGG-TGCTCCCATATCAG
* * * * * **
33757105 TGCCAATGCCATATCTCAGATATGGTCTTACATGGGTGTTCCCATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGTGCTCCCATATCAG
* * * * * *
33757155 TGCCCATGCCATGTCCCAGACATGGTCTT--ATGGGGGCCCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGTG--CTCCCATATCAG
** **
33757205 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTA-ACTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGTGCTCCCATA-TCAG
33757255 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGG
33757291 ACCTCTTTAC
Statistics
Matches: 153, Mismatches: 26, Indels: 13
0.80 0.14 0.07
Matches are distributed among these distances:
48 11 0.07
49 33 0.22
50 104 0.68
52 5 0.03
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGTGCTCCCATATCAG
Found at i:33757291 original size:50 final size:50
Alignment explanation
Indices: 33757162--33757297 Score: 209
Period size: 50 Copynumber: 2.7 Consensus size: 50
33757152 TGGTGCCCAT
*** * * * *
33757162 GCCATGTCCCAGACATGGTCTTATGGGGGCCCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTAACTCAGTGCCAAC
33757212 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTAACTCAGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTAACTCAGTGCCAAC
33757262 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
33757298 TACCCAAATG
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 79 1.00
ACGTcount: A:0.20, C:0.32, G:0.23, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTAACTCAGTGCCAAC
Found at i:33757668 original size:30 final size:29
Alignment explanation
Indices: 33757634--33757690 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
33757624 CATTGACTCG
33757634 AACTTTGGAAAAATTTCAATTTTGCCCCTA
1 AACTTT-GAAAAATTTCAATTTTGCCCCTA
** *
33757664 AACTTTTTATAATTTCAATTTTGCCCC
1 AACTTTGAAAAATTTCAATTTTGCCCC
33757691 AAAGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (29 bp):
AACTTTGAAAAATTTCAATTTTGCCCCTA
Found at i:33764579 original size:28 final size:28
Alignment explanation
Indices: 33764516--33764753 Score: 388
Period size: 28 Copynumber: 8.5 Consensus size: 28
33764506 ATATTAAGTC
* *
33764516 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
33764543 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
33764571 CGCACACTTAATGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
33764599 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
33764627 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
33764655 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
33764683 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
33764711 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
33764739 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33764754 GTACAATTTA
Statistics
Matches: 203, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
27 22 0.11
28 181 0.89
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:33772903 original size:29 final size:29
Alignment explanation
Indices: 33772840--33772907 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
33772830 TAATCAACCG
33772840 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
33772869 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
33772898 CGCACACTTA
1 CGCACACTTA
33772908 CCTTTTTCCG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Done.