Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 42 of 259
Found at i:12721522 original size:35 final size:34
Alignment explanation
Indices: 12721413--12721558 Score: 85
Period size: 35 Copynumber: 4.2 Consensus size: 34
12721403 AGGTAAGTAC
* * * *
12721413 ATGTAAGCTTATATTGAACTGGTACATTCAGCTGT
1 ATGTGAGCTTATATTGAA-TTGTACATTCGGCTAT
* * * * ** *
12721448 ATGTGAGGTTACATTGAATTTTAGCATTTGATTAC
1 ATGTGAGCTTATATTGAATTGTA-CATTCGGCTAT
* *
12721483 ATGTGAGCTTATATTGAACTTGTATATTCGGTTAT
1 ATGTGAGCTTATATTGAA-TTGTACATTCGGCTAT
** * * * *
12721518 ATGTGAAATTATCTTGAATGTGCATATTCGGCCAT
1 ATGTGAGCTTATATTGAAT-TGTACATTCGGCTAT
12721553 ATGTGA
1 ATGTGA
12721559 TGTTCTTTTG
Statistics
Matches: 84, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
34 4 0.05
35 76 0.90
36 4 0.05
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (34 bp):
ATGTGAGCTTATATTGAATTGTACATTCGGCTAT
Found at i:12751198 original size:46 final size:46
Alignment explanation
Indices: 12751054--12751317 Score: 175
Period size: 46 Copynumber: 5.6 Consensus size: 46
12751044 TTTGTGTGCT
* * *
12751054 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATG-AGAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGCA-AGGC
* * * *
12751100 AATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA--CGAGAGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGCAAG-GC
* *
12751147 TAGTGTAAGAAATGTTTGGGACATGCATCGGCCTCGAGATGCAAGGC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGCAAGGC
* * * * *
12751194 AGTGTAAGACATGTTTGGGACATGCATCGG-CTACAAAATG--TGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGCAAGGC
* * * * *
12751238 AGTGTAAGACCATGTTTGGGACATGGCATCGGCAC-GGATATGTGAGAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGAGATG-CA-AGGC
12751288 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
12751318 TACTTGATGG
Statistics
Matches: 178, Mismatches: 23, Indels: 30
0.77 0.10 0.13
Matches are distributed among these distances:
44 11 0.06
45 16 0.09
46 68 0.38
47 29 0.16
48 21 0.12
49 1 0.01
50 32 0.18
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGCAAGGC
Found at i:12751294 original size:94 final size:94
Alignment explanation
Indices: 12751051--12751317 Score: 282
Period size: 94 Copynumber: 2.9 Consensus size: 94
12751041 TCATTTGTGT
* * *
12751051 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-AT-TATGAGAGTCAATGTAAGACCATG
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGG-CACGATATGTGAGAGTCAGTGTAAGACCATG
* **
12751114 TCTGGGACATGGCATCGGCATTGAGACGAGA
65 TCTGGGACATGGCATCGGCA-TGACAAAAGA
* * * * *
12751145 GCTAGTGTAAGAAATGTTTGGGACATGCATCGGCCTCGAGATG-CA-AGGCAGTGTAAGA-CATG
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGG-CACGATATGTGAGAGTCAGTGTAAGACCATG
* *
12751207 TTTGGGACAT-GCATCGGC-T-ACAAAATGT
65 TCTGGGACATGGCATCGGCATGACAAAA-GA
12751235 G-TCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACGGATATGTGAGAGTCAGTGTAAGACC
1 GCT-AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCAC-GATATGTGAGAGTCAGTGTAAGACC
12751299 ATGTCTGGGACATGGCATC
62 ATGTCTGGGACATGGCATC
12751318 TACTTGATGG
Statistics
Matches: 143, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
89 4 0.03
90 12 0.08
91 15 0.10
92 20 0.14
93 14 0.10
94 57 0.40
95 15 0.10
96 6 0.04
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCGGCACGATATGTGAGAGTCAGTGTAAGACCATGT
CTGGGACATGGCATCGGCATGACAAAAGA
Found at i:12752674 original size:42 final size:41
Alignment explanation
Indices: 12752556--12752722 Score: 147
Period size: 43 Copynumber: 3.9 Consensus size: 41
12752546 GGAACATTGA
* * * *
12752556 CATCGATCTGAGATATCGTGTAACACCGTGTCTGGGACATAGG
1 CATCGATCT--GATTTCATGTAAGACCCTGTCTGGGACATAGG
* * * *
12752599 CCTCGATTTGAGATTTACATGTAAGACCATGTCTGGGACATCGG
1 CATCGATCT--GATTT-CATGTAAGACCCTGTCTGGGACATAGG
* *
12752643 CATCGTATCTGATTTCGTGTAAGACCCTGTCTGGGACAGAGG
1 CATCG-ATCTGATTTCATGTAAGACCCTGTCTGGGACATAGG
*
12752685 CATCGATACTGAATTACATGTAAGACCAC-GTCTGGGAC
1 CATCGAT-CTG-ATTTCATGTAAGACC-CTGTCTGGGAC
12752723 GTCGGCATTG
Statistics
Matches: 104, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
41 2 0.02
42 31 0.30
43 40 0.38
44 28 0.27
45 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (41 bp):
CATCGATCTGATTTCATGTAAGACCCTGTCTGGGACATAGG
Found at i:12752721 original size:43 final size:43
Alignment explanation
Indices: 12752585--12752722 Score: 149
Period size: 42 Copynumber: 3.2 Consensus size: 43
12752575 GTAACACCGT
* * *
12752585 GTCTGGGACATAGGCCTCGAT-TTGAGATTTACATGTAAGACCAT
1 GTCTGGGACATAGGCATCGATACTGA-A-TTACATGTAAGACCAC
* * *
12752629 GTCTGGGACATCGGCATCG-TATCTG-ATTTCGTGTAAGACC-C
1 GTCTGGGACATAGGCATCGATA-CTGAATTACATGTAAGACCAC
*
12752670 TGTCTGGGACAGAGGCATCGATACTGAATTACATGTAAGACCAC
1 -GTCTGGGACATAGGCATCGATACTGAATTACATGTAAGACCAC
12752714 GTCTGGGAC
1 GTCTGGGAC
12752723 GTCGGCATTG
Statistics
Matches: 78, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
42 32 0.41
43 26 0.33
44 18 0.23
45 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (43 bp):
GTCTGGGACATAGGCATCGATACTGAATTACATGTAAGACCAC
Found at i:12752722 original size:85 final size:86
Alignment explanation
Indices: 12752571--12752730 Score: 234
Period size: 86 Copynumber: 1.9 Consensus size: 86
12752561 ATCTGAGATA
* * * * *
12752571 TCGTGTAACACCGTGTCTGGGACATAGGCCTCGATTTGAGATTTACATGTAAGACCATGTCTGGG
1 TCGTGTAACACCCTGTCTGGGACAGAGGCATCGATCTGAGATTTACATGTAAGACCACGTCTGGG
12752636 ACATCGGCATCGTATCTGATT
66 ACATCGGCATCGTATCTGATT
*
12752657 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATACTGA-A-TTACATGTAAGACCACGTCTGG
1 TCGTGTAACACCCTGTCTGGGACAGAGGCATCGAT-CTGAGATTTACATGTAAGACCACGTCTGG
*
12752720 GACGTCGGCAT
65 GACATCGGCAT
12752731 TGTACCCGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
85 31 0.47
86 32 0.48
87 3 0.05
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (86 bp):
TCGTGTAACACCCTGTCTGGGACAGAGGCATCGATCTGAGATTTACATGTAAGACCACGTCTGGG
ACATCGGCATCGTATCTGATT
Found at i:12755771 original size:29 final size:29
Alignment explanation
Indices: 12755708--12755775 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
12755698 TAATCAACCG
12755708 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
12755737 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
12755766 CGCACACTTA
1 CGCACACTTA
12755776 CCTTTTCCGC
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
Found at i:12755888 original size:174 final size:174
Alignment explanation
Indices: 12755597--12755924 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
12755587 AACTCAAGGT
* *
12755597 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
12755662 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
12755727 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
12755771 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
12755836 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
12755901 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
12755925 TGTACAATTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:12755916 original size:29 final size:30
Alignment explanation
Indices: 12755877--12755955 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
12755867 CTTAATAATC
12755877 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
12755907 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
12755936 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
12755956 ATCTCGTGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:12763935 original size:145 final size:145
Alignment explanation
Indices: 12763737--12764010 Score: 521
Period size: 145 Copynumber: 1.9 Consensus size: 145
12763727 AACTCAAGGT
* *
12763737 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
12763802 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
12763867 ATTTCAAGTTCGCAC
131 ATTTCAAGTTCGCAC
12763882 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
12763947 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
12764011 TACTTTAAAC
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
145 126 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (145 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ATTTCAAGTTCGCAC
Found at i:12764027 original size:29 final size:30
Alignment explanation
Indices: 12763988--12764066 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
12763978 CTTAATAATC
12763988 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
12764018 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
12764047 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
12764067 ATCTCGTGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:12782467 original size:46 final size:44
Alignment explanation
Indices: 12782320--12782487 Score: 183
Period size: 46 Copynumber: 3.6 Consensus size: 44
12782310 TTTGTGTGCT
* * *
12782320 AGTGTAAGACATGTCTGGAACATGCATCAGCCACATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCA-GATG-AAGCC
* * * * *
12782366 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CTCAGATGA-AGCC
*
12782414 AGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTC-AGATG-AAGCC
12782460 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
12782488 GGCTACAAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
45 1 0.01
46 50 0.50
47 28 0.28
48 21 0.21
49 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCAGATGAAGCC
Found at i:12785851 original size:44 final size:41
Alignment explanation
Indices: 12785790--12785942 Score: 146
Period size: 42 Copynumber: 3.6 Consensus size: 41
12785780 ATCTGAGATA
* * * *
12785790 TCGTGTAACACCGTGTCTGGGACACAGGCCTCGATTTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATCT--GATT
* *
12785833 TATGTGTAAGACCATGTCTGGGACATAGGCATCGTATCTGATT
1 T-CGTGTAAGACCATGTCTGGGACACAGGCATCG-ATCTGATT
* *
12785876 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATACTGAATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGAT-CTG-ATT
* *
12785919 ACAG-GTAAGACCACGTCTGGGACA
1 TC-GTGTAAGACCATGTCTGGGACA
12785943 TCGGCATTGT
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
41 2 0.02
42 32 0.34
43 28 0.30
44 28 0.30
45 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATCTGATT
Found at i:12785893 original size:42 final size:41
Alignment explanation
Indices: 12785790--12785949 Score: 144
Period size: 43 Copynumber: 3.8 Consensus size: 41
12785780 ATCTGAGATA
* * * * *
12785790 TCGTGTAACACCGTGTCTGGGACACAGGCCTCGATTTGAGATT
1 TCGTGTAAGACCCTGTCTGGGACATAGGCATCGATCT--GATT
* *
12785833 TATGTGTAAGACCATGTCTGGGACATAGGCATCGTATCTGATT
1 T-CGTGTAAGACCCTGTCTGGGACATAGGCATCG-ATCTGATT
*
12785876 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATACTGAATT
1 TCGTGTAAGACCCTGTCTGGGACATAGGCATCGAT-CTG-ATT
* *
12785919 ACAG-GTAAGACCAC-GTCTGGGACATCGGCAT
1 TC-GTGTAAGACC-CTGTCTGGGACATAGGCAT
12785950 TGTACCCGTT
Statistics
Matches: 99, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.02
42 32 0.32
43 33 0.33
44 29 0.29
45 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (41 bp):
TCGTGTAAGACCCTGTCTGGGACATAGGCATCGATCTGATT
Found at i:12788361 original size:22 final size:22
Alignment explanation
Indices: 12788304--12788363 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
12788294 ATTTTTATTT
* *
12788304 AAATTTAT-TATAACAATATTTA
1 AAATTTATAT-TAATAATATTAA
12788326 AAATTTATATTAATAATATTAA
1 AAATTTATATTAATAATATTAA
12788348 AATATTTA-ATTAATAA
1 AA-ATTTATATTAATAA
12788364 ACATTATCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 28 0.82
23 6 0.18
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATTTATATTAATAATATTAA
Found at i:12794340 original size:5 final size:5
Alignment explanation
Indices: 12794330--12794363 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
12794320 GTAGAGTTGA
* *
12794330 AAAAT AAAAT AAAAT GAAAG AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
12794364 CATTTGAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:12794877 original size:42 final size:39
Alignment explanation
Indices: 12794794--12794877 Score: 132
Period size: 39 Copynumber: 2.1 Consensus size: 39
12794784 TGAATCAAAG
*
12794794 TTAATTGGTTCATGTAACAAAAAGAAAAAAAAGTGTTAA
1 TTAATTGGTTCATGTAACAAAAAGAAAAAAAAGAGTTAA
12794833 TTAATTGGTTCATGTAACCAAAAAGAAAAAAAAAAGAGTTAA
1 TTAATTGGTTCATGTAA-CAAAAAG--AAAAAAAAGAGTTAA
12794875 TTA
1 TTA
12794878 TTTCAAAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
39 17 0.41
40 7 0.17
42 17 0.41
ACGTcount: A:0.52, C:0.06, G:0.14, T:0.27
Consensus pattern (39 bp):
TTAATTGGTTCATGTAACAAAAAGAAAAAAAAGAGTTAA
Found at i:12813623 original size:23 final size:24
Alignment explanation
Indices: 12813567--12813625 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
12813557 AAATAAATTA
* *
12813567 TTTTATAACAAGTGTACATATATC
1 TTTTATTACAAATGTACATATATC
12813591 TATTTATTACAAATGTACCA-ATAT-
1 T-TTTATTACAAATGTA-CATATATC
12813615 TTTTATTACAA
1 TTTTATTACAA
12813626 TTGTCATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.32
24 2 0.06
25 17 0.55
26 2 0.06
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (24 bp):
TTTTATTACAAATGTACATATATC
Found at i:12814523 original size:20 final size:21
Alignment explanation
Indices: 12814500--12814538 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
12814490 AAATTTATTT
12814500 TAATAATT-TTAA-ATTTTAAA
1 TAAT-ATTCTTAATATTTTAAA
12814520 TAATATTCTTAATATTTTA
1 TAATATTCTTAATATTTTA
12814539 TTGAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 8 0.47
21 6 0.35
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (21 bp):
TAATATTCTTAATATTTTAAA
Found at i:12814577 original size:14 final size:14
Alignment explanation
Indices: 12814558--12814606 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
12814548 ATTTTATGTT
12814558 AATATTTAATAATA
1 AATATTTAATAATA
*
12814572 AATATTTAGTAATA
1 AATATTTAATAATA
*
12814586 AATATTTTATAGTATA
1 AATATTTAATA--ATA
12814602 AATAT
1 AATAT
12814607 AATATTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 22 0.73
16 8 0.27
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (14 bp):
AATATTTAATAATA
Found at i:12814636 original size:32 final size:33
Alignment explanation
Indices: 12814568--12814636 Score: 90
Period size: 32 Copynumber: 2.1 Consensus size: 33
12814558 AATATTTAAT
12814568 AATAAATATTTAGTAATAAATATTTTATAGTATA
1 AATAAATATTTAG-AATAAATATTTTATAGTATA
12814602 AATATAATATTTA-AATAAA-ATTATT-TAGTATA
1 AATA-AATATTTAGAATAAATATT-TTATAGTATA
12814634 AAT
1 AAT
12814637 TTTAATTAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
32 13 0.39
33 8 0.24
34 4 0.12
35 8 0.24
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (33 bp):
AATAAATATTTAGAATAAATATTTTATAGTATA
Found at i:12815947 original size:23 final size:24
Alignment explanation
Indices: 12815921--12815966 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
12815911 AATGTGCTTA
*
12815921 TCACTAAAATGCACC-AAGTGCAG
1 TCACCAAAATGCACCAAAGTGCAG
*
12815944 TCACCGAAATGCACCAAAGTGCA
1 TCACCAAAATGCACCAAAGTGCA
12815967 TTATCATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.15
Consensus pattern (24 bp):
TCACCAAAATGCACCAAAGTGCAG
Found at i:12816236 original size:14 final size:14
Alignment explanation
Indices: 12816217--12816246 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12816207 AACACTTCAT
12816217 TTGAACATCTTAAC
1 TTGAACATCTTAAC
*
12816231 TTGAACTTCTTAAC
1 TTGAACATCTTAAC
12816245 TT
1 TT
12816247 ACATAATGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (14 bp):
TTGAACATCTTAAC
Found at i:12819349 original size:28 final size:27
Alignment explanation
Indices: 12819289--12819443 Score: 238
Period size: 27 Copynumber: 5.7 Consensus size: 27
12819279 GTTTAAATTG
* *
12819289 TGTAGCACTAAGTGTGCGAATTGAATA
1 TGTAGCACTAAGTGTGCGAGTTGACTA
12819316 TGTAGCACTAAGTGTGCGAGTTTGACTA
1 TGTAGCACTAAGTGTGCGAG-TTGACTA
12819344 TGTAGCACTAAGTGTGCGAGTTGACTA
1 TGTAGCACTAAGTGTGCGAGTTGACTA
*
12819371 TGTAGCACTAAGTGTGCGAGTATGATTA
1 TGTAGCACTAAGTGTGCGAGT-TGACTA
*
12819399 TGTAGCACTAAGTGTGCGAGTTGATTA
1 TGTAGCACTAAGTGTGCGAGTTGACTA
* *
12819426 TATAGCACTGAGTGTGCG
1 TGTAGCACTAAGTGTGCG
12819444 GACTTAATAT
Statistics
Matches: 121, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 69 0.57
28 52 0.43
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (27 bp):
TGTAGCACTAAGTGTGCGAGTTGACTA
Found at i:12819354 original size:55 final size:55
Alignment explanation
Indices: 12819289--12819443 Score: 247
Period size: 55 Copynumber: 2.8 Consensus size: 55
12819279 GTTTAAATTG
* *
12819289 TGTAGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTA
1 TGTAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTA
* *
12819344 TGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTA
1 TGTAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTA
* * *
12819399 TGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 TGTAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
12819444 GACTTAATAT
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 93 1.00
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (55 bp):
TGTAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTA
Found at i:12821886 original size:94 final size:94
Alignment explanation
Indices: 12821720--12821891 Score: 218
Period size: 94 Copynumber: 1.8 Consensus size: 94
12821710 AGTCTGCCAG
* * * * ** **
12821720 GACATTAAACATGGGGTTACATGTGTAAGACATTAGCTCGACTATGGCGACATGGGTAGTCCATT
1 GACATTAAACATGGGATTACATATGTAAAACATTAGCTCGACTATGGCAACATAAGTAGTCCACC
* *
12821785 GGGACAGTAAACACGGGATAATCCATCAA
66 AGAACAGTAAACACGGGATAATCCATCAA
* ** *
12821814 GACATTAAACATGGGATTACATATGTAAAACCTTAGCTCGGTTATGGCAATATAAGTAGTCCACC
1 GACATTAAACATGGGATTACATATGTAAAACATTAGCTCGACTATGGCAACATAAGTAGTCCACC
12821879 AGAACAGTAAACA
66 AGAACAGTAAACA
12821892 TGGGGTAGTC
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
94 64 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (94 bp):
GACATTAAACATGGGATTACATATGTAAAACATTAGCTCGACTATGGCAACATAAGTAGTCCACC
AGAACAGTAAACACGGGATAATCCATCAA
Found at i:12821911 original size:94 final size:93
Alignment explanation
Indices: 12821708--12821927 Score: 217
Period size: 94 Copynumber: 2.3 Consensus size: 93
12821698 GGAAACCAAA
* * *
12821708 GTAGTCTGCCAGGACATTAAACATGGGGTTACATGTGTAAGACATTAGCTCGACTATGGCGACAT
1 GTAGTCTGCCA-GACATTAAACATGGGGTTACATATGTAAAACATTAGCTCGACTATGGCAACAT
** *** *
12821773 GGGTAGTCCATTGGGACAGTAAACACGGG
65 AAGTAGTCCACCAGAACAGTAAACACGGG
* * * * * ** *
12821802 ATAATCCAT-CAAGACATTAAACATGGGATTACATATGTAAAACCTTAGCTCGGTTATGGCAATA
1 GTAGT-C-TGCCAGACATTAAACATGGGGTTACATATGTAAAACATTAGCTCGACTATGGCAACA
*
12821866 TAAGTAGTCCACCAGAACAGTAAACATGGG
64 TAAGTAGTCCACCAGAACAGTAAACACGGG
* *
12821896 GTAGTCTGCCGAGACAGTAAACACGGGGTTAC
1 GTAGTCTGCC-AGACATTAAACATGGGGTTAC
12821928 GTGTGGAAGA
Statistics
Matches: 98, Mismatches: 24, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
92 1 0.01
93 2 0.02
94 91 0.93
95 3 0.03
96 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (93 bp):
GTAGTCTGCCAGACATTAAACATGGGGTTACATATGTAAAACATTAGCTCGACTATGGCAACATA
AGTAGTCCACCAGAACAGTAAACACGGG
Found at i:12824377 original size:37 final size:37
Alignment explanation
Indices: 12824318--12824425 Score: 182
Period size: 36 Copynumber: 2.9 Consensus size: 37
12824308 AGCTCAGACG
* * *
12824318 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
12824355 AAATCTCCACACGTAGTCATCGGGTCTTA-CCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
12824391 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
12824426 ATATATTTCC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 36 0.54
37 31 0.46
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:12824696 original size:47 final size:47
Alignment explanation
Indices: 12824634--12825016 Score: 586
Period size: 47 Copynumber: 8.1 Consensus size: 47
12824624 ACACGTTTCG
* * * **
12824634 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
12824681 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
12824728 CATTGGCCATTCGGCCTTATCACACATACGCAAGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
12824775 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
12824822 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ACATACGCATGTTCACATTCATCA
* *
12824873 CATTGGCCATTCGGCCTTATCACGCATACGCATGTTCACATTCATCG
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
12824920 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
12824967 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
12825014 CAT
1 CAT
12825017 AAAATCCTAA
Statistics
Matches: 310, Mismatches: 22, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
47 266 0.86
49 2 0.01
51 42 0.14
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:12824775 original size:25 final size:25
Alignment explanation
Indices: 12824746--12824823 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 25
12824736 ATTCGGCCTT
12824746 ATCACACATACGCAAGTTCACATTC
1 ATCACACATACGCAAGTTCACATTC
** * * *
12824771 AT--CACATTGGCCA-TTCGGCCTT-
1 ATCACACATACGCAAGTTC-ACATTC
*
12824793 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCAAGTTCACATTC
12824818 ATCACA
1 ATCACA
12824824 TTGGCCATTC
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 5 0.14
23 11 0.30
24 10 0.27
25 11 0.30
ACGTcount: A:0.31, C:0.32, G:0.10, T:0.27
Consensus pattern (25 bp):
ATCACACATACGCAAGTTCACATTC
Found at i:12824798 original size:22 final size:22
Alignment explanation
Indices: 12824724--12824798 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
12824714 GTTCACATTC
12824724 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
12824746 ATCACACATACGCAAGTTC-ACATT
1 AT--CACATTGGCCA-TTCGGCCTT
12824770 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
12824793 ATCACA
1 ATCACA
12824799 CATACGCATG
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.29
23 11 0.29
24 11 0.29
25 5 0.13
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.28
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:12824872 original size:192 final size:188
Alignment explanation
Indices: 12824634--12825016 Score: 640
Period size: 192 Copynumber: 2.0 Consensus size: 188
12824624 ACACGTTTCG
*
12824634 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACATATATTCAGGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
12824699 ATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAAGTT
66 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAAGTT
*
12824764 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
131 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
* *
12824822 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
1 CATTAGCCATTCGGCCTTA-C-CACATATAT-T-CAGGTTCACATTCATCACATTGGCCATTCGG
* *
12824887 CCTTATCACGCATACGCATGTTCACATTCATCGCATTGGCCATTCGGCCTTATCACACATACGCA
62 CCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
*
12824952 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
127 AGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
12825014 CAT
1 CAT
12825017 AAAATCCTAA
Statistics
Matches: 181, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
188 18 0.10
189 1 0.01
190 8 0.04
191 1 0.01
192 153 0.85
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.31
Consensus pattern (188 bp):
CATTAGCCATTCGGCCTTACCACATATATTCAGGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAAGTT
CACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
Found at i:12824910 original size:145 final size:145
Alignment explanation
Indices: 12824634--12824994 Score: 586
Period size: 145 Copynumber: 2.5 Consensus size: 145
12824624 ACACGTTTCG
* * * **
12824634 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
12824699 AT--CTC--ATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
66 ATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
12824760 AGTTCACATTCATCA
131 AGTTCACATTCATCA
12824775 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
12824840 ATCACGCATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATACGCA
66 ATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
* *
12824905 TGTTCACATTCATCG
131 AGTTCACATTCATCA
12824920 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
12824985 ATCACACATA
66 ATCACACATA
12824995 CGCATGTTCA
Statistics
Matches: 204, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
141 62 0.30
143 2 0.01
145 140 0.69
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.31
Consensus pattern (145 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
AGTTCACATTCATCA
Found at i:12827087 original size:85 final size:85
Alignment explanation
Indices: 12826958--12827221 Score: 519
Period size: 85 Copynumber: 3.1 Consensus size: 85
12826948 TATTTTATTG
*
12826958 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
12827023 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
12827043 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
12827108 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
12827128 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
12827193 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
12827213 CCCATGCTC
1 CCCATGCTC
12827222 ATGGTCGGCC
Statistics
Matches: 178, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 178 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:12833652 original size:26 final size:26
Alignment explanation
Indices: 12833621--12833708 Score: 79
Period size: 26 Copynumber: 3.4 Consensus size: 26
12833611 ATTAAACAAG
12833621 AATTAAAAAATGAATGTGAAATGGAT
1 AATTAAAAAATGAATGTGAAATGGAT
* * * *** *
12833647 ATTTAAAAAA-AAATAATGAAAACAAG
1 AATTAAAAAATGAAT-GTGAAATGGAT
12833673 AATTAAAAAATGAATGTGAAATGGAT
1 AATTAAAAAATGAATGTGAAATGGAT
**
12833699 CCTTAAAAAA
1 AATTAAAAAA
12833709 AACTCAATTA
Statistics
Matches: 44, Mismatches: 16, Indels: 4
0.69 0.25 0.06
Matches are distributed among these distances:
25 3 0.07
26 38 0.86
27 3 0.07
ACGTcount: A:0.59, C:0.03, G:0.14, T:0.24
Consensus pattern (26 bp):
AATTAAAAAATGAATGTGAAATGGAT
Found at i:12833732 original size:52 final size:52
Alignment explanation
Indices: 12833614--12833732 Score: 159
Period size: 52 Copynumber: 2.3 Consensus size: 52
12833604 AAAAAAAATT
* *
12833614 AAACAAGAATTAAAAAATGAATGTGAAATGGATATTTAAAAAAAAATAATGA
1 AAACAAGAACTAAAAAATGAATGTGAAATGGATACTTAAAAAAAAATAATGA
* * * *
12833666 AAACAAGAATTAAAAAATGAATGTGAAATGGATCCTTAAAAAAAACTCAATTA
1 AAACAAGAACTAAAAAATGAATGTGAAATGGATACTTAAAAAAAAAT-AATGA
*
12833719 AAATAA-AACTAAAA
1 AAACAAGAACTAAAA
12833733 TGAAAGGGAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
52 51 0.85
53 9 0.15
ACGTcount: A:0.61, C:0.06, G:0.11, T:0.22
Consensus pattern (52 bp):
AAACAAGAACTAAAAAATGAATGTGAAATGGATACTTAAAAAAAAATAATGA
Found at i:12842576 original size:22 final size:23
Alignment explanation
Indices: 12842551--12842596 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
12842541 CAACCAAATC
12842551 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
12842573 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
12842596 A
1 A
12842597 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:12842602 original size:23 final size:23
Alignment explanation
Indices: 12842558--12842602 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
12842548 ATCAATTCAA
*
12842558 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
12842581 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
12842603 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:12847776 original size:11 final size:11
Alignment explanation
Indices: 12847760--12847784 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12847750 TTATATATAC
12847760 TAATAAAATAA
1 TAATAAAATAA
12847771 TAATAAAATAA
1 TAATAAAATAA
12847782 TAA
1 TAA
12847785 AATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:12848090 original size:30 final size:29
Alignment explanation
Indices: 12848056--12848123 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
12848046 CACCCTTAAA
*
12848056 ATATTTTCACTATT-AGCCCTTCAAATTTTT
1 ATATTTACACT-TTAAGCCC-TCAAATTTTT
* *
12848086 ATATTTACACTTTAATCCCTCAAATTTTG
1 ATATTTACACTTTAAGCCCTCAAATTTTT
12848115 AGTATTTAC
1 A-TATTTAC
12848124 TTTTGGGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 12 0.36
30 21 0.64
ACGTcount: A:0.29, C:0.19, G:0.04, T:0.47
Consensus pattern (29 bp):
ATATTTACACTTTAAGCCCTCAAATTTTT
Found at i:12849070 original size:14 final size:14
Alignment explanation
Indices: 12849051--12849077 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12849041 GAAAAGGCTG
12849051 AAAAGCTTTTACAA
1 AAAAGCTTTTACAA
12849065 AAAAGCTTTTACA
1 AAAAGCTTTTACA
12849078 GGTAAACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (14 bp):
AAAAGCTTTTACAA
Found at i:12849901 original size:21 final size:21
Alignment explanation
Indices: 12849877--12849918 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
12849867 AGAAGTTAAA
*
12849877 TAAA-AAATACATTAATAAAAT
1 TAAATAAATA-ATTAAAAAAAT
*
12849898 TAAATAATTAATTAAAAAAAT
1 TAAATAAATAATTAAAAAAAT
12849919 CACTCGCCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
TAAATAAATAATTAAAAAAAT
Found at i:12853683 original size:39 final size:39
Alignment explanation
Indices: 12853625--12853719 Score: 136
Period size: 39 Copynumber: 2.4 Consensus size: 39
12853615 TTTTAAGCAT
* * *
12853625 ATATATCATATTACACATATAATCACGTAACATTCAAGC
1 ATATATCATAATACTCATATAATCACATAACATTCAAGC
* *
12853664 ATATATCATAATACTCATATAATCACATAACGTTTAAGC
1 ATATATCATAATACTCATATAATCACATAACATTCAAGC
*
12853703 ATATATCACAATACTCA
1 ATATATCATAATACTCA
12853720 AAATCATGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (39 bp):
ATATATCATAATACTCATATAATCACATAACATTCAAGC
Found at i:12857150 original size:28 final size:28
Alignment explanation
Indices: 12857114--12857239 Score: 155
Period size: 28 Copynumber: 4.5 Consensus size: 28
12857104 TTCTGAAGAT
*
12857114 TCTTGCTTGAGAGATAGTCCATGCAGAC
1 TCTTGCTTGAGAGATAGTCCATGTAGAC
* * * *
12857142 TCTTACTTGAGAGATAGTCTATGTGGCC
1 TCTTGCTTGAGAGATAGTCCATGTAGAC
*
12857170 TCTTGCTTGAGAGATAGTCTATGTAGAC
1 TCTTGCTTGAGAGATAGTCCATGTAGAC
* *
12857198 TCTTGCTTGAAAGATAGTCCATGTGGAC
1 TCTTGCTTGAGAGATAGTCCATGTAGAC
* *
12857226 TATTGCATGA-AGAT
1 TCTTGCTTGAGAGAT
12857240 TCTTACCCAA
Statistics
Matches: 85, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
27 4 0.05
28 81 0.95
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (28 bp):
TCTTGCTTGAGAGATAGTCCATGTAGAC
Found at i:12857200 original size:56 final size:56
Alignment explanation
Indices: 12857114--12857223 Score: 175
Period size: 56 Copynumber: 2.0 Consensus size: 56
12857104 TTCTGAAGAT
* *
12857114 TCTTGCTTGAGAGATAGTCCATGCAGACTCTTACTTGAGAGATAGTCTATGTGGCC
1 TCTTGCTTGAGAGATAGTCCATGCAGACTCTTACTTGAAAGATAGTCCATGTGGCC
* * *
12857170 TCTTGCTTGAGAGATAGTCTATGTAGACTCTTGCTTGAAAGATAGTCCATGTGG
1 TCTTGCTTGAGAGATAGTCCATGCAGACTCTTACTTGAAAGATAGTCCATGTGG
12857224 ACTATTGCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (56 bp):
TCTTGCTTGAGAGATAGTCCATGCAGACTCTTACTTGAAAGATAGTCCATGTGGCC
Found at i:12857307 original size:18 final size:18
Alignment explanation
Indices: 12857280--12857315 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12857270 TACTTGAGAA
* *
12857280 ACGACCAAATTACCATTT
1 ACGACAAAATAACCATTT
12857298 ACGACAAAATAACCATTT
1 ACGACAAAATAACCATTT
12857316 TGCCCATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (18 bp):
ACGACAAAATAACCATTT
Found at i:12859773 original size:22 final size:22
Alignment explanation
Indices: 12859717--12859773 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
12859707 TGCAGGGCTT
*
12859717 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGGTCCAAGGA
* *
12859739 ACCCACCCGTGTGGTCCAAGGA
1 ACACGCCCGTGTGGTCCAAGGA
*
12859761 ACACGCCCATGTG
1 ACACGCCCGTGTG
12859774 ACCTTAGGAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.21, C:0.35, G:0.30, T:0.14
Consensus pattern (22 bp):
ACACGCCCGTGTGGTCCAAGGA
Found at i:12865298 original size:40 final size:40
Alignment explanation
Indices: 12865253--12865348 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
12865243 CTATTTGTTG
*
12865253 CATATAAATTGTTGAACTATCTATTTTTACTAATTCTTTA
1 CATATAAATTATTGAACTATCTATTTTTACTAATTCTTTA
* * * * *
12865293 TATATAAATTATTGAAGTATTTATTTTTATTGATTCTTTA
1 CATATAAATTATTGAACTATCTATTTTTACTAATTCTTTA
*
12865333 CATATAAATTACTGAA
1 CATATAAATTATTGAA
12865349 TTGTTGATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.50
Consensus pattern (40 bp):
CATATAAATTATTGAACTATCTATTTTTACTAATTCTTTA
Found at i:12865359 original size:40 final size:40
Alignment explanation
Indices: 12865253--12865359 Score: 108
Period size: 40 Copynumber: 2.7 Consensus size: 40
12865243 CTATTTGTTG
** *
12865253 CATATAAATTGTTGAACTATCT-ATTTTTACTAATTCTTTA
1 CATATAAATTACTGAAGTAT-TGATTTTTACTAATTCTTTA
* * * * *
12865293 TATATAAATTATTGAAGTATTTATTTTTATTGATTCTTTA
1 CATATAAATTACTGAAGTATTGATTTTTACTAATTCTTTA
* *
12865333 CATATAAATTACTGAATTGTTGATTTT
1 CATATAAATTACTGAAGTATTGATTTT
12865360 CAAGCCATCG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.02
40 55 0.98
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (40 bp):
CATATAAATTACTGAAGTATTGATTTTTACTAATTCTTTA
Found at i:12874196 original size:46 final size:46
Alignment explanation
Indices: 12874049--12874177 Score: 206
Period size: 46 Copynumber: 2.8 Consensus size: 46
12874039 TGTAACCCGC
* *
12874049 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACGTTCGCAT
* *
12874095 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
12874141 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
12874178 TGCTCAATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 2 0.03
46 75 0.97
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:12881637 original size:46 final size:46
Alignment explanation
Indices: 12881570--12881826 Score: 354
Period size: 46 Copynumber: 5.6 Consensus size: 46
12881560 TTTTTGAAAT
12881570 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
* *
12881616 GAAATGTGTAAAACCATGGTTGAAAGATACCATGACAACATGATAC
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
** *
12881662 GAAATGTGTAAGACCATGGTTGAAAGATAGTATGGCAACATGATAT
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
* * * *
12881708 GAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACGTGACAT
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
** * * *
12881754 GAAATGAATAAGTCCATGGTTGAAAGATACCATGACAACATGACA-
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
* *
12881799 GAAAATGAGTAAGACCATAGTTGAAAGA
1 G-AAATGTGTAAGACCATGGTTGAAAGA
12881827 CACTATGTCA
Statistics
Matches: 189, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 188 0.99
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (46 bp):
GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
Found at i:12881686 original size:21 final size:21
Alignment explanation
Indices: 12881662--12881732 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
12881652 AACATGATAC
12881662 GAAATGTGTAAGACCATGGTT
1 GAAATGTGTAAGACCATGGTT
* * *
12881683 GAAA-GATAGTATGGCAACATGATAT
1 GAAATG-T-GTA-AG-ACCATGGT-T
*
12881708 GAAATGTGTAAGACTATGGTT
1 GAAATGTGTAAGACCATGGTT
12881729 GAAA
1 GAAA
12881733 GATACCATGG
Statistics
Matches: 37, Mismatches: 7, Indels: 12
0.66 0.12 0.21
Matches are distributed among these distances:
20 1 0.03
21 10 0.27
22 8 0.22
23 2 0.05
24 9 0.24
25 6 0.16
26 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.27
Consensus pattern (21 bp):
GAAATGTGTAAGACCATGGTT
Found at i:12881816 original size:138 final size:138
Alignment explanation
Indices: 12881568--12881826 Score: 403
Period size: 138 Copynumber: 1.9 Consensus size: 138
12881558 GCTTTTTGAA
* **
12881568 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATACGAAATGTGTAAAACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACACGAAATGAATAAAACCAT
* * *
12881633 GGTTGAAAGATACCATGACAACATGATACGAAATGTGTAAGACCATGGTTGAAAGATAGTATGGC
66 GGTTGAAAGATACCATGACAACATGACACGAAATGAGTAAGACCATAGTTGAAAGATAGTATGGC
12881698 AACATGAT
131 AACATGAT
* * * **
12881706 ATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGTCCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACACGAAATGAATAAAACCAT
12881771 GGTTGAAAGATACCATGACAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
66 GGTTGAAAGATACCATGACAACATGACACG-AAATGAGTAAGACCATAGTTGAAAGA
12881827 CACTATGTCA
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
137 1 0.01
138 108 0.99
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (138 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACACGAAATGAATAAAACCAT
GGTTGAAAGATACCATGACAACATGACACGAAATGAGTAAGACCATAGTTGAAAGATAGTATGGC
AACATGAT
Found at i:12883606 original size:17 final size:17
Alignment explanation
Indices: 12883562--12883608 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
12883552 ATTTTATACA
* * *
12883562 ATTTATGAACATTTTAT
1 ATTTATAAATATTTAAT
*
12883579 ATTT-GAAATATTTAAT
1 ATTTATAAATATTTAAT
12883595 ATTTATAAATATTT
1 ATTTATAAATATTT
12883609 TTATATAGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (17 bp):
ATTTATAAATATTTAAT
Found at i:12884174 original size:30 final size:31
Alignment explanation
Indices: 12884102--12884178 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
12884092 ATAAAGTAAT
*
12884102 ATTTAATTCTTAAATTTGATAAATTTTATCA
1 ATTTAATCCTTAAATTTGATAAATTTTATCA
*
12884133 ATTTAATCCTTAAATTT-A-ACAATTTTTTCAA
1 ATTTAATCCTTAAATTTGATA-AATTTTATC-A
*
12884164 ATTTGA-CCTTAAATT
1 ATTTAATCCTTAAATT
12884179 AGATTTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.02
30 18 0.44
31 22 0.54
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (31 bp):
ATTTAATCCTTAAATTTGATAAATTTTATCA
Found at i:12886612 original size:4 final size:4
Alignment explanation
Indices: 12886603--12886669 Score: 134
Period size: 4 Copynumber: 16.8 Consensus size: 4
12886593 ATTAATATAA
12886603 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12886651 TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TAT
12886670 AAAGGGCAAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 63 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:12892085 original size:39 final size:39
Alignment explanation
Indices: 12892040--12892140 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 39
12892030 ATCGTGATCT
* * * *
12892040 GAAGCCCGAAGTCTAGCTGAAGTACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
12892079 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGTTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
12892118 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
12892141 CCATCAGAGC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.37, C:0.23, G:0.27, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:12892141 original size:18 final size:18
Alignment explanation
Indices: 12892038--12892142 Score: 68
Period size: 18 Copynumber: 5.5 Consensus size: 18
12892028 ACATCGTGAT
* *
12892038 CTGAAGCCCGAAGTCTAG
1 CTGAAGCCCGAAGGCTAA
* **
12892056 CTGAAGTACATAAGTGCTAAA
1 CTGAAG-CCCGAAG-GCT-AA
*
12892077 CGGAAGCCCGAAGGCTAA
1 CTGAAGCCCGAAGGCTAA
*
12892095 CTGAAGCACAC-AAGTGTTAAA
1 CTGAAGC-C-CGAAG-GCT-AA
*
12892116 CGGAAGCCCGAAGGCTAA
1 CTGAAGCCCGAAGGCTAA
12892134 CTGAAGCCC
1 CTGAAGCCC
12892143 ATCAGAGCTG
Statistics
Matches: 65, Mismatches: 14, Indels: 16
0.68 0.15 0.17
Matches are distributed among these distances:
18 24 0.37
19 14 0.22
20 13 0.20
21 14 0.22
ACGTcount: A:0.35, C:0.25, G:0.26, T:0.14
Consensus pattern (18 bp):
CTGAAGCCCGAAGGCTAA
Found at i:12897946 original size:34 final size:34
Alignment explanation
Indices: 12897902--12897987 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 34
12897892 ACACAATTAA
* *
12897902 CCATCCAGCACACCAGATGCTTATATGAGCTAAT
1 CCATCCAGCACACCAAATGCTCATATGAGCTAAT
* *
12897936 CCATCTAGCACACCAAATGCTCGTATGAGCTAAT
1 CCATCCAGCACACCAAATGCTCATATGAGCTAAT
*
12897970 CCATCCAGCACATCAAAT
1 CCATCCAGCACACCAAAT
12897988 AACACTGTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.34, C:0.31, G:0.13, T:0.22
Consensus pattern (34 bp):
CCATCCAGCACACCAAATGCTCATATGAGCTAAT
Found at i:12903437 original size:24 final size:24
Alignment explanation
Indices: 12903410--12903459 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
12903400 CAGACACGGG
*
12903410 CTGGGACACGGCCGTGTGTTCTTA
1 CTGGGACACGACCGTGTGTTCTTA
12903434 CTGGGACACGACCGTGTGTTCTTA
1 CTGGGACACGACCGTGTGTTCTTA
12903458 CT
1 CT
12903460 TCAAATGCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.14, C:0.26, G:0.30, T:0.30
Consensus pattern (24 bp):
CTGGGACACGACCGTGTGTTCTTA
Found at i:12907192 original size:16 final size:16
Alignment explanation
Indices: 12907148--12907193 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
12907138 ATTTATCCAA
*
12907148 TTAT-ATTTAATGATT
1 TTATAATTTAATAATT
*
12907163 TTATAATTTTATAATT
1 TTATAATTTAATAATT
12907179 TTATTAA-TTAATAAT
1 TTA-TAATTTAATAAT
12907194 ATATTATGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 4 0.15
16 19 0.73
17 3 0.12
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TTATAATTTAATAATT
Found at i:12913825 original size:149 final size:152
Alignment explanation
Indices: 12913644--12913945 Score: 475
Period size: 153 Copynumber: 2.0 Consensus size: 152
12913634 ATAGTAATGG
* *
12913644 TTATTATTATTTTTAAAATAATTATTAATT-AAA-TT-TTTTTATATTATTATTATATTTCTAGA
1 TTATTATTATTTTTAAAATAATTACTAATTAAAATTTATTTTTATATTATTATTATATGTCTAGA
* *
12913706 CATAGATGGGTGTATTAAAGAATTGATCTATACAAAATTAATTGAATTTGACGTCACGAGTTAAT
66 CACAAATGGGTGTATTAAAGAATTGATCTATACAAAATTAATTGAATTTGACGTCACGAGTTAAT
*
12913771 TATACACCAAACAGTCTGAATA
131 TAAACACCAAACAGTCTGAATA
*
12913793 TTATTATTATTTTTAAAATAATTACTAATTAAAATTTTATTTTTATATTATTATTATATGTCTGG
1 TTATTATTATTTTTAAAATAATTACTAATTAAAA-TTTATTTTTATATTATTATTATATGTCTAG
* * * *
12913858 ACACAAATGGGTGTGTTAAAGAATTGATTTATACAAAATTAATTGAGTTTGACGTCACTAGTTAA
65 ACACAAATGGGTGTATTAAAGAATTGATCTATACAAAATTAATTGAATTTGACGTCACGAGTTAA
*
12913923 TTAAACACCAAACAGTTTGAATA
130 TTAAACACCAAACAGTCTGAATA
12913946 CATCAATTAA
Statistics
Matches: 138, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
149 29 0.21
150 3 0.02
152 2 0.01
153 104 0.75
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.43
Consensus pattern (152 bp):
TTATTATTATTTTTAAAATAATTACTAATTAAAATTTATTTTTATATTATTATTATATGTCTAGA
CACAAATGGGTGTATTAAAGAATTGATCTATACAAAATTAATTGAATTTGACGTCACGAGTTAAT
TAAACACCAAACAGTCTGAATA
Found at i:12922179 original size:5 final size:6
Alignment explanation
Indices: 12922162--12922186 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
12922152 AACCAAAAGC
12922162 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
12922187 GTTTGGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:12926924 original size:65 final size:66
Alignment explanation
Indices: 12926842--12926980 Score: 228
Period size: 65 Copynumber: 2.1 Consensus size: 66
12926832 AAGCCAAAAC
*
12926842 ATGTCTGATCAAGAATCACAATCAGTTCTTGCCAGAGATGCAGAAATCGAATGATGTAGGAATAG
1 ATGTCTGATCAAGAATCACAATCAGTTCTTGCCAGAGATACAGAAATCGAATGATGTAGGAATAG
12926907 G
66 G
* * *
12926908 ATGTC-GATCAAGAATCACAATCAGTTCTTGCCAGAGATATAGAAATCGAATGGTGTAGGACTAG
1 ATGTCTGATCAAGAATCACAATCAGTTCTTGCCAGAGATACAGAAATCGAATGATGTAGGAATAG
12926972 G
66 G
12926973 ATGT-TGAT
1 ATGTCTGAT
12926981 ATTTGTCCAT
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
65 63 0.93
66 5 0.07
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (66 bp):
ATGTCTGATCAAGAATCACAATCAGTTCTTGCCAGAGATACAGAAATCGAATGATGTAGGAATAG
G
Found at i:12932436 original size:3 final size:3
Alignment explanation
Indices: 12932386--12932419 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
12932376 TCTAATCACT
12932386 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
12932420 ATGTGTAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:12933514 original size:18 final size:17
Alignment explanation
Indices: 12933491--12933543 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 17
12933481 ATTAATTAAT
12933491 TTTTTAAATATTTTAAAA
1 TTTTTAAAT-TTTTAAAA
*
12933509 TTTTTATACTTTTTAAATA
1 TTTTTA-AATTTTTAAA-A
12933528 TTTTT-AATTTTTAAAA
1 TTTTTAAATTTTTAAAA
12933544 ATTAATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
16 1 0.03
17 9 0.29
18 13 0.42
19 8 0.26
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTAAATTTTTAAAA
Found at i:12946821 original size:43 final size:43
Alignment explanation
Indices: 12946773--12946922 Score: 146
Period size: 43 Copynumber: 3.5 Consensus size: 43
12946763 TTTACGGAGA
12946773 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
12946816 TGTGATTACGTGTAAGATCATGTCTGGGACATTGGCATCAT-TA-
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTAT
* * * * * * *
12946859 TATGATTTCGTATAAGACTC-TGTCTGGGATAGTGGCACTG-AT
1 TGTGATTACATGTAAGAC-CATGTCTGGGACATTGGCATTGTAT
*
12946901 ATGTGATAACATGTAAGACCAT
1 -TGTGATTACATGTAAGACCAT
12946923 ATCCGGGATA
Statistics
Matches: 86, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 79 0.92
44 3 0.03
45 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:12948697 original size:18 final size:18
Alignment explanation
Indices: 12948665--12948706 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
12948655 GACAATGTGA
*
12948665 TTATGT-TTGATGGATGT
1 TTATGTGTTAATGGATGT
*
12948682 TTATGTGTTAATGGATTT
1 TTATGTGTTAATGGATGT
12948700 TTATGTG
1 TTATGTG
12948707 AGAAATGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (18 bp):
TTATGTGTTAATGGATGT
Found at i:12949827 original size:22 final size:22
Alignment explanation
Indices: 12949795--12949845 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
12949785 TAATTCAAGC
12949795 AATCTTTATTTGTCGCAAATTCA
1 AATC-TTATTTGTCGCAAATTCA
12949818 AATCTTATTTGTCGCAAATTCA
1 AATCTTATTTGTCGCAAATTCA
*
12949840 AGTCTT
1 AATCTT
12949846 TCTGAGTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.29, C:0.18, G:0.10, T:0.43
Consensus pattern (22 bp):
AATCTTATTTGTCGCAAATTCA
Found at i:12957514 original size:14 final size:14
Alignment explanation
Indices: 12957495--12957523 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
12957485 TATGTCATAT
12957495 TTTTATGTTTGAGA
1 TTTTATGTTTGAGA
12957509 TTTTATGTTTGAGA
1 TTTTATGTTTGAGA
12957523 T
1 T
12957524 GTGACTTTTA
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:0.21, C:0.00, G:0.21, T:0.59
Consensus pattern (14 bp):
TTTTATGTTTGAGA
Found at i:12961732 original size:37 final size:37
Alignment explanation
Indices: 12961691--12961798 Score: 94
Period size: 37 Copynumber: 3.1 Consensus size: 37
12961681 TTACATTAAT
12961691 CTTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAA
1 CTTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAA
* *
12961728 CTTTT--TAATAC--AA-CATTT-A-TTAC--A-T-TAAT
1 CTTTTAATAA-ACTTAAGC-TTTAAGTT-CTTAGTACAAA
12961757 CTTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAA
1 CTTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAA
12961794 CTTTT
1 CTTTT
12961799 TTAATACACC
Statistics
Matches: 53, Mismatches: 4, Indels: 28
0.62 0.05 0.33
Matches are distributed among these distances:
29 7 0.13
30 3 0.06
31 4 0.08
32 7 0.13
33 6 0.11
34 7 0.13
35 4 0.08
36 3 0.06
37 12 0.23
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (37 bp):
CTTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAA
Found at i:12961737 original size:66 final size:66
Alignment explanation
Indices: 12961625--12961824 Score: 328
Period size: 66 Copynumber: 3.0 Consensus size: 66
12961615 TTCTTTTTGT
* * * * *
12961625 TTTTAATAAACTTAAGCTTTTAAGTTGTTTGTAGAAACTCTTTAATACAACGTTTATTACATTAA
1 TTTTAATAAACTTAAGC-TTTAAGTTCTTAGTACAAACTTTTTAATACAACATTTATTACATTAA
12961690 TC
65 TC
12961692 TTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAACTTTTTAATACAACATTTATTACATTAAT
1 TTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAACTTTTTAATACAACATTTATTACATTAAT
12961757 C
66 C
*
12961758 TTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAACTTTTTTAATACACCATTTATTACATTAA
1 TTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAAC-TTTTTAATACAACATTTATTACATTAA
12961823 TC
65 TC
12961825 AATGTATTGT
Statistics
Matches: 126, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
66 81 0.64
67 45 0.36
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.45
Consensus pattern (66 bp):
TTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAACTTTTTAATACAACATTTATTACATTAAT
C
Found at i:12969295 original size:19 final size:19
Alignment explanation
Indices: 12969271--12969310 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
12969261 TGAAAATGTG
12969271 TAAGTTATGCCTATAAATT
1 TAAGTTATGCCTATAAATT
*
12969290 TAAGTTATGCCTATGAATT
1 TAAGTTATGCCTATAAATT
12969309 TA
1 TA
12969311 TGATGACACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (19 bp):
TAAGTTATGCCTATAAATT
Found at i:12973423 original size:40 final size:40
Alignment explanation
Indices: 12973278--12973423 Score: 190
Period size: 40 Copynumber: 3.6 Consensus size: 40
12973268 TACTAGCTCA
* * *
12973278 AAGCCTGCGGAACTTTAAGCCC-GA-ATATAGTACCAGCACT-
1 AAGCCTGCGGGA-TTTAA-CCCGGATATACATTACCAGCA-TG
*
12973318 AAGCCTGCGGGATTTAACCCGGATATACATTACCAGCACG
1 AAGCCTGCGGGATTTAACCCGGATATACATTACCAGCATG
12973358 AAGCCTGCGGGATTTAACCCGGATATACATTACCAGCATG
1 AAGCCTGCGGGATTTAACCCGGATATACATTACCAGCATG
* *
12973398 AAGCCTGCAGGATTTAACCCAGATAT
1 AAGCCTGCGGGATTTAACCCGGATAT
12973424 TTAATATATC
Statistics
Matches: 96, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
38 3 0.03
39 7 0.07
40 86 0.90
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (40 bp):
AAGCCTGCGGGATTTAACCCGGATATACATTACCAGCATG
Found at i:12989236 original size:30 final size:30
Alignment explanation
Indices: 12989193--12989255 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
12989183 ACTTATTTTA
12989193 TTGTTAATATTGTTATTATTTTAGAGGCAT
1 TTGTTAATATTGTTATTATTTTAGAGGCAT
* *
12989223 TTGTTATTTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATATTGTTATTATTTTAGAGGCAT
12989253 TTG
1 TTG
12989256 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.22, C:0.03, G:0.17, T:0.57
Consensus pattern (30 bp):
TTGTTAATATTGTTATTATTTTAGAGGCAT
Found at i:12989411 original size:12 final size:11
Alignment explanation
Indices: 12989378--12989413 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
12989368 TATATATATT
*
12989378 TAAAAATTATA
1 TAAAAATAATA
12989389 TAAAAATAATA
1 TAAAAATAATA
12989400 TAAAAATGAATA
1 TAAAAAT-AATA
12989412 TA
1 TA
12989414 GGCGGGCCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:12991340 original size:16 final size:16
Alignment explanation
Indices: 12991319--12991353 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
12991309 CATGTAAGAC
12991319 CATGTCTGGGACATGG
1 CATGTCTGGGACATGG
12991335 CATGTCTGGGACATGG
1 CATGTCTGGGACATGG
12991351 CAT
1 CAT
12991354 TGGCATCGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (16 bp):
CATGTCTGGGACATGG
Found at i:12993640 original size:40 final size:40
Alignment explanation
Indices: 12993566--12993790 Score: 294
Period size: 40 Copynumber: 5.6 Consensus size: 40
12993556 AACCCAAGTA
* * *
12993566 CCTTCGGGATTTAG-CCGGATATAG-CAATTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
**
12993605 CCTTCGGGTTTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
12993645 CCTTCGGGATTTAGCCCGGGTATAG-CAACTACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATG
*
12993688 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
12993728 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
12993768 CCATCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
12993791 CATCCAAATA
Statistics
Matches: 167, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 14 0.08
40 116 0.69
41 1 0.01
43 35 0.21
44 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:12993689 original size:83 final size:81
Alignment explanation
Indices: 12993566--12993790 Score: 316
Period size: 83 Copynumber: 2.8 Consensus size: 81
12993556 AACCCAAGTA
**
12993566 CCTTCGGGATTTAG-CCGGATATAGCAA-T-TCGCACAAATGCCTTCGGGTTTTAGCCCGGATAT
1 CCTTCGGGATTTAGCCCGGATATAGCAACTAT-GCACAAATGCCTTCGGGACTTAGCCCGGATAT
12993628 AGTCACTAGCACAAATG
65 AGTCACTAGCACAAATG
* *
12993645 CCTTCGGGATTTAGCCCGGGTATAGCAACTACTTGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGATTTAGCCCGGATATAGCAACTA--TGCACAAATGCCTTCGGGACTTAGCCCGGATA
12993710 TAGTCACTAGCACAAATG
64 TAGTCACTAGCACAAATG
* * *
12993728 CCTTCGAGACTTAGCCCGGATATAGTC-ACTA-GCACAAATGCCATCGGGACTTAGCCCGGATAT
1 CCTTCGGGATTTAGCCCGGATATAG-CAACTATGCACAAATGCCTTCGGGACTTAGCCCGGATAT
12993791 CATCCAAATA
Statistics
Matches: 131, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
79 14 0.11
80 42 0.32
81 1 0.01
83 72 0.55
84 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (81 bp):
CCTTCGGGATTTAGCCCGGATATAGCAACTATGCACAAATGCCTTCGGGACTTAGCCCGGATATA
GTCACTAGCACAAATG
Found at i:12995947 original size:13 final size:13
Alignment explanation
Indices: 12995925--12995957 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
12995915 TTACTTTAGT
12995925 TTAA-TTAGTTAA
1 TTAATTTAGTTAA
12995937 TTAATTTAGTTAA
1 TTAATTTAGTTAA
*
12995950 TTAGTTTA
1 TTAATTTA
12995958 ATAAACAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (13 bp):
TTAATTTAGTTAA
Found at i:13000096 original size:26 final size:26
Alignment explanation
Indices: 13000036--13000107 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
13000026 ATGAAGTTTT
* *
13000036 CCACAAAGGCATTCCTTTCATACTCTC
1 CCACAAAGGC-TTTCTTTCATACTATC
* * *
13000063 CCAAAAAGGCTTTCTTTCATATTATG
1 CCACAAAGGCTTTCTTTCATACTATC
*
13000089 CCACAAAGGGTTTTCTTTC
1 CCACAAA-GGCTTTCTTTC
13000108 CAAACATGTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
26 18 0.49
27 19 0.51
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (26 bp):
CCACAAAGGCTTTCTTTCATACTATC
Found at i:13011224 original size:39 final size:40
Alignment explanation
Indices: 13011073--13011242 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
13011063 GGACTAAGAT
* * *
13011073 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
13011113 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
13011153 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
13011193 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
13011232 CCGAAGGCATT
1 CCGAAGGCATT
13011243 TGAACGAGGA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:13011262 original size:79 final size:80
Alignment explanation
Indices: 13011095--13011277 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
13011085 GTGCGAGATA
* * * *
13011095 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
13011160 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
13011175 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
13011239 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
13011254 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
13011278 TACGTGAATT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.55
80 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:13020995 original size:39 final size:40
Alignment explanation
Indices: 13020844--13021013 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
13020834 GGACTAAGAT
* * *
13020844 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
13020884 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
13020924 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
13020964 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
13021003 CCGAAGGCATT
1 CCGAAGGCATT
13021014 TGAACGAGGA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:13021033 original size:79 final size:80
Alignment explanation
Indices: 13020866--13021048 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
13020856 GTGCGAGATA
* * * *
13020866 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
13020931 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
13020946 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
13021010 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
13021025 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
13021049 TACGTGAATT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.55
80 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:13058147 original size:15 final size:15
Alignment explanation
Indices: 13058127--13058155 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13058117 CAATATCTAA
13058127 ATAAAGCCCTCACTT
1 ATAAAGCCCTCACTT
13058142 ATAAAGCCCTCACT
1 ATAAAGCCCTCACT
13058156 ATTCATCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.34, G:0.07, T:0.24
Consensus pattern (15 bp):
ATAAAGCCCTCACTT
Found at i:13061939 original size:68 final size:67
Alignment explanation
Indices: 13061867--13062016 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
13061857 CATCATGTGT
* * * *
13061867 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
13061929 ATGTAG
62 ATGTAG
** * *
13061935 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
13062000 AG
66 AG
13062002 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
13062017 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:13061972 original size:64 final size:64
Alignment explanation
Indices: 13061891--13062074 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
13061881 AGACATTATG
* *
13061891 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
13061955 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
13062020 AA
63 AA
* * * *
13062022 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
13062075 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:13066094 original size:43 final size:44
Alignment explanation
Indices: 13066046--13066142 Score: 110
Period size: 43 Copynumber: 2.2 Consensus size: 44
13066036 ATCACATCAG
* *
13066046 GGTCTTACATGA-AAT-TGATTATCAAAGCCAATGTCCCAGACAT
1 GGTCTTACATGATAATCTCAATA-CAAAGCCAATGTCCCAGACAT
* * * *
13066089 GGTCTTACA-CATAATCTCAATACAATGCTAATGTCCCCGACAT
1 GGTCTTACATGATAATCTCAATACAAAGCCAATGTCCCAGACAT
13066132 GGTCTTACATG
1 GGTCTTACATG
13066143 TATTCACATC
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
42 1 0.02
43 39 0.89
44 4 0.09
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (44 bp):
GGTCTTACATGATAATCTCAATACAAAGCCAATGTCCCAGACAT
Found at i:13068723 original size:29 final size:29
Alignment explanation
Indices: 13068681--13068739 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
13068671 AATTGAAATT
*
13068681 ATTACAGCAAGATCGCTCATTCCCAAACC
1 ATTACAGCAAGATCACTCATTCCCAAACC
13068710 ATTACAGCAAGATCACTCATTCCCAAACC
1 ATTACAGCAAGATCACTCATTCCCAAACC
13068739 A
1 A
13068740 AGTACCTTCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.34, G:0.08, T:0.20
Consensus pattern (29 bp):
ATTACAGCAAGATCACTCATTCCCAAACC
Found at i:13068814 original size:40 final size:40
Alignment explanation
Indices: 13068744--13068841 Score: 137
Period size: 40 Copynumber: 2.5 Consensus size: 40
13068734 AAACCAAGTA
* * *
13068744 CCTTCGGGATTTAG-CCGGATATAGCTACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
13068783 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATG
*
13068823 CCTTCGGGGCTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
13068842 TTATCATCCG
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
39 14 0.26
40 39 0.74
ACGTcount: A:0.20, C:0.30, G:0.26, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
Found at i:13070798 original size:52 final size:52
Alignment explanation
Indices: 13070720--13070824 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
13070710 TTATCCTTAA
13070720 TTTTGCTATCATTCTGCACTAATATCGCTGCATTAGTTAATTCTAGATTGTG
1 TTTTGCTATCATTCTGCACTAATATCGCTGCATTAGTTAATTCTAGATTGTG
13070772 TTTTGCTATCATTCTGCACTAATATCGCTGCATTAGTTAATTCTAGATTGTG
1 TTTTGCTATCATTCTGCACTAATATCGCTGCATTAGTTAATTCTAGATTGTG
13070824 T
1 T
13070825 CCAAAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (52 bp):
TTTTGCTATCATTCTGCACTAATATCGCTGCATTAGTTAATTCTAGATTGTG
Found at i:13072522 original size:5 final size:5
Alignment explanation
Indices: 13072514--13072545 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
13072504 GGAAAGTATT
13072514 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA
13072546 TTACAACAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:13073469 original size:376 final size:375
Alignment explanation
Indices: 13072776--13073530 Score: 1492
Period size: 376 Copynumber: 2.0 Consensus size: 375
13072766 TTATCATAAA
13072776 AATACCTTGGTGGATAGTTTATAAGATTGGAAGAACATCAGTGCACCAACTACCTTCTGAACCAC
1 AATACCTTGGTGGATAGTTTATAAGATTGGAAGAACATCAGTGCACCAACTACCTTCTGAACCAC
13072841 TTATTTCCATTTTGGGCGGATACTATCACAATTTCGGCACACACTTCCACGCTAACAATCATACT
66 TTATTTCCATTTTGGGCGGATACTATCACAATTTCGGCACACACTTCCACGCTAACAATCATACT
13072906 CTTAACATACCAATTATGTAATATCCTGAATTAGGGCTTAATCGTAATAGTGGTTTCATGACCAC
131 CTTAACATACCAATTATGTAATATCCTGAATTAGGGCTTAATCGTAATAGTGGTTTCATGACCAC
13072971 AAATCTGAGATAGAAATAATAATTTTATAATTATTTTGATAATTATGATATGATTGCATGATTGT
196 AAATCTGAGATAGAAATAATAATTTTATAATTATTTTGATAATTATGATATGATTGCATGATTGT
13073036 GTGAAAATTTCGTGATGAAATTCTATGCCTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAA
261 GTGAAAATTTCGTGATGAAATTCTATGCCTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAA
13073101 TAAGTTGCAAAACTTGCATTCTAGAAGTTTTTAGTATGAAATTGTTTTGGG
326 TAAGTTGCAAAACTTGCATTCTAGAAGTTTTTAGTATGAAATTGTTTT-GG
13073152 AATACCTTGGTGGATAGTTTATAAGATTGGAAGAACATCAGTGCACCAACTACCTTCTGAACCAC
1 AATACCTTGGTGGATAGTTTATAAGATTGGAAGAACATCAGTGCACCAACTACCTTCTGAACCAC
13073217 TTATTTCCATTTTGGGCGGATACTATCACAATTTCGGCACACACTTCCACGCTAACAATCATACT
66 TTATTTCCATTTTGGGCGGATACTATCACAATTTCGGCACACACTTCCACGCTAACAATCATACT
*
13073282 CTTAACATACCAATTATGTAATATCCTGAATTAGGGCTTAATCGTAATAGTGGTTTCGTGACCAC
131 CTTAACATACCAATTATGTAATATCCTGAATTAGGGCTTAATCGTAATAGTGGTTTCATGACCAC
13073347 AAATCTGAGATAGAAATAATAATTTTATAATTATTTTGATAATTATGATATGATTGCATGATTGT
196 AAATCTGAGATAGAAATAATAATTTTATAATTATTTTGATAATTATGATATGATTGCATGATTGT
13073412 GTGAAAATTTCGTGATGAAATTCTATGCCTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAA
261 GTGAAAATTTCGTGATGAAATTCTATGCCTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAA
13073477 TAAGTTGCAAAACTTGCATTCTAGAAGTTTTTAGTATGAAATTGTTTTGG
326 TAAGTTGCAAAACTTGCATTCTAGAAGTTTTTAGTATGAAATTGTTTTGG
13073527 AATA
1 AATA
13073531 TTAATGAGGA
Statistics
Matches: 378, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
375 6 0.02
376 372 0.98
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (375 bp):
AATACCTTGGTGGATAGTTTATAAGATTGGAAGAACATCAGTGCACCAACTACCTTCTGAACCAC
TTATTTCCATTTTGGGCGGATACTATCACAATTTCGGCACACACTTCCACGCTAACAATCATACT
CTTAACATACCAATTATGTAATATCCTGAATTAGGGCTTAATCGTAATAGTGGTTTCATGACCAC
AAATCTGAGATAGAAATAATAATTTTATAATTATTTTGATAATTATGATATGATTGCATGATTGT
GTGAAAATTTCGTGATGAAATTCTATGCCTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAA
TAAGTTGCAAAACTTGCATTCTAGAAGTTTTTAGTATGAAATTGTTTTGG
Found at i:13074642 original size:46 final size:46
Alignment explanation
Indices: 13074592--13074764 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
13074582 TGGTTGAGCA
13074592 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * ** *
13074638 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATATAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
13074683 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
13074731 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
13074765 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 60 0.57
47 29 0.27
48 4 0.04
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:13074748 original size:93 final size:93
Alignment explanation
Indices: 13074589--13074759 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
13074579 GGATGGTTGA
*
13074589 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
13074654 TGAGTCCGAGTTCGTGAGATATAACTAG
66 TGAGTCCGAGTTCGTGAGATATAACTAG
* * *
13074682 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
13074747 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
13074760 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATATAACTAG
Found at i:13075026 original size:19 final size:20
Alignment explanation
Indices: 13074989--13075026 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
13074979 ATAAGGTGGT
13074989 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
13075009 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
13075027 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:13082225 original size:46 final size:46
Alignment explanation
Indices: 13082175--13082300 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
13082165 TGGTTGAGCA
*
13082175 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
13082221 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
13082267 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
13082301 GGGGCGGGTT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:13082562 original size:19 final size:20
Alignment explanation
Indices: 13082525--13082562 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
13082515 ATAAGGTGGT
13082525 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
13082545 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
13082563 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:13087485 original size:17 final size:17
Alignment explanation
Indices: 13087465--13087497 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13087455 AACACCTCTA
13087465 ATACCTCTCAAAAACCT
1 ATACCTCTCAAAAACCT
*
13087482 ATACCTCTCGAAAACC
1 ATACCTCTCAAAAACC
13087498 CCTTTTCTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.36, G:0.03, T:0.21
Consensus pattern (17 bp):
ATACCTCTCAAAAACCT
Found at i:13093788 original size:28 final size:28
Alignment explanation
Indices: 13093756--13093810 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
13093746 AAAATAAATT
13093756 AGCAAGGCTACACAAGAATTCACTATGA
1 AGCAAGGCTACACAAGAATTCACTATGA
13093784 AGCAAGGCTACACAAGAATTCACTATG
1 AGCAAGGCTACACAAGAATTCACTATG
13093811 GCAAATGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (28 bp):
AGCAAGGCTACACAAGAATTCACTATGA
Found at i:13102103 original size:20 final size:21
Alignment explanation
Indices: 13102078--13102116 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
13102068 CCGAATGTAC
13102078 TTTTCATATACA-CATATAAT
1 TTTTCATATACATCATATAAT
*
13102098 TTTTCATTTACATCATATA
1 TTTTCATATACATCATATA
13102117 TGATTTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTCATATACATCATATAAT
Found at i:13104740 original size:28 final size:28
Alignment explanation
Indices: 13104709--13104763 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
13104699 TGAATTATCA
13104709 AGGATGGCACTAAGTGTGCGACACATCT
1 AGGATGGCACTAAGTGTGCGACACATCT
* *
13104737 AGGATGGCACTTAGTGTGCGATACATC
1 AGGATGGCACTAAGTGTGCGACACATC
13104764 CATGAAGGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (28 bp):
AGGATGGCACTAAGTGTGCGACACATCT
Found at i:13104773 original size:28 final size:28
Alignment explanation
Indices: 13104709--13104785 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
13104699 TGAATTATCA
* * *
13104709 AGGATGGCACTAAGTGTGCGACACATCT
1 AGGAAGGCACTTAGTGTGCGACACATCC
* *
13104737 AGGATGGCACTTAGTGTGCGATACATCC
1 AGGAAGGCACTTAGTGTGCGACACATCC
*
13104765 ATGAAGGCA-TTGAGTGTGCGA
1 AGGAAGGCACTT-AGTGTGCGA
13104786 AATTTCAAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 2 0.05
28 41 0.95
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.23
Consensus pattern (28 bp):
AGGAAGGCACTTAGTGTGCGACACATCC
Found at i:13106203 original size:14 final size:15
Alignment explanation
Indices: 13106186--13106214 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13106176 TCACAAAAAT
13106186 TTCACACAT-ATAAA
1 TTCACACATAATAAA
13106200 TTCACACATAATAAA
1 TTCACACATAATAAA
13106215 CACTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:13136588 original size:43 final size:43
Alignment explanation
Indices: 13136455--13136612 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
13136445 CAATGTCGTA
* * * *
13136455 TCCCAGATATGGTCTTACATGTTATCAC-ATATCGATGCCAATT
1 TCCCAGACATGCTCTTACACGTAATCACAATA-CGATGCCAATT
* * * * * *
13136498 TCCCAAACAGGGC-CTTACACGAAATCGATTAAT--GATGCTAATG
1 TCCCAGACA-TGCTCTTACACGTAATC-A-CAATACGATGCCAATT
*
13136541 TCCCAGACATGCTCTTACACGTAATCACAATACAATGCCAATT
1 TCCCAGACATGCTCTTACACGTAATCACAATACGATGCCAATT
* *
13136584 TCCCAGACATGGTCTTACATGTAATCACA
1 TCCCAGACATGCTCTTACACGTAATCACA
13136613 TCTTTGTAAC
Statistics
Matches: 89, Mismatches: 19, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
41 3 0.03
42 3 0.03
43 79 0.89
44 2 0.02
46 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGCTCTTACACGTAATCACAATACGATGCCAATT
Found at i:13142556 original size:79 final size:80
Alignment explanation
Indices: 13142425--13142572 Score: 221
Period size: 79 Copynumber: 1.9 Consensus size: 80
13142415 TATTCGGATG
* *
13142425 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAG-CCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATACCAGGCTAAGTCCCGAAGGCA
13142489 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* *
13142504 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGC-AGGTTACT-ATAACCAGGCTAAGTCTCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTAAT-ACCAGGCTAAGTCCCGAAGG
13142567 CATTTG
64 CATTTG
13142573 AGCAAGTACC
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
78 3 0.05
79 46 0.74
80 13 0.21
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATACCAGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:13142586 original size:40 final size:40
Alignment explanation
Indices: 13142425--13142605 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 40
13142415 TATTCGGATG
* *
13142425 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
13142465 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
13142504 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAGGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
13142544 ATAACCAGGCTAAGTCTCGAAGGCATTTGAGCAAG-TACCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CT
* * *
13142584 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
13142606 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
39 50 0.41
40 73 0.59
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:13142594 original size:79 final size:79
Alignment explanation
Indices: 13142425--13142605 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 79
13142415 TATTCGGATG
* *
13142425 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATACCAGGCTAAGCCCGAAGGCAT
* *
13142490 TTGTGCGAGTTACT
66 TTGAGCAAGTTACT
* *
13142504 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGC-AGGTTACT-ATAACCAGGCTAAGTCTCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTAAT-ACCAGGCTAAG-CCCGAAGG
13142567 CATTTGAGCAAG-TACCT
63 CATTTGAGCAAGTTA-CT
* * *
13142584 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
13142606 TACTTGGTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
78 3 0.03
79 62 0.70
80 24 0.27
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATACCAGGCTAAGCCCGAAGGCAT
TTGAGCAAGTTACT
Found at i:13145919 original size:34 final size:35
Alignment explanation
Indices: 13145844--13145941 Score: 112
Period size: 34 Copynumber: 2.8 Consensus size: 35
13145834 TCTTTGTTTA
13145844 CATACTG-TACTAAAATGGGCTAAGGCCCAGACTG
1 CATACTGTTACTAAAATGGGCTAAGGCCCAGACTG
* * * *
13145878 CCT-CTGTTACTAGAATGGGCTCAGGCCTAGACTG
1 CATACTGTTACTAAAATGGGCTAAGGCCCAGACTG
*
13145912 -ATACTGTTACTAAAAGGGGGGCTAAGGCCC
1 CATACTGTTACTAAAA--TGGGCTAAGGCCC
13145942 TAACTGGAAC
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
33 4 0.08
34 37 0.73
36 10 0.20
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (35 bp):
CATACTGTTACTAAAATGGGCTAAGGCCCAGACTG
Found at i:13150098 original size:43 final size:43
Alignment explanation
Indices: 13150029--13150195 Score: 187
Period size: 43 Copynumber: 3.9 Consensus size: 43
13150019 AGCTCGTAAA
* * * *
13150029 ATGCC-ATTTCCCAGATATGATCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * *** *
13150071 ATCCCACTGTCCCAGACAGGGTCTTACACAAAATCA-ATTAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA-TATCG
*
13150114 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT-CG
13150157 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
13150196 CTCGGTAACC
Statistics
Matches: 101, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
42 6 0.06
43 94 0.93
44 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:13158026 original size:7 final size:7
Alignment explanation
Indices: 13158014--13158038 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13158004 TGAACTATTA
13158014 ATATACT
1 ATATACT
13158021 ATATACT
1 ATATACT
13158028 ATATACT
1 ATATACT
13158035 ATAT
1 ATAT
13158039 GATATGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (7 bp):
ATATACT
Found at i:13158103 original size:10 final size:10
Alignment explanation
Indices: 13158088--13158136 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
13158078 CTTTCAACCG
*
13158088 ATATAATACT
1 ATATAATAAT
*
13158098 ATATAACTATT
1 ATATAA-TAAT
13158109 ATTATAATAAT
1 A-TATAATAAT
*
13158120 AAATAATAAT
1 ATATAATAAT
13158130 ATATAAT
1 ATATAAT
13158137 GTACTACTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 20 0.61
11 8 0.24
12 5 0.15
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (10 bp):
ATATAATAAT
Found at i:13158414 original size:250 final size:251
Alignment explanation
Indices: 13158112--13158655 Score: 703
Period size: 252 Copynumber: 2.2 Consensus size: 251
13158102 AACTATTATT
* *
13158112 ATAATA-ATAAATAATAATATATAATGTACTACTATGATATATAGCTATTATTACATTATAGATT
1 ATAATATATAAATAATAATATATAATGTACTACTATTATATATAACTATTATTACATTATAG-TT
* * * *
13158176 -ATAATAAAAGACATGGTATTACATGATAAT-ATAATG-TTTACTCATTGTTGCATATATA-AAC
65 AATAATAAAAGACATAGTATTACATGAT-ATCATAATGCTTAAC-CATTGATGCATATATATAAA
* * * * * *
13158237 T-ATTAATATATTATATACCATATGATATGATATAACATTATGTAATATAGTAGCAG-GATTAAC
128 TGATTAACATATTATATAACAAATGATATAATATAACATTATATAATATAGTAGCAGAG-CTAAC
*
13158300 TTTCAAAG-GTATGAAAAGTAT-AGAGACTTAGAGAATATTTCAACCAATATAATAATAAAGA
192 TTTC-AAGTGTATGAAAAGTATAAG-GACTCAGAGAATATTTCAACCAATATAATAATAAA-A
*
13158361 ATAATATAT-AATAATTAATATATAATGTACTACTATTATATATAACTATTATTATATTATAGTT
1 ATAATATATAAATAA-TAATATATAATGTACTACTATTATATATAACTATTATTACATTATAGTT
* ** *
13158425 AATAGTAAAAGATGTAGTATTACATGATTTCATAATGCTTAACCATTGATGCATATATATAAATG
65 AATAATAAAAGACATAGTATTACATGATATCATAATGCTTAACCATTGATGCATATATATAAATG
* *
13158490 ATTAACATATTATATAATAAATGATATAATATAACATTATATAATATAGTAGGAGAGCTAACTTT
130 ATTAACATATTATATAACAAATGATATAATATAACATTATATAATATAGTAGCAGAGCTAACTTT
* * *
13158555 CAAGTGTATGAAAAGTATAAGGACTCGGAGAATATTTCAACCAGTATAGTAATAAAA
195 CAAGTGTATGAAAAGTATAAGGACTCAGAGAATATTTCAACCAATATAATAATAAAA
*
13158612 ATAATATATGACAATAAGTAATATATAATATACTACTATTATAT
1 ATAATATAT-A-AATAA-TAATATATAATGTACTACTATTATAT
13158656 TATAGAATAT
Statistics
Matches: 257, Mismatches: 25, Indels: 21
0.85 0.08 0.07
Matches are distributed among these distances:
249 14 0.05
250 90 0.35
251 20 0.08
252 100 0.39
253 3 0.01
254 30 0.12
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (251 bp):
ATAATATATAAATAATAATATATAATGTACTACTATTATATATAACTATTATTACATTATAGTTA
ATAATAAAAGACATAGTATTACATGATATCATAATGCTTAACCATTGATGCATATATATAAATGA
TTAACATATTATATAACAAATGATATAATATAACATTATATAATATAGTAGCAGAGCTAACTTTC
AAGTGTATGAAAAGTATAAGGACTCAGAGAATATTTCAACCAATATAATAATAAAA
Found at i:13158754 original size:238 final size:249
Alignment explanation
Indices: 13158112--13158759 Score: 701
Period size: 252 Copynumber: 2.6 Consensus size: 249
13158102 AACTATTATT
* * * *
13158112 ATAATA-ATAAATAA-TAATATATAATGTACTACTATGATATATAGCTATTATTACATTATAGAT
1 ATAATATAT-AATAATTAACATATAATGTAATACTATTATATATA-CTATTATTATATTATAGAT
* * * * * *
13158175 TATAATAAAAGACATGGTATTACATGATAATATAATGTTTACTCATTGTTGCA-TATATAAACTA
64 TATTATAAAAGATATAGTATTACATGATATTATAATGTTTAATCATTGATGCATTATATAAACTA
* * *
13158239 TTAATATATTATATACCATATGATATGATATAACATTATGTAATATAGTAGCAGGATTAACTTTC
129 TTAATATATTATATACTATATGATATGATATAACATTATATAATATAGTAGCAGGACTAACTTTC
*
13158304 AAAGGTATGAAAAGTATAGAGACTTAGAGAATATTTCAACCAATATAATAATAAAGA
194 AAAGGTATGAAAAGTATAGAGACTCAGAGAATATTTCAACCAATATAATAAT-AAGA
* *
13158361 ATAATATATAATAATTAATATATAATGTACTACTATTATATATAACTATTATTATATTATAG-TT
1 ATAATATATAATAATTAACATATAATGTAATACTATTATATAT-ACTATTATTATATTATAGATT
* * * *
13158425 AATAGTAAAAGATGTAGTATTACATGAT-TTCATAATGCTTAACCATTGATGCATATATATAAA-
65 ATTA-TAAAAGATATAGTATTACATGATATT-ATAATGTTTAATCATTGATGCAT-TATATAAAC
* * * * *
13158488 TGATTAACATATTATATAATAAATGATATAATATAACATTATATAATATAGTAGGA-GAGCTAAC
127 T-ATTAATATATTATATACTATATGATATGATATAACATTATATAATATAGTAGCAGGA-CTAAC
* * *
13158552 TTTC-AAGTGTATGAAAAGTATA-AGGACTCGGAGAATATTTCAACCAGTATAGTAAT-A-A
190 TTTCAAAG-GTATGAAAAGTATAGA-GACTCAGAGAATATTTCAACCAATATAATAATAAGA
* * *
13158610 A-AATA-AT-AT-A-TGACA-ATAA-GTAATA-TA-TA-ATATACTACTATTATATTATAGAATA
1 ATAATATATAATAATTAACATATAATGTAATACTATTATATATACTATTATTATATTATAGATTA
* * *
13158665 TTATAAAAGATATAATATTACATTATATTATAATGTTTAATCATTGGT-CAATGTATATAAACTA
66 TTATAAAAGATATAGTATTACATGATATTATAATGTTTAATCATTGATGC-AT-TATATAAACTA
**
13158729 TTAATATATTACGTACTATATGATATGATAT
129 TTAATATATTATATACTATATGATATGATAT
13158760 GTAACACCCT
Statistics
Matches: 341, Mismatches: 43, Indels: 41
0.80 0.10 0.10
Matches are distributed among these distances:
237 1 0.00
238 89 0.26
239 11 0.03
240 2 0.01
241 2 0.01
242 5 0.01
243 4 0.01
244 3 0.01
245 1 0.00
246 2 0.01
247 2 0.01
248 4 0.01
249 18 0.05
250 84 0.25
251 8 0.02
252 105 0.31
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.37
Consensus pattern (249 bp):
ATAATATATAATAATTAACATATAATGTAATACTATTATATATACTATTATTATATTATAGATTA
TTATAAAAGATATAGTATTACATGATATTATAATGTTTAATCATTGATGCATTATATAAACTATT
AATATATTATATACTATATGATATGATATAACATTATATAATATAGTAGCAGGACTAACTTTCAA
AGGTATGAAAAGTATAGAGACTCAGAGAATATTTCAACCAATATAATAATAAGA
Found at i:13162122 original size:20 final size:21
Alignment explanation
Indices: 13162097--13162148 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
13162087 AAGGGTTATT
13162097 TTGTAAA-GT-TGTAAAATAAG
1 TTGTAAATGTGTG-AAAATAAG
13162117 TTGTAAATGTGTGAAAATAA-
1 TTGTAAATGTGTGAAAATAAG
13162137 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
13162149 GTTGCTATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.17
19 4 0.13
20 10 0.33
21 9 0.30
22 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (21 bp):
TTGTAAATGTGTGAAAATAAG
Found at i:13162962 original size:48 final size:48
Alignment explanation
Indices: 13162797--13162965 Score: 157
Period size: 48 Copynumber: 3.6 Consensus size: 48
13162787 TGATATGTGT
* * *
13162797 GCTAGTGTAACACATGTCTGGGACATGCATC-AGCCTCTAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGA-TCTCGAGATATACAA
* * * * ** *
13162845 GGC-AGTGTAAGACATGTCTAGGACATGCATCGGTATGGAGA-CGA-GA
1 -GCTAGTGTAAGACATGTCTGGGACATGCATCGATCTCGAGATATACAA
** *
13162891 TTTAGTGTAAGACATGTTTGGGACATGCATCGATCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGATCTCGAGATATACAA
* *
13162939 GCTAGTTTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
13162966 GCGTCAGCTT
Statistics
Matches: 91, Mismatches: 25, Indels: 9
0.73 0.20 0.07
Matches are distributed among these distances:
46 34 0.37
47 2 0.02
48 53 0.58
49 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGATCTCGAGATATACAA
Found at i:13168047 original size:19 final size:19
Alignment explanation
Indices: 13168023--13168060 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13168013 AATCTTACCA
* *
13168023 GTGAATAGGTTAGGGTACT
1 GTGAATACGTCAGGGTACT
13168042 GTGAATACGTCAGGGTACT
1 GTGAATACGTCAGGGTACT
13168061 ATTTTCTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.11, G:0.34, T:0.29
Consensus pattern (19 bp):
GTGAATACGTCAGGGTACT
Found at i:13174509 original size:48 final size:47
Alignment explanation
Indices: 13174433--13174562 Score: 165
Period size: 47 Copynumber: 2.8 Consensus size: 47
13174423 GTGCGAGTGA
* * * *
13174433 TACCTTGATTTGGC-ACAGGCCATGGTATAGGTATTTCAGTGAGGAGT
1 TACCTTGATTTGGCTACTGGCCATGGTATAGGTA-CTCAGGGAGAAGT
* * *
13174480 TACCTTGATTTGTCTACTGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACTGGCCATGGTATAGGTACTCAGGGAGAAGT
13174527 TACCTTGATTTGGCTA-TGAGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACTG-GCCATGGTATAGGTACT
13174563 TATTGATTGA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 2 0.03
47 53 0.73
48 18 0.25
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACTGGCCATGGTATAGGTACTCAGGGAGAAGT
Found at i:13178153 original size:19 final size:18
Alignment explanation
Indices: 13178118--13178157 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
13178108 AATAAGGGTA
13178118 TTTTTGGAAAAAATTTGAT
1 TTTTTGGAAAAAATTTG-T
**
13178137 TTTTTGGAAAATTTTTGT
1 TTTTTGGAAAAAATTTGT
13178155 TTT
1 TTT
13178158 AAAGAGACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (18 bp):
TTTTTGGAAAAAATTTGT
Done.