Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 161 of 204
Found at i:48726202 original size:100 final size:103
Alignment explanation
Indices: 48726013--48726262 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
48726003 ATTTGGGTAA
48726013 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
48726078 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
48726119 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
48726181 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
48726219 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
48726263 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:48733267 original size:29 final size:30
Alignment explanation
Indices: 48733208--48733265 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
48733198 TCCGAGCCTT
*
48733208 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
48733238 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
48733266 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:48733495 original size:13 final size:13
Alignment explanation
Indices: 48733477--48733508 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
48733467 TTTCCAGCAA
48733477 TTATGAATTTATT
1 TTATGAATTTATT
48733490 TTATGAATTTATT
1 TTATGAATTTATT
*
48733503 TGATGA
1 TTATGA
48733509 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:48733716 original size:50 final size:50
Alignment explanation
Indices: 48733603--48733844 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
48733593 ATTTGGGTAA
* * *
48733603 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
48733659 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
48733709 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
48733759 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
48733809 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
48733845 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:48733792 original size:100 final size:103
Alignment explanation
Indices: 48733603--48733852 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
48733593 ATTTGGGTAA
48733603 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
48733668 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
48733709 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
48733771 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
48733809 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
48733853 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:48749114 original size:61 final size:60
Alignment explanation
Indices: 48749048--48749235 Score: 188
Period size: 61 Copynumber: 3.1 Consensus size: 60
48749038 TTATAATTTA
48749048 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTATTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTATT-AAATCAT
* * * * * * * * *
48749109 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATATTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTATTA-AATCAT
* *
48749168 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTGAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTA-TTAAATCAT
48749229 AATATAT
1 AATATAT
48749236 GATACTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 2 0.02
59 32 0.33
60 23 0.24
61 37 0.38
62 3 0.03
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTATTAAATCAT
Found at i:48749149 original size:120 final size:120
Alignment explanation
Indices: 48749016--48749308 Score: 471
Period size: 120 Copynumber: 2.4 Consensus size: 120
48749006 ATCATATTTA
*
48749016 AACATAATAATTATTAAATATATTATAATTTAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTTAAATATATAATTTAATAAAATTCTTAATAATCAA
*
48749081 TATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
48749136 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTTAAATATATAATTTAATAAAATTCTTAATAATCAA
* *
48749201 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * * * *
48749256 AAAATAATTAATATTAAATATATT-TTATTTAAAATAAATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTT-AAATATATAATTTAATAAAATT
48749309 TAAAATAATT
Statistics
Matches: 160, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
119 4 0.03
120 156 0.98
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTTAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:48749181 original size:14 final size:15
Alignment explanation
Indices: 48749132--48749183 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
48749122 ATAAAATATA
48749132 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
48749147 TATTAAATATATTAT
1 AATTAAATATATTAT
48749162 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
48749175 AATTTAATA
1 AATTAAATA
48749184 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:48749234 original size:59 final size:59
Alignment explanation
Indices: 48749051--48749234 Score: 155
Period size: 59 Copynumber: 3.1 Consensus size: 59
48749041 TAATTTAAAT
* *
48749051 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTATTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTAATCAAATCATA
* * * * * * *
48749110 ATAT-ATGATACTATAAAA-TATAAATTAACATAATTATTATTAAAT-ATATTATAATTAAA--A
1 ATATAAT-TTA--ATAAAATTCTTAA-TAA-TTAA-TATTCTTATATGA-ATT-TAATCAAATCA
48749170 T-
58 TA
* *
48749171 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTGAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTAATCAAATCATA
48749230 ATATA
1 ATATA
48749235 TGATACTATA
Statistics
Matches: 94, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
56 6 0.06
57 12 0.13
58 8 0.09
59 20 0.21
60 8 0.09
61 15 0.16
62 7 0.07
63 12 0.13
64 6 0.06
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTAATCAAATCATA
Found at i:48749305 original size:59 final size:58
Alignment explanation
Indices: 48749122--48749312 Score: 131
Period size: 59 Copynumber: 3.2 Consensus size: 58
48749112 ATATGATACT
* * * *
48749122 ATAAAATATAAATTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTA
1 ATAAAATATAAATTAAAATAATTAATATTAAATATATTTTAATTAAAATAAAT-ATTTA
* ** * * * *
48749181 ATAAAAT-T--CTT--AATAATTAATATTCTTATATGAATTTACTGAAATCATAATATATGATA
1 ATAAAATATAAATTAAAATAATTAATATT-AAATAT-ATTTTAATTAAA--ATAA-ATAT-TTA
* *
48749240 CTATAAAATATAATTTAAAATAATTAATATTAAATATATTTTATTTAAAATAAATGATTTA
1 --ATAAAATATAAATTAAAATAATTAATATTAAATATATTTTAATTAAAATAAAT-ATTTA
*
48749301 ATAAAATTTAAA
1 ATAAAATATAAA
48749313 ATAATTATAA
Statistics
Matches: 98, Mismatches: 20, Indels: 28
0.67 0.14 0.19
Matches are distributed among these distances:
54 11 0.11
55 4 0.04
56 10 0.10
58 6 0.06
59 21 0.21
61 11 0.11
62 7 0.07
64 11 0.11
65 4 0.04
66 13 0.13
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.42
Consensus pattern (58 bp):
ATAAAATATAAATTAAAATAATTAATATTAAATATATTTTAATTAAAATAAATATTTA
Found at i:48749416 original size:88 final size:88
Alignment explanation
Indices: 48749315--48749528 Score: 279
Period size: 88 Copynumber: 2.4 Consensus size: 88
48749305 AATTTAAAAT
* * * * *
48749315 AATTA-TAACTAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATA
1 AATTATTAA-TAATAAATT-TTTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATA
48749379 ATTTAATAA-TATATAATTTCATAA
64 ATTTAATAATTATATAATTTCATAA
*
48749403 AATTATTGATAATAAATTTTTTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
1 AATTATTAATAATAAA-TTTTTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
48749468 TTTAATAATGTTATATAATTTCATAA
65 TTTAATAA--TTATATAATTTCATAA
* *
48749494 ATTTCTTAATAATAAAATGTTTTTATATGAATTTA
1 AATTATTAATAAT-AAAT-TTTTTATATGAATTTA
48749529 CTAAAATCAA
Statistics
Matches: 110, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
88 61 0.55
89 4 0.04
91 26 0.24
92 19 0.17
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (88 bp):
AATTATTAATAATAAATTTTTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAAT
TTAATAATTATATAATTTCATAA
Found at i:48749448 original size:44 final size:44
Alignment explanation
Indices: 48749400--48749528 Score: 118
Period size: 44 Copynumber: 2.8 Consensus size: 44
48749390 TATAATTTCA
*
48749400 TAAAATTATTGATAATAAATTTTTTTATATGAATTTATACAATT
1 TAAAATTATTAATAATAAATTTTTTTATATGAATTTATACAATT
* * ** *
48749444 TAAAATAATTAATATTAAATATAATTTA-AT-AATGTTATATAATT
1 TAAAATTATTAATAATAAAT-TTTTTTATATGAAT-TTATACAATT
* *
48749488 TCATAAATTTCTTAATAATAAAATGTTTTTATATGAATTTA
1 T-A-AAA-TTATTAATAAT-AAATTTTTTTATATGAATTTA
48749529 CTAAAATCAA
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
43 3 0.05
44 29 0.45
45 6 0.09
46 3 0.05
47 12 0.18
48 9 0.14
49 3 0.05
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (44 bp):
TAAAATTATTAATAATAAATTTTTTTATATGAATTTATACAATT
Found at i:48752545 original size:12 final size:12
Alignment explanation
Indices: 48752496--48752551 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
48752486 ATCACCCAAA
48752496 AAAGTATATATT
1 AAAGTATATATT
48752508 AAA-TGATAT-TT
1 AAAGT-ATATATT
* *
48752519 AAA-TACATTTT
1 AAAGTATATATT
48752530 AAAGTATATATT
1 AAAGTATATATT
48752542 AAAGGTATAT
1 AAA-GTATAT
48752552 GTAGTTTTGC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
10 3 0.08
11 12 0.32
12 16 0.43
13 6 0.16
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (12 bp):
AAAGTATATATT
Found at i:48753512 original size:8 final size:8
Alignment explanation
Indices: 48753499--48753537 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
48753489 GTAATGAGCA
48753499 ATACAAAC
1 ATACAAAC
48753507 ATACAAAC
1 ATACAAAC
*
48753515 A-A-AACC
1 ATACAAAC
48753521 ATACAAAC
1 ATACAAAC
48753529 ATACAAAC
1 ATACAAAC
48753537 A
1 A
48753538 AGCAATCGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 4 0.15
7 2 0.07
8 21 0.78
ACGTcount: A:0.64, C:0.26, G:0.00, T:0.10
Consensus pattern (8 bp):
ATACAAAC
Found at i:48755635 original size:24 final size:26
Alignment explanation
Indices: 48755580--48755645 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 26
48755570 AAAATAAAAC
*
48755580 TTTACCAAAATATTATAACTTTTTTTTT
1 TTTACCAAAATA-TATAAC-TTTTTTTA
48755608 TTTACCAAAATAT-TAA-TTTTTTTA
1 TTTACCAAAATATATAACTTTTTTTA
**
48755632 TTTATGAAAATATA
1 TTTACCAAAATATA
48755646 ACAAAAAACC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 18 0.53
26 3 0.09
27 1 0.03
28 12 0.35
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.53
Consensus pattern (26 bp):
TTTACCAAAATATATAACTTTTTTTA
Found at i:48755841 original size:10 final size:11
Alignment explanation
Indices: 48755822--48755861 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
48755812 GGTGCTGCGG
48755822 AAAAGAAGAGA
1 AAAAGAAGAGA
48755833 AAAAG-AGAGA
1 AAAAGAAGAGA
*
48755843 AAAAGAAAAGA
1 AAAAGAAGAGA
48755854 AAAAGAAG
1 AAAAGAAG
48755862 GTATTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:48755993 original size:3 final size:3
Alignment explanation
Indices: 48755987--48756030 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
48755977 AGTATTATTA
48755987 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
48756031 AGTATTAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:48759165 original size:11 final size:11
Alignment explanation
Indices: 48759149--48759175 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
48759139 GCTTATGCTT
48759149 AAATTGTATCC
1 AAATTGTATCC
48759160 AAATTGTATCC
1 AAATTGTATCC
48759171 AAATT
1 AAATT
48759176 AAGTTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (11 bp):
AAATTGTATCC
Found at i:48762253 original size:49 final size:48
Alignment explanation
Indices: 48762172--48762270 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 48
48762162 CCCTAATCAA
*
48762172 CATACAATGTACATATCATAACATAAATACGTATAATGTACATAACAT
1 CATACAATGTACATATAATAACATAAATACGTATAATGTACATAACAT
48762220 CATACAATGTACATATAAATAACATAAATACGTATAATGTACATAACAT
1 CATACAATGTACATAT-AATAACATAAATACGTATAATGTACATAACAT
48762269 CA
1 CA
48762271 AAATATATAT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 16 0.33
49 33 0.67
ACGTcount: A:0.49, C:0.16, G:0.06, T:0.28
Consensus pattern (48 bp):
CATACAATGTACATATAATAACATAAATACGTATAATGTACATAACAT
Found at i:48762274 original size:26 final size:25
Alignment explanation
Indices: 48762188--48762323 Score: 90
Period size: 24 Copynumber: 5.4 Consensus size: 25
48762178 ATGTACATAT
48762188 CATAACAT-AAATACGTATAATGTA
1 CATAACATAAAATACGTATAATGTA
* *
48762212 CATAACATCATACAAT--GTA-CATATA
1 CATAACAT-A-A-AATACGTATAATGTA
*
48762237 AATAACAT-AAATACGTATAATGTA
1 CATAACATAAAATACGTATAATGTA
48762261 CATAACATCAAAATA--TAT-ATGCTA
1 CATAACAT-AAAATACGTATAATG-TA
* * *
48762285 AATAAAATATTAAAATACGTATAATTTA
1 CAT--AACA-TAAAATACGTATAATGTA
48762313 CATAACATAAA
1 CATAACATAAA
48762324 TTTTTAACAT
Statistics
Matches: 85, Mismatches: 11, Indels: 31
0.67 0.09 0.24
Matches are distributed among these distances:
21 3 0.04
22 1 0.01
23 6 0.07
24 26 0.31
25 15 0.18
26 20 0.24
27 2 0.02
28 10 0.12
29 2 0.02
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.29
Consensus pattern (25 bp):
CATAACATAAAATACGTATAATGTA
Found at i:48762315 original size:52 final size:49
Alignment explanation
Indices: 48762172--48762320 Score: 169
Period size: 49 Copynumber: 3.0 Consensus size: 49
48762162 CCCTAATCAA
* *
48762172 CATACAATGTACATAT-CATAACATAAATACGTATAATGTACATAACAT
1 CATACAATGTAAATATAAATAACATAAATACGTATAATGTACATAACAT
*
48762220 CATACAATGTACATATAAATAACATAAATACGTATAATGTACATAACAT
1 CATACAATGTAAATATAAATAACATAAATACGTATAATGTACATAACAT
* ** *
48762269 CAAAATATATATGCTAAATA-AAATATTA-AAATACGTATAATTTACATAACAT
1 C---ATACA-ATG-TAAATATAAATAACATAAATACGTATAATGTACATAACAT
48762321 AAATTTTTAA
Statistics
Matches: 89, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
48 16 0.18
49 32 0.36
52 27 0.30
53 9 0.10
54 5 0.06
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.30
Consensus pattern (49 bp):
CATACAATGTAAATATAAATAACATAAATACGTATAATGTACATAACAT
Found at i:48762433 original size:36 final size:36
Alignment explanation
Indices: 48762374--48762467 Score: 95
Period size: 37 Copynumber: 2.6 Consensus size: 36
48762364 TCCTTTTTTT
* * *
48762374 TCCTTCC-TTCCTTCCCTCTTTTT-TTT-TTCTCTTC
1 TCCTTCCTTTCTTTCCTTCTTTTTCTTTCTT-TCCTC
*
48762408 TTCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTC
1 -TCCTTCC-TTTCTTTCCTTCTTTTTCTTTCTTTCCTC
*
48762446 TCCTTCCTTTCTTTCTTTCTTT
1 TCCTTCCTTTCTTTCCTTCTTT
48762468 CCCTCTCCTT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
35 6 0.12
36 14 0.29
37 20 0.41
38 7 0.14
39 2 0.04
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (36 bp):
TCCTTCCTTTCTTTCCTTCTTTTTCTTTCTTTCCTC
Found at i:48762438 original size:18 final size:18
Alignment explanation
Indices: 48762357--48762464 Score: 67
Period size: 18 Copynumber: 5.5 Consensus size: 18
48762347 AAAAAATTTC
* *
48762357 CTTTTTTTCCTTTTTTTT
1 CTTTCTTTCCTTCTTTTT
* *
48762375 CCTTCCTTCCTTCCCTCTTTT
1 CTTTCTTTCCTT--CT-TTTT
48762396 -TTT-TTTCTCTTCTTCTTT
1 CTTTCTTTC-CTTCTT-TTT
48762414 CCTTTTCTTTCCTTCTTTTT
1 -C-TTTCTTTCCTTCTTTTT
48762434 CTTTCTTTCCTCTCCTTCCTTT
1 CTTTCTTTCCT-T-CTT--TTT
48762456 CTTTCTTTC
1 CTTTCTTTC
48762465 TTTCCCTCTC
Statistics
Matches: 71, Mismatches: 6, Indels: 22
0.72 0.06 0.22
Matches are distributed among these distances:
17 1 0.01
18 24 0.34
19 5 0.07
20 12 0.17
21 13 0.18
22 16 0.23
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
CTTTCTTTCCTTCTTTTT
Found at i:48762440 original size:31 final size:30
Alignment explanation
Indices: 48762353--48762440 Score: 78
Period size: 31 Copynumber: 3.0 Consensus size: 30
48762343 ACAAAAAAAA
*
48762353 TTTCCTTTT-TTTCC-TTTTTT-TTCCTTC
1 TTTCCTTTTCTTTCCTTTTTTTCTTTCTTC
* *
48762380 CTTCCTTCCCTCTTT--TTTTTTTCTCTTCTTC
1 TTTCCTT--TTCTTTCCTTTTTTTCT-TTCTTC
48762411 TTTCCTTTTCTTTCCTTCTTTTTCTTTCTT
1 TTTCCTTTTCTTTCCTT-TTTTTCTTTCTT
48762441 TCCTCTCCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
27 6 0.13
29 12 0.26
30 4 0.09
31 18 0.38
32 7 0.15
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (30 bp):
TTTCCTTTTCTTTCCTTTTTTTCTTTCTTC
Found at i:48762441 original size:23 final size:23
Alignment explanation
Indices: 48762353--48762469 Score: 77
Period size: 23 Copynumber: 5.2 Consensus size: 23
48762343 ACAAAAAAAA
*
48762353 TTTCCTT-TTTTTCCTTTTTTTTC
1 TTTCCTTCTTTTT-CTTTCTTTTC
* **
48762376 CTTCCTTCCTTCCCTCTTT-TTTT-
1 TTTCCTT-CTT-TTTCTTTCTTTTC
*
48762399 TTT-C-TCTTCTTCTTTCCTTTTC
1 TTTCCTTCTTTTTCTTT-CTTTTC
*
48762421 TTTCCTTCTTTTTCTTTCTTTCC
1 TTTCCTTCTTTTTCTTTCTTTTC
* *
48762444 TCTCCTTC-CTTTCTTTC-TTTC
1 TTTCCTTCTTTTTCTTTCTTTTC
48762465 TTTCC
1 TTTCC
48762470 CTCTCCTTCT
Statistics
Matches: 75, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
19 6 0.08
20 3 0.04
21 12 0.16
22 12 0.16
23 21 0.28
24 14 0.19
25 6 0.08
26 1 0.01
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTCCTTCTTTTTCTTTCTTTTC
Found at i:48762632 original size:25 final size:25
Alignment explanation
Indices: 48762598--48762663 Score: 89
Period size: 27 Copynumber: 2.6 Consensus size: 25
48762588 GTTTTTTGGT
*
48762598 ATATTTTGGTAATTTAAAAAAA-ATA
1 ATATTTTGGTAA-ATAAAAAAAGATA
48762623 ATATTTTGGTAAATAAAAAAAGGGATA
1 ATATTTTGGTAAATAAAAAAA--GATA
48762650 ATATTTTGGTAAAT
1 ATATTTTGGTAAAT
48762664 TTTTATTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
24 8 0.22
25 12 0.32
27 17 0.46
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (25 bp):
ATATTTTGGTAAATAAAAAAAGATA
Found at i:48767461 original size:44 final size:44
Alignment explanation
Indices: 48767398--48767491 Score: 170
Period size: 44 Copynumber: 2.1 Consensus size: 44
48767388 GTCTCGACTT
**
48767398 TCATTTTTGTATGCTTATCAAATATAAGTATTGTATTAACCAAA
1 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
48767442 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
1 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
48767486 TCATTT
1 TCATTT
48767492 ATTGAATATA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (44 bp):
TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
Found at i:48767485 original size:22 final size:22
Alignment explanation
Indices: 48767416--48767486 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
48767406 GTATGCTTAT
48767416 CAAATATAAGTATTGTATTAAC
1 CAAATATAAGTATTGTATTAAC
** * *
48767438 CAAATCAT-TTTCATATG-CTT-AT
1 CAAAT-ATAAGT-AT-TGTATTAAC
48767460 CAAATATAAGTATTGTATTAAC
1 CAAATATAAGTATTGTATTAAC
48767482 CAAAT
1 CAAAT
48767487 CATTTATTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
20 2 0.06
21 6 0.17
22 19 0.54
23 6 0.17
24 2 0.06
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (22 bp):
CAAATATAAGTATTGTATTAAC
Found at i:48767495 original size:21 final size:22
Alignment explanation
Indices: 48767470--48767513 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
48767460 CAAATATAAG
* *
48767470 TATTGTAT-TAACCAAATCATT
1 TATTGAATATAACCAAATAATT
48767491 TATTGAATATAACCAAATAATT
1 TATTGAATATAACCAAATAATT
48767513 T
1 T
48767514 TCATATGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (22 bp):
TATTGAATATAACCAAATAATT
Found at i:48768121 original size:13 final size:13
Alignment explanation
Indices: 48768103--48768127 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48768093 ATACTCAAAT
48768103 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
48768116 TTCTCAAAAGCA
1 TTCTCAAAAGCA
48768128 ATAAAGAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:48770820 original size:20 final size:20
Alignment explanation
Indices: 48770764--48770820 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
48770754 ATGCAATTAG
48770764 TAATTTA-ATTATTTTATATA
1 TAATTTATATT-TTTTATATA
* ***
48770784 -AATTTTTATTAAATATATA
1 TAATTTATATTTTTTATATA
48770803 TAATTTATATTTTTTATA
1 TAATTTATATTTTTTATA
48770821 AGGTAAACCT
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TAATTTATATTTTTTATATA
Found at i:48773933 original size:48 final size:48
Alignment explanation
Indices: 48773862--48773957 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
48773852 ACTTTAAGGT
*
48773862 GCAATTTTTACACGGGAAGAAAAAGAAAAATGTTCATTGGTTTGCTTA
1 GCAATTTTTACACGGGAAGAAAAAGAAAAATGTTCATAGGTTTGCTTA
* *
48773910 GCAATTTTTATACGGGAAGAAAAAGAAAAGTGTTCATAGGTTTGCTTA
1 GCAATTTTTACACGGGAAGAAAAAGAAAAATGTTCATAGGTTTGCTTA
48773958 ATAAAATATT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (48 bp):
GCAATTTTTACACGGGAAGAAAAAGAAAAATGTTCATAGGTTTGCTTA
Found at i:48777557 original size:21 final size:21
Alignment explanation
Indices: 48777532--48777571 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48777522 CATTCTTGAT
* *
48777532 AATAATTAATAATATTGATTA
1 AATAATAAATAATAGTGATTA
48777553 AATAATAAATAATAGTGAT
1 AATAATAAATAATAGTGAT
48777572 ATTTTAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (21 bp):
AATAATAAATAATAGTGATTA
Found at i:48778258 original size:18 final size:19
Alignment explanation
Indices: 48778229--48778265 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
48778219 TGGGTAGGAA
*
48778229 ATTTTATAAAGTGTGCATC
1 ATTTTATAAAGTATGCATC
48778248 ATTTT-TAAAGTATGCATC
1 ATTTTATAAAGTATGCATC
48778266 GACATGTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (19 bp):
ATTTTATAAAGTATGCATC
Found at i:48799472 original size:65 final size:65
Alignment explanation
Indices: 48799368--48799497 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
48799358 TAGCATACTT
48799368 GTATCAAATATGTCATATTAGTTCCATTTCATACTTATAACCAATTTAAACATCATTCTACAACC
1 GTATCAAATATGTCATATTAGTTCCATTTCATACTTATAACCAATTTAAACATCATTCTACAACC
*
48799433 GTATCAAATATGTCATATTAGTTTCATTTCATACTTATAACCAATTTAAACATCATTCTACAACC
1 GTATCAAATATGTCATATTAGTTCCATTTCATACTTATAACCAATTTAAACATCATTCTACAACC
48799498 ACAATCACAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.38
Consensus pattern (65 bp):
GTATCAAATATGTCATATTAGTTCCATTTCATACTTATAACCAATTTAAACATCATTCTACAACC
Found at i:48800674 original size:37 final size:36
Alignment explanation
Indices: 48800592--48800724 Score: 124
Period size: 38 Copynumber: 3.5 Consensus size: 36
48800582 CCAGAATGGC
* * * **
48800592 ACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGAC
1 ACCCAGTACCTCATCGAATAG-CCGAAG-AA-AGTTGGT
**
48800631 ACCCAGTGTCTCATCAGCAA-AGCCGAAGAAAGTTGGT
1 ACCCAGTACCTCATC-G-AATAGCCGAAGAAAGTTGGT
*
48800668 ACCCAGTACCTCATCGAATCTATCCGAAGAAAGTTGGT
1 ACCCAGTACCTCATCGAA--TAGCCGAAGAAAGTTGGT
48800706 ACCCAGTACCTCATCGAAT
1 ACCCAGTACCTCATCGAAT
48800725 CTATCCGAAG
Statistics
Matches: 81, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
35 2 0.02
36 2 0.02
37 18 0.22
38 36 0.44
39 19 0.23
40 3 0.04
41 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (36 bp):
ACCCAGTACCTCATCGAATAGCCGAAGAAAGTTGGT
Found at i:48800703 original size:38 final size:38
Alignment explanation
Indices: 48800653--48800737 Score: 170
Period size: 38 Copynumber: 2.2 Consensus size: 38
48800643 ATCAGCAAAG
48800653 CCGAAGAAAGTTGGTACCCAGTACCTCATCGAATCTAT
1 CCGAAGAAAGTTGGTACCCAGTACCTCATCGAATCTAT
48800691 CCGAAGAAAGTTGGTACCCAGTACCTCATCGAATCTAT
1 CCGAAGAAAGTTGGTACCCAGTACCTCATCGAATCTAT
48800729 CCGAAGAAA
1 CCGAAGAAA
48800738 TATAGTGACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (38 bp):
CCGAAGAAAGTTGGTACCCAGTACCTCATCGAATCTAT
Found at i:48802016 original size:8 final size:8
Alignment explanation
Indices: 48802003--48802043 Score: 73
Period size: 8 Copynumber: 5.0 Consensus size: 8
48801993 TGTTTTATAT
48802003 ATATAATA
1 ATATAATA
48802011 ATATAATA
1 ATATAATA
48802019 ATATAATA
1 ATATAATA
48802027 ATATAATTA
1 ATATAA-TA
48802036 ATATAATA
1 ATATAATA
48802044 CTTATTTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 24 0.75
9 8 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATAATA
Found at i:48804965 original size:26 final size:26
Alignment explanation
Indices: 48804929--48804980 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
48804919 GATGAGGTGA
48804929 TGATACCTGACTTTTGTTTATACACT
1 TGATACCTGACTTTTGTTTATACACT
48804955 TGATACCTGACTTTTGTTTATACACT
1 TGATACCTGACTTTTGTTTATACACT
48804981 GAGTATACTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (26 bp):
TGATACCTGACTTTTGTTTATACACT
Found at i:48805335 original size:23 final size:26
Alignment explanation
Indices: 48805309--48805357 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
48805299 TTGTGACGTG
*
48805309 ATATT-AAATG-ATTTCGTA-TAATT
1 ATATTCAAATGTATCTCGTACTAATT
48805332 ATATTCAAATGTATCTCGTACTAATT
1 ATATTCAAATGTATCTCGTACTAATT
48805358 TGTGTATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 5 0.23
24 5 0.23
25 7 0.32
26 5 0.23
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (26 bp):
ATATTCAAATGTATCTCGTACTAATT
Found at i:48810858 original size:42 final size:42
Alignment explanation
Indices: 48810811--48810893 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
48810801 AGATCGTAAT
*
48810811 AACCTAATCTATTTATTTTGGGGATCAATTTGCACAGTTATC
1 AACCTAATCTATTTATTTTGGGGATCAATTTGCAAAGTTATC
48810853 AACCTAATCTATTTATTTTGGGGATCAATTTGCAAAGTTAT
1 AACCTAATCTATTTATTTTGGGGATCAATTTGCAAAGTTAT
48810894 ATAAATATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (42 bp):
AACCTAATCTATTTATTTTGGGGATCAATTTGCAAAGTTATC
Found at i:48811768 original size:26 final size:26
Alignment explanation
Indices: 48811721--48811798 Score: 65
Period size: 26 Copynumber: 3.1 Consensus size: 26
48811711 ACATACTGCA
* *
48811721 GCTCTTTATGAG-TGTCCCGATATATG
1 GCTCTTAATGAGCT-TCCTGATATATG
48811747 GCTCTTAATGAGCTTCCTG--ATATG
1 GCTCTTAATGAGCTTCCTGATATATG
*** *
48811771 GCT-TGCTTGAACTTCCTGATATATG
1 GCTCTTAATGAGCTTCCTGATATATG
48811796 GCT
1 GCT
48811799 ATCCAGAGCT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
23 11 0.26
24 8 0.19
25 8 0.19
26 15 0.35
27 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (26 bp):
GCTCTTAATGAGCTTCCTGATATATG
Found at i:48811976 original size:27 final size:27
Alignment explanation
Indices: 48811899--48811976 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 27
48811889 TCCCGGATAA
* *
48811899 GCTTCCTGTTACATGGCTC-ACATGA--
1 GCTTCCTGTTATATAGCTCGA-ATGAGC
*
48811924 GCTTCCTGTTATATAGCTCGAGTGAGC
1 GCTTCCTGTTATATAGCTCGAATGAGC
* *
48811951 GCTTCCTGATTATGTA-CTCTAATGAG
1 GCTTCCTG-TTATATAGCTCGAATGAG
48811977 TATCACTGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
25 20 0.47
26 1 0.02
27 16 0.37
28 6 0.14
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (27 bp):
GCTTCCTGTTATATAGCTCGAATGAGC
Found at i:48814597 original size:25 final size:25
Alignment explanation
Indices: 48814569--48814659 Score: 69
Period size: 25 Copynumber: 3.5 Consensus size: 25
48814559 GACTTCAAGT
48814569 ATTTAAACTATTCAAAAATAACAAC
1 ATTTAAACTATTCAAAAATAACAAC
** **
48814594 ATTTAAAACCT-TTC-AATTTAACCTTTAGT
1 ATTT-AAA-CTATTCAAAAATAA-C---AAC
48814623 ATTTAAACTATTCAAAAATAACAAC
1 ATTTAAACTATTCAAAAATAACAAC
*
48814648 ATTTAAAATATT
1 ATTTAAACTATT
48814660 AAGCAATACT
Statistics
Matches: 49, Mismatches: 9, Indels: 16
0.66 0.12 0.22
Matches are distributed among these distances:
25 21 0.43
26 7 0.14
27 4 0.08
28 7 0.14
29 10 0.20
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.36
Consensus pattern (25 bp):
ATTTAAACTATTCAAAAATAACAAC
Found at i:48818601 original size:29 final size:29
Alignment explanation
Indices: 48818567--48818633 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 29
48818557 GTACAGTTTG
48818567 ATACATAAACTTTGATTTTG-TGCAAATAT
1 ATACATAAACTTTGATTTTGAT-CAAATAT
*
48818596 ATACATTAAATTTTGATTTTGACTCAAATAT
1 ATACA-TAAACTTTGATTTTGA-TCAAATAT
*
48818627 GTACATA
1 ATACATA
48818634 TAATTCTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 5 0.15
30 16 0.48
31 11 0.33
32 1 0.03
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.42
Consensus pattern (29 bp):
ATACATAAACTTTGATTTTGATCAAATAT
Found at i:48818632 original size:31 final size:29
Alignment explanation
Indices: 48818567--48818645 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 29
48818557 GTACAGTTTG
*
48818567 ATACATAAACTTTGATTTTGTGCAAATAT
1 ATACATAAATTTTGATTTTGTGCAAATAT
48818596 ATACATTAAATTTTGATTTTGACT-CAAATAT
1 ATACA-TAAATTTTGATTTTG--TGCAAATAT
* *
48818627 GTACATATAATTCTGATTT
1 ATACATA-AATTTTGATTT
48818646 AATTCAATTG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
29 5 0.12
30 16 0.37
31 21 0.49
32 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.44
Consensus pattern (29 bp):
ATACATAAATTTTGATTTTGTGCAAATAT
Found at i:48822719 original size:125 final size:125
Alignment explanation
Indices: 48822515--48822741 Score: 409
Period size: 125 Copynumber: 1.8 Consensus size: 125
48822505 TAATTTCGAG
* *
48822515 TTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTAGAATGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGAAGGATGCTATTTGAGAAGAATTTGTG
*
48822580 AAATCACGCCCTCGTGGACGTGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTT
66 AAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTT
*
48822640 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGAAGGATGCTATTTGAGAAGAATTTGTG
*
48822705 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
66 AAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTAG
48822742 CATGTTTGGG
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
125 97 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGAAGGATGCTATTTGAGAAGAATTTGTG
AAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTT
Found at i:48825974 original size:115 final size:116
Alignment explanation
Indices: 48825772--48826010 Score: 417
Period size: 115 Copynumber: 2.1 Consensus size: 116
48825762 TGATAAATTG
* *
48825772 TATTAACTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAAGTATTAATTGT
1 TATTAACTCAAAAAATTGTATTAATGGATAGTAAAATTATCAAATTATATAAAAGTATTAATTAT
*
48825837 TAGTACCAGTCAAAACATTTTTCCAAATC-AACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
* *
48825887 TATTAACTCTAAAAATTGTATTAATGGATAGTAAAATTATCAAATTATATAAAATTATTAATTAT
1 TATTAACTCAAAAAATTGTATTAATGGATAGTAAAATTATCAAATTATATAAAAGTATTAATTAT
*
48825952 TAGTAGCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
48826003 TATTAACT
1 TATTAACT
48826011 TAGTTTAGGG
Statistics
Matches: 117, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
115 89 0.76
116 28 0.24
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (116 bp):
TATTAACTCAAAAAATTGTATTAATGGATAGTAAAATTATCAAATTATATAAAAGTATTAATTAT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
Found at i:48826030 original size:23 final size:22
Alignment explanation
Indices: 48826004--48826358 Score: 116
Period size: 29 Copynumber: 14.9 Consensus size: 22
48825994 ATGTAAAATT
* *
48826004 ATTAACTTAGTTTAGGGGTTTTA
1 ATTAAATTAGGTTA-GGGTTTTA
48826027 ATTAAATTAGGTTAGGGTTTTAA
1 ATTAAATTAGGTTAGGGTTTT-A
*
48826050 AGTT-AA--GGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGG-TTTTA
**
48826071 AGTT-AA-GGGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGG-TTTTA
48826093 ATTAAATTAGGTTAGGGTTAGGGGTTTTA
1 ATT-AA--A--TTA-GGTTA-GGGTTTTA
48826122 ATTAAATTAGGTTAGGG-TTT-
1 ATTAAATTAGGTTAGGGTTTTA
48826142 -TTAAAGTTAAGGTTTAGGGGTTTTA
1 ATTAAA-TT-AGG-TTA-GGGTTTTA
48826167 AGTTAAGA-T---TTAGGGTTTTTA
1 A-TTAA-ATTAGGTTAGGG-TTTTA
48826188 ATTAAATTAGGTTAGAGTTAGGGTTTTTA
1 ATT-AA--A--TTAG-GTTAGGG-TTTTA
48826217 ATTAAATTAGGTTAGGGTTAGGGTTTTA
1 ATTAA---A--TTA-GGTTAGGGTTTTA
48826245 ATTAAATTAGGTTAGGG-TTT-
1 ATTAAATTAGGTTAGGGTTTTA
48826265 -TTAAAGTTAAGGTTTAGGG-TTT-
1 ATTAAA-TT-AGG-TTAGGGTTTTA
*
48826287 -TTAAGTTAAGGTTTAGGGTTTTTA
1 ATTAAATT-AGG-TTAGGG-TTTTA
48826311 ATTAAATTAGGTTAGGATTAGGGTTTTTA
1 ATT-AA--A--TTAGG-TTAGGG-TTTTA
48826340 ATTAAATTAGGTTAGGGTT
1 ATTAAATTAGGTTAGGGTT
48826359 AAATTAGGTT
Statistics
Matches: 277, Mismatches: 9, Indels: 93
0.73 0.02 0.25
Matches are distributed among these distances:
19 10 0.04
20 9 0.03
21 53 0.19
22 57 0.21
23 37 0.13
24 13 0.05
25 5 0.02
26 5 0.02
27 4 0.01
28 17 0.06
29 61 0.22
30 6 0.02
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.45
Consensus pattern (22 bp):
ATTAAATTAGGTTAGGGTTTTA
Found at i:48826097 original size:21 final size:21
Alignment explanation
Indices: 48826036--48826315 Score: 111
Period size: 21 Copynumber: 13.0 Consensus size: 21
48826026 AATTAAATTA
*
48826036 GGTTAGGGTTTTAAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
48826057 GGTTAGGGTTTTTAAGTTAAGG
1 GGTTAGGGTTTTTAAGTTAA-G
*
48826079 GGTTAGGGTTTTTAA-TTAAATTA
1 GGTTAGGGTTTTTAAGTT-AA--G
*
48826102 GGTTAGGGTTAGGGGTTTTAA-TTAAATTA
1 GGTTAGGG-T-----TTTTAAGTT-AA--G
48826131 GGTTAGGGTTTTTAAAGTTAAG
1 GGTTAGGGTTTTT-AAGTTAAG
* *
48826153 GTTTAGGGGTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
**
48826174 ATTTAGGGTTTTTAA-TTAA-
1 GGTTAGGGTTTTTAAGTTAAG
*
48826193 -ATTA-GG---TTAGAGTT-AG
1 GGTTAGGGTTTTTA-AGTTAAG
**** * *
48826209 GGTTTTTAATTAAATTAGGTT-AG
1 GG-TTAGGGTT--TTTAAGTTAAG
*
48826232 GGTTAGGG-TTTTAA-TTAAATTA
1 GGTTAGGGTTTTTAAGTT-AA--G
48826254 GGTTAGGGTTTTTAAAGTTAAG
1 GGTTAGGGTTTTT-AAGTTAAG
*
48826276 GTTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
*
48826297 GTTTAGGGTTTTTAA-TTAA
1 GGTTAGGGTTTTTAAGTTAA
48826316 ATTAGGTTAG
Statistics
Matches: 207, Mismatches: 23, Indels: 59
0.72 0.08 0.20
Matches are distributed among these distances:
14 3 0.01
15 2 0.01
16 2 0.01
17 2 0.01
18 7 0.03
19 3 0.01
20 9 0.04
21 66 0.32
22 51 0.25
23 23 0.11
24 12 0.06
25 4 0.02
28 1 0.00
29 22 0.11
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (21 bp):
GGTTAGGGTTTTTAAGTTAAG
Found at i:48826110 original size:29 final size:29
Alignment explanation
Indices: 48826078--48826263 Score: 143
Period size: 29 Copynumber: 6.2 Consensus size: 29
48826068 TTAAGTTAAG
*
48826078 GGGTTAGGGTTTTTAATTAAATTAGGTTA
1 GGGTTAGGGGTTTTAATTAAATTAGGTTA
48826107 GGGTTAGGGGTTTTAATTAAATTAGGTTA
1 GGGTTAGGGGTTTTAATTAAATTAGGTTA
* *
48826136 GGGTT-----TTTAAAGTTAAGGTTTAGGGGTTTTA
1 GGGTTAGGGGTTTTAA-TTAA--ATTA--GG--TTA
*
48826167 -AGTTAAGATTTAGGGTTTTTAATTAAATTAGGTTA
1 GGGTT-AG-----GGGTTT-TAATTAAATTAGGTTA
* *
48826202 GAGTTAGGGTTTTTAATTAAATTAGGTTA
1 GGGTTAGGGGTTTTAATTAAATTAGGTTA
48826231 GGGTTA-GGGTTTTAATTAAATTAGGTTA
1 GGGTTAGGGGTTTTAATTAAATTAGGTTA
48826259 GGGTT
1 GGGTT
48826264 TTTAAAGTTA
Statistics
Matches: 128, Mismatches: 9, Indels: 41
0.72 0.05 0.23
Matches are distributed among these distances:
24 5 0.04
25 4 0.03
27 3 0.02
28 26 0.20
29 56 0.44
30 8 0.06
31 3 0.02
35 5 0.04
36 4 0.03
37 2 0.02
39 3 0.02
41 7 0.05
42 2 0.02
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (29 bp):
GGGTTAGGGGTTTTAATTAAATTAGGTTA
Found at i:48826120 original size:95 final size:94
Alignment explanation
Indices: 48826015--48826235 Score: 370
Period size: 95 Copynumber: 2.3 Consensus size: 94
48826005 TTAACTTAGT
* *
48826015 TTAGGGGTTTTAATTAAATTAGGTTAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
1 TTAGGGGTTTTAATTAAATTAGGTTAGGGTTTTAAAGTTAAGGGTTAGGGGTTTTAAGTTAA-GA
*
48826080 GTTAGGGTTTTTAATTAAATTAGGTTAGGG
65 GTTAGGGTTTTTAATTAAATTAGGTTAGAG
*
48826110 TTAGGGGTTTTAATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGGGTTTTAAGTTAAGA
1 TTAGGGGTTTTAATTAAATTAGGTTAGGG-TTTTAAAGTTAAGGGTTAGGGGTTTTAAGTTAAGA
*
48826175 TTTAGGGTTTTTAATTAAATTAGGTTAGAG
65 GTTAGGGTTTTTAATTAAATTAGGTTAGAG
*
48826205 TTAGGGTTTTTAATTAAATTAGGTTAGGGTT
1 TTAGGGGTTTTAATTAAATTAGGTTAGGGTT
48826236 AGGGTTTTAA
Statistics
Matches: 119, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
94 2 0.02
95 86 0.72
96 31 0.26
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (94 bp):
TTAGGGGTTTTAATTAAATTAGGTTAGGGTTTTAAAGTTAAGGGTTAGGGGTTTTAAGTTAAGAG
TTAGGGTTTTTAATTAAATTAGGTTAGAG
Found at i:48826252 original size:28 final size:29
Alignment explanation
Indices: 48826176--48826263 Score: 160
Period size: 29 Copynumber: 3.1 Consensus size: 29
48826166 AAGTTAAGAT
*
48826176 TTAGGGTTTTTAATTAAATTAGGTTAGAG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
48826205 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
48826234 TTAGGG-TTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
48826262 TT
1 TT
48826264 TTTAAAGTTA
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
28 24 0.41
29 34 0.59
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.45
Consensus pattern (29 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGG
Found at i:48826266 original size:123 final size:123
Alignment explanation
Indices: 48826079--48826359 Score: 519
Period size: 123 Copynumber: 2.3 Consensus size: 123
48826069 TAAGTTAAGG
48826079 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGGTTTTAATTAAATTAGGTTAGGGTTTTT
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGGTTTTAATTAAATTAGGTTAGGGTTTTT
48826144 AAAGTTAAGGTTTAGGGGTTTTAAGTTAAGATTTAGGGTTTTTAATTAAATTAGGTTA
66 AAAGTTAAGGTTTAGGGGTTTTAAGTTAAGATTTAGGGTTTTTAATTAAATTAGGTTA
48826202 GAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA-GGGTTTTAATTAAATTAGGTTAGGGTTTT
1 G-GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGGTTTTAATTAAATTAGGTTAGGGTTTT
* *
48826266 TAAAGTTAAGGTTTAGGGTTTTTAAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTA
65 TAAAGTTAAGGTTTAGGGGTTTTAAGTTAAGATTTAGGGTTTTTAATTAAATTAGGTTA
48826325 GGATTAGGGTTTTTAATTAAATTAGGTTAGGGTTA
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTA
48826360 AATTAGGTTA
Statistics
Matches: 154, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
122 1 0.01
123 120 0.78
124 33 0.21
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.45
Consensus pattern (123 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGGTTTTAATTAAATTAGGTTAGGGTTTTT
AAAGTTAAGGTTTAGGGGTTTTAAGTTAAGATTTAGGGTTTTTAATTAAATTAGGTTA
Found at i:48826279 original size:95 final size:97
Alignment explanation
Indices: 48826080--48826378 Score: 286
Period size: 95 Copynumber: 3.1 Consensus size: 97
48826070 AAGTTAAGGG
* *
48826080 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGGTTTTAATTAAATTAGGTTAGGG-T----
1 GTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG
*
48826140 TTTT-A--AAGTTAAGGTTTAGGGGTTTTAAGTTAAGA
66 TTTTAATTAAATT-AGG-TTA-GGG-TTT-A-TTAAGA
*
48826175 TTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG
48826240 TTTTAATTAAATTAGGTTAGGGTTT-TTAA-A
66 TTTTAATTAAATTAGGTTAGGGTTTATTAAGA
* **** * * *
48826270 GTTAAGGTTTAGGGTT--TTTAAGTTA-AGGTTTAGGGTTTTTAATTAAATTAGGTTAGGATTAG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGA-G-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
*
48826332 GGTTTTTAATTAAATTAGGTTAGGGTTAAATT-AG-
64 GG-TTTTAATTAAATTAGGTTAGGGTT-TATTAAGA
48826366 GTTAGGGTTTTTA
1 GTTAGGGTTTTTA
48826379 TTACATCAAA
Statistics
Matches: 172, Mismatches: 18, Indels: 27
0.79 0.08 0.12
Matches are distributed among these distances:
92 1 0.01
93 8 0.05
94 34 0.20
95 91 0.53
96 15 0.09
97 2 0.01
99 3 0.02
100 7 0.04
101 4 0.02
102 3 0.02
103 4 0.02
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.45
Consensus pattern (97 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG
TTTTAATTAAATTAGGTTAGGGTTTATTAAGA
Found at i:48826362 original size:16 final size:16
Alignment explanation
Indices: 48826341--48826374 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
48826331 GGGTTTTTAA
48826341 TTAAATTAGGTTAGGG
1 TTAAATTAGGTTAGGG
48826357 TTAAATTAGGTTAGGG
1 TTAAATTAGGTTAGGG
48826373 TT
1 TT
48826375 TTTATTACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.41
Consensus pattern (16 bp):
TTAAATTAGGTTAGGG
Found at i:48826402 original size:25 final size:25
Alignment explanation
Indices: 48826374--48826511 Score: 173
Period size: 25 Copynumber: 5.7 Consensus size: 25
48826364 AGGTTAGGGT
48826374 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
48826399 TTTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * *
48826422 --AAATAAC-TCGAAA-AAATTTCTA
1 TTTTATTACATC-AAATAAACTTCTA
48826444 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
48826469 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
48826494 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
48826512 TATCAAAATA
Statistics
Matches: 97, Mismatches: 7, Indels: 18
0.80 0.06 0.15
Matches are distributed among these distances:
20 2 0.02
21 11 0.11
22 2 0.02
23 2 0.02
24 11 0.11
25 69 0.71
ACGTcount: A:0.43, C:0.14, G:0.01, T:0.41
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:48826458 original size:45 final size:44
Alignment explanation
Indices: 48826384--48826565 Score: 213
Period size: 44 Copynumber: 4.0 Consensus size: 44
48826374 TTTTATTACA
*
48826384 TCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAA-AAATTTCTATTTTATTACATCAAATAATATCAAAATAAC
** *
48826429 TCGAAAAAATTTCTATTTTATTACATCAAATAA-ACTTCTATTTTATTAC
1 TC-AAAAAATTTCTATTTTATTACATCAAATAATA--TC-A--AAATAAC
*
48826478 ATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 -TCAAA-AAATTTCTATTTTATTACATCAAATAATATCAAAATAAC
* *
48826524 TCAAAAAATTTCTATTTTTTTACATAAAATAATATCAAAATA
1 TCAAAAAATTTCTATTTTATTACATCAAATAATATCAAAATA
48826566 TTCAAAATAT
Statistics
Matches: 117, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
44 35 0.30
45 33 0.28
46 9 0.08
47 1 0.01
48 1 0.01
49 9 0.08
50 28 0.24
51 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.01, T:0.39
Consensus pattern (44 bp):
TCAAAAAATTTCTATTTTATTACATCAAATAATATCAAAATAAC
Found at i:48827011 original size:18 final size:18
Alignment explanation
Indices: 48826988--48827022 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
48826978 CGAAAAAGGA
*
48826988 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
48827006 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
48827023 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:48827682 original size:7 final size:7
Alignment explanation
Indices: 48827672--48827703 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
48827662 TTATATACAT
48827672 AATACTA
1 AATACTA
48827679 AATACTA
1 AATACTA
48827686 AATACTA
1 AATACTA
48827693 AATACTA
1 AATACTA
48827700 AATA
1 AATA
48827704 TCAATCGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:48827911 original size:20 final size:20
Alignment explanation
Indices: 48827874--48827911 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48827864 TTTATTTTTA
*
48827874 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
48827894 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
48827912 TACCTCATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:48828829 original size:12 final size:12
Alignment explanation
Indices: 48828805--48828847 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
48828795 ATTTTTACGG
48828805 TTTAAAAAA-AT
1 TTTAAAAAATAT
48828816 TTTAAAAAATAT
1 TTTAAAAAATAT
* *
48828828 TTTTAAAATTA-
1 TTTAAAAAATAT
48828839 TTTAAAAAA
1 TTTAAAAAA
48828848 AGGAGTTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TTTAAAAAATAT
Found at i:48828869 original size:11 final size:11
Alignment explanation
Indices: 48828853--48828883 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
48828843 AAAAAAGGAG
48828853 TTAAGAGAAAC
1 TTAAGAGAAAC
*
48828864 TTAAGAGGAAC
1 TTAAGAGAAAC
48828875 TTAAGAGAA
1 TTAAGAGAA
48828884 TTTTTGAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (11 bp):
TTAAGAGAAAC
Found at i:48829523 original size:9 final size:9
Alignment explanation
Indices: 48829509--48829627 Score: 64
Period size: 10 Copynumber: 12.7 Consensus size: 9
48829499 CCATTGACAA
48829509 AAAAATTAT
1 AAAAATTAT
48829518 -AAAA--AT
1 AAAAATTAT
*
48829524 AAAAATCAAT
1 AAAAAT-TAT
48829534 AAAAAATTAT
1 -AAAAATTAT
* *
48829544 TAAATTTATT
1 AAAAATTA-T
*
48829554 AAAAAAATATT
1 -AAAAATTA-T
48829565 AAAAATTAT
1 AAAAATTAT
* *
48829574 AAAAGTCAT
1 AAAAATTAT
*
48829583 AAAAGAATAT
1 AAAA-ATTAT
48829593 AAAAATTTAT
1 AAAAA-TTAT
**
48829603 AAAAACCAT
1 AAAAATTAT
48829612 AAAAAATTAT
1 -AAAAATTAT
48829622 AAAAAT
1 AAAAAT
48829628 GCATCAAAAA
Statistics
Matches: 83, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
6 2 0.02
7 4 0.05
8 4 0.05
9 27 0.33
10 33 0.40
11 13 0.16
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:48829585 original size:29 final size:28
Alignment explanation
Indices: 48829509--48829627 Score: 109
Period size: 29 Copynumber: 4.2 Consensus size: 28
48829499 CCATTGACAA
*
48829509 AAAAATTATAAAAAT-A-AAAATCAATA-
1 AAAAATTATAAAAATCATAAAA-AAATAT
* * *
48829535 AAAAATTATTAAATTTATTAAAAAAATATT
1 AAAAATTATAAAAATCA-TAAAAAAATA-T
* *
48829565 AAAAATTATAAAAGTCATAAAAGAATAT
1 AAAAATTATAAAAATCATAAAAAAATAT
* *
48829593 AAAAATTTATAAAAACCATAAAAAATTAT
1 AAAAA-TTATAAAAATCATAAAAAAATAT
48829622 AAAAAT
1 AAAAAT
48829628 GCATCAAAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
26 13 0.17
27 1 0.01
28 11 0.14
29 37 0.49
30 14 0.18
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (28 bp):
AAAAATTATAAAAATCATAAAAAAATAT
Found at i:48829636 original size:29 final size:29
Alignment explanation
Indices: 48829553--48829637 Score: 75
Period size: 29 Copynumber: 2.9 Consensus size: 29
48829543 TTAAATTTAT
* * **
48829553 TAAAAAAATATTAAAAAT-TATAAAAGTCA
1 TAAAAGAATA-TAAAAATGCATAAAAACCA
**
48829582 TAAAAGAATATAAAAATTTATAAAAACCA
1 TAAAAGAATATAAAAATGCATAAAAACCA
48829611 TAAAA-AATTATAAAAATGCATCAAAAA
1 TAAAAGAA-TATAAAAATGCAT-AAAAA
48829638 GACCATTTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
28 9 0.19
29 34 0.71
30 5 0.10
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.25
Consensus pattern (29 bp):
TAAAAGAATATAAAAATGCATAAAAACCA
Found at i:48831191 original size:3 final size:3
Alignment explanation
Indices: 48831183--48831230 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
48831173 GTTGTGGTTT
48831183 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
48831231 GGGTTAAATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:48835693 original size:68 final size:68
Alignment explanation
Indices: 48835584--48835721 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
48835574 GCAAGTTGAC
48835584 TGGACACAATGAAAATTCTATTTTGGAATGTCTGCGGACTGAGGAGTATGCTAGAAATACGAATA
1 TGGACACAATGAAAATTCTATTTTGGAATGTCTGCGGACTGAGGAGTATGCTAGAAATACGAATA
48835649 CTT
66 CTT
48835652 TGGACACAATGAAAATTCTATTTTGGAATGTCTGCGGACTGAGGAGTATGCTAGAAATACGAATA
1 TGGACACAATGAAAATTCTATTTTGGAATGTCTGCGGACTGAGGAGTATGCTAGAAATACGAATA
48835717 CTT
66 CTT
48835720 TG
1 TG
48835722 TTTCATGTTG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (68 bp):
TGGACACAATGAAAATTCTATTTTGGAATGTCTGCGGACTGAGGAGTATGCTAGAAATACGAATA
CTT
Found at i:48839657 original size:19 final size:19
Alignment explanation
Indices: 48839633--48839696 Score: 92
Period size: 19 Copynumber: 3.4 Consensus size: 19
48839623 GGATATGCAC
*
48839633 TCTTAGATATGATATCCAA
1 TCTTAGATATGATATACAA
* *
48839652 TTTTAGATATGATATATAA
1 TCTTAGATATGATATACAA
*
48839671 TCTTAGATATGATATGCAA
1 TCTTAGATATGATATACAA
48839690 TCTTAGA
1 TCTTAGA
48839697 ATATATGATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (19 bp):
TCTTAGATATGATATACAA
Found at i:48842546 original size:24 final size:24
Alignment explanation
Indices: 48842519--48842564 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
48842509 AGAACAATCC
* *
48842519 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGAAAATGAAGGAGCAGCTT
*
48842543 CAAAAGAAAATGAATGAGCAGC
1 CAAAAGAAAATGAAGGAGCAGC
48842565 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGAAAATGAAGGAGCAGCTT
Found at i:48846616 original size:44 final size:44
Alignment explanation
Indices: 48846568--48846780 Score: 112
Period size: 44 Copynumber: 4.8 Consensus size: 44
48846558 CCTGGACAAC
*
48846568 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATGTCAGATCTTATCTCCCTAAGCAGT
** * * * * * ** *
48846612 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA-T
1 AGTGGAATAGATTGAAGATGTCAGATCTTATCTCCCT-AAG-CAGT
* * * * ** **
48846657 AGTGGAGTACATTGAAGCTAGT-A-AT-TCTA-CTTTCCTGGGCAAC
1 AGTGGAATAGATTGAAGAT-GTCAGATCT-TATC-TCCCTAAGCAGT
*
48846700 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATGTCAGATCTTATCTCCCTAAGCAGT
** * * * *
48846744 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCT
1 AGTGGAATAGATTGAAGATGTCAGATCTTATCTCCCT
48846781 GTGGTTACAA
Statistics
Matches: 122, Mismatches: 37, Indels: 20
0.68 0.21 0.11
Matches are distributed among these distances:
42 2 0.02
43 21 0.17
44 78 0.64
45 19 0.16
46 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (44 bp):
AGTGGAATAGATTGAAGATGTCAGATCTTATCTCCCTAAGCAGT
Found at i:48846661 original size:132 final size:132
Alignment explanation
Indices: 48846487--48847511 Score: 1730
Period size: 132 Copynumber: 7.8 Consensus size: 132
48846477 GACAGCGAAA
** *
48846487 CAGATCGAAGATGGTAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTC
1 CAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
48846552 TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
66 TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
48846617 AG
131 AG
* *
48846619 CAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCTAGTAATTC
1 CAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* *
48846684 TACTTTCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
66 TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
48846749 AG
131 AG
* * * *
48846751 CAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAATTGAGTACATTGAAGCCAATAATTC
1 CAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* *
48846816 TACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGTGG
66 TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
48846881 AG
131 AG
* *
48846883 CAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAATACATTGAAGCCAGTAATTC
1 CAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* * * *
48846948 TATTTCTCTAGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGTGG
66 TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
48847013 AG
131 AG
* * *
48847015 CAGATCGAAGATGGAGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCAGTAATTC
1 CAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* *
48847080 TACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGTGG
66 TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
48847145 AG
131 AG
*
48847147 CAGATAGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
1 CAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
*
48847212 TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAATGG
66 TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
48847277 AG
131 AG
* *
48847279 CAGATCGAAGATGGCGGATTTTACCTCCATGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTC
1 CAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
48847344 TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
66 TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
48847409 AG
131 AG
*
48847411 CAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAA-TC
1 CAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* * *
48847475 ATA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
66 -TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
48847512 GTAAGTCCTA
Statistics
Matches: 840, Mismatches: 51, Indels: 4
0.94 0.06 0.00
Matches are distributed among these distances:
131 3 0.00
132 837 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (132 bp):
CAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
AG
Found at i:48846880 original size:44 final size:45
Alignment explanation
Indices: 48846832--48847027 Score: 102
Period size: 44 Copynumber: 4.4 Consensus size: 45
48846822 CCTGAACAAC
*
48846832 AGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAG-CAGT
1 AGTGGAATAGATTGAAGATGTCAGGTCTTATCTCCCTAAGACAGT
** * * * * ** **
48846876 AGTGGAGCAGATCGAAGATGGC-GGATTTTACCTCCCTGTGGTTA-T
1 AGTGGAATAGATTGAAGATGTCAGG-TCTTATCTCCCT-AAGACAGT
* ** * * **
48846921 AGTGGAATACATTGAAGCCA-GT-AATTC-TATTTCTCT-AGACAAC
1 AGTGGAATAGATTGAAG--ATGTCAGGTCTTATCTCCCTAAGACAGT
*
48846964 AGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAG-CAGT
1 AGTGGAATAGATTGAAGATGTCAGGTCTTATCTCCCTAAGACAGT
** *
48847008 AGTGGAGCAGATCGAAGATG
1 AGTGGAATAGATTGAAGATG
48847028 GAGAATTTTA
Statistics
Matches: 104, Mismatches: 37, Indels: 22
0.64 0.23 0.13
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 21 0.20
44 58 0.56
45 18 0.17
46 2 0.02
47 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (45 bp):
AGTGGAATAGATTGAAGATGTCAGGTCTTATCTCCCTAAGACAGT
Found at i:48847863 original size:19 final size:19
Alignment explanation
Indices: 48847839--48847945 Score: 169
Period size: 19 Copynumber: 5.6 Consensus size: 19
48847829 AATCTTCAGG
48847839 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48847858 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
48847877 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48847896 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
48847915 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48847934 GATATGCAATCT
1 GATATGCAATCT
48847946 AAAAAGATAT
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 78 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:48847889 original size:38 final size:38
Alignment explanation
Indices: 48847846--48847945 Score: 191
Period size: 38 Copynumber: 2.6 Consensus size: 38
48847836 AGGGATATGC
48847846 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
48847884 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
48847922 AATCTTAGATATGATATGCAATCT
1 AATCTTAGATATGATATGCAATCT
48847946 AAAAAGATAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:48849757 original size:20 final size:20
Alignment explanation
Indices: 48849719--48849757 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48849709 TTCAAAGTTT
* *
48849719 ATAAAAGAAATTGTAAAAAG
1 ATAAAAAAAATTATAAAAAG
48849739 ATAAAAAAAATTATTAAAA
1 ATAAAAAAAATTA-TAAAA
48849758 TTTTACAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (20 bp):
ATAAAAAAAATTATAAAAAG
Found at i:48849974 original size:20 final size:20
Alignment explanation
Indices: 48849929--48849965 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48849919 AAATCTCTCC
48849929 AAAT-TACAAAATATAAAAT
1 AAATATACAAAATATAAAAT
*
48849948 AAATATACAAATTATAAA
1 AAATATACAAAATATAAA
48849966 CTTAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (20 bp):
AAATATACAAAATATAAAAT
Found at i:48853070 original size:7 final size:7
Alignment explanation
Indices: 48853060--48853088 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
48853050 TTTAAAATTG
48853060 TGTCATA
1 TGTCATA
48853067 TGTCATA
1 TGTCATA
48853074 TGTCATA
1 TGTCATA
48853081 TGTCATA
1 TGTCATA
48853088 T
1 T
48853089 CAATCAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (7 bp):
TGTCATA
Found at i:48855274 original size:16 final size:16
Alignment explanation
Indices: 48855253--48855284 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
48855243 AAAGCATATC
48855253 AAATCTGGGCATAGGT
1 AAATCTGGGCATAGGT
48855269 AAATCTGGGCATAGGT
1 AAATCTGGGCATAGGT
48855285 GAGTAGCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.25
Consensus pattern (16 bp):
AAATCTGGGCATAGGT
Found at i:48855504 original size:22 final size:22
Alignment explanation
Indices: 48855476--48855521 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
48855466 TACCAAATTT
48855476 GGGTTATCAGGTCTAGGGTTTA
1 GGGTTATCAGGTCTAGGGTTTA
*
48855498 GGGTTATTAGGTCTAGGGTTTA
1 GGGTTATCAGGTCTAGGGTTTA
48855520 GG
1 GG
48855522 TTCTTCCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.17, C:0.07, G:0.39, T:0.37
Consensus pattern (22 bp):
GGGTTATCAGGTCTAGGGTTTA
Found at i:48857742 original size:14 final size:14
Alignment explanation
Indices: 48857723--48857752 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
48857713 CAGAGTCCCT
*
48857723 TATTTCTTTTTAAA
1 TATTTCTTTCTAAA
48857737 TATTTCTTTCTAAA
1 TATTTCTTTCTAAA
48857751 TA
1 TA
48857753 CTCATTTATA
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:0.10, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTTCTTTCTAAA
Found at i:48883153 original size:21 final size:21
Alignment explanation
Indices: 48883127--48883170 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
48883117 TATAAAGTGC
48883127 GCTGCTCATTCAACATTCATA
1 GCTGCTCATTCAACATTCATA
48883148 GCTGCTCATTCAACATTCATA
1 GCTGCTCATTCAACATTCATA
48883169 GC
1 GC
48883171 ATCTGTCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (21 bp):
GCTGCTCATTCAACATTCATA
Found at i:48885303 original size:18 final size:18
Alignment explanation
Indices: 48885280--48885322 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
48885270 TTAATTTCAG
*
48885280 CATGCTGCCAGTCAAGAT
1 CATGCTGCCAATCAAGAT
*
48885298 CATGCTGTCAATCAAGAT
1 CATGCTGCCAATCAAGAT
48885316 CATGCTG
1 CATGCTG
48885323 GTCTTGCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (18 bp):
CATGCTGCCAATCAAGAT
Found at i:48889685 original size:6 final size:6
Alignment explanation
Indices: 48889674--48889701 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
48889664 TGAAATTTAA
48889674 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
48889702 TCTTTATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:48893498 original size:27 final size:27
Alignment explanation
Indices: 48893452--48893503 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
48893442 TTTCCTTCTT
**
48893452 TAGATCGCCACAAAGGCTTCCATTTCA
1 TAGATCGCCACAAAAACTTCCATTTCA
* *
48893479 TAGATTGCCACAAAAACTTCTATTT
1 TAGATCGCCACAAAAACTTCCATTT
48893504 TCTAACGTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.31
Consensus pattern (27 bp):
TAGATCGCCACAAAAACTTCCATTTCA
Found at i:48894224 original size:25 final size:25
Alignment explanation
Indices: 48894196--48894252 Score: 105
Period size: 25 Copynumber: 2.2 Consensus size: 25
48894186 AAATAAAGCC
48894196 TTACTTTTTCATACATTCAAGCAAT
1 TTACTTTTTCATACATTCAAGCAAT
48894221 TTACTTTTTCATACATTCAAGCAAT
1 TTACTTTTTCATACATTCAAGCAAT
48894246 TCTACTT
1 T-TACTT
48894253 GTAAGGCCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 26 0.84
26 5 0.16
ACGTcount: A:0.30, C:0.21, G:0.04, T:0.46
Consensus pattern (25 bp):
TTACTTTTTCATACATTCAAGCAAT
Found at i:48898824 original size:7 final size:7
Alignment explanation
Indices: 48898812--48898887 Score: 152
Period size: 7 Copynumber: 10.9 Consensus size: 7
48898802 AGAGTATTGA
48898812 ATGAAAT
1 ATGAAAT
48898819 ATGAAAT
1 ATGAAAT
48898826 ATGAAAT
1 ATGAAAT
48898833 ATGAAAT
1 ATGAAAT
48898840 ATGAAAT
1 ATGAAAT
48898847 ATGAAAT
1 ATGAAAT
48898854 ATGAAAT
1 ATGAAAT
48898861 ATGAAAT
1 ATGAAAT
48898868 ATGAAAT
1 ATGAAAT
48898875 ATGAAAT
1 ATGAAAT
48898882 ATGAAA
1 ATGAAA
48898888 AAGATTCTAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 69 1.00
ACGTcount: A:0.58, C:0.00, G:0.14, T:0.28
Consensus pattern (7 bp):
ATGAAAT
Found at i:48900718 original size:64 final size:63
Alignment explanation
Indices: 48900617--48900746 Score: 224
Period size: 64 Copynumber: 2.0 Consensus size: 63
48900607 TCTTTTACTC
*
48900617 CATTGATTATAGATAAGATAATAATCATTGTTTTTTATATACTAAAAAAAGTTAATATATATTA
1 CATTGATTATAGATAAGATAATAATCATTGTTTTTTATATA-TAAAAAAAGTTAATATATATCA
* *
48900681 CATTGATTATAGATAAGGTAATAATCATTGTTTTTTATATATTAAAAAAGTTAATATATATCA
1 CATTGATTATAGATAAGATAATAATCATTGTTTTTTATATATAAAAAAAGTTAATATATATCA
48900744 CAT
1 CAT
48900747 CATGTCATAC
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
63 23 0.37
64 40 0.63
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.42
Consensus pattern (63 bp):
CATTGATTATAGATAAGATAATAATCATTGTTTTTTATATATAAAAAAAGTTAATATATATCA
Found at i:48906817 original size:25 final size:25
Alignment explanation
Indices: 48906789--48906851 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
48906779 TCCACCGCTC
*
48906789 GTGAGAGCATACCAATTTATAGCTA
1 GTGAGAGCATACCAATCTATAGCTA
* *
48906814 GTGAGAGCATACCGATCTATAGCTC
1 GTGAGAGCATACCAATCTATAGCTA
* *
48906839 GAGTGAGCATACC
1 GTGAGAGCATACC
48906852 GATTCACAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (25 bp):
GTGAGAGCATACCAATCTATAGCTA
Found at i:48906852 original size:25 final size:24
Alignment explanation
Indices: 48906793--48906875 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 24
48906783 CCGCTCGTGA
* * * *
48906793 GAGCATACCAATTTATAGCTAGTGA
1 GAGCATACCGA-TTATAGCTCGAGT
48906818 GAGCATACCGATCTATAGCTCGAGT
1 GAGCATACCGAT-TATAGCTCGAGT
*
48906843 GAGCATACCGATTCACAGCTCGTA-T
1 GAGCATACCGATT-ATAGCTCG-AGT
48906868 GAGCATAC
1 GAGCATAC
48906876 GTGTACATGA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
24 2 0.04
25 47 0.94
26 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (24 bp):
GAGCATACCGATTATAGCTCGAGT
Found at i:48907064 original size:31 final size:32
Alignment explanation
Indices: 48907029--48907090 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
48907019 TTTACATGAA
*
48907029 ATACAAGGAAATG-ATTTTACATG-ATATATAG
1 ATAC-AGGAAATGAATGTTACATGTATATATAG
*
48907060 ATACATGAAATGAATGTTACATGTATATATA
1 ATACAGGAAATGAATGTTACATGTATATATA
48907091 AACTTGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 7 0.26
31 13 0.48
32 7 0.26
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (32 bp):
ATACAGGAAATGAATGTTACATGTATATATAG
Found at i:48909282 original size:7 final size:7
Alignment explanation
Indices: 48909270--48909314 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
48909260 ATTAAATTTT
48909270 AATACTA
1 AATACTA
*
48909277 AGTACTA
1 AATACTA
48909284 AATACTA
1 AATACTA
*
48909291 AAAACGT-
1 AATAC-TA
48909298 AATACTA
1 AATACTA
48909305 AATACTA
1 AATACTA
48909312 AAT
1 AAT
48909315 TGGCTAGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 1 0.03
7 30 0.94
8 1 0.03
ACGTcount: A:0.56, C:0.13, G:0.04, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:48910315 original size:24 final size:24
Alignment explanation
Indices: 48910288--48910336 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
48910278 ATGGTTCCAC
48910288 AGGCTATGGCAAAATCACAGTTGG
1 AGGCTATGGCAAAATCACAGTTGG
48910312 AGGCTATGGCAAAATCACAGTTGG
1 AGGCTATGGCAAAATCACAGTTGG
48910336 A
1 A
48910337 ATCGTTCTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (24 bp):
AGGCTATGGCAAAATCACAGTTGG
Found at i:48911091 original size:19 final size:19
Alignment explanation
Indices: 48911051--48911095 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
48911041 ATTAGAAAAA
* *
48911051 TATAAAAATCGTAAAATTT
1 TATAAAAACCGTAAAATAT
48911070 TATAAAAACCGTAAGAA-AT
1 TATAAAAACCGTAA-AATAT
48911089 TATAAAA
1 TATAAAA
48911096 TATATAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.29
Consensus pattern (19 bp):
TATAAAAACCGTAAAATAT
Found at i:48911113 original size:18 final size:18
Alignment explanation
Indices: 48911083--48911124 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
48911073 AAAAACCGTA
*
48911083 AGAAATTATAAAATATAT
1 AGAAATTATAAAAAATAT
48911101 AGAAA-TATAAAAAAATAT
1 AGAAATTAT-AAAAAATAT
48911119 A-AAATT
1 AGAAATT
48911125 TTATAAAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (18 bp):
AGAAATTATAAAAAATAT
Found at i:48911129 original size:56 final size:55
Alignment explanation
Indices: 48911027--48911154 Score: 143
Period size: 56 Copynumber: 2.3 Consensus size: 55
48911017 TCAAATATTA
* *
48911027 AAAATTTATTAAAAATTAGAAAAATATAAAAATCGTAAAATTTTATAAAAACCGTAAG
1 AAAA-TTA-TAAAAATTAGAAAAATAAAAAAATCATAAAATTTTAT-AAAACCGTAAG
* **
48911085 -AAATTATAAAATATATAGAAATATAAAAAAAT-ATAAAATTTTATAAAGTCGTAAG
1 AAAATTATAAAA-AT-TAGAAAAATAAAAAAATCATAAAATTTTATAAAACCGTAAG
48911140 AAAATTATACAAAAT
1 AAAATTATA-AAAAT
48911155 GTAAAGATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
55 14 0.23
56 26 0.43
57 21 0.34
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (55 bp):
AAAATTATAAAAATTAGAAAAATAAAAAAATCATAAAATTTTATAAAACCGTAAG
Found at i:48911143 original size:28 final size:28
Alignment explanation
Indices: 48911062--48911144 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 28
48911052 ATAAAAATCG
* *
48911062 TAAAATTTTATAAAAACCGTAAGAAATTA
1 TAAAATTTTAT-AAAATCGTAAGAAAATA
* * *
48911091 TAAAA-TATATAGAAAT-ATAAAAAAATA
1 TAAAATTTTATA-AAATCGTAAGAAAATA
*
48911118 TAAAATTTTATAAAGTCGTAAGAAAAT
1 TAAAATTTTATAAAATCGTAAGAAAAT
48911145 TATACAAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
27 17 0.40
28 20 0.48
29 5 0.12
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (28 bp):
TAAAATTTTATAAAATCGTAAGAAAATA
Found at i:48911193 original size:21 final size:21
Alignment explanation
Indices: 48911119--48911193 Score: 59
Period size: 21 Copynumber: 3.7 Consensus size: 21
48911109 AAAAAAATAT
* * * *
48911119 AAAATTTTATAAAGTCGTAAG
1 AAAATTATAAAAATTCGTAAA
48911140 AAAATTATACAAAA-T-GTAAA
1 AAAATTATA-AAAATTCGTAAA
* *
48911160 GATA-TAT-AAAATTCGTAAA
1 AAAATTATAAAAATTCGTAAA
48911179 AAAATTATAAAAATT
1 AAAATTATAAAAATT
48911194 ATCGTACCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
17 4 0.10
18 1 0.02
19 10 0.24
20 9 0.21
21 15 0.36
22 3 0.07
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (21 bp):
AAAATTATAAAAATTCGTAAA
Found at i:48911390 original size:19 final size:20
Alignment explanation
Indices: 48911358--48911395 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
48911348 TAAATTTTTT
*
48911358 TAATTTTTATTAAAATTTAA
1 TAATTTTTACTAAAATTTAA
48911378 TAATTTTT-CTAAAATTTA
1 TAATTTTTACTAAAATTTA
48911396 TTATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATTTTTACTAAAATTTAA
Found at i:48911603 original size:91 final size:89
Alignment explanation
Indices: 48911440--48911631 Score: 239
Period size: 91 Copynumber: 2.1 Consensus size: 89
48911430 TTAATAAGAG
* * * * *
48911440 TAGGGGCTTAATTGCTATTTTGAAAAATTTTGAGGGTCTTTTTGATGCACTTTGAAAGTTTAAGT
1 TAGGGGCTTAATTGCTATTTTGAAAAAGTTTAAGGGCCTTTTTGATACACTTTGAAAGTTCAAGT
48911505 ACCCAATTGAGTG-AA-AAAAAAA
66 ACCCAATTGAGTGCAAGAAAAAAA
*
48911527 TAGGGGCTTAATTGCTTTTTATTTTGAAGAAGTTTAAGGGCCTTTTTGATACA-TGTTGAAAGTT
1 TAGGGGCTTAATTGC----TATTTTGAAAAAGTTTAAGGGCCTTTTTGATACACT-TTGAAAGTT
* *
48911591 CAAGTGCTCAATTGAGTGCAAGAAAAAAA
61 CAAGTACCCAATTGAGTGCAAGAAAAAAA
48911620 -AGGGGCTTAATT
1 TAGGGGCTTAATT
48911632 ATTATTATTT
Statistics
Matches: 90, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
87 15 0.17
90 1 0.01
91 53 0.59
92 14 0.16
93 7 0.08
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.35
Consensus pattern (89 bp):
TAGGGGCTTAATTGCTATTTTGAAAAAGTTTAAGGGCCTTTTTGATACACTTTGAAAGTTCAAGT
ACCCAATTGAGTGCAAGAAAAAAA
Found at i:48913776 original size:57 final size:55
Alignment explanation
Indices: 48913715--48913842 Score: 130
Period size: 55 Copynumber: 2.3 Consensus size: 55
48913705 GTGCCACTGA
* * * *
48913715 TGTGTCAAGTGGCATCGATGTTAGATTTTAAAAAATATTTTTTTCTTGTGTTGTCAG
1 TGTGTCAAGTGGCACCGATGTCAGA-TTTAAAAAATATTTTTTT-TTGTATCGTCAG
* *** ** * *
48913772 TGTGTCAGGCAACACCTTTGTCAGATTTAAAAAATGTTTTTTTTTGTATCGTCTG
1 TGTGTCAAGTGGCACCGATGTCAGATTTAAAAAATATTTTTTTTTGTATCGTCAG
48913827 TGTGTCAAGTGGCACC
1 TGTGTCAAGTGGCACC
48913843 AGTGATCCTG
Statistics
Matches: 55, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
55 21 0.38
56 17 0.31
57 17 0.31
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.42
Consensus pattern (55 bp):
TGTGTCAAGTGGCACCGATGTCAGATTTAAAAAATATTTTTTTTTGTATCGTCAG
Found at i:48920112 original size:70 final size:70
Alignment explanation
Indices: 48919947--48920100 Score: 281
Period size: 70 Copynumber: 2.2 Consensus size: 70
48919937 GGTATATGGC
* * *
48919947 ATGTATAGGCTAGTGTCAATAGGATACATTTTGATATATGAAATTAGCCATGTGAGTTGGCTTGT
1 ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATAAAATTAGCCATGTGAGTTGGCTTGT
48920012 AAATG
66 AAATG
48920017 ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATAAAATTAGCCATGTGAGTTGGCTTGT
1 ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATAAAATTAGCCATGTGAGTTGGCTTGT
48920082 AAATG
66 AAATG
48920087 ATGTATAGGCTAGT
1 ATGTATAGGCTAGT
48920101 TTATTATGGA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 81 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.35
Consensus pattern (70 bp):
ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATAAAATTAGCCATGTGAGTTGGCTTGT
AAATG
Found at i:48925493 original size:7 final size:7
Alignment explanation
Indices: 48925481--48925505 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
48925471 CTGGCCTTTG
48925481 AAAATGA
1 AAAATGA
48925488 AAAATGA
1 AAAATGA
48925495 AAAATGA
1 AAAATGA
48925502 AAAA
1 AAAA
48925506 GCAAAAAGTA
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:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAATGA
Found at i:48927000 original size:21 final size:20
Alignment explanation
Indices: 48926971--48927016 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
48926961 AGTATAAATA
*
48926971 CCCCCTTTTATGTGTAATTTG
1 CCCCTTTTTATG-GTAATTTG
* *
48926992 CCCCTTTTTTTGGTATTTTG
1 CCCCTTTTTATGGTAATTTG
48927012 CCCCT
1 CCCCT
48927017 AATAATACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.09, C:0.28, G:0.13, T:0.50
Consensus pattern (20 bp):
CCCCTTTTTATGGTAATTTG
Found at i:48929257 original size:3 final size:3
Alignment explanation
Indices: 48929249--48929285 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
48929239 CAGAGAACTA
*
48929249 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
48929286 GGGGATTGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:48935657 original size:26 final size:26
Alignment explanation
Indices: 48935627--48935679 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
48935617 TATGATAGTA
48935627 TGACTTTGGAAGATTATACACTTAAC
1 TGACTTTGGAAGATTATACACTTAAC
48935653 TGACTTTGGAAGATTATACACTTAAC
1 TGACTTTGGAAGATTATACACTTAAC
48935679 T
1 T
48935680 AATCTTTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (26 bp):
TGACTTTGGAAGATTATACACTTAAC
Found at i:48937667 original size:3 final size:3
Alignment explanation
Indices: 48937661--48937690 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
48937651 ATAAAATCTC
48937661 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
48937691 TTGGGAAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (3 bp):
CTG
Found at i:48945444 original size:2 final size:2
Alignment explanation
Indices: 48945437--48945461 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
48945427 TGAAAATCTA
48945437 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
48945462 AACCCAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48949967 original size:21 final size:22
Alignment explanation
Indices: 48949934--48949989 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 22
48949924 GTGAGAGTAG
48949934 TAAAAGTAAAATAA-AAATACAA
1 TAAAAGTAAAATAATAAATA-AA
48949956 TAAAAG-AAAATAATAAATAAA
1 TAAAAGTAAAATAATAAATAAA
*
48949977 TAAATGTGAAAAT
1 TAAAAGT-AAAAT
48949990 GAAATAAGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 14 0.47
22 11 0.37
23 5 0.17
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (22 bp):
TAAAAGTAAAATAATAAATAAA
Found at i:48950903 original size:9 final size:9
Alignment explanation
Indices: 48950889--48950939 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 9
48950879 AGATTTGTAA
48950889 AAAAAGAAT
1 AAAAAGAAT
48950898 AAAAAGAAT
1 AAAAAGAAT
*
48950907 AAACAGAA-
1 AAAAAGAAT
**
48950915 AACGA-AAT
1 AAAAAGAAT
48950923 AAAAAGAAT
1 AAAAAGAAT
*
48950932 AAACAGAA
1 AAAAAGAA
48950940 AATGAAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
7 2 0.06
8 6 0.18
9 26 0.76
ACGTcount: A:0.75, C:0.06, G:0.12, T:0.08
Consensus pattern (9 bp):
AAAAAGAAT
Found at i:48950916 original size:25 final size:26
Alignment explanation
Indices: 48950888--48950941 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 26
48950878 TAGATTTGTA
48950888 AAAAAAG-AATAAAAAGAATAAACAG
1 AAAAAAGAAATAAAAAGAATAAACAG
*
48950913 -AAAACGAAATAAAAAGAATAAACAG
1 AAAAAAGAAATAAAAAGAATAAACAG
48950938 AAAA
1 AAAA
48950942 TGAAAAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 18 0.69
26 3 0.12
ACGTcount: A:0.76, C:0.06, G:0.11, T:0.07
Consensus pattern (26 bp):
AAAAAAGAAATAAAAAGAATAAACAG
Found at i:48950946 original size:25 final size:25
Alignment explanation
Indices: 48950895--48950950 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
48950885 GTAAAAAAAG
48950895 AATAAAAAGAATAAACAGAAAACGA
1 AATAAAAAGAATAAACAGAAAACGA
*
48950920 AATAAAAAGAATAAACAGAAAATGA
1 AATAAAAAGAATAAACAGAAAACGA
48950945 AA-AAAA
1 AATAAAA
48950951 CAGAGAAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.75, C:0.05, G:0.11, T:0.09
Consensus pattern (25 bp):
AATAAAAAGAATAAACAGAAAACGA
Found at i:48950953 original size:16 final size:17
Alignment explanation
Indices: 48950932--48950964 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
48950922 TAAAAAGAAT
*
48950932 AAACAGA-AAATGAAAA
1 AAACAGAGAAAAGAAAA
48950948 AAACAGAGAAAAGAAAA
1 AAACAGAGAAAAGAAAA
48950965 GAGAGCAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (17 bp):
AAACAGAGAAAAGAAAA
Found at i:48951792 original size:51 final size:47
Alignment explanation
Indices: 48951635--48952436 Score: 200
Period size: 44 Copynumber: 17.8 Consensus size: 47
48951625 AGAATTAGTA
* * * *
48951635 GCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGAT-TG-GTAT
1 GCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGCATAT
* * * * * *
48951680 -ATTCAA-CTTGCTCCATTACAACTTCAGGGAGATAAGGTTTG-ATAT
1 GCTTCAATC-TGCTCCACTGCAACTTCAGAGAGATAAGATCTGCATAT
**
48951725 G-----ATCTGCTTTACTGCAACTTCAGAGAGATAAGATCTGCAATTTAT
1 GCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGC-A--TAT
* * *
48951770 AGCTTCAATCTGTTCCATTGCAACTTCA-AGGAAATAAGAT-TCGC-TAT
1 -GCTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATCT-GCATAT
* * *
48951817 -CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-ATAT
1 GCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGCATAT
* * *
48951862 G-----ATCCGCTCTACTGTAACTTCAGAGAGATAAGATCTGCAATTTAT
1 GCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGC-A--TAT
* * * *
48951907 AGCTTCAATTTGTTTCACTGCAACTTCAG-GGGAATAAGATTCT-C-TAT
1 -GCTTCAATCTGCTCCACTGCAACTTCAGAGAG-ATAAGA-TCTGCATAT
* * *
48951954 -CTTTAGTCTGCTCCACTGCAACTTCAGAGAAATAAGA-CTTG--TA-
1 GCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATC-TGCATAT
* * * * * *
48951997 ACTTCAA-CTCGCTCCACTACAAATTCAGGGAGATAAGGT-TGGATAT
1 GCTTCAATCT-GCTCCACTGCAACTTCAGAGAGATAAGATCTGCATAT
* * *
48952043 G-----ATCTGCTCTACTACAAATTCAGAGAGATAAGATCTGCAATTTAT
1 GCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGC-A--TAT
* * * * * *
48952088 AGCTTCAATTTGTTTCACTGCAA-TTTAGGGAAATAAGAT-T-CACTAT
1 -GCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGCA-TAT
* * *
48952134 -CTTCAGTCT-CTTCCACTGCAACTTCAGGGAAATAAGA-CTTG--TA-
1 GCTTCAATCTGC-TCCACTGCAACTTCAGAGAGATAAGATC-TGCATAT
* * * * * *
48952177 ACTTCAACCGGCTCCACTGCAACTTTA-AGGAGATAAG-GCTTACA-A-
1 GCTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATC-TGCATAT
* * * * *
48952222 -CTTCAACCTGCTCCACTGTAACTTTA-AGGAGATAAGGTTTGC-TAT
1 GCTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATCTGCATAT
* * * *
48952267 G-----ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTTATTT
1 GCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTG-CATAT
* * * * * *
48952310 AGCTTTAATCCGTTCCACTGCAACTTTAGGGAAATAAGAT-TCGC-TAT
1 -GCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-GCATAT
* * * ** * *
48952357 -CTTCAGTCTGCTCTACTACAACTTTGGGGAGATAAGA---GTAGTA-
1 GCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGCA-TAT
* * * *
48952400 ACTTCAACCTGTTCCACTGCAACTTCAGGGAGATAAG
1 GCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAG
48952437 GCTTGCAACT
Statistics
Matches: 564, Mismatches: 113, Indels: 161
0.67 0.13 0.19
Matches are distributed among these distances:
41 113 0.20
42 7 0.01
43 11 0.02
44 177 0.31
45 125 0.22
46 9 0.02
47 9 0.02
48 2 0.00
49 29 0.05
50 17 0.03
51 62 0.11
52 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (47 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGCATAT
Found at i:48951858 original size:137 final size:137
Alignment explanation
Indices: 48951633--48951990 Score: 495
Period size: 137 Copynumber: 2.6 Consensus size: 137
48951623 ATAGAATTAG
* * * * * * * *
48951633 TAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATT-GGTATATTCA-ACTTGCTCCAT
1 TAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTC-TGCTCCAC
* * * *
48951696 TACAACTTCAGGGAGATAAGGTTTGATATGATCTGCTTTACTGCAACTTCAGAGAGATAAGATCT
65 TGCAACTTCAGGGAGATAAGATTTGATATGATCCGCTCTACTGCAACTTCAGAGAGATAAGATCT
48951761 GCAATTTA
130 GCAATTTA
* *
48951769 TAGCTTCAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACT
1 TAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACT
*
48951834 GCAACTTCAGGGAGATAAGATTTGATATGATCCGCTCTACTGTAACTTCAGAGAGATAAGATCTG
66 GCAACTTCAGGGAGATAAGATTTGATATGATCCGCTCTACTGCAACTTCAGAGAGATAAGATCTG
48951899 CAATTTA
131 CAATTTA
* * * * *
48951906 TAGCTTCAATTTGTTTCACTGCAACTTCAGGGGAATAAGATTCTCTATCTTTAGTCTGCTCCACT
1 TAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACT
* *
48951971 GCAACTTCAGAGAAATAAGA
66 GCAACTTCAGGGAGATAAGA
48951991 CTTGTAACTT
Statistics
Matches: 196, Mismatches: 24, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
136 36 0.18
137 159 0.81
138 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (137 bp):
TAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACT
GCAACTTCAGGGAGATAAGATTTGATATGATCCGCTCTACTGCAACTTCAGAGAGATAAGATCTG
CAATTTA
Found at i:48951944 original size:92 final size:92
Alignment explanation
Indices: 48951830--48952127 Score: 308
Period size: 92 Copynumber: 3.3 Consensus size: 92
48951820 CAGTCTGCTC
* *
48951830 CACTGCAACTTCAGGGAGATAAGATTTGATATGATCCGCTCTACTGTAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGGGAGATAAGATTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
48951895 TCTGCAATTTATAGCTTCAATTTGTTT
66 TCTGCAATTTATAGCTTCAATTTGTTT
* * * * *
48951922 CACTGCAACTTCAGGG-GAATAAGATTCTCTATCTTTAGTCTGCTCCACTGCAACTTCAGAGAAA
1 CACTGCAACTTCAGGGAG-ATAAGATT-T-GAT-ATGA-TCTGCTCTACTGCAACTTCAGAGAGA
* * * * *
48951986 TAAGA-CT----TGTA-A-CTTCAACTCGCTC
61 TAAGATCTGCAATTTATAGCTTCAATTTGTTT
* * * * * *
48952011 CACTACAAATTCAGGGAGATAAGGTTGGATATGATCTGCTCTACTACAAATTCAGAGAGATAAGA
1 CACTGCAACTTCAGGGAGATAAGATTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
48952076 TCTGCAATTTATAGCTTCAATTTGTTT
66 TCTGCAATTTATAGCTTCAATTTGTTT
* *
48952103 CACTGCAA-TTTAGGGAAATAAGATT
1 CACTGCAACTTCAGGGAGATAAGATT
48952128 CACTATCTTC
Statistics
Matches: 161, Mismatches: 32, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
85 27 0.17
86 4 0.02
87 2 0.01
89 30 0.19
90 5 0.03
91 19 0.12
92 40 0.25
93 1 0.01
94 2 0.01
95 4 0.02
96 27 0.17
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (92 bp):
CACTGCAACTTCAGGGAGATAAGATTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
TCTGCAATTTATAGCTTCAATTTGTTT
Found at i:48952193 original size:44 final size:44
Alignment explanation
Indices: 48952145--48952525 Score: 243
Period size: 44 Copynumber: 8.6 Consensus size: 44
48952135 TTCAGTCTCT
* * *
48952145 TCCACTGCAACTTCAGGGAAATAAGACTTGTAACTTCAACCGGC
1 TCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGC
* * **
48952189 TCCACTGCAACTTTAAGGAGATAAGGCTTACAACTTCAACCTGC
1 TCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGC
* * * * * *
48952233 TCCACTGTAACTTTAAGGAGATAAG-GTT-T-GCTAT-GATCTGC
1 TCCACTGCAACTTTAGGGAGATAAGACTTGTAACT-TCAACCTGC
* * * * * *
48952274 TCTACTGCAACTTCAGAGAGATAAGATTTGTTATTTAGCTTTAATCC-GT
1 TCCACTGCAACTTTAGGGAGATAAGACTTG-TA---A-CTTCAA-CCTGC
* * **
48952323 TCCACTGCAACTTTAGGGAAATAAGA-TTCGCTATCTTCAGTCTGC
1 TCCACTGCAACTTTAGGGAGATAAGACTT-G-TAACTTCAACCTGC
* * * * * *
48952368 TCTACTACAACTTTGGGGAGATAAGAGTAGTAACTTCAACCTGT
1 TCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGC
* * * * *
48952412 TCCACTGCAACTTCAGGGAGATAAGGCTTGCAACTTCAACTTGT
1 TCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGC
* * * ** * *
48952456 TCCACTGTAACTTTAGGGAGATACGACTAGTGGCTTCAATCTAC
1 TCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGC
* * *
48952500 TCCACTACAACTTCAAGGAGATAAGA
1 TCCACTGCAACTTTAGGGAGATAAGA
48952526 TTGGCCATGA
Statistics
Matches: 255, Mismatches: 68, Indels: 28
0.73 0.19 0.08
Matches are distributed among these distances:
41 27 0.11
42 3 0.01
43 2 0.01
44 161 0.63
45 28 0.11
46 1 0.00
48 3 0.01
49 29 0.11
50 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (44 bp):
TCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGC
Found at i:48952214 original size:180 final size:180
Alignment explanation
Indices: 48951772--48952214 Score: 613
Period size: 181 Copynumber: 2.4 Consensus size: 180
48951762 CAATTTATAG
* * * * * * *
48951772 CTTCAATCTGTTCCATTGCAACTTCAAGGAAATAAGA-TTCGCTATCTTCAGTCTGCTCCACTGC
1 CTTCAGTCTCTTCCACTGCAACTTCAGGGAAATAAGACTT-G-TAACTTCA-ACCGCTCCACTGC
* * ** *
48951836 AACTTCAGGGAGATAAGATTTGATATGATCCGCTCTACTGTAACTTCAGAGAGATAAGATCTGCA
63 AACTTCAGGGAGATAAGGTTGGATATGATCCGCTCTACTACAAATTCAGAGAGATAAGATCTGCA
* *
48951901 ATTTATAGCTTCAATTTGTTTCACTGCAACTTCAGGGGAATAAGATTCTCTAT
128 ATTTATAGCTTCAATTTGTTTCACTGCAACTTCAGGGAAATAAGATTCACTAT
* * *
48951954 CTTTAGTCTGC-TCCACTGCAACTTCAGAGAAATAAGACTTGTAACTTCAACTCGCTCCACTACA
1 CTTCAGTCT-CTTCCACTGCAACTTCAGGGAAATAAGACTTGTAACTTCAAC-CGCTCCACTGCA
* *
48952018 AATTCAGGGAGATAAGGTTGGATATGATCTGCTCTACTACAAATTCAGAGAGATAAGATCTGCAA
64 ACTTCAGGGAGATAAGGTTGGATATGATCCGCTCTACTACAAATTCAGAGAGATAAGATCTGCAA
*
48952083 TTTATAGCTTCAATTTGTTTCACTGCAA-TTTAGGGAAATAAGATTCACTAT
129 TTTATAGCTTCAATTTGTTTCACTGCAACTTCAGGGAAATAAGATTCACTAT
48952134 CTTCAGTCTCTTCCACTGCAACTTCAGGGAAATAAGACTTGTAACTTCAACCGGCTCCACTGCAA
1 CTTCAGTCTCTTCCACTGCAACTTCAGGGAAATAAGACTTGTAACTTCAACC-GCTCCACTGCAA
* *
48952199 CTTTAAGGAGATAAGG
65 CTTCAGGGAGATAAGG
48952215 CTTACAACTT
Statistics
Matches: 230, Mismatches: 26, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
179 2 0.01
180 92 0.40
181 103 0.45
182 31 0.13
183 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (180 bp):
CTTCAGTCTCTTCCACTGCAACTTCAGGGAAATAAGACTTGTAACTTCAACCGCTCCACTGCAAC
TTCAGGGAGATAAGGTTGGATATGATCCGCTCTACTACAAATTCAGAGAGATAAGATCTGCAATT
TATAGCTTCAATTTGTTTCACTGCAACTTCAGGGAAATAAGATTCACTAT
Found at i:48952434 original size:223 final size:224
Alignment explanation
Indices: 48951963--48952478 Score: 662
Period size: 223 Copynumber: 2.3 Consensus size: 224
48951953 TCTTTAGTCT
* * * * ** * *
48951963 GCTCCACTGCAACTTCAGAGAAATAAGACTTGTAACTTCAA-CTCGCTCCACTACAAATTCAGGG
1 GCTCCACTGCAACTTCAGGGAGATAAGGCTTGCAACTTCAACCT-GCTCCACTGTAACTTTAGGG
48952027 AGATAAGGTTGGATATGATCTGCTCTACTACAAATTCAGAGAGATAAGATCTGCAATTTATAGCT
65 AGATAAGGTTGGATATGATCTGCTCTACTACAAATTCAGAGAGATAAGATCTGCAATTTATAGCT
** * *
48952092 TCAATTTGTTTCACTGCAATTTAGGGAAATAAGATTCACTATCTTCAGTCTCTTCCACTGCAACT
130 TCAATCCGTTCCACTGCAATTTAGGGAAATAAGATTCACTATCTTCAGTCTCTTCCACTACAACT
*
48952157 TCAGGGAAATAAGACTTGTAACTTCAACCG
195 TCAGGGAAATAAGACTAGTAACTTCAACCG
* * * *
48952187 GCTCCACTGCAACTTTAAGGAGATAAGGCTTACAACTTCAACCTGCTCCACTGTAACTTTAAGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGGCTTGCAACTTCAACCTGCTCCACTGTAACTTTAGGGA
* * * * * **
48952252 GATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTTA-TT-TAGCTT
66 GATAAGGTTGGATATGATCTGCTCTACTACAAATTCAGAGAGATAAGATCTGCAATTTATAGCTT
* * *
48952315 TAATCCGTTCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTTCAGTCTGC-TCTACTACAAC
131 CAATCCGTTCCACTGCAA-TTTAGGGAAATAAGATTCACTATCTTCAGTCT-CTTCCACTACAAC
** * * *
48952379 TTTGGGGAGATAAGAGTAGTAACTTCAACCT
194 TTCAGGGAAATAAGACTAGTAACTTCAACCG
* * *
48952410 GTTCCACTGCAACTTCAGGGAGATAAGGCTTGCAACTTCAACTTGTTCCACTGTAACTTTAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGGCTTGCAACTTCAACCTGCTCCACTGTAACTTTAGGGA
48952475 GATA
66 GATA
48952479 CGACTAGTGG
Statistics
Matches: 250, Mismatches: 39, Indels: 7
0.84 0.13 0.02
Matches are distributed among these distances:
222 20 0.08
223 129 0.52
224 99 0.40
225 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (224 bp):
GCTCCACTGCAACTTCAGGGAGATAAGGCTTGCAACTTCAACCTGCTCCACTGTAACTTTAGGGA
GATAAGGTTGGATATGATCTGCTCTACTACAAATTCAGAGAGATAAGATCTGCAATTTATAGCTT
CAATCCGTTCCACTGCAATTTAGGGAAATAAGATTCACTATCTTCAGTCTCTTCCACTACAACTT
CAGGGAAATAAGACTAGTAACTTCAACCG
Found at i:48953419 original size:19 final size:19
Alignment explanation
Indices: 48953397--48953438 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
48953387 TGGCCTCTCC
*
48953397 TTTTTCCTTTCATTTTCTT
1 TTTTTCCTTTCATTTTATT
* *
48953416 TTTTTCTTTTTATTTTATT
1 TTTTTCCTTTCATTTTATT
48953435 TTTT
1 TTTT
48953439 AAAAGTGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTCCTTTCATTTTATT
Done.