Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 55 of 226
Found at i:22385606 original size:21 final size:21
Alignment explanation
Indices: 22385562--22385606 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
22385552 GCTTCTATCG
* * *
22385562 CTGCTTCTCTTACTGCGGCAT
1 CTGCTTCCCTCACTGCCGCAT
*
22385583 CTGCTTCCCTCACTGCCGCCT
1 CTGCTTCCCTCACTGCCGCAT
22385604 CTG
1 CTG
22385607 ATTTAAGTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.07, C:0.42, G:0.18, T:0.33
Consensus pattern (21 bp):
CTGCTTCCCTCACTGCCGCAT
Found at i:22386747 original size:20 final size:19
Alignment explanation
Indices: 22386705--22386747 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
22386695 AGTTATATAC
*
22386705 TTTAAAAATTGTTATGTAA
1 TTTAAAAATTGTTATGCAA
22386724 TTTAAAAATTGTTATGCAA
1 TTTAAAAATTGTTATGCAA
22386743 GTTTA
1 -TTTA
22386748 TATGTAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.47
Consensus pattern (19 bp):
TTTAAAAATTGTTATGCAA
Found at i:22386836 original size:25 final size:25
Alignment explanation
Indices: 22386808--22386858 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
22386798 AGTTTATATA
22386808 TAAGTTATGATATGATTGATAAATT
1 TAAGTTATGATATGATTGATAAATT
*
22386833 TAAGTTATGCTATGATTGATAAATT
1 TAAGTTATGATATGATTGATAAATT
22386858 T
1 T
22386859 TGAAAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (25 bp):
TAAGTTATGATATGATTGATAAATT
Found at i:22386883 original size:17 final size:18
Alignment explanation
Indices: 22386855--22386888 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
22386845 TGATTGATAA
22386855 ATTTTGAAAAATATATAG
1 ATTTTGAAAAATATATAG
22386873 ATTTT-AAAAATATATA
1 ATTTTGAAAAATATATA
22386889 TTAAAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (18 bp):
ATTTTGAAAAATATATAG
Found at i:22386952 original size:19 final size:19
Alignment explanation
Indices: 22386924--22386967 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
22386914 AGTTATGTAA
*
22386924 GTTATATAATTTAAAAATT
1 GTTATGTAATTTAAAAATT
22386943 GTTATGTAATTTAAAAATT
1 GTTATGTAATTTAAAAATT
22386962 GTTATG
1 GTTATG
22386968 CAAGTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (19 bp):
GTTATGTAATTTAAAAATT
Found at i:22386975 original size:20 final size:19
Alignment explanation
Indices: 22386931--22386975 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
22386921 TAAGTTATAT
*
22386931 AATTTAAAAATTGTTATGT
1 AATTTAAAAATTGTTATGC
22386950 AATTTAAAAATTGTTATGC
1 AATTTAAAAATTGTTATGC
22386969 AAGTTTA
1 AA-TTTA
22386976 TATGCATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.44
Consensus pattern (19 bp):
AATTTAAAAATTGTTATGC
Found at i:22387074 original size:25 final size:25
Alignment explanation
Indices: 22387036--22387086 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
22387026 AGTTTATATA
22387036 TAAGTTATGATATGATTGATAAATT
1 TAAGTTATGATATGATTGATAAATT
*
22387061 TAAGTTATGCTATGATTGATAAATT
1 TAAGTTATGATATGATTGATAAATT
22387086 T
1 T
22387087 TGAAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (25 bp):
TAAGTTATGATATGATTGATAAATT
Found at i:22387083 original size:228 final size:228
Alignment explanation
Indices: 22386686--22387192 Score: 960
Period size: 228 Copynumber: 2.2 Consensus size: 228
22386676 AAGGTATGTC
*
22386686 AGTTATGTAAGTTATATACTTTAAAAATTGTTATGTAATTTAAAAATTGTTATGCAAGTTTATAT
1 AGTTATGTAAGTTATATAATTTAAAAATTGTTATGTAATTTAAAAATTGTTATGCAAGTTTATAT
* *
22386751 GTAAGTTTATGTATTGTATGTTATTTAAGATATGCATGTATTATGTAAGTTTATATATAAGTTAT
66 GCAAGTTTATGTATTGTATGTTATTTAAGATATGCATGTATTAGGTAAGTTTATATATAAGTTAT
*
22386816 GATATGATTGATAAATTTAAGTTATGCTATGATTGATAAATTTTGAAAAATATATAGATTTTAAA
131 GATATGATTGATAAATTTAAGTTATGCTATGATTGATAAATTTTGAAAAAAATATAGATTTTAAA
*
22386881 AATATATATTAAAAATGTATATAAATATTTATA
196 AATATATATTAAAAATGTATAAAAATATTTATA
22386914 AGTTATGTAAGTTATATAATTTAAAAATTGTTATGTAATTTAAAAATTGTTATGCAAGTTTATAT
1 AGTTATGTAAGTTATATAATTTAAAAATTGTTATGTAATTTAAAAATTGTTATGCAAGTTTATAT
*
22386979 GCATGTTTATGTATTGTATGTTATTTAAGATATGCATGTATTAGGTAAGTTTATATATAAGTTAT
66 GCAAGTTTATGTATTGTATGTTATTTAAGATATGCATGTATTAGGTAAGTTTATATATAAGTTAT
22387044 GATATGATTGATAAATTTAAGTTATGCTATGATTGATAAATTTTGAAAAAAATATAGATTTTAAA
131 GATATGATTGATAAATTTAAGTTATGCTATGATTGATAAATTTTGAAAAAAATATAGATTTTAAA
22387109 AATATATATTAAAAATGTATAAAAATATTTATA
196 AATATATATTAAAAATGTATAAAAATATTTATA
22387142 AGTTATGTAAGTTATATAATTTAAAAATTGTTATGTAATTTAAAAATTGTT
1 AGTTATGTAAGTTATATAATTTAAAAATTGTTATGTAATTTAAAAATTGTT
22387193 TACTAATAAA
Statistics
Matches: 273, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
228 273 1.00
ACGTcount: A:0.41, C:0.02, G:0.13, T:0.45
Consensus pattern (228 bp):
AGTTATGTAAGTTATATAATTTAAAAATTGTTATGTAATTTAAAAATTGTTATGCAAGTTTATAT
GCAAGTTTATGTATTGTATGTTATTTAAGATATGCATGTATTAGGTAAGTTTATATATAAGTTAT
GATATGATTGATAAATTTAAGTTATGCTATGATTGATAAATTTTGAAAAAAATATAGATTTTAAA
AATATATATTAAAAATGTATAAAAATATTTATA
Found at i:22387115 original size:17 final size:18
Alignment explanation
Indices: 22387083--22387116 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22387073 TGATTGATAA
22387083 ATTTTGAAAAAAATATAG
1 ATTTTGAAAAAAATATAG
*
22387101 ATTTT-AAAAATATATA
1 ATTTTGAAAAAAATATA
22387117 TTAAAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
ATTTTGAAAAAAATATAG
Found at i:22387180 original size:19 final size:19
Alignment explanation
Indices: 22387152--22387192 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
22387142 AGTTATGTAA
22387152 GTTATATAATTTAAAAATT
1 GTTATATAATTTAAAAATT
*
22387171 GTTATGTAATTTAAAAATT
1 GTTATATAATTTAAAAATT
22387190 GTT
1 GTT
22387193 TACTAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
GTTATATAATTTAAAAATT
Found at i:22388324 original size:22 final size:22
Alignment explanation
Indices: 22388299--22388344 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
22388289 AAAATTTTCT
22388299 TAAATTTAATACTGATTAAACC
1 TAAATTTAATACTGATTAAACC
*
22388321 TAAATTTTATACTGATTAAACC
1 TAAATTTAATACTGATTAAACC
22388343 TA
1 TA
22388345 CGTAGAAAGA
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:0.43, C:0.13, G:0.04, T:0.39
Consensus pattern (22 bp):
TAAATTTAATACTGATTAAACC
Found at i:22390186 original size:21 final size:21
Alignment explanation
Indices: 22390159--22390209 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
22390149 TTAACCTAGA
22390159 CCCTAAACCACAACCCTTATC
1 CCCTAAACCACAACCCTTATC
* * *
22390180 CCTTAAACCATAACCTTTATC
1 CCCTAAACCACAACCCTTATC
22390201 CCCTAAACC
1 CCCTAAACC
22390210 CTAAACCCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.43, G:0.00, T:0.24
Consensus pattern (21 bp):
CCCTAAACCACAACCCTTATC
Found at i:22390213 original size:7 final size:7
Alignment explanation
Indices: 22390201--22390262 Score: 61
Period size: 7 Copynumber: 8.9 Consensus size: 7
22390191 AACCTTTATC
22390201 CCCTAAA
1 CCCTAAA
22390208 CCCTAAA
1 CCCTAAA
22390215 CCCTAAA
1 CCCTAAA
22390222 CCCTAAA
1 CCCTAAA
** **
22390229 CTATATT
1 CCCTAAA
* *
22390236 CCTTAGA
1 CCCTAAA
*
22390243 CCTTAAA
1 CCCTAAA
22390250 CCCTAAA
1 CCCTAAA
22390257 CCCTAA
1 CCCTAA
22390263 TCCAGTTTAG
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.39, C:0.37, G:0.02, T:0.23
Consensus pattern (7 bp):
CCCTAAA
Found at i:22390223 original size:35 final size:35
Alignment explanation
Indices: 22390183--22390258 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
22390173 CCTTATCCCT
* *
22390183 TAAACCATAACCTTTATCCCCTAAACCCTAAACCC
1 TAAACCATAAACTATATCCCCTAAACCCTAAACCC
* * * * *
22390218 TAAACCCTAAACTATATTCCTTAGACCTTAAACCC
1 TAAACCATAAACTATATCCCCTAAACCCTAAACCC
22390253 TAAACC
1 TAAACC
22390259 CTAATCCAGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.38, C:0.36, G:0.01, T:0.25
Consensus pattern (35 bp):
TAAACCATAAACTATATCCCCTAAACCCTAAACCC
Found at i:22393880 original size:70 final size:70
Alignment explanation
Indices: 22393709--22393862 Score: 254
Period size: 70 Copynumber: 2.2 Consensus size: 70
22393699 GTTATATGGC
* * * * *
22393709 ATGTATAGACTAGTGCCAATCGGATACATTTTGGGATATGAAATTAGCCATGTGAGTTGACTTGT
1 ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATGAAATTAGCCATGTGAGTTGACTTGT
22393774 AAATG
66 AAATG
*
22393779 ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATGAAATTAGCCATGTGAGTTGGCTTGT
1 ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATGAAATTAGCCATGTGAGTTGACTTGT
22393844 AAATG
66 AAATG
22393849 ATGTATAGGCTAGT
1 ATGTATAGGCTAGT
22393863 TTTATTATGG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 78 1.00
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.34
Consensus pattern (70 bp):
ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATGAAATTAGCCATGTGAGTTGACTTGT
AAATG
Found at i:22395950 original size:14 final size:15
Alignment explanation
Indices: 22395931--22395968 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
22395921 TCATAATGAC
*
22395931 TAATTAGTTTAATT-
1 TAATTAATTTAATTA
22395945 TAATTAATTTAATTA
1 TAATTAATTTAATTA
22395960 TAATTAATT
1 TAATTAATT
22395969 AAATAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TAATTAATTTAATTA
Found at i:22409598 original size:23 final size:23
Alignment explanation
Indices: 22409572--22409616 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
22409562 ACTCTTGTAT
*
22409572 TTTTATAAT-TTTGTTCACGTTCC
1 TTTTA-AATATTTATTCACGTTCC
*
22409595 TTTTAATTATTTATTCACGTTC
1 TTTTAAATATTTATTCACGTTC
22409617 TCATCATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.20, C:0.16, G:0.07, T:0.58
Consensus pattern (23 bp):
TTTTAAATATTTATTCACGTTCC
Found at i:22412692 original size:21 final size:21
Alignment explanation
Indices: 22412666--22412721 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
22412656 AAAGTTTTGT
22412666 TGTTTGAATTGATTGTCTTTC
1 TGTTTGAATTGATTGTCTTTC
*
22412687 TGTTTGAATTGATTGTTTTTC
1 TGTTTGAATTGATTGTCTTTC
*
22412708 TGTTCGAATTGATT
1 TGTTTGAATTGATT
22412722 CATTTTTGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.16, C:0.07, G:0.20, T:0.57
Consensus pattern (21 bp):
TGTTTGAATTGATTGTCTTTC
Found at i:22412727 original size:21 final size:20
Alignment explanation
Indices: 22412666--22412732 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
22412656 AAAGTTTTGT
*
22412666 TGTTTGAATTGATTGTCTTTC
1 TGTTTGAATTGATTAT-TTTC
*
22412687 TGTTTGAATTGATTGTTTTTC
1 TGTTTGAATTGATT-ATTTTC
*
22412708 TGTTCGAATTGATTCATTTT-
1 TGTTTGAATTGATT-ATTTTC
22412728 TGTTT
1 TGTTT
22412733 AAATCAACTC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
20 4 0.10
21 35 0.88
22 1 0.03
ACGTcount: A:0.15, C:0.07, G:0.18, T:0.60
Consensus pattern (20 bp):
TGTTTGAATTGATTATTTTC
Found at i:22413462 original size:18 final size:18
Alignment explanation
Indices: 22413436--22413477 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
22413426 AAAATTTTAG
22413436 AAAAA-ATAT-AATCTACA
1 AAAAATATATAAAT-TACA
*
22413453 AAAAATATATAAATTATA
1 AAAAATATATAAATTACA
22413471 AAAAATA
1 AAAAATA
22413478 ATACCAGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 5 0.23
18 14 0.64
19 3 0.14
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATATATAAATTACA
Found at i:22414414 original size:24 final size:24
Alignment explanation
Indices: 22414387--22414442 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
22414377 TTAAAATTAT
*
22414387 TAAAATTAATTTTTTTTATTCTTA
1 TAAAATTAATTTTTTTAATTCTTA
*
22414411 TAAAATTAATTTTTTTAATTTTTA
1 TAAAATTAATTTTTTTAATTCTTA
22414435 TAAAATTA
1 TAAAATTA
22414443 TCATCATCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
TAAAATTAATTTTTTTAATTCTTA
Found at i:22415047 original size:3 final size:3
Alignment explanation
Indices: 22415039--22415064 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22415029 CTAATTGGCT
22415039 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
22415065 TAAATTTCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:22417039 original size:5 final size:5
Alignment explanation
Indices: 22417029--22417078 Score: 52
Period size: 5 Copynumber: 10.2 Consensus size: 5
22417019 AATATATAAC
*
22417029 AATAT AATAT AACAT AAT-T AATAT AATAT ATTATAT AATA- AA-AT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT A--ATAT AATAT AATAT AATAT
22417078 A
1 A
22417079 CTAATATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
3 1 0.03
4 8 0.21
5 24 0.63
7 5 0.13
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:22420263 original size:9 final size:9
Alignment explanation
Indices: 22420249--22420279 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
22420239 GTTAAACGAA
22420249 TCGAGTTAT
1 TCGAGTTAT
*
22420258 TCGAGTTAA
1 TCGAGTTAT
22420267 TCGAGTTAT
1 TCGAGTTAT
22420276 TCGA
1 TCGA
22420280 ATCAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:22420351 original size:9 final size:9
Alignment explanation
Indices: 22420334--22420370 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
22420324 TGAGTTTTCG
22420334 AATTCGAAT
1 AATTCGAAT
*
22420343 AACTCGAAT
1 AATTCGAAT
22420352 AATTCGAAT
1 AATTCGAAT
22420361 AATTCGAAT
1 AATTCGAAT
22420370 A
1 A
22420371 TCCAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:22421415 original size:5 final size:5
Alignment explanation
Indices: 22421405--22421430 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22421395 TTCGAAAATT
22421405 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
22421431 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:22439259 original size:23 final size:23
Alignment explanation
Indices: 22439233--22439285 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
22439223 ATAAGTGCCA
22439233 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
22439256 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
22439279 CACTGAT
1 CACTGAT
22439286 CAATAACACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:22439385 original size:8 final size:8
Alignment explanation
Indices: 22439372--22439408 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
22439362 ACCCGGGACT
22439372 CACTGTAA
1 CACTGTAA
22439380 CACTGTAA
1 CACTGTAA
22439388 CACTGTAA
1 CACTGTAA
22439396 CACTGTAA
1 CACTGTAA
22439404 CACTG
1 CACTG
22439409 GTCTCTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:22447401 original size:20 final size:21
Alignment explanation
Indices: 22447364--22447404 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
22447354 AGTTTTCGTA
22447364 TTTTTATTTTTAGGAATTTAATT
1 TTTTTATTTTT--GAATTTAATT
22447387 TTTTTATTTTT-AATTTAA
1 TTTTTATTTTTGAATTTAA
22447405 AATTTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
23 11 0.61
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTTATTTTTGAATTTAATT
Found at i:22456760 original size:18 final size:18
Alignment explanation
Indices: 22456737--22456774 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
22456727 GATAATGAAG
22456737 AATGTAGAATAAA-ATTAA
1 AATGTAGAA-AAATATTAA
*
22456755 AATGTATAAAAATATTAA
1 AATGTAGAAAAATATTAA
22456773 AA
1 AA
22456775 CAAAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (18 bp):
AATGTAGAAAAATATTAA
Found at i:22457413 original size:31 final size:30
Alignment explanation
Indices: 22457378--22457463 Score: 82
Period size: 31 Copynumber: 2.8 Consensus size: 30
22457368 ATTAAAAGTG
*
22457378 TATAATTGAATCAAAATTAAAGTTTCATATA
1 TATAATTGAA-CAAAATTAAAGTTTCACATA
* ** * *
22457409 TATAATTGAACCACAACCAAATTTTCACATG
1 TATAATTGAA-CAAAATTAAAGTTTCACATA
* *
22457440 TATAATTGTACCAAATTAAAGTTT
1 TATAATTGAACAAAATTAAAGTTT
22457464 AGGTATCAAA
Statistics
Matches: 42, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
30 9 0.21
31 33 0.79
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (30 bp):
TATAATTGAACAAAATTAAAGTTTCACATA
Found at i:22459212 original size:2 final size:2
Alignment explanation
Indices: 22459205--22459248 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
22459195 TCCAACAATA
22459205 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22459247 AT
1 AT
22459249 TAGTTTTTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22459403 original size:8 final size:8
Alignment explanation
Indices: 22459390--22459423 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
22459380 TAATTAATTT
22459390 TTTTAAAA
1 TTTTAAAA
22459398 TTTTAAAA
1 TTTTAAAA
22459406 TTTTAAAA
1 TTTTAAAA
22459414 TATTTAAAA
1 T-TTTAAAA
22459423 T
1 T
22459424 ATATTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TTTTAAAA
Found at i:22459464 original size:10 final size:9
Alignment explanation
Indices: 22459389--22459464 Score: 56
Period size: 9 Copynumber: 8.8 Consensus size: 9
22459379 TTAATTAATT
22459389 TTTTTAAAA
1 TTTTTAAAA
22459398 -TTTTAAAA
1 TTTTTAAAA
22459406 -TTTTAAAA
1 TTTTTAAAA
*
22459414 TATTTAAAA
1 TTTTTAAAA
*
22459423 TATATT----
1 T-TTTTAAAA
*
22459429 TTTTTATATA
1 TTTTTA-AAA
22459439 TTTTTAAAA
1 TTTTTAAAA
22459448 TTTTTAAAGA
1 TTTTTAAA-A
22459458 TTTTTAA
1 TTTTTAA
22459465 TTTTTTTCTA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
5 3 0.06
6 1 0.02
8 16 0.30
9 18 0.33
10 16 0.30
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:22469327 original size:33 final size:32
Alignment explanation
Indices: 22469276--22469537 Score: 121
Period size: 33 Copynumber: 7.8 Consensus size: 32
22469266 ACATTTGTAG
* *
22469276 TGCCATAACCCAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATCAGAA
* * *
22469309 TGCCATAGCCTAGCTATGGTCTTACATATAAACA
1 TGCCATAGCCCAGCTATGGTCTTACAT-CAGA-A
* * * * * * * *
22469343 CTGTCATGGTCCAACCATGGTCTTACGTTCATAG
1 -TGCCATAGCCCAGCTATGGTCTTAC-ATCAGAA
* * * *
22469377 TGTCATAACCCAGTTATGGTCTTATCATGAGAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATCAGAA
* *
22469410 TGCCATAGCCCAGCTATGGTCTTACATATAAACA
1 TGCCATAGCCCAGCTATGGTCTTACAT-CAGA-A
* * * * * *
22469444 CTGCCAT-GATCCAACCATGGTCTTACGTTCATAG
1 -TGCCATAG-CCCAGCTATGGTCTTAC-ATCAGAA
* *
22469478 TGCCATATCCCAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATCAGAA
* ** **
22469511 TGCTATAATCCAGCTATGACCTTACAT
1 TGCCATAGCCCAGCTATGGTCTTACAT
22469538 ATAAACACTG
Statistics
Matches: 166, Mismatches: 51, Indels: 25
0.69 0.21 0.10
Matches are distributed among these distances:
32 9 0.05
33 107 0.64
34 5 0.03
35 43 0.26
36 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (32 bp):
TGCCATAGCCCAGCTATGGTCTTACATCAGAA
Found at i:22469457 original size:101 final size:101
Alignment explanation
Indices: 22469273--22469604 Score: 565
Period size: 101 Copynumber: 3.3 Consensus size: 101
22469263 TTTACATTTG
*
22469273 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCTAGCTATGGTCTTACATAT
1 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATAT
22469338 AAACACTGTCATGGTCCAACCATGGTCTTACGTTCA
66 AAACACTGTCATGGTCCAACCATGGTCTTACGTTCA
* *
22469374 TAGTGTCATAACCCAGTTATGGTCTTATCATGAGAATGCCATAGCCCAGCTATGGTCTTACATAT
1 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATAT
* *
22469439 AAACACTGCCATGATCCAACCATGGTCTTACGTTCA
66 AAACACTGTCATGGTCCAACCATGGTCTTACGTTCA
* * ** **
22469475 TAGTGCCATATCCCAGTTATGGTCTTATCATCAGAATGCTATAATCCAGCTATGACCTTACATAT
1 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATAT
22469540 AAACACTGTCATGGTCCAACCATGGTCTTACGTTCA
66 AAACACTGTCATGGTCCAACCATGGTCTTACGTTCA
22469576 TAGTGCCATAACCCAGTTATGGTCTTATC
1 TAGTGCCATAACCCAGTTATGGTCTTATC
22469605 CATTCATCAT
Statistics
Matches: 215, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 215 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (101 bp):
TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATAT
AAACACTGTCATGGTCCAACCATGGTCTTACGTTCA
Found at i:22472020 original size:43 final size:44
Alignment explanation
Indices: 22471972--22472056 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 44
22471962 CTTATGTCAA
*
22471972 TTGTTAGAGTA-TATTATACTTATATCT-CAAAGGTATTATTTTC
1 TTGTTAGAATATTATTATACTTATAT-TACAAAGGTATTATTTTC
* *
22472015 TTGTTAGAATATTTATTGTACTTATATTATAAAGGTATTATT
1 TTGTTAGAATA-TTATTATACTTATATTACAAAGGTATTATT
22472057 GTCATCTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 10 0.28
44 1 0.03
45 25 0.69
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.51
Consensus pattern (44 bp):
TTGTTAGAATATTATTATACTTATATTACAAAGGTATTATTTTC
Found at i:22472487 original size:11 final size:11
Alignment explanation
Indices: 22472471--22472499 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
22472461 AATTCAAGTT
22472471 TCGAGTTCTAG
1 TCGAGTTCTAG
22472482 TCGAGTTCTAG
1 TCGAGTTCTAG
22472493 TCGAGTT
1 TCGAGTT
22472500 GAATTTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.38
Consensus pattern (11 bp):
TCGAGTTCTAG
Found at i:22472633 original size:19 final size:20
Alignment explanation
Indices: 22472596--22472649 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
22472586 ACAAAAACTA
*
22472596 TAAAAATTTAAAATAATTT-
1 TAAAAATTCAAAATAATTTG
22472615 TCAAAAATTCAAAAT-ATTTG
1 T-AAAAATTCAAAATAATTTG
22472635 TAAAAATTCTAAAAT
1 TAAAAATTC-AAAAT
22472650 TGATATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 13 0.42
20 18 0.58
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (20 bp):
TAAAAATTCAAAATAATTTG
Found at i:22476060 original size:27 final size:27
Alignment explanation
Indices: 22476030--22476091 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
22476020 CCTATCAGGT
22476030 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
*
22476057 AGGCGCCAATGAAGGTGCCTTATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
22476084 AGGCGCCA
1 AGGCGCCA
22476092 TTACTAGACC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.29, C:0.23, G:0.34, T:0.15
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCATAGAG
Found at i:22476278 original size:22 final size:22
Alignment explanation
Indices: 22476253--22476311 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
22476243 AATAAACACC
22476253 AAAAAAT-TTTTAAAAATAAAA
1 AAAAAATATTTTAAAAATAAAA
*
22476274 AAAAAGTATTTTAAAAATAAAAA
1 AAAAAATATTTTAAAAAT-AAAA
22476297 ATAAAAATATATTTA
1 A-AAAAATAT-TTTA
22476312 TTGTATTCGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 6 0.19
22 10 0.31
23 5 0.16
24 7 0.22
25 4 0.12
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAAAATATTTTAAAAATAAAA
Found at i:22476955 original size:19 final size:19
Alignment explanation
Indices: 22476933--22476970 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
22476923 TATAAATTTA
*
22476933 TTAGTAACTTATTAGTAAT
1 TTAGTAACTTATTACTAAT
*
22476952 TTAGTAATTTATTACTAAT
1 TTAGTAACTTATTACTAAT
22476971 AAATTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (19 bp):
TTAGTAACTTATTACTAAT
Found at i:22477224 original size:27 final size:28
Alignment explanation
Indices: 22477186--22477262 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 28
22477176 CCGGCCCGGC
*
22477186 CCATTGGCGCCTCTCAGAAT-GGCACCA
1 CCATTGGCGCCTCCCAGAATAGGCACCA
*
22477213 CCATTGGCGCCTCCCAG-GTAGGCACCA
1 CCATTGGCGCCTCCCAGAATAGGCACCA
22477240 CCATTGGCGCCTCCCAG-ATAGGC
1 CCATTGGCGCCTCCCAGAATAGGC
22477263 GCCAATACTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.19, C:0.39, G:0.25, T:0.17
Consensus pattern (28 bp):
CCATTGGCGCCTCCCAGAATAGGCACCA
Found at i:22484426 original size:16 final size:16
Alignment explanation
Indices: 22484405--22484436 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22484395 TTTTGTTCAA
22484405 TTTTATATATAAATTT
1 TTTTATATATAAATTT
*
22484421 TTTTATTTATAAATTT
1 TTTTATATATAAATTT
22484437 AATTGTAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTATATATAAATTT
Found at i:22487610 original size:24 final size:24
Alignment explanation
Indices: 22487545--22487610 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
22487535 TTATATAGTA
*
22487545 TATTTAAA-TTTA-ATT-TGAATC
1 TATTTAAAGTTTATATTATCAATC
*
22487566 AATTTAAAGTTT-T-TTGAATCAATC
1 TATTTAAAGTTTATATT--ATCAATC
22487590 TATTTAAAGTTTATATTATCA
1 TATTTAAAGTTTATATTATCA
22487611 TTTAAAAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
21 9 0.26
22 3 0.09
24 20 0.57
25 1 0.03
26 2 0.06
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (24 bp):
TATTTAAAGTTTATATTATCAATC
Found at i:22491916 original size:14 final size:15
Alignment explanation
Indices: 22491891--22491920 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
22491881 AGTGCTGCTG
22491891 ATAAAGGGAAAAAAA
1 ATAAAGGGAAAAAAA
22491906 ATAAA-GGAAAAAAA
1 ATAAAGGGAAAAAAA
22491920 A
1 A
22491921 ACAGAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.07
Consensus pattern (15 bp):
ATAAAGGGAAAAAAA
Found at i:22491921 original size:15 final size:15
Alignment explanation
Indices: 22491891--22491921 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22491881 AGTGCTGCTG
*
22491891 ATAAAGGGAAAAAAA
1 ATAAAGGAAAAAAAA
22491906 ATAAAGGAAAAAAAA
1 ATAAAGGAAAAAAAA
22491921 A
1 A
22491922 CAGAAAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.06
Consensus pattern (15 bp):
ATAAAGGAAAAAAAA
Found at i:22494459 original size:27 final size:27
Alignment explanation
Indices: 22494429--22494516 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
22494419 TTTTTACATA
* *
22494429 ATATATTTATATATGCATTTTTTTTAT
1 ATATATATATATACGCATTTTTTTTAT
* * *
22494456 ATATATAGCACATACGCA-TATTTTTAT
1 ATATATA-TATATACGCATTTTTTTTAT
* *
22494483 ATATAATATATATAGGCATTTTTTTAAT
1 ATAT-ATATATATACGCATTTTTTTTAT
22494511 ATATAT
1 ATATAT
22494517 GTTTTTAAGC
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
27 27 0.56
28 21 0.44
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.51
Consensus pattern (27 bp):
ATATATATATATACGCATTTTTTTTAT
Found at i:22494577 original size:10 final size:10
Alignment explanation
Indices: 22494562--22494587 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
22494552 ATTCATACGA
22494562 TTTTTATATT
1 TTTTTATATT
22494572 TTTTTATATT
1 TTTTTATATT
22494582 TTTTTA
1 TTTTTA
22494588 AAACCTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTATATT
Found at i:22496561 original size:19 final size:20
Alignment explanation
Indices: 22496517--22496561 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
22496507 AACGTCTCTT
*
22496517 TATGCA-TTCATTTCATGCA
1 TATGCATTTCATTACATGCA
22496536 T-TCGCATTTCATTACAT-CA
1 TAT-GCATTTCATTACATGCA
22496555 TATGCAT
1 TATGCAT
22496562 CAAAGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
18 1 0.05
19 11 0.50
20 10 0.45
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (20 bp):
TATGCATTTCATTACATGCA
Found at i:22499286 original size:7 final size:7
Alignment explanation
Indices: 22499261--22499302 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
22499251 AGTGATGTGA
22499261 AAAAATG
1 AAAAATG
22499268 AAAAGATG
1 AAAA-ATG
22499276 -AAAATG
1 AAAAATG
22499282 AAAAATG
1 AAAAATG
22499289 AAAAA-G
1 AAAAATG
22499295 TAAAAATG
1 -AAAAATG
22499303 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 4 0.13
7 23 0.74
8 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:22499300 original size:21 final size:21
Alignment explanation
Indices: 22499261--22499302 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22499251 AGTGATGTGA
*
22499261 AAAAATGAAAAGATGAAAATG
1 AAAAATGAAAAGATAAAAATG
22499282 AAAAATGAAAA-AGTAAAAATG
1 AAAAATGAAAAGA-TAAAAATG
22499303 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAGATAAAAATG
Found at i:22501012 original size:100 final size:100
Alignment explanation
Indices: 22500832--22501294 Score: 766
Period size: 100 Copynumber: 4.6 Consensus size: 100
22500822 GATTAAAGCT
* * * *
22500832 TGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTAATATTACAATTAAAGAGATTGAAG
1 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAG
*
22500897 CCACAACGGTAGATCTTACTTCCTTAGCAGTGCAG
66 CCACAACGGCAGATCTTACTTCCTTAGCAGTGCAG
*
22500932 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAGAGATTGAAG
1 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAG
* *
22500997 CCACAATGGCGGATCTTACTTCCTTAGCAGTGCAG
66 CCACAACGGCAGATCTTACTTCCTTAGCAGTGCAG
*
22501032 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGTAATTAAAAAGATTGAAG
1 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAG
* * * *
22501097 CCACAACGGCGGATCTTACTTCCCT-GACGGTGCGG
66 CCACAACGGCAGATCTTACTTCCTTAG-CAGTGCAG
* *
22501132 TGGAACAGATTGAAGCTACAACGGCGGATCTGGTTTTCCTGATATTGCAATTAAAAAGATTGAAG
1 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAG
22501197 CCACAACGGCAGATCTTACTTCCTTAGCAGTGCAG
66 CCACAACGGCAGATCTTACTTCCTTAGCAGTGCAG
*
22501232 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCTCTGATATTGCAATTAAAAAGATTGA
1 TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGA
22501295 NNNNNNNNNN
Statistics
Matches: 339, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
99 1 0.00
100 337 0.99
101 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (100 bp):
TGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAG
CCACAACGGCAGATCTTACTTCCTTAGCAGTGCAG
Found at i:22501292 original size:50 final size:50
Alignment explanation
Indices: 22500835--22501294 Score: 332
Period size: 50 Copynumber: 9.2 Consensus size: 50
22500825 TAAAGCTTGG
* * * *
22500835 AACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTAATATTACAATTA
1 AACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGATATTGCAATTA
* * ** *** * * * * **
22500885 AAGAGATTGAAGCCACAACGGTAGATCTTACTT-CCTTAGCAGTGCAGTGG
1 AACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGA-TATTGCAATTA
*
22500935 AACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTA
1 AACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGATATTGCAATTA
* * * *** * * * * **
22500985 AAGAGATTGAAGCCACAATGGCGGATCTTACTT-CCTTAGCAGTGCAGTGG
1 AACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGA-TATTGCAATTA
* *
22501035 AACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGTAATTA
1 AACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGATATTGCAATTA
* * *** *** ** **
22501085 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACGGTGCGGTGG
1 AACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGATATTGCAATTA
*
22501135 AACAGATTGAAGCTACAACGGCGGATCTGGTTTTCCTGATATTGCAATTA
1 AACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGATATTGCAATTA
* * * *** * * * * **
22501185 AAAAGATTGAAGCCACAACGGCAGATCTTACTT-CCTTAGCAGTGCAGTGG
1 AACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGA-TATTGCAATTA
* *
22501235 AACAGATTGAAGCTACGACGGCGGATCTGGTTTCTCTGATATTGCAATTA
1 AACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGATATTGCAATTA
*
22501285 AAAAGATTGA
1 AACAGATTGA
22501295 NNNNNNNNNN
Statistics
Matches: 293, Mismatches: 111, Indels: 12
0.70 0.27 0.03
Matches are distributed among these distances:
49 12 0.04
50 270 0.92
51 11 0.04
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (50 bp):
AACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGATATTGCAATTA
Found at i:22501641 original size:44 final size:44
Alignment explanation
Indices: 22501593--22501691 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
22501583 CCAGTAACTC
* * *
22501593 TATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCT
1 TATCTCCCTGAGCAGCAGTGGAACAGATCAAAGATAACAGATCT
* * * * * *
22501637 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACGGATTT
1 TATCTCCCTGAGCAGCAGTGGAACAGATCAAAGATAACAGATCT
*
22501681 TACCTCCCTGA
1 TATCTCCCTGA
22501692 AGTTGCAGTA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (44 bp):
TATCTCCCTGAGCAGCAGTGGAACAGATCAAAGATAACAGATCT
Found at i:22501652 original size:132 final size:132
Alignment explanation
Indices: 22501491--22501753 Score: 409
Period size: 132 Copynumber: 2.0 Consensus size: 132
22501481 GAACAAATTG
* *
22501491 AAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCC
1 AAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACGGATTTTACCTCC
** * *
22501556 CTGTGGTTACAATAGAGTACATTGAAGCCAGTAACTCTATCTCCCTGGGCAGCAGTGGAATAGAT
66 CTGAAGTTACAATAGAGTACATTGAAGCCAGTAACTCTACCTCCCCGGGCAGCAGTGGAATAGAT
22501621 TA
131 TA
22501623 AAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACGGATTTTACCTCC
1 AAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACGGATTTTACCTCC
* * * * * * *
22501688 CTGAAGTTGCAGTAGAGTATATTGAAGCCAGTAATTCTACCTCCCCGGTCGGCAGTGGAATCGAT
66 CTGAAGTTACAATAGAGTACATTGAAGCCAGTAACTCTACCTCCCCGGGCAGCAGTGGAATAGAT
22501753 T
131 T
22501754 GAAAAAGTAG
Statistics
Matches: 118, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 118 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (132 bp):
AAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACGGATTTTACCTCC
CTGAAGTTACAATAGAGTACATTGAAGCCAGTAACTCTACCTCCCCGGGCAGCAGTGGAATAGAT
TA
Found at i:22503453 original size:27 final size:26
Alignment explanation
Indices: 22503423--22503495 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
22503413 ATTTATATAT
22503423 GCATTTTTTTATATATATAGCACATAC
1 GCATTTTTTTATATATATA-CACATAC
* * * *
22503450 GCATATTTTTATATATAATATATATAG
1 GCATTTTTTTATATAT-ATACACATAC
22503477 GCATTTTTTTAATATATAT
1 GCATTTTTTT-ATATATAT
22503496 GTTTTTAAGC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
27 30 0.77
28 9 0.23
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.49
Consensus pattern (26 bp):
GCATTTTTTTATATATATACACATAC
Found at i:22518563 original size:14 final size:13
Alignment explanation
Indices: 22518525--22518565 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 13
22518515 TTTTATAAAC
22518525 ATTTTAATTATTT
1 ATTTTAATTATTT
*
22518538 GTTTT-A-TATTT
1 ATTTTAATTATTT
22518549 ATTTTAAATTATTT
1 ATTTT-AATTATTT
22518563 ATT
1 ATT
22518566 ATATTAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
11 9 0.39
12 1 0.04
13 5 0.22
14 8 0.35
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (13 bp):
ATTTTAATTATTT
Found at i:22520813 original size:23 final size:23
Alignment explanation
Indices: 22520778--22520834 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
22520768 TATTTGGTTT
*
22520778 ATTTGAATTATTTAAGTT-ATTTTA
1 ATTTGAA-AATTTAAGTTGA-TTTA
*
22520802 ATTTGAAAATTTAATTTGATTTA
1 ATTTGAAAATTTAAGTTGATTTA
22520825 ATTT-AAAATT
1 ATTTGAAAATT
22520835 CGAAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 6 0.20
23 16 0.53
24 8 0.27
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (23 bp):
ATTTGAAAATTTAAGTTGATTTA
Found at i:22521765 original size:17 final size:17
Alignment explanation
Indices: 22521743--22521775 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
22521733 GGTGAGGTTC
22521743 CCGAGAGTTTGGGTAAA
1 CCGAGAGTTTGGGTAAA
22521760 CCGAGAGTTTGGGTAA
1 CCGAGAGTTTGGGTAA
22521776 TTTGAAACGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.12, G:0.36, T:0.24
Consensus pattern (17 bp):
CCGAGAGTTTGGGTAAA
Found at i:22523986 original size:34 final size:34
Alignment explanation
Indices: 22523898--22524015 Score: 152
Period size: 34 Copynumber: 3.5 Consensus size: 34
22523888 TAAAAACTAC
*
22523898 TACTTTTATAAATTTTCATGATAAACAATCAGAG
1 TACTTTTATAAATTTTCATGATAAACAATTAGAG
* * *
22523932 TAC-ATT-T-AATATTCATGATAAACAATTAGAA
1 TACTTTTATAAATTTTCATGATAAACAATTAGAG
22523963 TACTTTTATAAATTTTCATGATAAACAATTAGAG
1 TACTTTTATAAATTTTCATGATAAACAATTAGAG
* *
22523997 TACATGTAATAAATTTTCA
1 TAC-TTTTATAAATTTTCA
22524016 ACCAAACGAC
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
31 24 0.34
32 3 0.04
33 3 0.04
34 28 0.39
35 13 0.18
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (34 bp):
TACTTTTATAAATTTTCATGATAAACAATTAGAG
Found at i:22524566 original size:17 final size:17
Alignment explanation
Indices: 22524546--22524578 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
22524536 TTTAAATAAA
22524546 TAAATAATTTTCTCAAT
1 TAAATAATTTTCTCAAT
22524563 TAAATAATTTTCTCAA
1 TAAATAATTTTCTCAA
22524579 CCTGATTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATAATTTTCTCAAT
Found at i:22527249 original size:4 final size:4
Alignment explanation
Indices: 22527234--22527272 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
22527224 TTGCAAGGTA
* *
22527234 ATAC AAAC ATAC ATAC ATAC ATAC ATAC ATAA ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
22527273 TATATATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.23
Consensus pattern (4 bp):
ATAC
Found at i:22536997 original size:36 final size:35
Alignment explanation
Indices: 22536932--22537000 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
22536922 AAAATAGTAA
*
22536932 TAAAAATAATAATAAAACAACAGTTATATAATATC
1 TAAAAATAATAATAAAACAACAGTAATATAATATC
* **
22536967 TAAATAATAATAATAAAATAGTAGTAATATAATA
1 TAAA-AATAATAATAAAACAACAGTAATATAATA
22537001 GTAAAATAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 4 0.14
36 25 0.86
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.30
Consensus pattern (35 bp):
TAAAAATAATAATAAAACAACAGTAATATAATATC
Found at i:22537008 original size:36 final size:36
Alignment explanation
Indices: 22536924--22537008 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 36
22536914 ATGTCTCTAA
* *
22536924 AATAGTAATAAAAATAATAATAAAACAACAGTTATAT
1 AATAGTAA-AATAATAATAATAAAACAACAGTAATAT
* * **
22536961 AATA-TCTAAATAATAATAATAAAATAGTAGTAATAT
1 AATAGT-AAAATAATAATAATAAAACAACAGTAATAT
22536997 AATAGTAAAATA
1 AATAGTAAAATA
22537009 GTAACAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
36 33 0.85
37 6 0.15
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (36 bp):
AATAGTAAAATAATAATAATAAAACAACAGTAATAT
Found at i:22537020 original size:22 final size:22
Alignment explanation
Indices: 22536972--22537020 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
22536962 ATATCTAAAT
**
22536972 AATAATAATAAAATAGTAGTAA
1 AATAATAATAAAATAGTAACAA
* *
22536994 TATAATAGTAAAATAGTAACAA
1 AATAATAATAAAATAGTAACAA
22537016 AATAA
1 AATAA
22537021 CATCAGCAGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (22 bp):
AATAATAATAAAATAGTAACAA
Found at i:22537245 original size:3 final size:3
Alignment explanation
Indices: 22537237--22537276 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
22537227 AGTTATACTT
22537237 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
22537277 GTAGTAAGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22537974 original size:27 final size:29
Alignment explanation
Indices: 22537944--22537998 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
22537934 ACCCACCACT
22537944 TATAAAAGG-A-AAACATATCCAGATTGA
1 TATAAAAGGAACAAACATATCCAGATTGA
*
22537971 TATAAGAGGATACAAACATATCCAGATT
1 TATAAAAGGA-ACAAACATATCCAGATT
22537999 CATTAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 8 0.33
29 1 0.04
30 15 0.62
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.24
Consensus pattern (29 bp):
TATAAAAGGAACAAACATATCCAGATTGA
Found at i:22548004 original size:61 final size:61
Alignment explanation
Indices: 22547939--22548060 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
22547929 CCACAACCTC
22547939 CAAGAACAACCAGTAATAGGAAAGTAAGAATGTAAAAAAAACTCACCACCTCCAAGAACAA
1 CAAGAACAACCAGTAATAGGAAAGTAAGAATGTAAAAAAAACTCACCACCTCCAAGAACAA
22548000 CAAGAACAACCAGTAATAGGAAAGTAAGAATGTAAAAAAAACTCACCACCTCCAAGAACAA
1 CAAGAACAACCAGTAATAGGAAAGTAAGAATGTAAAAAAAACTCACCACCTCCAAGAACAA
22548061 ACACCTTCAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.54, C:0.21, G:0.13, T:0.11
Consensus pattern (61 bp):
CAAGAACAACCAGTAATAGGAAAGTAAGAATGTAAAAAAAACTCACCACCTCCAAGAACAA
Found at i:22552966 original size:126 final size:125
Alignment explanation
Indices: 22552783--22553038 Score: 345
Period size: 126 Copynumber: 2.0 Consensus size: 125
22552773 GTTTCTAATA
* * * *
22552783 AAATAGTATAAAATCGCTTCTAGCAGAATGCTATTTGAGAATAATTTGTGAAATCGCGCCCTCGT
1 AAATAGTATAAAATAGCTTCTAGCAGAATCCTATTTGAGAAGAATTTGTGAAATCGCGACCTCGT
*
22552848 -GGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTTTTGACATTTCTG-AG
66 CAG-CGCGCTTTTGCTACAGTAGGTCACGGAAGAAAT-ATTATTTTTTTGACATTTCTGTAG
* * *
22552908 CAAATAGTATAAAATAGCTTCTAGGAGGATCCTATTTGAGAAGAATTTGTGCAATCGCGACCTCG
1 -AAATAGTATAAAATAGCTTCTAGCAGAATCCTATTTGAGAAGAATTTGTGAAATCGCGACCTCG
* * * * * *
22552973 TCAGCGTGCTTTTGCTATAGTAGGTCATGTAAGAAATATTTTTTTTTTGACGTTTCTGTAG
65 TCAGCGCGCTTTTGCTACAGTAGGTCACGGAAGAAATATTATTTTTTTGACATTTCTGTAG
22553034 AAATA
1 AAATA
22553039 TTTTTTTTTT
Statistics
Matches: 114, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
125 24 0.21
126 89 0.78
127 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (125 bp):
AAATAGTATAAAATAGCTTCTAGCAGAATCCTATTTGAGAAGAATTTGTGAAATCGCGACCTCGT
CAGCGCGCTTTTGCTACAGTAGGTCACGGAAGAAATATTATTTTTTTGACATTTCTGTAG
Found at i:22553039 original size:28 final size:27
Alignment explanation
Indices: 22553004--22553066 Score: 108
Period size: 28 Copynumber: 2.3 Consensus size: 27
22552994 AGGTCATGTA
22553004 AGAAATATTTTTTTTTTGACGTTTCTG
1 AGAAATATTTTTTTTTTGACGTTTCTG
22553031 TAGAAATATTTTTTTTTTGACGTTTCTG
1 -AGAAATATTTTTTTTTTGACGTTTCTG
22553059 AGCAAATA
1 AG-AAATA
22553067 ATATAAAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 2 0.06
28 32 0.94
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (27 bp):
AGAAATATTTTTTTTTTGACGTTTCTG
Found at i:22556387 original size:116 final size:116
Alignment explanation
Indices: 22556179--22556416 Score: 413
Period size: 116 Copynumber: 2.1 Consensus size: 116
22556169 TGATAAATTG
22556179 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
* *
22556244 TAGTACCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
* *
22556295 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
* *
22556360 TAGTATCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAACAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
*
22556411 TGTTAA
1 TATTAA
22556417 CTTAGTTTAG
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 115 1.00
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.39
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
Found at i:22556439 original size:23 final size:23
Alignment explanation
Indices: 22556413--22557001 Score: 194
Period size: 29 Copynumber: 23.0 Consensus size: 23
22556403 TGTAACATTG
* *
22556413 TTAACTTAGTTTAGGGTTTTTAA
1 TTAAATTAGGTTAGGGTTTTTAA
*
22556436 TTAAATTAGGTTAAGGTTAGGGTTT--
1 TTAAATTAGGTTAGGGTT----TTTAA
*
22556461 TTAAGTTAAGGGTTTAGGGTTTTTAA
1 TTAAATT-A-GG-TTAGGGTTTTTAA
22556487 TTAAACTAGGTTAGGGTTAGGGTTTTTAA
1 TT-AA--A--TTA-GGTTAGGGTTTTTAA
22556516 TTAAATTAGGTTAGGGTTTTTAA
1 TTAAATTAGGTTAGGGTTTTTAA
* * *
22556539 TTAAATTAGGTTAAGGTTAAGGTTAGGG
1 TTAAATTAGGTTAGGGTT---TTTA--A
* *
22556567 TT--TTTAAGTTAAGGGTTTAGGTTTTTTAA
1 TTAAATTAGGTT-A--G----GG-TTTTTAA
22556596 TTAAATTAGGTTAGGGTTAGGGTTTTTAA
1 TTAAATTA-----GG-TTAGGGTTTTTAA
*
22556625 TTAAATTAGGTTAGAGTTTTTAA
1 TTAAATTAGGTTAGGGTTTTTAA
22556648 TTAAATTAGGTTA-GGTTTTTAA
1 TTAAATTAGGTTAGGGTTTTTAA
22556670 TTAAATTAGGTTAGGGGTTTTTAA
1 TTAAATTAGGTTA-GGGTTTTTAA
22556694 TTAAATTAGGTTAGAGTTAGGGTTTTTAA
1 TT-AA--A--TTAG-GTTAGGGTTTTTAA
* *
22556723 TTAATTTAGGTTAGGG--GTT-A
1 TTAAATTAGGTTAGGGTTTTTAA
**** **
22556743 -GGGGTTAGG---GATTTTAATTAAA
1 TTAAATTAGGTTAGGGTTT--TT-AA
** *
22556765 TTAGGTTAGGGTTAGGGTTTTAAA
1 TTAAATTA-GGTTAGGGTTTTTAA
22556789 TTAATTTAGGTTAGGGTTAGGGTTTTTAA
1 TTAA---A--TTA-GGTTAGGGTTTTTAA
*
22556818 TTAATTTAGGTTAGGGATAGGGTTTTTAA
1 TTAA---A--TTA-GGTTAGGGTTTTTAA
22556847 TTAAATTAGGTTAGGGTTAGGGTTTTTAA
1 TT-AA--A--TTA-GGTTAGGGTTTTTAA
22556876 TTAATTTAGGTTAGGGCTTAGGGTTTTTAA
1 TTAA---A--TTA-GG-TTAGGGTTTTTAA
22556906 TTAAATTAGGTTAGGGTTTTTAA
1 TTAAATTAGGTTAGGGTTTTTAA
22556929 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TT-AA--A--TTAGGTTAGGGTTTTTAA
* ****
22556957 TTAATTTAGGTTAGGGTTTAGGG
1 TTAAATTAGGTTAGGGTTTTTAA
22556980 TTAAATTAGGTTAGGGTTTTTA
1 TTAAATTAGGTTAGGGTTTTTA
22557002 TTACATAAAA
Statistics
Matches: 453, Mismatches: 46, Indels: 134
0.72 0.07 0.21
Matches are distributed among these distances:
16 1 0.00
19 5 0.01
20 3 0.01
21 2 0.00
22 22 0.05
23 131 0.29
24 34 0.08
25 12 0.03
26 14 0.03
27 16 0.04
28 35 0.08
29 132 0.29
30 29 0.06
31 8 0.02
33 2 0.00
34 3 0.01
36 2 0.00
37 2 0.00
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.46
Consensus pattern (23 bp):
TTAAATTAGGTTAGGGTTTTTAA
Found at i:22556508 original size:29 final size:29
Alignment explanation
Indices: 22556469--22556981 Score: 424
Period size: 29 Copynumber: 18.4 Consensus size: 29
22556459 TTTTAAGTTA
*
22556469 AGGGTTTAGGGTTTTTAATTAAACTAGGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTT
22556499 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
**
22556528 AGGGTT----TTTAATTAAATTAGGTTAAGGTT
1 AGGGTTAGGGTTT--TT-AATTAAATT-AGGTT
* *
22556557 AAGGTTAGGGTTTTTAAGTT-AA--GGGTTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGG-TT
* *
22556585 A-GGTT---TTTTAATTAAATT--A-G--GTT
1 AGGGTTAGGGTTT--TT-AATTAAATTAGGTT
22556608 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
22556637 A--G--A--GTTTTTAATT-AA--A--TT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
22556655 A-GGTTA-GGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
22556682 A--G---GGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
22556706 AGAGTTAGGGTTTTTAATTAATTTAGGTTAGGGGTT
1 AGGGTTAGGGTTTTTAATTAA---A--TTA--GGTT
*
22556742 AGGGGTTAGGGATTTTAATTAAATTAGGTT
1 A-GGGTTAGGGTTTTTAATTAAATTAGGTT
* *
22556772 AGGGTTAGGGTTTTAAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
22556801 AGGGTTAGGGTTTTTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
22556830 AGGGATAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
22556859 AGGGTTAGGGTTTTTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
22556888 AGGGCTTAGGGTTTTTAATT-AA--A--TT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTT
22556913 A-GGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
22556941 A-GGTTAGGGTTTTTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
22556969 AGGGTTTAGGGTT
1 AGGG-TTAGGGTT
22556982 AAATTAGGTT
Statistics
Matches: 407, Mismatches: 22, Indels: 108
0.76 0.04 0.20
Matches are distributed among these distances:
18 3 0.01
19 1 0.00
20 1 0.00
21 1 0.00
22 12 0.03
23 30 0.07
24 38 0.09
25 11 0.03
26 8 0.02
27 18 0.04
28 40 0.10
29 172 0.42
30 34 0.08
31 4 0.01
32 4 0.01
33 3 0.01
34 4 0.01
36 5 0.01
37 18 0.04
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.45
Consensus pattern (29 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTT
Found at i:22556548 original size:18 final size:21
Alignment explanation
Indices: 22556502--22556544 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
22556492 CTAGGTTAGG
22556502 GTTAGGGTTTTTAATTAAATTA
1 GTTAGGGTTTTTAATTAAA-TA
22556524 GGTTAGGGTTTTTAATTAAAT
1 -GTTAGGGTTTTTAATTAAAT
22556545 TAGGTTAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (21 bp):
GTTAGGGTTTTTAATTAAATA
Found at i:22556574 original size:21 final size:22
Alignment explanation
Indices: 22556549--22556599 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
22556539 TTAAATTAGG
22556549 TTAAGGTTAA-GG-TTAGGGTTT
1 TTAA-GTTAAGGGTTTAGGGTTT
*
22556570 TTAAGTTAAGGGTTTAGGTTTT
1 TTAAGTTAAGGGTTTAGGGTTT
22556592 TTAA-TTAA
1 TTAAGTTAA
22556600 ATTAGGTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 12 0.44
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.47
Consensus pattern (22 bp):
TTAAGTTAAGGGTTTAGGGTTT
Found at i:22556595 original size:22 final size:20
Alignment explanation
Indices: 22556445--22556490 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
22556435 ATTAAATTAG
22556445 GTTAAGGTTAGGGTTTTTAA
1 GTTAAGGTTAGGGTTTTTAA
22556465 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAA-GG-TTAGGGTTTTTAA
22556487 -TTAA
1 GTTAA
22556491 ACTAGGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 13 0.54
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (20 bp):
GTTAAGGTTAGGGTTTTTAA
Found at i:22556596 original size:57 final size:57
Alignment explanation
Indices: 22556421--22556664 Score: 228
Period size: 51 Copynumber: 4.6 Consensus size: 57
22556411 TGTTAACTTA
22556421 GTTTAGGGTTTTTAATT-AA--A--TT-AGGTTAAGGTTAGGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAAGGTTAGGGTTTTTAAGTTAAGG
* *
22556472 GTTTAGGGTTTTTAATTAAACTAGGTT-A-G----GGTTAGGGTTTTTAA-TTAAATTAG
1 GTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAAGGTTAGGGTTTTTAAGTT-AA--GG
22556525 G-TTAGGGTTTTTAATTAAATTAGGTTAAGGTTAAGGTTAGGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAAGGTTAGGGTTTTTAAGTTAAGG
* *
22556581 GTTTAGGTTTTTTAATTAAATTAGGTT-A-G----GGTTAGGGTTTTTAA-TTAAATTAG
1 GTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAAGGTTAGGGTTTTTAAGTT-AA--GG
*
22556634 G-TTAGAGTTTTTAATTAAATTAGGTT-AGGTT
1 GTTTAGGGTTTTTAATTAAATTAGGTTAAGGTT
22556665 TTTAATTAAA
Statistics
Matches: 164, Mismatches: 7, Indels: 40
0.78 0.03 0.19
Matches are distributed among these distances:
50 4 0.02
51 51 0.31
52 50 0.30
53 6 0.04
54 2 0.01
55 2 0.01
56 6 0.04
57 24 0.15
58 17 0.10
59 2 0.01
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.46
Consensus pattern (57 bp):
GTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAAGGTTAGGGTTTTTAAGTTAAGG
Found at i:22556937 original size:18 final size:21
Alignment explanation
Indices: 22556893--22556943 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 21
22556883 AGGTTAGGGC
22556893 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAA-TA-G
22556916 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAA-TA-G
22556939 TTAGG
1 TTAGG
22556944 TTAGGGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (21 bp):
TTAGGGTTTTTAATTAAATAG
Found at i:22556978 original size:58 final size:58
Alignment explanation
Indices: 22556460--22556981 Score: 518
Period size: 58 Copynumber: 9.3 Consensus size: 58
22556450 GGTTAGGGTT
* *
22556460 TTTAAGTTAAGGGTTTAGGGTTTTTAATTAAACTAGGTTAGGGTTAGGGTTTTTAATTAA
1 TTTAGGTT-AGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
* * ****
22556520 ---A--TTA-GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAAGG-TTAGGGTT--
1 TTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
* *
22556569 TTTAAGTTAAGGGTTTAGGTTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 TTTAGGTT-AGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
*
22556629 ---A--TTA-GGTTAGAGTTTTTAATT-AA--A--TTA-GGTTA-GGTTTTTAATTAA
1 TTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
* *
22556674 ATTAGGTTA--G---GGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAA
1 TTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
*
22556727 TTTAGGTTAGGGGTTAGGGGTTAGGGATTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAAATTA
1 TTTAGGTTA-GGGTTA-GGG-T-----TTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTA
22556792 A
58 A
* *
22556793 TTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGATAGGGTTTTTAATTAA
1 TTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
* *
22556851 ATTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGCTTAGGGTTTTTAATTAA
1 TTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG-TTAGGGTTTTTAATTAA
22556910 ---A--TTA-GGTTAGGGTTTTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTAA
1 TTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
22556961 TTTAGGTTAGGGTTTAGGGTT
1 TTTAGGTTAGGG-TTAGGGTT
22556982 AAATTAGGTT
Statistics
Matches: 391, Mismatches: 27, Indels: 90
0.77 0.05 0.18
Matches are distributed among these distances:
45 13 0.03
46 16 0.04
47 5 0.01
48 1 0.00
49 3 0.01
50 3 0.01
51 26 0.07
52 52 0.13
53 52 0.13
54 8 0.02
55 5 0.01
56 7 0.02
57 36 0.09
58 88 0.23
59 16 0.04
60 3 0.01
61 1 0.00
63 1 0.00
64 3 0.01
65 6 0.02
66 46 0.12
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (58 bp):
TTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
Found at i:22557094 original size:25 final size:25
Alignment explanation
Indices: 22557064--22557133 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
22557054 GAAATTTTTT
*
22557064 TATTTTATTACATCAAATAAATTTC
1 TATTTTATTACATCAAATAAACTTC
22557089 TATTTTATTACATCAAATAAACTTC
1 TATTTTATTACATCAAATAAACTTC
*
22557114 TATTTTATTATATCAAATAA
1 TATTTTATTACATCAAATAA
22557134 TATCAAAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.47
Consensus pattern (25 bp):
TATTTTATTACATCAAATAAACTTC
Found at i:22557110 original size:94 final size:93
Alignment explanation
Indices: 22556997--22557176 Score: 279
Period size: 94 Copynumber: 1.9 Consensus size: 93
22556987 AGGTTAGGGT
* * **
22556997 TTTTATTACATAAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATATCTCGAAATTTT
1 TTTTATTACATAAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATT
* *
22557062 TTTATTTTATTACATCAAATAAATTTCTA
66 TATATTTT-TTACATAAAATAAATTTCTA
* *
22557091 TTTTATTACATCAAATAAACTTCTATTTTATTATATCAAATAATATCAAAATAACTCAAAAAATT
1 TTTTATTACATAAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATT
22557156 TATATTTTTTACATAAAATAA
66 TATATTTTTTACATAAAATAA
22557177 TATCAAAATA
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 12 0.15
94 66 0.85
ACGTcount: A:0.44, C:0.11, G:0.01, T:0.44
Consensus pattern (93 bp):
TTTTATTACATAAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATT
TATATTTTTTACATAAAATAAATTTCTA
Found at i:22557912 original size:365 final size:364
Alignment explanation
Indices: 22557243--22557953 Score: 1109
Period size: 365 Copynumber: 2.0 Consensus size: 364
22557233 ATGCCCGGGG
* *
22557243 GATTCAGTGCCACATGGCGGCCGTCGACGGTTACGTGCTGGATTCCTGCTTCTCTAACTTTCGGC
1 GATTCAGTGCCACATGGCGGCCGTCGACGGTTACGCGCTGGATTCCTGCTTCTCTAACTTCCGGC
* * *
22557308 GGCAGTTGTTGTTCCTCCGGTGGGGATTCTGGGTCTTCCGGTTCGGCATCTAGTTATCGGACTTG
66 GGCAGTTGTTGTTCCTCCGGTGGAGATTCTGGGTCTTCCAGTTCGGCATCTAGTTATCAGACTTG
* *
22557373 GGACGATGATCCACCTTCAAAGAATAGTGTATATGGAGTTGTTTGCATCAGGAACGGCGACGGTG
131 GAACGATGATCCACCTTCAAAGAATAGTGTATATGGAGTTGTTTGCATCAGGAACGGCAACGGTG
* * *
22557438 TTTGAAACCCATACGTTGGTGGGGATTGGTAAAAATGAGAGCTCCCCAACGGCCCCCCTTGCGAT
196 GTTGAAACCCATACGTTGGTGGGGATTGGTAAAAAGGAGAGCTCCCCAACGGCCCCCCTTGAGAT
* * * * *
22557503 CCCTCGTGCGCCGTTGGCCTACACATCGGTGGTCTGCTCGGCATAACAGGAAATGGAGCTAAACC
261 CCCTCGTACGCCATTGGCATACACATCGGCGGTCCGCTCGGCATAACAGGAAATGGAGCTAAACC
*
22557568 GGGCATTTGGCTCCAACCTGCTTTCTCTAGCTTTCTCTA
326 GGACATTTGGCTCCAACCTGCTTTCTCTAGCTTTCTCTA
*
22557607 GATTCAGTGCCACATGGCGGCCGTCGACGGTTACGCGCTGGATTCCTGCTTTCTCTAGCTTCCGG
1 GATTCAGTGCCACATGGCGGCCGTCGACGGTTACGCGCTGGATTCCTGC-TTCTCTAACTTCCGG
* * * * *
22557672 CGGCGGTTGTTGTTCCTCCGGTGGAGATTCTGGTTCTTCCAGTTCGGCATTTGGTTGTCAGACTT
65 CGGCAGTTGTTGTTCCTCCGGTGGAGATTCTGGGTCTTCCAGTTCGGCATCTAGTTATCAGACTT
* *
22557737 GGAACGATGATCCATCTTCAAAGAATAGTGTATGTGGAGTTGTTTGCATCAGGAACGGCAACGGT
130 GGAACGATGATCCACCTTCAAAGAATAGTGTATATGGAGTTGTTTGCATCAGGAACGGCAACGGT
* *
22557802 GGTTGAAACCCATACGTTTGGTGGGGATTGGTAAAAAGGAGAGCTCTCCGACGG-CCCCCTTGAG
195 GGTTGAAACCCATACG-TTGGTGGGGATTGGTAAAAAGGAGAGCTCCCCAACGGCCCCCCTTGAG
* * * *
22557866 ATCCCTCGTATGCCATTGGTATATACATCGGCGGTCCGCTCGGCATAACAGGAAATGGAGCTGAA
259 ATCCCTCGTACGCCATTGGCATACACATCGGCGGTCCGCTCGGCATAACAGGAAATGGAGCTAAA
* *
22557931 TCGGACATTTGGCTCTAACCTGC
324 CCGGACATTTGGCTCCAACCTGC
22557954 CATAGGACTT
Statistics
Matches: 313, Mismatches: 32, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
364 48 0.15
365 231 0.74
366 34 0.11
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.28
Consensus pattern (364 bp):
GATTCAGTGCCACATGGCGGCCGTCGACGGTTACGCGCTGGATTCCTGCTTCTCTAACTTCCGGC
GGCAGTTGTTGTTCCTCCGGTGGAGATTCTGGGTCTTCCAGTTCGGCATCTAGTTATCAGACTTG
GAACGATGATCCACCTTCAAAGAATAGTGTATATGGAGTTGTTTGCATCAGGAACGGCAACGGTG
GTTGAAACCCATACGTTGGTGGGGATTGGTAAAAAGGAGAGCTCCCCAACGGCCCCCCTTGAGAT
CCCTCGTACGCCATTGGCATACACATCGGCGGTCCGCTCGGCATAACAGGAAATGGAGCTAAACC
GGACATTTGGCTCCAACCTGCTTTCTCTAGCTTTCTCTA
Found at i:22557996 original size:18 final size:18
Alignment explanation
Indices: 22557973--22558007 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22557963 TGGAAAAGGA
*
22557973 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
22557991 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
22558008 AAATGCACCT
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:22558653 original size:7 final size:7
Alignment explanation
Indices: 22558643--22558667 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22558633 TTATATACAT
22558643 AATACTA
1 AATACTA
22558650 AATACTA
1 AATACTA
22558657 AATACTA
1 AATACTA
22558664 AATA
1 AATA
22558668 TCAATCGAAT
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:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:22559429 original size:11 final size:11
Alignment explanation
Indices: 22559413--22559439 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
22559403 TATAAAAATA
22559413 TAAAATTATTT
1 TAAAATTATTT
22559424 TAAAATTATTT
1 TAAAATTATTT
22559435 TAAAA
1 TAAAA
22559440 AAGGAAATTG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TAAAATTATTT
Found at i:22559501 original size:22 final size:22
Alignment explanation
Indices: 22559476--22559526 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
22559466 AAATATGGAT
*
22559476 TTGAGATAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
22559498 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
22559520 TTGAGAG
1 TTGAGAG
22559527 GAAATATGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:22569955 original size:21 final size:24
Alignment explanation
Indices: 22569926--22569975 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
22569916 CCTTTTCAAC
22569926 TAATAA-TTTTAAA-TTAAATT-A
1 TAATAATTTTTAAAGTTAAATTGA
* *
22569947 TAATTATTTTTAAAGTTAATTTGA
1 TAATAATTTTTAAAGTTAAATTGA
22569971 TAATA
1 TAATA
22569976 TGATGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 5 0.22
22 7 0.30
23 6 0.26
24 5 0.22
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (24 bp):
TAATAATTTTTAAAGTTAAATTGA
Found at i:22577331 original size:17 final size:18
Alignment explanation
Indices: 22577305--22577350 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
22577295 AAATTTTAAA
22577305 TATT-ATTTAATAATTTT
1 TATTAATTTAATAATTTT
*
22577322 T-TTAATTTAAAAATTTT
1 TATTAATTTAATAATTTT
*
22577339 TATTAATCTAAT
1 TATTAATTTAAT
22577351 TGATGTGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 2 0.08
17 14 0.58
18 8 0.33
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTAATTTAATAATTTT
Found at i:22581792 original size:16 final size:16
Alignment explanation
Indices: 22581771--22581804 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
22581761 TACACAAACA
22581771 CAGTTTACCTATTCGC
1 CAGTTTACCTATTCGC
22581787 CAGTTTACCTATTCGC
1 CAGTTTACCTATTCGC
22581803 CA
1 CA
22581805 ATACAATTCG
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:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (16 bp):
CAGTTTACCTATTCGC
Found at i:22585108 original size:22 final size:22
Alignment explanation
Indices: 22585080--22585123 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
22585070 AACCACGAAT
22585080 TTTAGTATTTGGTCTCTTTAAG
1 TTTAGTATTTGGTCTCTTTAAG
22585102 TTTAGTATTTGGTCTCTTTAAG
1 TTTAGTATTTGGTCTCTTTAAG
22585124 AAGTTATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.09, G:0.18, T:0.55
Consensus pattern (22 bp):
TTTAGTATTTGGTCTCTTTAAG
Found at i:22588760 original size:2 final size:2
Alignment explanation
Indices: 22588753--22588780 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22588743 AATTAAAATA
22588753 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22588781 TAGAATGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22590502 original size:167 final size:167
Alignment explanation
Indices: 22590226--22590563 Score: 676
Period size: 167 Copynumber: 2.0 Consensus size: 167
22590216 TAAAGATAAA
22590226 ATGTGAAATTGATACCAATATAAAATTTTAACACAAATATTTTATGGCATCATTAATAATTCAAT
1 ATGTGAAATTGATACCAATATAAAATTTTAACACAAATATTTTATGGCATCATTAATAATTCAAT
22590291 TTTAATATAAATATTCAATATGACTAAACAATTCAATAATATAAAATGTGAAAATTAATTTAATA
66 TTTAATATAAATATTCAATATGACTAAACAATTCAATAATATAAAATGTGAAAATTAATTTAATA
22590356 ATATAAATAGTAGATATAAATAAAACTATTACTATTT
131 ATATAAATAGTAGATATAAATAAAACTATTACTATTT
22590393 ATGTGAAATTGATACCAATATAAAATTTTAACACAAATATTTTATGGCATCATTAATAATTCAAT
1 ATGTGAAATTGATACCAATATAAAATTTTAACACAAATATTTTATGGCATCATTAATAATTCAAT
22590458 TTTAATATAAATATTCAATATGACTAAACAATTCAATAATATAAAATGTGAAAATTAATTTAATA
66 TTTAATATAAATATTCAATATGACTAAACAATTCAATAATATAAAATGTGAAAATTAATTTAATA
22590523 ATATAAATAGTAGATATAAATAAAACTATTACTATTT
131 ATATAAATAGTAGATATAAATAAAACTATTACTATTT
22590560 ATGT
1 ATGT
22590564 TTAGGGATTT
Statistics
Matches: 171, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
167 171 1.00
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (167 bp):
ATGTGAAATTGATACCAATATAAAATTTTAACACAAATATTTTATGGCATCATTAATAATTCAAT
TTTAATATAAATATTCAATATGACTAAACAATTCAATAATATAAAATGTGAAAATTAATTTAATA
ATATAAATAGTAGATATAAATAAAACTATTACTATTT
Found at i:22594155 original size:17 final size:17
Alignment explanation
Indices: 22594135--22594167 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22594125 GTTTATGAAA
*
22594135 AAATAAAATACGAAAAG
1 AAATAAAAAACGAAAAG
22594152 AAATAAAAAACGAAAA
1 AAATAAAAAACGAAAA
22594168 TAGTATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.06, G:0.09, T:0.09
Consensus pattern (17 bp):
AAATAAAAAACGAAAAG
Found at i:22594467 original size:157 final size:157
Alignment explanation
Indices: 22594153--22594518 Score: 533
Period size: 157 Copynumber: 2.3 Consensus size: 157
22594143 TACGAAAAGA
* * * * * *
22594153 AATAAAAAACGAAAATAGTATATTTACTGAAATTAATAAAATCCCAAAA-AAAAAGAAAAATAAC
1 AATAAAATACGAAAATAGTATATTT-TTTAAAATAATAAAATCCAAAAATAAAAAGAAAAAGAAC
*
22594217 AAATGGCTAAAATAAGGGTTTTTCACTAAATTTATATAAAAAAACACACTAAAATAATACATTTC
65 AAATGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAAACACACTAAAATAATACATTTC
*
22594282 AAACATTATGTACTAAATAATATAAAAT
130 AAACATTATGTAATAAATAATATAAAAT
*
22594310 AATAAAATACGAAAATAGTATAATTTTTTAAAATAATAAAATCCGAAAATAAAAA-AAATAAGAA
1 AATAAAATACGAAAATAGTAT-ATTTTTTAAAATAATAAAATCCAAAAATAAAAAGAAA-AAGAA
* *
22594374 CAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATAT-AAAAAA-ACACTAAATTAATACATTT
64 CAAATGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAAACACACTAAAATAATACATTT
*
22594437 CAAACTTTATGTAATAAAATAATATAAAAT
129 CAAACATTATGTAAT-AAATAATATAAAAT
* *
22594467 AATAAAATACGAAAATAGCATATTTTTTGAAAGTAATAAAATCCAAAAATAA
1 AATAAAATACGAAAATAGTATATTTTTT-AAAATAATAAAATCCAAAAATAA
22594519 GAAATGTATT
Statistics
Matches: 190, Mismatches: 14, Indels: 10
0.89 0.07 0.05
Matches are distributed among these distances:
156 38 0.20
157 103 0.54
158 49 0.26
ACGTcount: A:0.57, C:0.09, G:0.07, T:0.28
Consensus pattern (157 bp):
AATAAAATACGAAAATAGTATATTTTTTAAAATAATAAAATCCAAAAATAAAAAGAAAAAGAACA
AATGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAAACACACTAAAATAATACATTTCA
AACATTATGTAATAAATAATATAAAAT
Found at i:22594900 original size:16 final size:16
Alignment explanation
Indices: 22594845--22594903 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
22594835 ATTTTTGTTT
22594845 TTTTATTTCGTTTC-GTA
1 TTTTATTT--TTTCAGTA
22594862 TTTTATTTTTTCA-TAA
1 TTTTATTTTTTCAGT-A
***
22594878 ACATATTTTTTCAGTA
1 TTTTATTTTTTCAGTA
22594894 TTTTATTTTT
1 TTTTATTTTT
22594904 AATACTATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
15 5 0.15
16 19 0.58
17 9 0.27
ACGTcount: A:0.20, C:0.08, G:0.05, T:0.66
Consensus pattern (16 bp):
TTTTATTTTTTCAGTA
Found at i:22596608 original size:13 final size:13
Alignment explanation
Indices: 22596590--22596614 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22596580 AATAATAAAT
22596590 TTTTTTATTTTTA
1 TTTTTTATTTTTA
22596603 TTTTTTATTTTT
1 TTTTTTATTTTT
22596615 TAACTTTAAA
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:22596661 original size:29 final size:28
Alignment explanation
Indices: 22596596--22596662 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 28
22596586 AAATTTTTTT
*
22596596 ATTTTTATTTTTTATTTTTTAACTTTAAA
1 ATTTTT-TTTTTAATTTTTTAACTTTAAA
* *
22596625 ATACTTTTTTTTAATTTTTTTAATTTTAAA
1 AT-TTTTTTTTTAA-TTTTTTAACTTTAAA
22596655 ATTTTTTT
1 ATTTTTTT
22596663 AAAATATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 13 0.41
30 19 0.59
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (28 bp):
ATTTTTTTTTTAATTTTTTAACTTTAAA
Found at i:22596664 original size:41 final size:41
Alignment explanation
Indices: 22596619--22596723 Score: 187
Period size: 40 Copynumber: 2.6 Consensus size: 41
22596609 ATTTTTTAAC
*
22596619 TTTAAAATACTTTTTTTTAATTTTTTTAATTTTAAAATTTT
1 TTTAAAATACTTTTTTTTAATTTTTTAAATTTTAAAATTTT
22596660 TTTAAAATA-TTTTTTTTAATTTTTTAAATTTTAAAATTTT
1 TTTAAAATACTTTTTTTTAATTTTTTAAATTTTAAAATTTT
22596700 TTTAAAATAC-TTTTTTTAATTTTT
1 TTTAAAATACTTTTTTTTAATTTTT
22596724 ATTTTAATTT
Statistics
Matches: 62, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
40 53 0.85
41 9 0.15
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (41 bp):
TTTAAAATACTTTTTTTTAATTTTTTAAATTTTAAAATTTT
Found at i:22596672 original size:29 final size:30
Alignment explanation
Indices: 22596608--22596674 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
22596598 TTTTATTTTT
**
22596608 TATTTTTTAACTTTAAAATACTTTTTTTTAA
1 TATTTTTTAACTTTAAAATA-TTTTTTAAAA
*
22596639 T-TTTTTTAATTTTAAAAT-TTTTTTAAAA
1 TATTTTTTAACTTTAAAATATTTTTTAAAA
22596667 TATTTTTT
1 TATTTTTT
22596675 TTAATTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 9 0.28
29 6 0.19
30 16 0.50
31 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (30 bp):
TATTTTTTAACTTTAAAATATTTTTTAAAA
Found at i:22596674 original size:12 final size:11
Alignment explanation
Indices: 22596648--22596707 Score: 58
Period size: 11 Copynumber: 5.8 Consensus size: 11
22596638 ATTTTTTTAA
22596648 TTTTAAAATTT
1 TTTTAAAATTT
22596659 TTTTAAAATATT
1 TTTTAAAAT-TT
**
22596671 TTTTTTAA-TT
1 TTTTAAAATTT
22596681 TTTT-AAA---
1 TTTTAAAATTT
22596688 TTTTAAAATTT
1 TTTTAAAATTT
22596699 TTTTAAAAT
1 TTTTAAAAT
22596708 ACTTTTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
7 4 0.10
8 3 0.07
9 2 0.05
10 6 0.15
11 18 0.44
12 8 0.20
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:22598711 original size:158 final size:158
Alignment explanation
Indices: 22598418--22598736 Score: 476
Period size: 158 Copynumber: 2.0 Consensus size: 158
22598408 TAATTACTTT
* * ** *
22598418 TTTATTAAGTAAAGCTAAAAATCAGTATAAGATAATTTTAATGTAATTCCATAAGAGCCTCGATA
1 TTTATAAAGTAAAACTAAAAATCAACATAAGATAATTTTAATGTAATTCCATAAGAGCCTCAATA
* * * * *
22598483 TAACCCAATGCCTTTAAATATGGAGAGTGATTCTACTTGATCCTCAAGTAACCATTTTTCAAGTT
66 TAACCCAATGCCTTTAAACATGGAAAATGACTCTACTTGATCATCAAGTAACCATTTTTCAAGTT
*
22598548 GTCAACCTTAACTCAACTGGTATTCATG
131 GTCAACCTTAACTCAACTGATATTCATG
* *
22598576 TTTATAAAGTAAAACTAAAAATCAACATAGGATAATTTTGATGTAATTCCATAAGAGCCTCAATA
1 TTTATAAAGTAAAACTAAAAATCAACATAAGATAATTTTAATGTAATTCCATAAGAGCCTCAATA
* *
22598641 TAATCCAATGCCTTTAAACATGGAAAATGACTCTACTTGATTATCAAGTAACCATTTTTCAAGTT
66 TAACCCAATGCCTTTAAACATGGAAAATGACTCTACTTGATCATCAAGTAACCATTTTTCAAGTT
* * *
22598706 TTCAACCTTAACTCAATTGATCTTCATG
131 GTCAACCTTAACTCAACTGATATTCATG
22598734 TTT
1 TTT
22598737 TGCGTTCTAA
Statistics
Matches: 143, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
158 143 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.35
Consensus pattern (158 bp):
TTTATAAAGTAAAACTAAAAATCAACATAAGATAATTTTAATGTAATTCCATAAGAGCCTCAATA
TAACCCAATGCCTTTAAACATGGAAAATGACTCTACTTGATCATCAAGTAACCATTTTTCAAGTT
GTCAACCTTAACTCAACTGATATTCATG
Found at i:22599897 original size:24 final size:25
Alignment explanation
Indices: 22599869--22599918 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
22599859 TGAATTACAC
*
22599869 TTTA-TGGATTGCAGTAGAATGGTT
1 TTTATTGGAATGCAGTAGAATGGTT
22599893 TTTATTTTGGAATGCAGTAGAATGGT
1 TTTA--TTGGAATGCAGTAGAATGGT
22599919 GAAGATGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 4 0.18
27 18 0.82
ACGTcount: A:0.26, C:0.04, G:0.28, T:0.42
Consensus pattern (25 bp):
TTTATTGGAATGCAGTAGAATGGTT
Found at i:22601857 original size:58 final size:58
Alignment explanation
Indices: 22601784--22601902 Score: 211
Period size: 58 Copynumber: 2.1 Consensus size: 58
22601774 CTTTCTTTTT
* *
22601784 AGTCGAAAGAGAGAAAGATTCGTCTTTACATAGTGACTAGTCATCTTGTTCCTAAGCC
1 AGTCGAAAGAAAGAAAGATTCGTCTTTACATAGTGACTAGCCATCTTGTTCCTAAGCC
*
22601842 AGTCGAAAGAAAGAAAGATTCGTCTTTACATAGTGGCTAGCCATCTTGTTCCTAAGCC
1 AGTCGAAAGAAAGAAAGATTCGTCTTTACATAGTGACTAGCCATCTTGTTCCTAAGCC
22601900 AGT
1 AGT
22601903 AGCATATTCA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (58 bp):
AGTCGAAAGAAAGAAAGATTCGTCTTTACATAGTGACTAGCCATCTTGTTCCTAAGCC
Found at i:22602051 original size:13 final size:13
Alignment explanation
Indices: 22602033--22602057 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22602023 ATTATTAATA
22602033 TTATTTTGTGTGT
1 TTATTTTGTGTGT
22602046 TTATTTTGTGTG
1 TTATTTTGTGTG
22602058 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:22603790 original size:41 final size:41
Alignment explanation
Indices: 22603745--22603906 Score: 200
Period size: 41 Copynumber: 4.0 Consensus size: 41
22603735 AAATTATTCA
* *
22603745 GACTATACGTCTAGGAGGCTAAGTGCCGGTGAATTAAATCG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
* *
22603786 GACTATACGTCTAGCAGGATAAATGCCGGTGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
* *
22603827 GACTATACGTCTAGCAGGCTAAGTGCCGATGAACTGAATCAG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATC-G
* * * * * *
22603869 G-CTACAAGCCTAGGAGGCTAAGTGCCAGTGAACTGAAT
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAAT
22603907 TAAACTATAA
Statistics
Matches: 106, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
41 104 0.98
42 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (41 bp):
GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
Found at i:22604053 original size:2 final size:2
Alignment explanation
Indices: 22604046--22604076 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22604036 AGTGAGTATG
22604046 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22604077 CGTGTCATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22607988 original size:20 final size:19
Alignment explanation
Indices: 22607949--22607988 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
22607939 AAATAGTGAG
* *
22607949 AATTTATTTTCTAAGTATA
1 AATTTATTTTCCAAGAATA
22607968 AATTCTATTTTCCAAGAATA
1 AATT-TATTTTCCAAGAATA
22607988 A
1 A
22607989 CGATTCTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (19 bp):
AATTTATTTTCCAAGAATA
Found at i:22622080 original size:4 final size:4
Alignment explanation
Indices: 22622010--22622062 Score: 54
Period size: 4 Copynumber: 12.8 Consensus size: 4
22622000 TAAGTAATAA
* *
22622010 AAAG AAAT AAAG AAAG AAAG ATAG AAATG AAACAG AAAG -AAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA-G -AA-AG AAAG AAAG AAAG AAAG
22622060 AAA
1 AAA
22622063 AAGAAAAAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
3 3 0.07
4 31 0.76
5 3 0.07
6 3 0.07
7 1 0.02
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.06
Consensus pattern (4 bp):
AAAG
Found at i:22623394 original size:34 final size:31
Alignment explanation
Indices: 22623363--22623431 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 31
22623353 GTGATGAGAA
* *
22623363 TTGAGTATGGTATGAAATGATGTATTTATGAG
1 TTGAGTAT-ATATGAAATGATGTATTCATGAG
22623395 TTGA--ATATATGAAATGATGTATTCATGAG
1 TTGAGTATATATGAAATGATGTATTCATGAG
22623424 TTGAGTAT
1 TTGAGTAT
22623432 TGAATGGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 25 0.76
30 2 0.06
31 2 0.06
32 4 0.12
ACGTcount: A:0.33, C:0.01, G:0.25, T:0.41
Consensus pattern (31 bp):
TTGAGTATATATGAAATGATGTATTCATGAG
Found at i:22623406 original size:29 final size:29
Alignment explanation
Indices: 22623373--22623435 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
22623363 TTGAGTATGG
*
22623373 TATGAAATGATGTATTTATGAGTTGAATA
1 TATGAAATGATGTATTCATGAGTTGAATA
*
22623402 TATGAAATGATGTATTCATGAGTTGAGTA
1 TATGAAATGATGTATTCATGAGTTGAATA
22623431 T-TGAA
1 TATGAA
22623436 TGGTTAATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.40
Consensus pattern (29 bp):
TATGAAATGATGTATTCATGAGTTGAATA
Found at i:22630903 original size:18 final size:18
Alignment explanation
Indices: 22630880--22630916 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
22630870 AATCTTTCTT
22630880 TCTTTCTTCC-TCTGTTTC
1 TCTTTC-TCCTTCTGTTTC
22630898 TCTTTCTCCTTCTGTTTC
1 TCTTTCTCCTTCTGTTTC
22630916 T
1 T
22630917 GTTACTCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.00, C:0.32, G:0.05, T:0.62
Consensus pattern (18 bp):
TCTTTCTCCTTCTGTTTC
Found at i:22638121 original size:29 final size:29
Alignment explanation
Indices: 22638079--22638135 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
22638069 AGCCCCGTGA
* *
22638079 CAAGTGGTATCCGAGCTGTTGGTTCGAAC
1 CAAGTGATATCCGAGCTATTGGTTCGAAC
* *
22638108 CAAGTGATGTCCGAGTTATTGGTTCGAA
1 CAAGTGATATCCGAGCTATTGGTTCGAA
22638136 GGCACCGTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (29 bp):
CAAGTGATATCCGAGCTATTGGTTCGAAC
Found at i:22638932 original size:25 final size:25
Alignment explanation
Indices: 22638903--22639043 Score: 99
Period size: 25 Copynumber: 5.7 Consensus size: 25
22638893 GAAACTCTTT
22638903 CGAGCCATGA-AACGGGAAGCTTATG
1 CGAGCCAT-ATAACGGGAAGCTTATG
* *
22638928 TGAGCCATATAACGGGAAGCTTTTG
1 CGAGCCATATAACGGGAAGCTTATG
** * *
22638953 CGAGCCA-ATTATTGGGAAGCTCATA
1 CGAGCCATA-TAACGGGAAGCTTATG
* *
22638978 CGAGCCATA-AACGGGAAGCTCAAG
1 CGAGCCATATAACGGGAAGCTTATG
* * * * *
22639002 AGAGCCAAATATCAGGAAGCTCATG
1 CGAGCCATATAACGGGAAGCTTATG
* * *
22639027 AGAGCCATGTAATGGGA
1 CGAGCCATATAACGGGA
22639044 TGCTCATAAG
Statistics
Matches: 90, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
24 20 0.22
25 69 0.77
26 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.18
Consensus pattern (25 bp):
CGAGCCATATAACGGGAAGCTTATG
Found at i:22639009 original size:49 final size:50
Alignment explanation
Indices: 22638917--22639049 Score: 135
Period size: 49 Copynumber: 2.7 Consensus size: 50
22638907 CCATGAAACG
* * *** * * **
22638917 GGAAGCTTATGTGAGCCATATAACGGGAAGCTTTTGCGAGCCAATTATTG
1 GGAAGCTCATGAGAGCCATATAACGGGAAGCTCAAGAGAGCCAAATATCA
22638967 GGAAGCTCAT-ACGAGCCATA-AACGGGAAGCTCAAGAGAGCCAAATATCA
1 GGAAGCTCATGA-GAGCCATATAACGGGAAGCTCAAGAGAGCCAAATATCA
* * *
22639016 GGAAGCTCATGAGAGCCATGTAATGGGATGCTCA
1 GGAAGCTCATGAGAGCCATATAACGGGAAGCTCA
22639050 TAAGAGTTAA
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
49 39 0.57
50 29 0.43
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.20
Consensus pattern (50 bp):
GGAAGCTCATGAGAGCCATATAACGGGAAGCTCAAGAGAGCCAAATATCA
Found at i:22639032 original size:74 final size:75
Alignment explanation
Indices: 22638903--22639051 Score: 176
Period size: 74 Copynumber: 2.0 Consensus size: 75
22638893 GAAACTCTTT
* * * * * ** * *
22638903 CGAGCCATGAAACGGGAAGCTTATGTGAGCCATATAACGGGAAGCTTTTGCGAGCCAAT-TATTG
1 CGAGCCATGAAACGGGAAGCTCAAGAGAGCCAAATAACAGGAAGCTCATGAGAGCC-ATGTAATG
22638967 GGAAGCTCATA
65 GGAAGCTCATA
*
22638978 CGAGCCAT-AAACGGGAAGCTCAAGAGAGCCAAATATCAGGAAGCTCATGAGAGCCATGTAATGG
1 CGAGCCATGAAACGGGAAGCTCAAGAGAGCCAAATAACAGGAAGCTCATGAGAGCCATGTAATGG
*
22639042 GATGCTCATA
66 GAAGCTCATA
22639052 AGAGTTAAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
73 2 0.03
74 52 0.84
75 8 0.13
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.19
Consensus pattern (75 bp):
CGAGCCATGAAACGGGAAGCTCAAGAGAGCCAAATAACAGGAAGCTCATGAGAGCCATGTAATGG
GAAGCTCATA
Found at i:22648696 original size:14 final size:15
Alignment explanation
Indices: 22648679--22648707 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22648669 ATAATTTATT
22648679 AATTTA-TTTTAATA
1 AATTTATTTTTAATA
22648693 AATTTATTTTTAATA
1 AATTTATTTTTAATA
22648708 TAAAATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTTATTTTTAATA
Found at i:22650195 original size:46 final size:46
Alignment explanation
Indices: 22650143--22650237 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
22650133 ACAAAGATAG
*
22650143 AAACCAAAATATTATCTCCTAAACTTTAGCATATAATCTCCTAATT
1 AAACCAAAATACTATCTCCTAAACTTTAGCATATAATCTCCTAATT
*
22650189 AAACCAAAATACTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATACTATCTCCTAAACTTTAGCATATAATCTCCTAATT
22650235 AAA
1 AAA
22650238 AGAAAATAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.33
Consensus pattern (46 bp):
AAACCAAAATACTATCTCCTAAACTTTAGCATATAATCTCCTAATT
Found at i:22667222 original size:29 final size:29
Alignment explanation
Indices: 22667169--22667228 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
22667159 TGCTATAAGT
22667169 TTTTATACTCTTTATTTATCTGAATTTTAG
1 TTTTATACTCTTTATTTATCTGAA-TTTAG
*
22667199 TTTTATACT-TTTATTT-TTTAGAATTTAG
1 TTTTATACTCTTTATTTATCT-GAATTTAG
22667227 TT
1 TT
22667229 CCTCTACTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 9 0.32
29 10 0.36
30 9 0.32
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (29 bp):
TTTTATACTCTTTATTTATCTGAATTTAG
Found at i:22668858 original size:3 final size:3
Alignment explanation
Indices: 22668850--22668900 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
22668840 ATAGGCGTAT
22668850 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
22668898 ATA
1 ATA
22668901 TCAATAAATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Done.