Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, whole genome shotgun sequence
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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 68 of 117
Found at i:12575804 original size:17 final size:17
Alignment explanation
Indices: 12575784--12575843 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
12575774 ATTACTATTT
12575784 TTAAAATATTATTTATA
1 TTAAAATATTATTTATA
* *
12575801 TTAATATAATA-TTAT-
1 TTAAAATATTATTTATA
*
12575816 TAAAAATATCT-TTTATTA
1 TTAAAATAT-TATTTA-TA
12575834 TTAAAATATT
1 TTAAAATATT
12575844 GAAATATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 6 0.18
16 8 0.24
17 11 0.33
18 8 0.24
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAAATATTATTTATA
Found at i:12576057 original size:18 final size:18
Alignment explanation
Indices: 12576034--12576073 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
12576024 AAACTAATAA
*
12576034 AATATT-ATTATGTTAAAT
1 AATATTAATTAT-TAAAAT
12576052 AATATTAATTATTAAAAT
1 AATATTAATTATTAAAAT
12576070 AATA
1 AATA
12576074 AAAAATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
AATATTAATTATTAAAAT
Found at i:12576105 original size:20 final size:20
Alignment explanation
Indices: 12576029--12576119 Score: 64
Period size: 20 Copynumber: 4.5 Consensus size: 20
12576019 AAAATAAACT
12576029 AATAA-AATATTATTATGTT-A
1 AATAATAATATTA-TAT-TTAA
* *
12576049 AATAATATTAAT-TA-TTAA
1 AATAATAATATTATATTTAA
* *
12576067 AATAATAAAAAATATTATTTAA
1 AATAAT-AATATTA-TATTTAA
* *
12576089 TATATTAATATTATATTTAA
1 AATAATAATATTATATTTAA
12576109 AATAATAATAT
1 AATAATAATAT
12576120 AATGCTACTT
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
17 2 0.04
18 7 0.13
19 6 0.11
20 21 0.38
21 11 0.20
22 8 0.15
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (20 bp):
AATAATAATATTATATTTAA
Found at i:12576105 original size:48 final size:48
Alignment explanation
Indices: 12576010--12576105 Score: 106
Period size: 48 Copynumber: 2.0 Consensus size: 48
12576000 AGTATTAAGA
* * *
12576010 AATTATTAAAAAATAAACTAATAAAATATTATTATGTTAAATAATATT
1 AATTATTAAAAAATAAACAAATAAAATATTAATATATTAAATAATATT
** *
12576058 AATTATTAAAATAATAAA-AAATATTAT-TTAATATATTAATATTATATT
1 AATTATTAAAA-AATAAACAAATAAAATATTAATATATTAA-ATAATATT
12576106 TAAAATAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
47 10 0.25
48 24 0.60
49 6 0.15
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (48 bp):
AATTATTAAAAAATAAACAAATAAAATATTAATATATTAAATAATATT
Found at i:12576225 original size:24 final size:23
Alignment explanation
Indices: 12576175--12576233 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 23
12576165 TATACAAAAT
*
12576175 AAAATATTTAAAATTAAAATATAAA
1 AAAAT-TTTAATATTAAAATAT-AA
* * *
12576200 AAAATTTTAATATTAATATTTTA
1 AAAATTTTAATATTAAAATATAA
*
12576223 AAATTTTTAAT
1 AAAATTTTAAT
12576234 TAAATCTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 11 0.38
24 13 0.45
25 5 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
AAAATTTTAATATTAAAATATAA
Found at i:12595792 original size:108 final size:108
Alignment explanation
Indices: 12595603--12595846 Score: 461
Period size: 108 Copynumber: 2.3 Consensus size: 108
12595593 ATTTAGTCTC
*
12595603 AAGCTCTAAATCAGTGAGCAATACACAATACATAGTAAGTCTACATATAAAATAACATCAGTGAG
1 AAGCTCTAAATCAGTGAGCAATACACAATACACAGTAAGTCTACATATAAAATAACATCAGTGAG
12595668 CAACACATAAGCTTTAGAAAGTCTAAGTCAATGAGCAATACAT
66 CAACACATAAGCTTTAGAAAGTCTAAGTCAATGAGCAATACAT
12595711 AAGCTCTAAATCAGTGAGCAATACACAATACACAGTAAGTCTACATATAAAATAACATCAGTGAG
1 AAGCTCTAAATCAGTGAGCAATACACAATACACAGTAAGTCTACATATAAAATAACATCAGTGAG
12595776 CAACACATAAGCTTTAGAAAGTCTAAGTCAATGAGCAATACAT
66 CAACACATAAGCTTTAGAAAGTCTAAGTCAATGAGCAATACAT
* *
12595819 AAGTTCTAAATTAGTGAGCAATACACAA
1 AAGCTCTAAATCAGTGAGCAATACACAA
12595847 GCTCTAAATC
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 133 1.00
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.23
Consensus pattern (108 bp):
AAGCTCTAAATCAGTGAGCAATACACAATACACAGTAAGTCTACATATAAAATAACATCAGTGAG
CAACACATAAGCTTTAGAAAGTCTAAGTCAATGAGCAATACAT
Found at i:12595836 original size:26 final size:26
Alignment explanation
Indices: 12595797--12595868 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 26
12595787 CTTTAGAAAG
* * * *
12595797 TCTAAGTCAATGAGCAATACATAAGT
1 TCTAAATCAGTGAGCAATACACAAGC
*
12595823 TCTAAATTAGTGAGCAATACACAAGC
1 TCTAAATCAGTGAGCAATACACAAGC
12595849 TCTAAATCAGTGAGCAATAC
1 TCTAAATCAGTGAGCAATAC
12595869 TCAAATAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (26 bp):
TCTAAATCAGTGAGCAATACACAAGC
Found at i:12598591 original size:24 final size:24
Alignment explanation
Indices: 12598564--12598620 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
12598554 TTACATGCTA
*
12598564 AAAATAAATGTCCAACCAAATAAT
1 AAAATAAATGTCCAACCAAATAAC
*
12598588 AAAATAAATGTCCAATCAAATAAC
1 AAAATAAATGTCCAACCAAATAAC
*
12598612 AAAAAAAAT
1 AAAATAAAT
12598621 CTTTGTAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.63, C:0.14, G:0.04, T:0.19
Consensus pattern (24 bp):
AAAATAAATGTCCAACCAAATAAC
Found at i:12601398 original size:21 final size:22
Alignment explanation
Indices: 12601366--12601410 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
12601356 GTAAAAGATA
*
12601366 AAAAATATTAAATTATATTAAT
1 AAAAATATTAAAATATATTAAT
*
12601388 AAAAATA-TAAAATATTTTAAT
1 AAAAATATTAAAATATATTAAT
12601409 AA
1 AA
12601411 TATTTAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAAATATTAAAATATATTAAT
Found at i:12601418 original size:31 final size:30
Alignment explanation
Indices: 12601357--12601414 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
12601347 TTATAAAATG
*
12601357 TAAAAGATAAAAAATATTAAATTATATTAA
1 TAAAAGATAAAAAATATTAAATAATATTAA
* *
12601387 TAAAA-ATATAAAATATTTTAATAATATT
1 TAAAAGATAAAAAATA-TTAAATAATATT
12601415 TAATTGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (30 bp):
TAAAAGATAAAAAATATTAAATAATATTAA
Found at i:12602924 original size:19 final size:19
Alignment explanation
Indices: 12602902--12602950 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
12602892 ATTATCATGA
12602902 AATTAATATAAAATCATAC
1 AATTAATATAAAATCATAC
*
12602921 AATTAAT-TAATAATCATGC
1 AATTAATATAA-AATCATAC
*
12602940 AA-AAATATAAA
1 AATTAATATAAA
12602951 TAAAAAACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (19 bp):
AATTAATATAAAATCATAC
Found at i:12603016 original size:3 final size:3
Alignment explanation
Indices: 12603008--12603058 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
12602998 TAAATGTAAT
*
12603008 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TCA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
12603056 TAA
1 TAA
12603059 AGAAAACATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:12604057 original size:13 final size:13
Alignment explanation
Indices: 12604035--12604106 Score: 58
Period size: 13 Copynumber: 5.3 Consensus size: 13
12604025 AGAAATAATA
*
12604035 AAAAAATAAAATT
1 AAAAACTAAAATT
12604048 AAAAACTAAAATT
1 AAAAACTAAAATT
12604061 AACATTAAGACTAAAATT
1 -A-A--AA-ACTAAAATT
* *
12604079 AAAACCAAAAATT
1 AAAAACTAAAATT
12604092 AAAAA-TAAAA-T
1 AAAAACTAAAATT
12604103 AAAA
1 AAAA
12604107 TTTTCAAGCT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
11 5 0.10
12 4 0.08
13 23 0.47
14 3 0.06
15 1 0.02
16 1 0.02
17 3 0.06
18 9 0.18
ACGTcount: A:0.71, C:0.07, G:0.01, T:0.21
Consensus pattern (13 bp):
AAAAACTAAAATT
Found at i:12612117 original size:2 final size:2
Alignment explanation
Indices: 12612110--12612138 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12612100 TTTAATAATG
12612110 AT AT 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 AT AT A
12612139 AAGAATATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12614675 original size:22 final size:21
Alignment explanation
Indices: 12614626--12614676 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
12614616 GAATTTTAAG
*
12614626 AATTTTAATTTGTGGAAAACA
1 AATTTTAATTTGTGAAAAACA
*
12614647 AATTTTAA-TTGATGAAAATACT
1 AATTTTAATTTG-TGAAAA-ACA
12614669 AATTTTAA
1 AATTTTAA
12614677 CAACAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 3 0.12
21 13 0.50
22 10 0.38
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (21 bp):
AATTTTAATTTGTGAAAAACA
Found at i:12625002 original size:2 final size:2
Alignment explanation
Indices: 12624995--12625023 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12624985 AGTTAATTGT
12624995 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
12625024 AAATTACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:12625497 original size:15 final size:15
Alignment explanation
Indices: 12625477--12625507 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12625467 ATATAGATAT
12625477 TTCCTTGTTCCAGGG
1 TTCCTTGTTCCAGGG
12625492 TTCCTTGTTCCAGGG
1 TTCCTTGTTCCAGGG
12625507 T
1 T
12625508 GTTAGCAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.26, G:0.26, T:0.42
Consensus pattern (15 bp):
TTCCTTGTTCCAGGG
Found at i:12627258 original size:30 final size:29
Alignment explanation
Indices: 12627224--12627336 Score: 122
Period size: 29 Copynumber: 3.8 Consensus size: 29
12627214 ATATTAAGAG
12627224 TTTATGTAGATATAAATTAAAAATTAAAAA
1 TTTAT-TAGATATAAATTAAAAATTAAAAA
* *
12627254 TTTATTTGA-ATACAATTAAAAATTAATAA
1 TTTATTAGATATA-AATTAAAAATTAAAAA
* *
12627283 TTTATTTAGATGTAAATTAAAATTTAAAAA
1 TTTA-TTAGATATAAATTAAAAATTAAAAA
* *
12627313 TTTATTAAATA-AAATAATAAAATT
1 TTTATTAGATATAAATTA-AAAATT
12627337 TTAAAAAAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
28 8 0.12
29 32 0.46
30 27 0.39
31 2 0.03
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (29 bp):
TTTATTAGATATAAATTAAAAATTAAAAA
Found at i:12627276 original size:29 final size:30
Alignment explanation
Indices: 12627224--12627318 Score: 131
Period size: 30 Copynumber: 3.2 Consensus size: 30
12627214 ATATTAAGAG
*
12627224 TTTATGTAGATATAAATTAAAAATTAAAAA
1 TTTATTTAGATATAAATTAAAAATTAAAAA
*
12627254 TTTATTT-GA-ATACAATTAAAAATTAATAA
1 TTTATTTAGATATA-AATTAAAAATTAAAAA
* *
12627283 TTTATTTAGATGTAAATTAAAATTTAAAAA
1 TTTATTTAGATATAAATTAAAAATTAAAAA
12627313 TTTATT
1 TTTATT
12627319 AAATAAAATA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
28 3 0.05
29 24 0.42
30 28 0.49
31 2 0.04
ACGTcount: A:0.51, C:0.01, G:0.05, T:0.43
Consensus pattern (30 bp):
TTTATTTAGATATAAATTAAAAATTAAAAA
Found at i:12627335 original size:59 final size:59
Alignment explanation
Indices: 12627224--12627336 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 59
12627214 ATATTAAGAG
* * *
12627224 TTTATGTAGATATAAATTAAAAATTAAAAATTTATTTGAATACAATTAAAAATTAATAA
1 TTTATGTAGATATAAATTAAAAATTAAAAATTTATTTAAATAAAATAAAAAATTAATAA
* * *
12627283 TTTATTTAGATGTAAATTAAAATTTAAAAATTTA-TTAAATAAAATAATAAAATT
1 TTTATGTAGATATAAATTAAAAATTAAAAATTTATTTAAATAAAATAA-AAAATT
12627337 TTAAAAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
58 10 0.21
59 37 0.79
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (59 bp):
TTTATGTAGATATAAATTAAAAATTAAAAATTTATTTAAATAAAATAAAAAATTAATAA
Found at i:12627796 original size:20 final size:20
Alignment explanation
Indices: 12627758--12627796 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12627748 AAATTAAGTT
* *
12627758 AAAAATTTTAAATTCTTTTA
1 AAAAATTTCAAATTATTTTA
*
12627778 AAAAATTTCATATTATTTT
1 AAAAATTTCAAATTATTTT
12627797 TAATAATTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
AAAAATTTCAAATTATTTTA
Found at i:12628239 original size:30 final size:30
Alignment explanation
Indices: 12628205--12628272 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
12628195 TTACTAAATA
* * * * *
12628205 TTTTAAAACGGTATGAGTTTTTATTTAATT
1 TTTTAAAACGATATAAATTTTCAATTAATT
*
12628235 TTTTAAATCGATATAAATTTTCAATTAATT
1 TTTTAAAACGATATAAATTTTCAATTAATT
12628265 TTTTAAAA
1 TTTTAAAA
12628273 GGGATTTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.51
Consensus pattern (30 bp):
TTTTAAAACGATATAAATTTTCAATTAATT
Found at i:12630895 original size:18 final size:19
Alignment explanation
Indices: 12630866--12630904 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
12630856 CGACTCATAA
12630866 CTCGGAGCTCGATACTCGG
1 CTCGGAGCTCGATACTCGG
12630885 CTCGG-GCTCGATACTCGG
1 CTCGGAGCTCGATACTCGG
12630903 CT
1 CT
12630905 TGAGCTCGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.13, C:0.33, G:0.31, T:0.23
Consensus pattern (19 bp):
CTCGGAGCTCGATACTCGG
Found at i:12630911 original size:18 final size:18
Alignment explanation
Indices: 12630870--12630912 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
12630860 TCATAACTCG
12630870 GAGCTCGATACTCGGCTC
1 GAGCTCGATACTCGGCTC
* *
12630888 GGGCTCGATACTCGGCTT
1 GAGCTCGATACTCGGCTC
12630906 GAGCTCG
1 GAGCTCG
12630913 GTTGAGTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.30, G:0.33, T:0.23
Consensus pattern (18 bp):
GAGCTCGATACTCGGCTC
Found at i:12631057 original size:6 final size:6
Alignment explanation
Indices: 12631046--12631075 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
12631036 ATTATTCATG
12631046 CTCGAA CTCGAA CTCGAA CTCGAA CTCGAA
1 CTCGAA CTCGAA CTCGAA CTCGAA CTCGAA
12631076 ATATTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.17, T:0.17
Consensus pattern (6 bp):
CTCGAA
Found at i:12634495 original size:2 final size:2
Alignment explanation
Indices: 12634484--12634512 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
12634474 TTAATTTCTT
12634484 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12634513 AAAGCAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:12634703 original size:21 final size:22
Alignment explanation
Indices: 12634679--12634719 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
12634669 TTTTGTGATT
* *
12634679 AAAAAACTTTAAAT-TTAAAAA
1 AAAAAAATTCAAATCTTAAAAA
12634700 AAAAAAATTCAAATCTTAAA
1 AAAAAAATTCAAATCTTAAA
12634720 TCCTAATCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (22 bp):
AAAAAAATTCAAATCTTAAAAA
Found at i:12637417 original size:2 final size:2
Alignment explanation
Indices: 12637405--12637467 Score: 57
Period size: 2 Copynumber: 34.0 Consensus size: 2
12637395 GTATGTTGTA
* *
12637405 AT AT A- AT AT AT AT AT -T AT AT AC AT AT CA- AT -T GT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
12637443 AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
12637468 TTCAATTTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
1 6 0.12
2 44 0.86
3 1 0.02
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12638314 original size:25 final size:25
Alignment explanation
Indices: 12638261--12638307 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
12638251 TTTGGATTTG
* *
12638261 ATTTGCAGATTTTTTTATTTTTTTA
1 ATTTGCAGATATTTTGATTTTTTTA
12638286 ATTTGCA-ATATTTTGATTTTTT
1 ATTTGCAGATATTTTGATTTTTT
12638308 AGTATTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.21, C:0.04, G:0.09, T:0.66
Consensus pattern (25 bp):
ATTTGCAGATATTTTGATTTTTTTA
Found at i:12639199 original size:43 final size:43
Alignment explanation
Indices: 12639152--12639252 Score: 106
Period size: 38 Copynumber: 2.5 Consensus size: 43
12639142 AAATGTATCA
*
12639152 CAAATTAAATAAAATGTATGAGATACATTGATCAATT----AT
1 CAAATTAAATAAAATGTATGAGATACATTAATCAATTCAAAAT
* * * *
12639191 -GAATCAAATAAAATGTATAAGATGCATTAATCAATTCAAAAT
1 CAAATTAAATAAAATGTATGAGATACATTAATCAATTCAAAAT
*
12639233 CAAATTCAATAAAA-GTATGA
1 CAAATTAAATAAAATGTATGA
12639253 ATCAAATATG
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
38 31 0.65
42 7 0.15
43 10 0.21
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.30
Consensus pattern (43 bp):
CAAATTAAATAAAATGTATGAGATACATTAATCAATTCAAAAT
Found at i:12639234 original size:38 final size:38
Alignment explanation
Indices: 12639153--12639237 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 38
12639143 AATGTATCAC
* * *
12639153 AAATTAAATAAAATGTATGAGATACATTGATCAATTAT
1 AAATCAAATAAAATGTATAAGATACATTAATCAATTAT
* *
12639191 GAATCAAATAAAATGTATAAGATGCATTAATCAATTCA-
1 AAATCAAATAAAATGTATAAGATACATTAATCAATT-AT
12639229 AAATCAAAT
1 AAATCAAAT
12639238 TCAATAAAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
38 39 0.98
39 1 0.03
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.31
Consensus pattern (38 bp):
AAATCAAATAAAATGTATAAGATACATTAATCAATTAT
Found at i:12642090 original size:17 final size:17
Alignment explanation
Indices: 12642058--12642091 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12642048 TTGTTTTTAG
**
12642058 TTTTTAGTTTTTTTATT
1 TTTTTAGTTTAGTTATT
12642075 TTTTTAGTTTAGTTATT
1 TTTTTAGTTTAGTTATT
12642092 GGCTTAGATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (17 bp):
TTTTTAGTTTAGTTATT
Found at i:12644653 original size:45 final size:45
Alignment explanation
Indices: 12644566--12644661 Score: 107
Period size: 38 Copynumber: 2.3 Consensus size: 45
12644556 ACATAATAGC
* *
12644566 AATTTGTTATGTACAAGTATAAATTTTATCAATTACATAATTTCA
1 AATTTGTTATATACAAGTATAAATTTTAACAATTACATAATTTCA
* *
12644611 AATTTGTTATATA-AA-TATAAA-TTT----ATTACACAATTCCA
1 AATTTGTTATATACAAGTATAAATTTTAACAATTACATAATTTCA
12644649 AATTTGTTATATA
1 AATTTGTTATATA
12644662 ATTTTATCGA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
38 25 0.52
42 3 0.06
43 6 0.12
44 2 0.04
45 12 0.25
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (45 bp):
AATTTGTTATATACAAGTATAAATTTTAACAATTACATAATTTCA
Found at i:12644664 original size:19 final size:19
Alignment explanation
Indices: 12644602--12644664 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
12644592 TATCAATTAC
*
12644602 ATAATTTCAAATTTGTTAT
1 ATAATTACAAATTTGTTAT
* * * *
12644621 ATAAATATAAATTTATTAC
1 ATAATTACAAATTTGTTAT
* *
12644640 ACAATTCCAAATTTGTTAT
1 ATAATTACAAATTTGTTAT
12644659 ATAATT
1 ATAATT
12644665 TTATCGATTA
Statistics
Matches: 32, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (19 bp):
ATAATTACAAATTTGTTAT
Found at i:12649777 original size:40 final size:41
Alignment explanation
Indices: 12649733--12649817 Score: 118
Period size: 41 Copynumber: 2.1 Consensus size: 41
12649723 TTTTTAAAGA
12649733 ATTTTC-AAGACCTCCAAGAAAAACCTCAAAATTTAAAATG
1 ATTTTCTAAGACCTCCAAGAAAAACCTCAAAATTTAAAATG
* * * * *
12649773 ATTTTCTAAGACCTTCAAGCAAAACTTCATATTTTAAAATG
1 ATTTTCTAAGACCTCCAAGAAAAACCTCAAAATTTAAAATG
12649814 ATTT
1 ATTT
12649818 CAAAAGACCT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 6 0.15
41 33 0.85
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (41 bp):
ATTTTCTAAGACCTCCAAGAAAAACCTCAAAATTTAAAATG
Found at i:12649825 original size:41 final size:41
Alignment explanation
Indices: 12649733--12649827 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
12649723 TTTTTAAAGA
12649733 ATTTTC-AAGACCTCCAAGAAAAACCTCAAAATTTAAAATG
1 ATTTTCAAAGACCTCCAAGAAAAACCTCAAAATTTAAAATG
* * * * * *
12649773 ATTTTCTAAGACCTTCAAGCAAAACTTCATATTTTAAAATG
1 ATTTTCAAAGACCTCCAAGAAAAACCTCAAAATTTAAAATG
12649814 A-TTTCAAAAGACCT
1 ATTTTC-AAAGACCT
12649828 AAAGGCAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 10 0.21
41 37 0.79
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (41 bp):
ATTTTCAAAGACCTCCAAGAAAAACCTCAAAATTTAAAATG
Found at i:12649961 original size:40 final size:40
Alignment explanation
Indices: 12649915--12650024 Score: 118
Period size: 41 Copynumber: 2.7 Consensus size: 40
12649905 GCTCTAGGCA
*
12649915 AAATTTTAAATTTTTTAATGATTTCCAAGA-TTGTTGGG-T
1 AAATTTTAAATTTTTAAATGATTTCCAAGACTT-TTGGGCT
*
12649954 AACATTTTAAATTTTTGAAA-GATTTTCAAAGACTTTTGGGCT
1 AA-ATTTTAAATTTTT-AAATGA-TTTCCAAGACTTTTGGGCT
* *
12649996 AAATTTCAAAATTTTAAAATGATTTCCAA
1 AAATTT-TAAATTTTTAAATGATTTCCAA
12650025 AAACCTCCGA
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
39 2 0.03
40 15 0.25
41 28 0.47
42 14 0.24
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (40 bp):
AAATTTTAAATTTTTAAATGATTTCCAAGACTTTTGGGCT
Found at i:12650206 original size:22 final size:22
Alignment explanation
Indices: 12650175--12650248 Score: 94
Period size: 22 Copynumber: 3.4 Consensus size: 22
12650165 GTTTTTAAAT
12650175 AATTTCAAAGTCCTCTGAACAC
1 AATTTCAAAGTCCTCTGAACAC
* * * *
12650197 AACTTCAAAGTCTTCTGGACAT
1 AATTTCAAAGTCCTCTGAACAC
* *
12650219 AATTTCAAAGTTCTCTGAGCAC
1 AATTTCAAAGTCCTCTGAACAC
12650241 AATTTCAA
1 AATTTCAA
12650249 GATTCTTTAG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (22 bp):
AATTTCAAAGTCCTCTGAACAC
Found at i:12650262 original size:44 final size:44
Alignment explanation
Indices: 12650173--12650263 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
12650163 TAGTTTTTAA
*
12650173 ATAATTTCAAAGTCCTCTGAACACAACTTCAAAGTCTTCTGGAC
1 ATAATTTCAAAGTCCTCTGAACACAACTTCAAAGTCTTCTAGAC
* * * *
12650217 ATAATTTCAAAGTTCTCTGAGCACAATTTCAAGATTCTT-TAGAC
1 ATAATTTCAAAGTCCTCTGAACACAACTTCAA-AGTCTTCTAGAC
12650261 ATA
1 ATA
12650264 TTCTTAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
44 36 0.88
45 5 0.12
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (44 bp):
ATAATTTCAAAGTCCTCTGAACACAACTTCAAAGTCTTCTAGAC
Found at i:12650323 original size:22 final size:22
Alignment explanation
Indices: 12650298--12650358 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 22
12650288 CCCTAAGTCT
12650298 TCCAAGCACAATTTCAAAATCC
1 TCCAAGCACAATTTCAAAATCC
** * *
12650320 TCCAAGTGCTATTTCAAAGTCC
1 TCCAAGCACAATTTCAAAATCC
* * *
12650342 TCTATGCATAATTTCAA
1 TCCAAGCACAATTTCAA
12650359 TTTTTAAAAT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.31
Consensus pattern (22 bp):
TCCAAGCACAATTTCAAAATCC
Found at i:12652552 original size:21 final size:21
Alignment explanation
Indices: 12652526--12652573 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
12652516 CATAATTCCA
12652526 TGAAACCCAAAAT-TTGAAACT
1 TGAAACCCAAAATATT-AAACT
*
12652547 TGAAACCCTAAATATTAAACT
1 TGAAACCCAAAATATTAAACT
*
12652568 TTAAAC
1 TGAAAC
12652574 TCTAAACCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.27
Consensus pattern (21 bp):
TGAAACCCAAAATATTAAACT
Found at i:12652633 original size:21 final size:21
Alignment explanation
Indices: 12652608--12652655 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
12652598 AATTCCTATG
* *
12652608 AAACCTTAAATTTGAAACTCT
1 AAACCTCAAATTTGAAACCCT
*
12652629 AAACCCCAAATTTGAAACCCT
1 AAACCTCAAATTTGAAACCCT
12652650 AAACCT
1 AAACCT
12652656 AAAACGTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.44, C:0.27, G:0.04, T:0.25
Consensus pattern (21 bp):
AAACCTCAAATTTGAAACCCT
Found at i:12652701 original size:14 final size:13
Alignment explanation
Indices: 12652682--12652711 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
12652672 ACTACCTTTC
12652682 AAACCTTAAATCCT
1 AAACCTTAAA-CCT
12652696 AAACCTTAAACCT
1 AAACCTTAAACCT
12652709 AAA
1 AAA
12652712 TCACAAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (13 bp):
AAACCTTAAACCT
Found at i:12652711 original size:119 final size:119
Alignment explanation
Indices: 12652588--12652810 Score: 365
Period size: 119 Copynumber: 1.9 Consensus size: 119
12652578 AACCCTAAGG
* * **
12652588 CTAAATCCCAAATTCCTATGAAACCTTAAATTTGAAACTCTAAACCCCAAATTTGAAACCCTAAA
1 CTAAATCACAAATTCCCATGAAACCCCAAATTTGAAACTCTAAACCCCAAATTTGAAACCCTAAA
* * * * *
12652653 CCTAAAACGTAAACCTTAAACTACCTTTCAAACCTTAAATCCTAAACCTTAAAC
66 CCTAAAACCTAAACCCTAAACCAACTTTCAAACCCTAAATCCTAAACCTTAAAC
12652707 CTAAATCACAAATTCCCATGAAACCCCAAATTTGAAACTCTAAACCCCAAATTTGAAACCCTAAA
1 CTAAATCACAAATTCCCATGAAACCCCAAATTTGAAACTCTAAACCCCAAATTTGAAACCCTAAA
12652772 CCTAAAACCTAAACCCTAAACCAACTTTCAAACCCTAAA
66 CCTAAAACCTAAACCCTAAACCAACTTTCAAACCCTAAA
12652811 CCACCTTTCA
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
119 95 1.00
ACGTcount: A:0.44, C:0.30, G:0.03, T:0.23
Consensus pattern (119 bp):
CTAAATCACAAATTCCCATGAAACCCCAAATTTGAAACTCTAAACCCCAAATTTGAAACCCTAAA
CCTAAAACCTAAACCCTAAACCAACTTTCAAACCCTAAATCCTAAACCTTAAAC
Found at i:12652753 original size:21 final size:21
Alignment explanation
Indices: 12652727--12652812 Score: 88
Period size: 21 Copynumber: 4.2 Consensus size: 21
12652717 AATTCCCATG
*
12652727 AAACCCCAAATTTGAAACTCT
1 AAACCCCAAATTTGAAACCCT
12652748 AAACCCCAAATTTGAAACCCT
1 AAACCCCAAATTTGAAACCCT
** **
12652769 AAACCTAAAACCT-AAACCCT
1 AAACCCCAAATTTGAAACCCT
* *
12652789 AAA--CCAACTTTCAAACCCT
1 AAACCCCAAATTTGAAACCCT
12652808 AAACC
1 AAACC
12652813 ACCTTTCAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
18 3 0.06
19 10 0.19
20 10 0.19
21 29 0.56
ACGTcount: A:0.45, C:0.34, G:0.02, T:0.19
Consensus pattern (21 bp):
AAACCCCAAATTTGAAACCCT
Found at i:12652839 original size:38 final size:38
Alignment explanation
Indices: 12652782--12652871 Score: 121
Period size: 38 Copynumber: 2.4 Consensus size: 38
12652772 CCTAAAACCT
12652782 AAACCCTAAACCAACTTTCAAACCCTAAACCACCTTTC
1 AAACCCTAAACCAACTTTCAAACCCTAAACCACCTTTC
* **
12652820 AAACCCTAAATC-ACATTTCAAACCCTAAACCACCTGCC
1 AAACCCTAAACCAAC-TTTCAAACCCTAAACCACCTTTC
*
12652858 AAAGCC-AAACCAAC
1 AAACCCTAAACCAAC
12652872 CCTCAAAACA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
37 6 0.13
38 39 0.87
ACGTcount: A:0.42, C:0.39, G:0.02, T:0.17
Consensus pattern (38 bp):
AAACCCTAAACCAACTTTCAAACCCTAAACCACCTTTC
Found at i:12652860 original size:19 final size:19
Alignment explanation
Indices: 12652782--12652854 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
12652772 CCTAAAACCT
*
12652782 AAACCCTAAACCAACTTTC
1 AAACCCTAAACCACCTTTC
12652801 AAACCCTAAACCACCTTTC
1 AAACCCTAAACCACCTTTC
* *
12652820 AAACCCTAAATCACATTTC
1 AAACCCTAAACCACCTTTC
12652839 AAACCCTAAACCACCT
1 AAACCCTAAACCACCT
12652855 GCCAAAGCCA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (19 bp):
AAACCCTAAACCACCTTTC
Found at i:12654140 original size:35 final size:37
Alignment explanation
Indices: 12654096--12654173 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 37
12654086 TAAAAATAAG
* *
12654096 TTTTTTAAAAT-TTAATAAAAAAGTTGAAATA-TCAT
1 TTTTTTAAAATGTTAAGAAAAAAGTTGAAATATTAAT
*
12654131 TTTTTTAAAATGTTAAGGAAAAAGTTGAAATATTAAT
1 TTTTTTAAAATGTTAAGAAAAAAGTTGAAATATTAAT
12654168 TTTTTT
1 TTTTTT
12654174 TCTTATGAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 11 0.29
36 18 0.47
37 9 0.24
ACGTcount: A:0.44, C:0.01, G:0.09, T:0.46
Consensus pattern (37 bp):
TTTTTTAAAATGTTAAGAAAAAAGTTGAAATATTAAT
Found at i:12654285 original size:53 final size:51
Alignment explanation
Indices: 12654192--12654319 Score: 157
Period size: 52 Copynumber: 2.5 Consensus size: 51
12654182 AAAGTTTTTG
* * **
12654192 AAAAGTTAAAATATCAAATTTTGCTTAAGATAAGTTTTTGAAAAATTAAGGA
1 AAAAGTTGAAATATCAAATTTTCCTTAAGATAAAATTTTGAAAAATT-AGGA
** *
12654244 AAAAGTTGAAATATCTATTTTTTCCTTAAGATAAAATTTTGAAATATTAGGA
1 AAAAGTTGAAATATC-AAATTTTCCTTAAGATAAAATTTTGAAAAATTAGGA
* *
12654296 AAAAGTAGAAATATCAAAATTTCC
1 AAAAGTTGAAATATCAAATTTTCC
12654320 AAAACTTTTG
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
51 6 0.09
52 32 0.50
53 26 0.41
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (51 bp):
AAAAGTTGAAATATCAAATTTTCCTTAAGATAAAATTTTGAAAAATTAGGA
Found at i:12654603 original size:47 final size:49
Alignment explanation
Indices: 12654543--12654666 Score: 148
Period size: 47 Copynumber: 2.6 Consensus size: 49
12654533 TTTGAAGATG
12654543 TTAAGGAAAAAGTTGAAATATCAAATTAT-CTT-TAA-ATTTTTGAAAA
1 TTAAGGAAAAAGTTGAAATATCAAATTATCCTTATAATATTTTTGAAAA
* * * *
12654589 TTCAAGGAAGAAGTTGAAATATTAAATTTTCCTTGATAATATTTTAGAACAA
1 TT-AAGGAAAAAGTTGAAATATCAAATTATCCTT-ATAATATTTTTGAA-AA
*
12654641 TT-AGGAAAAAGTTGAAATGTCAAATT
1 TTAAGGAAAAAGTTGAAATATCAAATT
12654667 TTTCTAAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
46 2 0.03
47 24 0.37
48 3 0.05
50 24 0.37
51 8 0.12
52 4 0.06
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (49 bp):
TTAAGGAAAAAGTTGAAATATCAAATTATCCTTATAATATTTTTGAAAA
Found at i:12654657 original size:50 final size:46
Alignment explanation
Indices: 12654543--12654668 Score: 146
Period size: 50 Copynumber: 2.6 Consensus size: 46
12654533 TTTGAAGATG
* *
12654543 TTAAGGAAAAAGTTGAAATATCAAATTATCTTTAAATTTTTGAAAA
1 TTAAGGAAAAAGTTGAAATATCAAATTTTCTTTAAATTTTAGAAAA
* *
12654589 TTCAAGGAAGAAGTTGAAATATTAAATTTTCCTTGATAATATTTTAGAACAA
1 TT-AAGGAAAAAGTTGAAATATCAAATTTT-CTT--TAA-ATTTTAGAA-AA
*
12654641 TT-AGGAAAAAGTTGAAATGTCAAATTTT
1 TTAAGGAAAAAGTTGAAATATCAAATTTT
12654669 TCTAAAATTT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
46 2 0.03
47 24 0.36
48 3 0.04
50 26 0.39
51 8 0.12
52 4 0.06
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (46 bp):
TTAAGGAAAAAGTTGAAATATCAAATTTTCTTTAAATTTTAGAAAA
Found at i:12662828 original size:22 final size:21
Alignment explanation
Indices: 12662800--12662851 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
12662790 AGTTTAGTAC
*
12662800 AAGAAAAATAACTTGAAAGCAT
1 AAGAAAAATAACTT-AAAACAT
*
12662822 AAGAAAACTAACTTAAAACAT
1 AAGAAAAATAACTTAAAACAT
12662843 --GAAAAATAA
1 AAGAAAAATAA
12662852 GGAAAATGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 8 0.30
21 6 0.22
22 13 0.48
ACGTcount: A:0.63, C:0.10, G:0.10, T:0.17
Consensus pattern (21 bp):
AAGAAAAATAACTTAAAACAT
Found at i:12668067 original size:16 final size:17
Alignment explanation
Indices: 12668036--12668068 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
12668026 TAAACTCTCT
12668036 CTTAGATGAAGATGAAA
1 CTTAGATGAAGATGAAA
*
12668053 CTTAG-TGAAGTTGAAA
1 CTTAGATGAAGATGAAA
12668069 TCGATTGCGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.06, G:0.24, T:0.27
Consensus pattern (17 bp):
CTTAGATGAAGATGAAA
Found at i:12668969 original size:60 final size:60
Alignment explanation
Indices: 12668897--12669025 Score: 231
Period size: 60 Copynumber: 2.1 Consensus size: 60
12668887 AGGGGTTGCC
12668897 TAATGATGACCCCAATGTTCACTTGTCTAATTTTCTTGATGCTTTTAAGCATGATGGTGT
1 TAATGATGACCCCAATGTTCACTTGTCTAATTTTCTTGATGCTTTTAAGCATGATGGTGT
* *
12668957 TAATGATGACCCCAATGTTCACTTGTCTAATTTTTTTGATGCTTTTAAGCATTATGGTGT
1 TAATGATGACCCCAATGTTCACTTGTCTAATTTTCTTGATGCTTTTAAGCATGATGGTGT
*
12669017 TATTGATGA
1 TAATGATGA
12669026 TGCCATTATT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 66 1.00
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.43
Consensus pattern (60 bp):
TAATGATGACCCCAATGTTCACTTGTCTAATTTTCTTGATGCTTTTAAGCATGATGGTGT
Found at i:12670528 original size:34 final size:34
Alignment explanation
Indices: 12670485--12670551 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
12670475 AATTTGCCAA
12670485 AGCTTATCGATCTAAAGAGTTTCTCTATTCCTTG
1 AGCTTATCGATCTAAAGAGTTTCTCTATTCCTTG
* *
12670519 AGCTTATCGATCTAAGGAGTTTTTCTATTCCTT
1 AGCTTATCGATCTAAAGAGTTTCTCTATTCCTT
12670552 ATTCTATTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.43
Consensus pattern (34 bp):
AGCTTATCGATCTAAAGAGTTTCTCTATTCCTTG
Found at i:12671600 original size:12 final size:12
Alignment explanation
Indices: 12671583--12671623 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
12671573 TAGGGAAAAT
12671583 AAATTTTTTTCA
1 AAATTTTTTTCA
12671595 AAATTTTTTTCA
1 AAATTTTTTTCA
*
12671607 AAA-TCTTTTC-
1 AAATTTTTTTCA
12671617 AAATTTT
1 AAATTTT
12671624 CTATTTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 3 0.12
11 8 0.31
12 15 0.58
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (12 bp):
AAATTTTTTTCA
Found at i:12671909 original size:8 final size:8
Alignment explanation
Indices: 12671896--12671928 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
12671886 TTATTTTGCA
12671896 TTTTATAT
1 TTTTATAT
12671904 TTTTATAT
1 TTTTATAT
12671912 TTTTATAT
1 TTTTATAT
12671920 TTTATATAT
1 TTT-TATAT
12671929 ATATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 19 0.79
9 5 0.21
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTTATAT
Found at i:12671937 original size:23 final size:23
Alignment explanation
Indices: 12671895--12671965 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
12671885 TTTATTTTGC
* *
12671895 ATTTTATATTTTTATATTTTTAT
1 ATTTTATATATATATATTTTTAT
* *
12671918 ATTTTATATATATATTTTTTTCT
1 ATTTTATATATATATATTTTTAT
* * *
12671941 TTTTTGTATATTATGTATTTATTAT
1 ATTTTATATA-TATATATTT-TTAT
12671966 TACTATTTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
23 27 0.73
24 7 0.19
25 3 0.08
ACGTcount: A:0.25, C:0.01, G:0.03, T:0.70
Consensus pattern (23 bp):
ATTTTATATATATATATTTTTAT
Found at i:12671976 original size:4 final size:4
Alignment explanation
Indices: 12671951--12672114 Score: 51
Period size: 4 Copynumber: 41.5 Consensus size: 4
12671941 TTTTTGTATA
* * * *
12671951 TTAT GTAT TTA- TTAT TACTAT TTAT TAATAT ATAT TCAT TTAT TTTT
1 TTAT TTAT TTAT TTAT T--TAT TTAT T--TAT TTAT TTAT TTAT TTAT
* * * * * *
12671998 TTAT GTTA- ATAT ATAT TTA- TTA- TTAC TTAG CTAT TTAT ATA- TTAT
1 TTAT -TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
* * * *
12672043 TATAT ATAT GTAT TTA- TTA- TTAT TTAT CTAT TTAT ATAT TATAAT TTAT
1 T-TAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T-T-AT TTAT
*
12672092 CTA- TTAT TTA- TT-T TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
12672115 GTTAATATTT
Statistics
Matches: 119, Mismatches: 25, Indels: 32
0.68 0.14 0.18
Matches are distributed among these distances:
3 25 0.21
4 76 0.64
5 8 0.07
6 10 0.08
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (4 bp):
TTAT
Found at i:12672034 original size:42 final size:43
Alignment explanation
Indices: 12672006--12672103 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 43
12671996 TTTTATGTTA
12672006 ATATATATTTATTATTACTTAGCTATTTA-TATATTATTATAT
1 ATATATATTTATTATTACTTAGCTATTTATTATATTATTATAT
* * * * *
12672048 ATATGTATTTATTATTATTTATCTATTTA-TATATTATAATTT
1 ATATATATTTATTATTACTTAGCTATTTATTATATTATTATAT
*
12672090 ATCTATTATTTATT
1 ATATA-TATTTATT
12672104 TTTATTTATT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 40 0.83
43 8 0.17
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (43 bp):
ATATATATTTATTATTACTTAGCTATTTATTATATTATTATAT
Found at i:12672042 original size:22 final size:20
Alignment explanation
Indices: 12671959--12672084 Score: 75
Period size: 22 Copynumber: 6.2 Consensus size: 20
12671949 TATTATGTAT
12671959 TTATTATTACTATTTAT-TA
1 TTATTATTACTATTTATATA
*
12671978 ATATATATT-C-ATTTAT-T-
1 TTAT-TATTACTATTTATATA
* * * *
12671995 TTTTTATGTTAATATATATTTA
1 TTATTA--TTACTATTTATATA
12672017 TTATTACTTAGCTATTTATATA
1 TTATTA-TTA-CTATTTATATA
* *
12672039 TTATTATATA-TATGTATTTA
1 TTATTAT-TACTATTTATATA
12672059 TTATTATTTATCTATTTATATA
1 TTATTA-TTA-CTATTTATATA
12672081 TTAT
1 TTAT
12672085 AATTTATCTA
Statistics
Matches: 81, Mismatches: 14, Indels: 21
0.70 0.12 0.18
Matches are distributed among these distances:
16 2 0.02
17 2 0.02
18 9 0.11
19 4 0.05
20 25 0.31
21 6 0.07
22 33 0.41
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (20 bp):
TTATTATTACTATTTATATA
Found at i:12672089 original size:22 final size:21
Alignment explanation
Indices: 12672028--12672096 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 21
12672018 TATTACTTAG
*
12672028 CTATTTATATATTAT-TATAT
1 CTATTTATATATTATATTTAT
* * *
12672048 ATATGTATTTATTATTATTTAT
1 CTATTTATATATTA-TATTTAT
12672070 CTATTTATATATTATAATTTAT
1 CTATTTATATATTAT-ATTTAT
12672092 CTATT
1 CTATT
12672097 ATTTATTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 11 0.28
21 2 0.05
22 26 0.67
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (21 bp):
CTATTTATATATTATATTTAT
Found at i:12672125 original size:20 final size:20
Alignment explanation
Indices: 12672057--12672172 Score: 79
Period size: 21 Copynumber: 5.5 Consensus size: 20
12672047 TATATGTATT
* *
12672057 TATTATTATTTATCTATTTATA
1 TATTTTTATTTATCT-GTTA-A
* * * *
12672079 TATTATAATTTATCTATTATT
1 TATTTTTATTTATCTGTTA-A
*
12672100 TATTTTTATTTATTTGTTAA
1 TATTTTTATTTATCTGTTAA
* *
12672120 TATTTTGATTTATCTGATTAT
1 TATTTTTATTTATCTG-TTAA
* * *
12672141 TTTCTTTTAATTATCTATTAA
1 TAT-TTTTATTTATCTGTTAA
12672162 TATTTTTATTT
1 TATTTTTATTT
12672173 GATTCTTATT
Statistics
Matches: 74, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
20 21 0.28
21 29 0.39
22 24 0.32
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.66
Consensus pattern (20 bp):
TATTTTTATTTATCTGTTAA
Found at i:12672162 original size:42 final size:41
Alignment explanation
Indices: 12672066--12672189 Score: 126
Period size: 42 Copynumber: 3.0 Consensus size: 41
12672056 TTATTATTAT
* *
12672066 TTATCTATTTATATATTATAATTTATCTATTATTTAT-TTTTAT
1 TTATCTA-TTA-ATATTTTAATTTATCTATTATTT-TCTTTTAA
* * *
12672109 TTATTTGTTAATATTTTGATTTATCTGATTATTTTCTTTTAA
1 TTATCTATTAATATTTTAATTTATCT-ATTATTTTCTTTTAA
* *
12672151 TTATCTATTAATATTTTTATTTGAT-TCTTATTTTCTTTT
1 TTATCTATTAATATTTTAATTT-ATCTATTATTTTCTTTT
12672190 TTTTTTCGAT
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
41 27 0.39
42 35 0.51
43 7 0.10
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (41 bp):
TTATCTATTAATATTTTAATTTATCTATTATTTTCTTTTAA
Found at i:12673211 original size:58 final size:57
Alignment explanation
Indices: 12673101--12673315 Score: 283
Period size: 57 Copynumber: 3.7 Consensus size: 57
12673091 AATAAAATTC
*
12673101 AAAAAATATTTTTGACAAAAAGTTGAAAGTATCAATTTTCTTGAAAATAAGCTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTGAAAATAAGCTTTCT
* *
12673158 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTGTCTTTGAAAATAAGCTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTC-TTGAAAATAAGCTTTCT
* *
12673216 AAAAAAAATATTTTTTGA-AAAAAGTTGAAAGTATCGATTTTCCTTAAAAATAAG-TTT-T
1 --AAAAAATA-TTTTTGAGAAAAAGTTGAAAGTATCAATTTT-CTTGAAAATAAGCTTTCT
* *
12673274 CAAAAATGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
1 AAAAAAT--ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTC
12673316 CTTGCACAAA
Statistics
Matches: 140, Mismatches: 10, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
56 6 0.04
57 45 0.32
58 40 0.29
59 3 0.02
60 38 0.27
61 8 0.06
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (57 bp):
AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTGAAAATAAGCTTTCT
Found at i:12673232 original size:118 final size:116
Alignment explanation
Indices: 12673101--12673312 Score: 338
Period size: 118 Copynumber: 1.8 Consensus size: 116
12673091 AATAAAATTC
*
12673101 AAAAAATATTTTTGACAAAAAGTTGAAAGTATCAATTTT-CTTGAAAATAAGCTTTCTAAAAAAT
1 AAAAAATATTTTTGA-AAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG-TTT-TAAAAAAT
12673165 -ATTTTTGAGGAAAAGTTGAAAGTATCAATTGTCTTTGAAAATAAGCTTTCTAA
63 AATTTTTGAGGAAAAGTTGAAAGTATCAATTGTCTTTGAAAATAAGCTTTCTAA
* *
12673218 AAAAAATATTTTTTGAAAAAAGTTGAAAGTATCGATTTTCCTTAAAAATAAGTTTTCAAAAATGA
1 AAAAAATA-TTTTTGAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTAAAAAAT-A
12673283 ATTTTTGAGGAAAAGTTGAAAGTATCAATT
64 ATTTTTGAGGAAAAGTTGAAAGTATCAATT
12673313 TTCCTTGCAC
Statistics
Matches: 88, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
116 7 0.08
117 33 0.38
118 48 0.55
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (116 bp):
AAAAAATATTTTTGAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTAAAAAATAAT
TTTTGAGGAAAAGTTGAAAGTATCAATTGTCTTTGAAAATAAGCTTTCTAA
Found at i:12673316 original size:58 final size:58
Alignment explanation
Indices: 12673101--12673319 Score: 293
Period size: 58 Copynumber: 3.8 Consensus size: 58
12673091 AATAAAATTC
*
12673101 AAAAAATATTTTTGACAAAAAGTTGAAAGTATCAATTTT-CTTGAAAATAAGCTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
* * *
12673158 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTGTCTTTGAAAATAAGCTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
* *
12673216 AAAAAAAATATTTTTTGA-AAAAAGTTGAAAGTATCGATTTTCCTTAAAAATAAG-TTT-T
1 --AAAAAATA-TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
* *
12673274 CAAAAATGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAAAAT--ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
12673320 CACAAAAGCA
Statistics
Matches: 142, Mismatches: 13, Indels: 13
0.85 0.08 0.08
Matches are distributed among these distances:
56 6 0.04
57 43 0.30
58 44 0.31
59 3 0.02
60 39 0.27
61 7 0.05
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (58 bp):
AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
Found at i:12675483 original size:24 final size:25
Alignment explanation
Indices: 12675433--12675485 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
12675423 CTTTTTTCCA
*
12675433 TTTTATTTTCATTATTTTCTTTCAT
1 TTTTATTTTCATTATTTTCTTACAT
* * *
12675458 TTTTATTTT-ATTTTTTTGTTAGAT
1 TTTTATTTTCATTATTTTCTTACAT
12675482 TTTT
1 TTTT
12675486 TTAAAATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.15, C:0.06, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTTATTTTCATTATTTTCTTACAT
Found at i:12675521 original size:3 final size:3
Alignment explanation
Indices: 12675515--12675544 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
12675505 TAAAAAAATG
12675515 ATA ATA ATA ATA ATA ATA ATA ATAA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT
12675545 CATCACAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12675920 original size:18 final size:19
Alignment explanation
Indices: 12675893--12675934 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
12675883 CAAGATAATT
12675893 TAAAAA-TTATTTTAA-AA
1 TAAAAATTTATTTTAATAA
12675910 TAAAAATTTATTTTAATAA
1 TAAAAATTTATTTTAATAA
12675929 -AAAAAT
1 TAAAAAT
12675935 GAATAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.26
18 15 0.65
19 2 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAAAATTTATTTTAATAA
Found at i:12676186 original size:17 final size:18
Alignment explanation
Indices: 12676166--12676200 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
12676156 AATAAATAGT
12676166 AAACAATAACAA-AAAAA
1 AAACAATAACAATAAAAA
*
12676183 AAACAATTACAATAAAAA
1 AAACAATAACAATAAAAA
12676201 TTAATTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.77, C:0.11, G:0.00, T:0.11
Consensus pattern (18 bp):
AAACAATAACAATAAAAA
Found at i:12688281 original size:34 final size:34
Alignment explanation
Indices: 12688223--12688303 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 34
12688213 TAGATTTTTT
* *
12688223 ATTTAAAGTGTCATAGCCTTTGGTCAAAAGAGCC
1 ATTTAAAGTTTCATAGCCTCTGGTCAAAAGAGCC
* *
12688257 ATTTAAAGTTTCATTGCCTCTGGTCAAAGGAGCC
1 ATTTAAAGTTTCATAGCCTCTGGTCAAAAGAGCC
* *
12688291 CTTTAAAATTTCA
1 ATTTAAAGTTTCA
12688304 AAAGTTGTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (34 bp):
ATTTAAAGTTTCATAGCCTCTGGTCAAAAGAGCC
Found at i:12688458 original size:77 final size:77
Alignment explanation
Indices: 12688322--12688468 Score: 190
Period size: 77 Copynumber: 1.9 Consensus size: 77
12688312 CGAGCCTTTT
* *
12688322 GTTAGAGGAGCCTTTTAAAATTTCAAAAGTTATCAAGTCTCTGGTCATAATAGCCATTTAAAGTT
1 GTTAGAGGAGCCTTTTAAAATTTCAAAAGTTACCAAGTCTCTAGTCATAATAGCCATTTAAAGTT
12688387 TCATTACCTCTA
66 TCATTACCTCTA
* * * * * *
12688399 GTTAGTGGAGTCTTTTAAATTTTCAAAAGTTGCCGAG-CTTCTAGTCA-AATGAGCTATTTAAAG
1 GTTAGAGGAGCCTTTTAAAATTTCAAAAGTTACCAAGTC-TCTAGTCATAAT-AGCCATTTAAAG
12688462 TTTCATT
64 TTTCATT
12688469 GTCTTTGCTT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
76 4 0.07
77 56 0.93
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (77 bp):
GTTAGAGGAGCCTTTTAAAATTTCAAAAGTTACCAAGTCTCTAGTCATAATAGCCATTTAAAGTT
TCATTACCTCTA
Found at i:12688459 original size:120 final size:120
Alignment explanation
Indices: 12688243--12688466 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 120
12688233 TCATAGCCTT
* *
12688243 TGGTCAAAAGAGCCATTTAAAGTTTCATTGCCTCTGGTCAAAGGAGCCCTTTAAAATTTCAAAAG
1 TGGTCAAAAGAGCCATTTAAAGTTTCATTACCTCTAGTCAAAGGAGCCCTTTAAAATTTCAAAAG
* * * *
12688308 TTGTCGAGCCTTTTGTTAGAGGAGCCTTTTAAAATTTCAAAAGTTATCAAGTCTC
66 TTGCCGAGCCTTTAGTCAAAGGAGCCTTTTAAAATTTCAAAAGTTATCAAGTCTC
* * * ** * * *
12688363 TGGTCATAATAGCCATTTAAAGTTTCATTACCTCTAGTTAGTGGAGTCTTTTAAATTTTCAAAAG
1 TGGTCAAAAGAGCCATTTAAAGTTTCATTACCTCTAGTCAAAGGAGCCCTTTAAAATTTCAAAAG
* *
12688428 TTGCCGAG-CTTCTAGTCAAATGAG-CTATTTAAAGTTTCA
66 TTGCCGAGCCTT-TAGTCAAAGGAGCCT-TTTAAAATTTCA
12688467 TTGTCTTTGC
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
119 5 0.06
120 81 0.94
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (120 bp):
TGGTCAAAAGAGCCATTTAAAGTTTCATTACCTCTAGTCAAAGGAGCCCTTTAAAATTTCAAAAG
TTGCCGAGCCTTTAGTCAAAGGAGCCTTTTAAAATTTCAAAAGTTATCAAGTCTC
Found at i:12688491 original size:77 final size:76
Alignment explanation
Indices: 12688319--12688491 Score: 188
Period size: 77 Copynumber: 2.2 Consensus size: 76
12688309 TGTCGAGCCT
* *
12688319 TTTGTTAGAGGAGCCTTTTAAAATTTCAAAAGTTATCAAGTCTCTGGTCATAATAGCCATTTAAA
1 TTTGTTAGAGGAGCCTTTTAAAATTTCAAAAGTTACCAAGTCTCTAGTCATAATAGCCATTTAAA
12688384 GTTTCATTACC
66 GTTTCATTACC
* * * * * * *
12688395 TCTAGTTAGTGGAGTCTTTTAAATTTTCAAAAGTTGCCGAG-CTTCTAGTCA-AATGAGCTATTT
1 T-TTGTTAGAGGAGCCTTTTAAAATTTCAAAAGTTACCAAGTC-TCTAGTCATAAT-AGCCATTT
**
12688458 AAAGTTTCATTGTC
63 AAAGTTTCATTACC
*
12688472 TTTGCTTAAAGGAGCCTTTT
1 TTTG-TTAGAGGAGCCTTTT
12688492 TTTTTTTTAA
Statistics
Matches: 78, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
76 7 0.09
77 71 0.91
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (76 bp):
TTTGTTAGAGGAGCCTTTTAAAATTTCAAAAGTTACCAAGTCTCTAGTCATAATAGCCATTTAAA
GTTTCATTACC
Found at i:12688780 original size:3 final size:3
Alignment explanation
Indices: 12688772--12688809 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
12688762 CCTAAATAAA
*
12688772 ATT ATT ATT ATT ATT ATT CTT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
12688810 ACATATATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:12689857 original size:3 final size:3
Alignment explanation
Indices: 12689849--12689874 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12689839 ATTTAAACAA
12689849 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
12689875 AATCATTACA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12690303 original size:19 final size:19
Alignment explanation
Indices: 12690260--12690304 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
12690250 AAAATTTGTT
12690260 TAAATAATAAAAAAAACAA
1 TAAATAATAAAAAAAACAA
* *
12690279 TGAATAATAAAAATAAATAA
1 TAAATAATAAAAA-AAACAA
12690299 -AAATAA
1 TAAATAA
12690305 AAGGGTTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (19 bp):
TAAATAATAAAAAAAACAA
Found at i:12690835 original size:3 final size:3
Alignment explanation
Indices: 12690827--12690855 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
12690817 TATAATAGAC
12690827 AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12690856 TGCATAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:12695465 original size:7 final size:8
Alignment explanation
Indices: 12695453--12695500 Score: 71
Period size: 8 Copynumber: 6.1 Consensus size: 8
12695443 GATGAAAATT
12695453 TGAAAAAA
1 TGAAAAAA
*
12695461 TAAAAAAA
1 TGAAAAAA
*
12695469 TTAAAAAA
1 TGAAAAAA
12695477 TGAAAAAA
1 TGAAAAAA
12695485 TG-AAAAA
1 TGAAAAAA
12695492 TGAAAAAA
1 TGAAAAAA
12695500 T
1 T
12695501 AATGGGGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
7 7 0.19
8 29 0.81
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (8 bp):
TGAAAAAA
Found at i:12699863 original size:71 final size:72
Alignment explanation
Indices: 12699719--12699911 Score: 228
Period size: 71 Copynumber: 2.7 Consensus size: 72
12699709 TTGGGAGTAA
* * * * *** * *
12699719 CAACATCCACTAAATTTTTTATCTTAAAGACATGGTTTTTGTTAAAATTTTAAATTTTCAAAAAT
1 CAACATCCACTATATTTCTTATCTTAAAAATACAATATTTGTTAAAATTTAAAATTTTCAAAAAT
12699784 AAAGTTT
66 AAAGTTT
* * * *
12699791 CAATATCCACTGTATTTCTTATCTTAAAAATTCAATCTTT-TTAAAATTTCAAAATTTT-AAAAA
1 CAACATCCACTATATTTCTTATCTTAAAAATACAATATTTGTTAAAATTT-AAAATTTTCAAAAA
12699854 TAAAGTTT
65 TAAAGTTT
* *
12699862 CAACATCCACTATGTTTCTTATCTTATAAATACAATATTTGTTAAAATTT
1 CAACATCCACTATATTTCTTATCTTAAAAATACAATATTTGTTAAAATTT
12699912 TAGGCTTTTG
Statistics
Matches: 101, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
71 56 0.55
72 45 0.45
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.44
Consensus pattern (72 bp):
CAACATCCACTATATTTCTTATCTTAAAAATACAATATTTGTTAAAATTTAAAATTTTCAAAAAT
AAAGTTT
Found at i:12703950 original size:14 final size:14
Alignment explanation
Indices: 12703933--12703971 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
12703923 CGAAATGATA
*
12703933 TTATCGTTTATGTC
1 TTATAGTTTATGTC
12703947 TTATAGTTTATGTC
1 TTATAGTTTATGTC
12703961 TTATAGTTTAT
1 TTATAGTTTAT
12703972 AAGTTGTGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.59
Consensus pattern (14 bp):
TTATAGTTTATGTC
Found at i:12710250 original size:32 final size:32
Alignment explanation
Indices: 12710204--12710266 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
12710194 TTTAAAATAA
12710204 TTTTAATTTCAAATAATTTAATATTATTTTAT
1 TTTTAATTTCAAATAATTTAATATTATTTTAT
* * *
12710236 TTTTATTTTTAAATAATTTGATATTATTTTA
1 TTTTAATTTCAAATAATTTAATATTATTTTA
12710267 AATATATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (32 bp):
TTTTAATTTCAAATAATTTAATATTATTTTAT
Found at i:12713925 original size:22 final size:22
Alignment explanation
Indices: 12713893--12714043 Score: 108
Period size: 22 Copynumber: 6.8 Consensus size: 22
12713883 AAGCTTATTG
12713893 AATTGTGAATTTTTGAATTTTA
1 AATTGTGAATTTTTGAATTTTA
* * *
12713915 AATTGTTAATTTTTTTAATTTCA
1 AATTGTGAA-TTTTTGAATTTTA
* * ** *
12713938 AATGGTAAACATTTGAA-TTTC
1 AATTGTGAATTTTTGAATTTTA
*
12713959 AATTGCGAAATTTTT-AAGTTTTA
1 AATTGTG-AATTTTTGAA-TTTTA
* * *
12713982 AGTTATGAATTTTTGAATTTTC
1 AATTGTGAATTTTTGAATTTTA
* *
12714004 AATTGTGAATCTTTGATTTTTA
1 AATTGTGAATTTTTGAATTTTA
* *
12714026 GCATTGTGAGTTTTTGAA
1 -AATTGTGAATTTTTGAA
12714044 AATTTTGCAT
Statistics
Matches: 94, Mismatches: 29, Indels: 11
0.70 0.22 0.08
Matches are distributed among these distances:
21 8 0.09
22 46 0.49
23 40 0.43
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (22 bp):
AATTGTGAATTTTTGAATTTTA
Found at i:12714093 original size:30 final size:30
Alignment explanation
Indices: 12714038--12714094 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
12714028 ATTGTGAGTT
*
12714038 TTTGAAAATTTTGCATATAATCAAATTATC
1 TTTGAAAATTTTGCATATAACCAAATTATC
* * *
12714068 TTTGAAATTTTTGTATATAGCCAAATT
1 TTTGAAAATTTTGCATATAACCAAATT
12714095 GTGAATCCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (30 bp):
TTTGAAAATTTTGCATATAACCAAATTATC
Found at i:12718178 original size:14 final size:15
Alignment explanation
Indices: 12718161--12718193 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
12718151 CTAATTACAC
*
12718161 TTTTAAA-CACATTT
1 TTTTAAATCAAATTT
12718175 TTTTAAATCAAATTT
1 TTTTAAATCAAATTT
12718190 TTTT
1 TTTT
12718194 TTAAACCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTAAATCAAATTT
Found at i:12718726 original size:46 final size:46
Alignment explanation
Indices: 12718676--12718765 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
12718666 CAAAAATGCT
*
12718676 TTAAATTATCTTTTGATTTTTATAATCCTTTAATTAAAAAAATATC
1 TTAAATAATCTTTTGATTTTTATAATCCTTTAATTAAAAAAATATC
* * *
12718722 TTAAATAATCTTTTTATTTTTATGATCTTTTAATTAAAAAAATA
1 TTAAATAATCTTTTGATTTTTATAATCCTTTAATTAAAAAAATA
12718766 AAATAATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (46 bp):
TTAAATAATCTTTTGATTTTTATAATCCTTTAATTAAAAAAATATC
Found at i:12719342 original size:19 final size:19
Alignment explanation
Indices: 12719305--12719342 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
12719295 ACAAATATAT
*
12719305 AATAAATTGAAATTACAAA
1 AATAAATTAAAATTACAAA
12719324 AATAAATTTAAAATT-CAAA
1 AATAAA-TTAAAATTACAAA
12719343 CTCTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (19 bp):
AATAAATTAAAATTACAAA
Found at i:12721580 original size:1 final size:1
Alignment explanation
Indices: 12721574--12721599 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
12721564 CACTTTGCTG
12721574 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
12721600 GTTTCTTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:12723047 original size:2 final size:2
Alignment explanation
Indices: 12723040--12723070 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
12723030 GTATTACCAA
12723040 AT AT AT 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 AT AT AT A
12723071 GTGGGAGAGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12724167 original size:2 final size:2
Alignment explanation
Indices: 12724160--12724187 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12724150 AATCCCTTTC
12724160 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
12724188 CAACATCATT
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:12724921 original size:20 final size:20
Alignment explanation
Indices: 12724893--12724936 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
12724883 AAGAATGCTA
* *
12724893 ACATGGCCATTGACTTAATG
1 ACATAGCCATTGACTCAATG
12724913 ACATAGCCATTGACTCAATG
1 ACATAGCCATTGACTCAATG
12724933 ACAT
1 ACAT
12724937 GGATGTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
ACATAGCCATTGACTCAATG
Found at i:12724945 original size:20 final size:20
Alignment explanation
Indices: 12724922--12724967 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
12724912 GACATAGCCA
12724922 TTGACTCA-ATGACATGGATG
1 TTGACTCATATGACATGG-TG
* *
12724942 TTGACTTATCTGACATGGTG
1 TTGACTCATATGACATGGTG
12724962 TTGACT
1 TTGACT
12724968 TTGTTGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (20 bp):
TTGACTCATATGACATGGTG
Found at i:12725240 original size:17 final size:16
Alignment explanation
Indices: 12725220--12725270 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
12725210 AAAATATCAA
12725220 ATTTAATATTTTTAAAT
1 ATTTAATATTTTT-AAT
12725237 ATTTTAATATTTTTAAT
1 A-TTTAATATTTTTAAT
* *
12725254 ATTCTTATTTTTTTAAT
1 ATT-TAATATTTTTAAT
12725271 TTTTTAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 2 0.07
17 16 0.53
18 12 0.40
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTAATATTTTTAAT
Found at i:12725244 original size:18 final size:18
Alignment explanation
Indices: 12725221--12725269 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
12725211 AAATATCAAA
12725221 TTTAATATTTTTAAATAT
1 TTTAATATTTTTAAATAT
12725239 TTTAATATTTTT-AATAT
1 TTTAATATTTTTAAATAT
*
12725256 TCTT-ATTTTTTTAA
1 T-TTAATATTTTTAA
12725270 TTTTTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTAATATTTTTAAATAT
Found at i:12725247 original size:8 final size:8
Alignment explanation
Indices: 12725221--12725277 Score: 51
Period size: 9 Copynumber: 6.6 Consensus size: 8
12725211 AAATATCAAA
12725221 TTTAATATT
1 TTTAATA-T
12725230 TTTAAATAT
1 TTT-AATAT
12725239 TTTAATATT
1 TTTAATA-T
12725248 TTTAATAT
1 TTTAATAT
* *
12725256 TCTTATTTT
1 T-TTAATAT
*
12725265 TTTAATTT
1 TTTAATAT
12725273 TTTAA
1 TTTAA
12725278 AATATATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
8 17 0.40
9 21 0.50
10 4 0.10
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTAATAT
Found at i:12725792 original size:19 final size:20
Alignment explanation
Indices: 12725770--12725823 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
12725760 AAGAAAACAT
* *
12725770 AAATAATTAAAAAAAA-TAG
1 AAATATTTAAAAAAAATTAC
12725789 AAAT-TTTATAAAAAAATTAC
1 AAATATTTA-AAAAAAATTAC
12725809 AAA-ATTTAAAAAAAA
1 AAATATTTAAAAAAAA
12725824 ATAAATGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 3 0.10
19 18 0.60
20 9 0.30
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
AAATATTTAAAAAAAATTAC
Found at i:12725802 original size:20 final size:20
Alignment explanation
Indices: 12725777--12725826 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
12725767 CATAAATAAT
* *
12725777 TAAAAAAAATAGAAATTTTA
1 TAAAAAAAATACAAAATTTA
*
12725797 TAAAAAAATTACAAAATTTA
1 TAAAAAAAATACAAAATTTA
12725817 -AAAAAAAATA
1 TAAAAAAAATA
12725827 AATGTTTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
TAAAAAAAATACAAAATTTA
Found at i:12726118 original size:23 final size:24
Alignment explanation
Indices: 12726086--12726131 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
12726076 AAAAACTTTG
*
12726086 AAAATTTGA-TTTTTTAAAAAATT
1 AAAATATGATTTTTTTAAAAAATT
12726109 AAAATATGATTTTTTTAAAAAAT
1 AAAATATGATTTTTTTAAAAAAT
12726132 AAAGTGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (24 bp):
AAAATATGATTTTTTTAAAAAATT
Found at i:12726194 original size:21 final size:21
Alignment explanation
Indices: 12726148--12726194 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
12726138 AAAAGATATG
* *
12726148 ATTTTTATTAGTTTTGTTTTA
1 ATTTTTATTAGTTTTATTTAA
*
12726169 GTTTTTATTA-TTGTTATTTAA
1 ATTTTTATTAGTT-TTATTTAA
12726190 ATTTT
1 ATTTT
12726195 GAAATAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (21 bp):
ATTTTTATTAGTTTTATTTAA
Found at i:12731621 original size:3 final size:3
Alignment explanation
Indices: 12731613--12731647 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
12731603 GTTATCGAAG
12731613 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
12731648 CATAAAGCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:12735119 original size:2 final size:2
Alignment explanation
Indices: 12735112--12735153 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
12735102 GTTATCAGGC
12735112 TA TA TA TA TA TA TA TA TA TA TA T- TA TA T- TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12735151 TA T
1 TA T
12735154 TAGAAAGAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.08
2 34 0.92
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:12735344 original size:2 final size:2
Alignment explanation
Indices: 12735306--12735333 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12735296 TCTCATCAGG
12735306 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12735334 AGGCTATATA
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):
TA
Found at i:12736135 original size:24 final size:24
Alignment explanation
Indices: 12736065--12736137 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
12736055 ACATAATTTT
*
12736065 AAAATATTTATTATTAAAATTTTA
1 AAAATATTTATTATTAAAATATTA
* * * *
12736089 AAAATTATTTATCACTAATATATTG
1 AAAA-TATTTATTATTAAAATATTA
12736114 AAAATATTTATTATTAAAATATTA
1 AAAATATTTATTATTAAAATATTA
12736138 TTTTTATTAA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
24 20 0.51
25 19 0.49
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (24 bp):
AAAATATTTATTATTAAAATATTA
Found at i:12736764 original size:14 final size:16
Alignment explanation
Indices: 12736745--12736776 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
12736735 AAATTTATAG
12736745 AAATT-ATTTTT-TGA
1 AAATTAATTTTTATGA
12736759 AAATTAATTTTTATGA
1 AAATTAATTTTTATGA
12736775 AA
1 AA
12736777 TAAACAGAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 6 0.38
16 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
AAATTAATTTTTATGA
Found at i:12738108 original size:21 final size:21
Alignment explanation
Indices: 12738084--12738124 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12738074 ATTGGGTCCA
12738084 TTACCTCATCAATCAGGTCTT
1 TTACCTCATCAATCAGGTCTT
* *
12738105 TTACCTCATTAATCGGGTCT
1 TTACCTCATCAATCAGGTCT
12738125 GCCCAGAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (21 bp):
TTACCTCATCAATCAGGTCTT
Found at i:12739177 original size:13 final size:13
Alignment explanation
Indices: 12739153--12739197 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
12739143 CTATTAATTT
12739153 AAATTTTT-TTAA
1 AAATTTTTATTAA
12739165 AAATTTTTATTAA
1 AAATTTTTATTAA
** *
12739178 ATTTTTTTAATAA
1 AAATTTTTATTAA
12739191 AAATTTT
1 AAATTTT
12739198 ATATATTTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 8 0.30
13 19 0.70
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
AAATTTTTATTAA
Found at i:12739485 original size:2 final size:2
Alignment explanation
Indices: 12739478--12739507 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12739468 TACTTATTTC
12739478 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
12739508 TGTTATTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12739579 original size:24 final size:24
Alignment explanation
Indices: 12739552--12739666 Score: 73
Period size: 24 Copynumber: 4.8 Consensus size: 24
12739542 TTTTCAATAG
12739552 TATTAATATAATTATTAAAATATT
1 TATTAATATAATTATTAAAATATT
* *
12739576 TATTATTAAAATT-TTAAAA-A-T
1 TATTAATATAATTATTAAAATATT
*
12739597 TATTTATCACTAATATATTGAAAATATT
1 TATTAAT-A-TAAT-TATT-AAAATATT
* * *
12739625 TATTATTA-AAATATT---ATTTT
1 TATTAATATAATTATTAAAATATT
12739645 TATTAAATATAAATTATTAAAA
1 TATT-AATAT-AATTATTAAAA
12739667 GTAGTAGCAT
Statistics
Matches: 67, Mismatches: 11, Indels: 24
0.66 0.11 0.24
Matches are distributed among these distances:
20 8 0.12
21 9 0.13
22 2 0.03
23 15 0.22
24 16 0.24
25 4 0.06
26 5 0.07
27 2 0.03
28 6 0.09
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (24 bp):
TATTAATATAATTATTAAAATATT
Found at i:12739582 original size:15 final size:14
Alignment explanation
Indices: 12739562--12739591 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
12739552 TATTAATATA
12739562 ATTATTAAAATATTT
1 ATTATTAAAAT-TTT
12739577 ATTATTAAAATTTT
1 ATTATTAAAATTTT
12739591 A
1 A
12739592 AAAATTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTATTAAAATTTT
Found at i:12740006 original size:22 final size:23
Alignment explanation
Indices: 12739967--12740025 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
12739957 AATTAAATTA
*
12739967 AATTAAAATAT-TAAAAAATTTT
1 AATTAAAATATAAAAAAAATTTT
12739989 AATTAAAAT-TAAAGAAAAATTTT
1 AATTAAAATATAAA-AAAAATTTT
*
12740012 --TTATAATATAAAAA
1 AATTAAAATATAAAAA
12740026 TATTTTCAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
21 9 0.28
22 14 0.44
23 9 0.28
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (23 bp):
AATTAAAATATAAAAAAAATTTT
Found at i:12740215 original size:14 final size:16
Alignment explanation
Indices: 12740196--12740227 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
12740186 AAATATATAG
12740196 AAATT-ATTTTT-TGA
1 AAATTAATTTTTATGA
12740210 AAATTAATTTTTATGA
1 AAATTAATTTTTATGA
12740226 AA
1 AA
12740228 TAAACAAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 6 0.38
16 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
AAATTAATTTTTATGA
Found at i:12741720 original size:17 final size:17
Alignment explanation
Indices: 12741698--12741761 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
12741688 ATTTATTTTC
12741698 AAACAAAAATAAATAAT
1 AAACAAAAATAAATAAT
12741715 AAACAAATAATAAA-AAT
1 AAACAAA-AATAAATAAT
*
12741732 AATA-AAAAATAGGATAA-
1 AA-ACAAAAATA-AATAAT
*
12741749 AACCAAAAATAAA
1 AAACAAAAATAAA
12741762 AAAATCTAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
16 5 0.13
17 25 0.64
18 9 0.23
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.16
Consensus pattern (17 bp):
AAACAAAAATAAATAAT
Found at i:12741724 original size:11 final size:10
Alignment explanation
Indices: 12741708--12741742 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
12741698 AAACAAAAAT
12741708 AAATAATAAA
1 AAATAATAAA
12741718 CAAATAAT-AA
1 -AAATAATAAA
12741728 AAATAATAAA
1 AAATAATAAA
12741738 AAATA
1 AAATA
12741743 GGATAAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.30
10 9 0.39
11 7 0.30
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (10 bp):
AAATAATAAA
Found at i:12741796 original size:19 final size:19
Alignment explanation
Indices: 12741772--12741809 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
12741762 AAAATCTAGA
12741772 AAATTACGAATGGATAATT
1 AAATTACGAATGGATAATT
12741791 AAATTACGAATGGATAATT
1 AAATTACGAATGGATAATT
12741810 TTCTATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.16, T:0.32
Consensus pattern (19 bp):
AAATTACGAATGGATAATT
Found at i:12742449 original size:10 final size:10
Alignment explanation
Indices: 12742434--12742459 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
12742424 ATACTACATG
12742434 TGCATATGCA
1 TGCATATGCA
12742444 TGCATATGCA
1 TGCATATGCA
12742454 TGCATA
1 TGCATA
12742460 AGCTTTCGAC
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:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (10 bp):
TGCATATGCA
Found at i:12747241 original size:3 final size:3
Alignment explanation
Indices: 12747233--12747267 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
12747223 TTCATGTCAA
12747233 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12747268 CAAGTGAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12747592 original size:16 final size:16
Alignment explanation
Indices: 12747541--12747593 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
12747531 TTAAATTAAA
12747541 AAAATTAAT--TAATT
1 AAAATTAATAATAATT
*
12747555 AAAAAT-ATAATAA-T
1 AAAATTAATAATAATT
*
12747569 AATGATTAATAATAATT
1 AA-AATTAATAATAATT
12747586 AAAATTAA
1 AAAATTAA
12747594 AAATTAGAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
13 2 0.07
14 8 0.27
15 5 0.17
16 12 0.40
17 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
AAAATTAATAATAATT
Found at i:12750603 original size:34 final size:34
Alignment explanation
Indices: 12750560--12750648 Score: 133
Period size: 34 Copynumber: 2.6 Consensus size: 34
12750550 GTATTAGTTG
* * *
12750560 CTAATTTAGTGACGTTTGTATTAGAAAAATGTCA
1 CTAATTTAGTGACATTTGTATAAAAAAAATGTCA
*
12750594 CTAATTTAGTGACATTTGTATAAAAAAAATGTCG
1 CTAATTTAGTGACATTTGTATAAAAAAAATGTCA
*
12750628 CTAATTTAGTGGCATTTGTAT
1 CTAATTTAGTGACATTTGTAT
12750649 CATAAAATAC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (34 bp):
CTAATTTAGTGACATTTGTATAAAAAAAATGTCA
Found at i:12751744 original size:33 final size:34
Alignment explanation
Indices: 12751672--12751769 Score: 119
Period size: 33 Copynumber: 2.9 Consensus size: 34
12751662 TGTATTAGTT
* * *
12751672 GCTAACTTAGTGACGTTTGTATTAGAAAAATGTCA
1 GCTAATTTAGTGACATTTGTA-TAAAAAAATGTCA
12751707 -CTAATTTAGTGACATTTGTATAAAAAAATGT-A
1 GCTAATTTAGTGACATTTGTATAAAAAAATGTCA
* * *
12751739 GCTAATTTAGTGGCATTTGTATCATAAAATG
1 GCTAATTTAGTGACATTTGTATAAAAAAATG
12751770 CCACTCTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.02
33 37 0.66
34 18 0.32
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (34 bp):
GCTAATTTAGTGACATTTGTATAAAAAAATGTCA
Done.