Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 291 of 318
Found at i:92671351 original size:22 final size:21
Alignment explanation
Indices: 92671303--92671364 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
92671293 TGTTGTGTGT
92671303 AATTACACAAAATATTATC--C
1 AATTACACAAAATATTA-CAAC
*
92671323 AATTACACAAATTATTACAAC
1 AATTACACAAAATATTACAAC
*
92671344 GAATTACACAAAACATTACAA
1 -AATTACACAAAATATTACAA
92671365 ATTATTACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 1 0.03
20 16 0.44
21 1 0.03
22 18 0.50
ACGTcount: A:0.53, C:0.19, G:0.02, T:0.26
Consensus pattern (21 bp):
AATTACACAAAATATTACAAC
Found at i:92674470 original size:3 final size:3
Alignment explanation
Indices: 92674464--92674489 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
92674454 CAACAATGGC
92674464 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
92674490 GCATTATTTA
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:92675391 original size:36 final size:36
Alignment explanation
Indices: 92675315--92675473 Score: 111
Period size: 36 Copynumber: 4.1 Consensus size: 36
92675305 TGGTAAAATT
* * * * * *
92675315 AACAATAAAATAAGAGTTATATAATATCCAAACAAT
1 AACAACAAAATAATAGTAATATAATAACAAAACAAC
92675351 AACAACAAAATAATAGTAATATAATAACAAAATAGCAAC
1 AACAACAAAATAATAGTAATATAATAAC-AAA-A-CAAC
* * * * *
92675390 AAACAATAACAATAAAATAAGAGTTATATAATATCCAAACAAT
1 -AAC---AAC---AAAATAATAGTAATATAATAACAAAACAAC
* *
92675433 AACAACAAAATAATAGTAATATAATAACAAAATAGC
1 AACAACAAAATAATAGTAATATAATAACAAAACAAC
92675469 AACAA
1 AACAA
92675474 ACAATAACAA
Statistics
Matches: 95, Mismatches: 18, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
36 52 0.55
37 2 0.02
38 1 0.01
39 6 0.06
40 3 0.03
42 3 0.03
43 6 0.06
44 1 0.01
45 2 0.02
46 19 0.20
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.21
Consensus pattern (36 bp):
AACAACAAAATAATAGTAATATAATAACAAAACAAC
Found at i:92675403 original size:82 final size:82
Alignment explanation
Indices: 92675314--92675483 Score: 340
Period size: 82 Copynumber: 2.1 Consensus size: 82
92675304 GTGGTAAAAT
92675314 TAACAATAAAATAAGAGTTATATAATATCCAAACAATAACAACAAAATAATAGTAATATAATAAC
1 TAACAATAAAATAAGAGTTATATAATATCCAAACAATAACAACAAAATAATAGTAATATAATAAC
92675379 AAAATAGCAACAAACAA
66 AAAATAGCAACAAACAA
92675396 TAACAATAAAATAAGAGTTATATAATATCCAAACAATAACAACAAAATAATAGTAATATAATAAC
1 TAACAATAAAATAAGAGTTATATAATATCCAAACAATAACAACAAAATAATAGTAATATAATAAC
92675461 AAAATAGCAACAAACAA
66 AAAATAGCAACAAACAA
92675478 TAACAA
1 TAACAA
92675484 AACAATAGTA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 88 1.00
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.21
Consensus pattern (82 bp):
TAACAATAAAATAAGAGTTATATAATATCCAAACAATAACAACAAAATAATAGTAATATAATAAC
AAAATAGCAACAAACAA
Found at i:92675437 original size:46 final size:46
Alignment explanation
Indices: 92675343--92675483 Score: 131
Period size: 46 Copynumber: 3.3 Consensus size: 46
92675333 ATATAATATC
* * *
92675343 CAAACAATAACAACAAAATAATAGTAATATAATAACAAAATAGCAA
1 CAAACAATAACAACAAAATAAGAGTAATATAATAACAAAACAACAA
* * *
92675389 CAAACAATAACAATAAAATAAGAGT--TAT-AT-----AATATC--
1 CAAACAATAACAACAAAATAAGAGTAATATAATAACAAAACAACAA
* * *
92675425 CAAACAATAACAACAAAATAATAGTAATATAATAACAAAATAGCAA
1 CAAACAATAACAACAAAATAAGAGTAATATAATAACAAAACAACAA
92675471 CAAACAATAACAA
1 CAAACAATAACAA
92675484 AACAATAGTA
Statistics
Matches: 79, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
36 23 0.29
38 8 0.10
39 2 0.03
43 2 0.03
44 8 0.10
46 36 0.46
ACGTcount: A:0.64, C:0.13, G:0.04, T:0.18
Consensus pattern (46 bp):
CAAACAATAACAACAAAATAAGAGTAATATAATAACAAAACAACAA
Found at i:92683660 original size:15 final size:16
Alignment explanation
Indices: 92683626--92683660 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
92683616 ATGGTAAGAA
92683626 AATATTATTTTATATT
1 AATATTATTTTATATT
92683642 -ATATTATTTTA-ATT
1 AATATTATTTTATATT
92683656 AATAT
1 AATAT
92683661 AATTATTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AATATTATTTTATATT
Found at i:92689262 original size:16 final size:16
Alignment explanation
Indices: 92689241--92689290 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
92689231 CGAAAATGAT
92689241 ATAATAAGTATAATAA
1 ATAATAAGTATAATAA
*
92689257 ATAAT-AGTGTAA-AA
1 ATAATAAGTATAATAA
*
92689271 A-AATAA-TACAATAA
1 ATAATAAGTATAATAA
92689285 ATAATA
1 ATAATA
92689291 GGAAAATAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
13 6 0.21
14 7 0.25
15 10 0.36
16 5 0.18
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (16 bp):
ATAATAAGTATAATAA
Found at i:92690783 original size:133 final size:132
Alignment explanation
Indices: 92690529--92691152 Score: 834
Period size: 133 Copynumber: 4.7 Consensus size: 132
92690519 GATCTGCTGT
* * * * *
92690529 AATTTGATCTGCTTTACTCATGCTCAGTAAAGATAAGATCTGTATGTTTAGCCTACTTCACTCCT
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGTA--TATAGCCTGCTTCACTCCT
* * ** * * * * ** * * *
92690594 GCTCAATGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCGATATATAGAGATAAGACTCG
64 GCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCA
92690659 CCAA
129 CCAA
* *
92690663 AATTTGATCTGCTTCACTCTTGCTCAGTGAAGATAAGATCTAGTATATAGCCTGCTCCACTCCTG
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCT-GTATATAGCCTGCTTCACTCCTG
* * *
92690728 CTCAGTGAAGATAAGGCTGGTGATTGGAATCTGCTCAATCGCCGGTACGTGGAGATAAGATTCAT
65 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCAC
92690793 CAA
130 CAA
* * *
92690796 AATTTGATCTGCTTCACTTCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTG
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCT-GTATATAGCCTGCTTCACTCCTG
* * * *
92690861 CTCAGTGAAGACAAGGCTGATGATTGGAATCTGTTCCATCGTCGGTACGTGGAGATAAGATTCAT
65 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCAC
92690926 CAA
130 CAA
* * *
92690929 AATTCGATCTGCTTCATTCCTGCTCAGTGAAGATAAGATCTGGTTTATAGCCTGCTTCACTCCTG
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCT-GTATATAGCCTGCTTCACTCCTG
92690994 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCAC
65 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCAC
92691059 CAA
130 CAA
* * * *
92691062 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTGCTATATTTAACCTGCTTCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTG-TATA--TAGCCTGCTTCACTCC
*
92691127 TGCTTAGTGAAGATAAGGCTGATGAT
63 TGCTCAGTGAAGATAAGGCTGATGAT
92691153 ATCTGTAATC
Statistics
Matches: 439, Mismatches: 47, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
132 1 0.00
133 357 0.81
134 38 0.09
135 43 0.10
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (132 bp):
AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGTATATAGCCTGCTTCACTCCTGC
TCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCACC
AA
Found at i:92690862 original size:43 final size:43
Alignment explanation
Indices: 92690670--92691008 Score: 165
Period size: 43 Copynumber: 7.7 Consensus size: 43
92690660 CAAAATTTGA
* * *
92690670 TCTGCTTCACTCTTGCTCAGTGAAGATAAGATCTAGTATATAG
1 TCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAG
* * * * *
92690713 CCTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGGTGATTGGAA
1 TCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGT-ATT-TAG
* * * * ***
92690757 TCTGC-TCAATCGCCGGT-ACGTGGAGATAAGATTCATCAAAATTT-G
1 TCTGCTTCACTC-CTGCTCA-GTGAAGATAAGA-TC-T-GGTATTTAG
*
92690802 ATCTGCTTCACTTCTGCTCAGTGAAGATAAGATCTGGTATTTAG
1 -TCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAG
* * * * * * *
92690846 CCTGCTCCACTCCTGCTCAGTGAAGACAAG-GCTGATGATTGGAA
1 TCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGT-ATT-TAG
* * * *** * *
92690890 TCTG-TTC-CATCGTCGGT-ACGTGGAGATAAGATTCATCAAAATTCG
1 TCTGCTTCAC-TCCT-GCTCA-GTGAAGATAAGA-TC-TGGTATTTAG
*
92690935 ATCTGCTTCATTCCTGCTCAGTGAAGATAAGATCTGGT-TTATAG
1 -TCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATT-TAG
*
92690979 CCTGCTTCACTCCTGCTCAGTGAAGATAAG
1 TCTGCTTCACTCCTGCTCAGTGAAGATAAG
92691009 GCTGATGATT
Statistics
Matches: 211, Mismatches: 60, Indels: 50
0.66 0.19 0.16
Matches are distributed among these distances:
42 9 0.04
43 102 0.48
44 38 0.18
45 4 0.02
46 40 0.19
47 18 0.09
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (43 bp):
TCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAG
Found at i:92708032 original size:52 final size:52
Alignment explanation
Indices: 92707929--92708093 Score: 217
Period size: 52 Copynumber: 3.1 Consensus size: 52
92707919 CTTACACGGT
* * *
92707929 TCACATATCATACCGAAGCCATATCCCAGACATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CATGGTCTTATACGGAGTCACATTA
92707984 TCACATTATACCGATGCCATAGCCCAGCATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCATGGTCTTATACGGAGTCACATTA
** *
92708036 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG-G-CACACTTA
1 TCACATTATACCGATGCCATAGCCCAGC-ATGGTCTTATACGGAGTCACA-TTA
92708088 TCACAT
1 TCACAT
92708094 ATTTTTCGTC
Statistics
Matches: 102, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 60 0.59
53 31 0.30
54 1 0.01
55 6 0.06
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (52 bp):
TCACATTATACCGATGCCATAGCCCAGCATGGTCTTATACGGAGTCACATTA
Found at i:92710157 original size:79 final size:77
Alignment explanation
Indices: 92709997--92710203 Score: 235
Period size: 79 Copynumber: 2.7 Consensus size: 77
92709987 AAAAATTCTT
* * *
92709997 TGTATTGTATTGTAATTTTACATTAAAATATGCTTATTTACAATTTACCAAAAATGAATAAATTG
1 TGTATTGTATCGTAATTTTACATTAAAATATACTTATTTACAATTTACAAAAAATGAATAAATTG
*
92710062 TATGTATTGTAT
66 TATGTATTGTAC
* * * *
92710074 TGTATTGTATCGTATTTTTGCATTAATAATTTACTTATTTACAATTTATAAAAAAGTGAATAAAT
1 TGTATTGTATCGTAATTTTACATTAA-AATATACTTATTTACAATTTACAAAAAA-TGAATAAAT
*
92710139 TGTTTGTATTGTAC
64 TGTATGTATTGTAC
* * *
92710153 TGTATTGTA---T--TTTTACATGAACAATATACTTATTTATATTTTATCAAAAAA
1 TGTATTGTATCGTAATTTTACATTAA-AATATACTTATTTACAATTTA-CAAAAAA
92710204 AGATTAATTC
Statistics
Matches: 111, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
74 27 0.24
75 6 0.05
76 1 0.01
77 23 0.21
78 24 0.22
79 30 0.27
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (77 bp):
TGTATTGTATCGTAATTTTACATTAAAATATACTTATTTACAATTTACAAAAAATGAATAAATTG
TATGTATTGTAC
Found at i:92710186 original size:74 final size:75
Alignment explanation
Indices: 92709996--92710203 Score: 242
Period size: 74 Copynumber: 2.7 Consensus size: 75
92709986 AAAAAATTCT
* * **
92709996 TTGTATTGTATTGTAATTTTACATTAAAATATGCTTATTTACAATTTACCAAAAATGAATAAATT
1 TTGTATTGTATTGTATTTTTACATTAAAATATACTTATTTACAATTTATAAAAAATGAATAAA-T
92710061 GTATGTATTGTA
65 -TATGTATTGTA
* * *
92710073 TTGTATTGTATCGTATTTTTGCATTAATAATTTACTTATTTACAATTTATAAAAAAGTGAATAAA
1 TTGTATTGTATTGTATTTTTACATTAA-AATATACTTATTTACAATTTATAAAAAA-TGAATAAA
92710138 -T-TGT-TTGTA
64 TTATGTATTGTA
* * * *
92710147 TTGTACTGTATTGTATTTTTACATGAACAATATACTTATTTATATTTTATCAAAAAA
1 TTGTATTGTATTGTATTTTTACATTAA-AATATACTTATTTACAATTTAT-AAAAAA
92710204 AGATTAATTC
Statistics
Matches: 113, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
74 47 0.42
75 9 0.08
76 1 0.01
77 24 0.21
78 24 0.21
79 8 0.07
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (75 bp):
TTGTATTGTATTGTATTTTTACATTAAAATATACTTATTTACAATTTATAAAAAATGAATAAATT
ATGTATTGTA
Found at i:92711813 original size:27 final size:27
Alignment explanation
Indices: 92711745--92711815 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
92711735 CATCTTGTCA
*
92711745 ACCTTTGTGGCGTACTCTTAATGTATC
1 ACCTTTGTGGCGTACTCTTAATGGATC
* *
92711772 ACCTTTGTGCCGTACTCTTTATGGATC
1 ACCTTTGTGGCGTACTCTTAATGGATC
** *
92711799 GTCTTTGTGGTGTACTC
1 ACCTTTGTGGCGTACTC
92711816 AAATTAGATA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.42
Consensus pattern (27 bp):
ACCTTTGTGGCGTACTCTTAATGGATC
Found at i:92720982 original size:24 final size:24
Alignment explanation
Indices: 92720950--92720999 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
92720940 CACAACAATT
92720950 TACTCACTAGGACAAGGATATATG
1 TACTCACTAGGACAAGGATATATG
92720974 TACTCACTAGGACAAGGATATATG
1 TACTCACTAGGACAAGGATATATG
92720998 TA
1 TA
92721000 ACCCATAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (24 bp):
TACTCACTAGGACAAGGATATATG
Found at i:92725837 original size:30 final size:29
Alignment explanation
Indices: 92725791--92725858 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 29
92725781 AAACTCCGAA
*
92725791 CAAAACTCC-AAAATTACGGATTTACCGT
1 CAAAACTCCAAAAATTACGGATATACCGT
*
92725819 -AATAACTCCAATAAATTACGGATATACTGT
1 CAA-AACTCCAA-AAATTACGGATATACCGT
92725849 CAAAACTCCA
1 CAAAACTCCA
92725859 CATATCTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 2 0.06
28 6 0.18
29 1 0.03
30 23 0.68
31 2 0.06
ACGTcount: A:0.43, C:0.24, G:0.09, T:0.25
Consensus pattern (29 bp):
CAAAACTCCAAAAATTACGGATATACCGT
Found at i:92744727 original size:3 final size:3
Alignment explanation
Indices: 92744721--92744767 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
92744711 TGTTGTCAGA
* * * *
92744721 GGT GGT GGT GAT AGT GGT GGT GGT -GT CGT GGA GGT GGT GGT GGT GGT
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT
92744768 TGGGGTCGCT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.06, C:0.02, G:0.60, T:0.32
Consensus pattern (3 bp):
GGT
Found at i:92746936 original size:52 final size:52
Alignment explanation
Indices: 92746853--92746999 Score: 206
Period size: 52 Copynumber: 2.8 Consensus size: 52
92746843 TCTCTGACTT
* * * *
92746853 GGGTCACATGGCCAAGTCACACGCCCTTGTGCTAGGCCGTGTGTAGGTGT-A
1 GGGTCACACGGCCAAGCCACACGCCCGTGTGCTAGGCCATGTGTAGGTGTAA
*
92746904 GAGGTCACACGGCCAAGCCACACGCCCGTGTGCTAGGCTATGTGTAGGTGTAA
1 G-GGTCACACGGCCAAGCCACACGCCCGTGTGCTAGGCCATGTGTAGGTGTAA
* * *
92746957 GGGTCACACGGCCAAGCTACACGCCGGTGTGCCAGGCCATGTG
1 GGGTCACACGGCCAAGCCACACGCCCGTGTGCTAGGCCATGTG
92747000 AAAAATCCTG
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
51 1 0.01
52 82 0.96
53 2 0.02
ACGTcount: A:0.20, C:0.28, G:0.33, T:0.19
Consensus pattern (52 bp):
GGGTCACACGGCCAAGCCACACGCCCGTGTGCTAGGCCATGTGTAGGTGTAA
Found at i:92748019 original size:25 final size:24
Alignment explanation
Indices: 92747989--92748072 Score: 64
Period size: 25 Copynumber: 3.4 Consensus size: 24
92747979 CTATATAACA
*
92747989 GGAAGCTCATTTGAGCCATGTAATG
1 GGAAGCTCATATGAGCCAT-TAATG
* * *
92748014 GGAAGCTTATCT-AGGCTATATAATG
1 GGAAGCTCATATGA-GCCAT-TAATG
* *
92748039 GGAAGCTTATAAGAGCCA-TAATCG
1 GGAAGCTCATATGAGCCATTAAT-G
92748063 GGAAGCTCAT
1 GGAAGCTCAT
92748073 GTGATCCAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
23 4 0.08
24 11 0.23
25 32 0.67
26 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (24 bp):
GGAAGCTCATATGAGCCATTAATG
Found at i:92748238 original size:26 final size:26
Alignment explanation
Indices: 92748159--92748245 Score: 115
Period size: 26 Copynumber: 3.4 Consensus size: 26
92748149 GAGCCATATT
92748159 GGGAAGCTC-CAAAGAGCCATTAATC
1 GGGAAGCTCACAAAGAGCCATTAATC
** *
92748184 AAGAAGCTCACAAAGAGCCTTTAATC
1 GGGAAGCTCACAAAGAGCCATTAATC
92748210 GGGAAGCTCACAAAGAGCCATATAA-C
1 GGGAAGCTCACAAAGAGCCAT-TAATC
*
92748236 GGGATGCTCA
1 GGGAAGCTCA
92748246 TAAAAGCTAC
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
25 7 0.13
26 43 0.81
27 3 0.06
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
GGGAAGCTCACAAAGAGCCATTAATC
Found at i:92750533 original size:24 final size:24
Alignment explanation
Indices: 92750506--92750551 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
92750496 ATGTTCTCGA
92750506 ACATATAACTT-AACATCTTCACAG
1 ACATATAA-TTGAACATCTTCACAG
*
92750530 ACATATAATTGAACATGTTCAC
1 ACATATAATTGAACATCTTCAC
92750552 GAATAATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (24 bp):
ACATATAATTGAACATCTTCACAG
Found at i:92755859 original size:12 final size:13
Alignment explanation
Indices: 92755823--92755860 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
92755813 AAATATTTGA
92755823 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
92755836 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
92755850 CTTG-TCTTAAT
1 CTTGTTCTTAAT
92755861 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:92759061 original size:17 final size:17
Alignment explanation
Indices: 92759039--92759074 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
92759029 CAGTGAATTC
92759039 CACAGGTAAATTTTTAA
1 CACAGGTAAATTTTTAA
92759056 CACAGGTAAATTTTTAA
1 CACAGGTAAATTTTTAA
92759073 CA
1 CA
92759075 GACACTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (17 bp):
CACAGGTAAATTTTTAA
Found at i:92764085 original size:26 final size:26
Alignment explanation
Indices: 92764056--92764105 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
92764046 TATGTGATTG
*
92764056 TATTGTTGCTATGAATATGAAATTTC
1 TATTGTTGCTATGAATATAAAATTTC
92764082 TATTGTTGCTATGAATATAAAATT
1 TATTGTTGCTATGAATATAAAATT
92764106 AATATTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.46
Consensus pattern (26 bp):
TATTGTTGCTATGAATATAAAATTTC
Found at i:92764111 original size:26 final size:26
Alignment explanation
Indices: 92764056--92764111 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
92764046 TATGTGATTG
* **
92764056 TATTGTTGCTATGAATATGAAATTTC
1 TATTGTTGCTATGAATATAAAATTAA
92764082 TATTGTTGCTATGAATATAAAATTAA
1 TATTGTTGCTATGAATATAAAATTAA
92764108 TATT
1 TATT
92764112 ATATCTGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.46
Consensus pattern (26 bp):
TATTGTTGCTATGAATATAAAATTAA
Found at i:92764424 original size:26 final size:26
Alignment explanation
Indices: 92764377--92764436 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
92764367 CCGATATATG
*
92764377 GCTCTTCGTGAGCTTTTCGATTAAAA
1 GCTCTTCGTGAGCTTCTCGATTAAAA
* **
92764403 GCTCTTTGTGAGCTTC-CTGATTAATG
1 GCTCTTCGTGAGCTTCTC-GATTAAAA
92764429 GCTCTTCG
1 GCTCTTCG
92764437 GAGTTACCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 1 0.04
26 27 0.96
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.40
Consensus pattern (26 bp):
GCTCTTCGTGAGCTTCTCGATTAAAA
Found at i:92764552 original size:25 final size:25
Alignment explanation
Indices: 92764473--92764555 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
92764463 GCTTCTCGAT
**
92764473 TATGGCTCTTATGAGCTTCCTGTTA
1 TATGGCTCAAATGAGCTTCCTGTTA
** * * * *
92764498 TACAGCCCAAATAAGCTTCCCGCTA
1 TATGGCTCAAATGAGCTTCCTGTTA
* * *
92764523 CATGGCTTACATGAGCTTCCTGTTA
1 TATGGCTCAAATGAGCTTCCTGTTA
92764548 TATGGCTC
1 TATGGCTC
92764556 GAGAGAGGGC
Statistics
Matches: 39, Mismatches: 19, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.34
Consensus pattern (25 bp):
TATGGCTCAAATGAGCTTCCTGTTA
Found at i:92769937 original size:26 final size:26
Alignment explanation
Indices: 92769908--92769960 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
92769898 ATTCTCATTG
*
92769908 TATAATTCTCCTTTTGTAAACTTTGT
1 TATAATTCTCCTTTTATAAACTTTGT
*
92769934 TATAATTTTCCTTTTATAAACTTTGT
1 TATAATTCTCCTTTTATAAACTTTGT
92769960 T
1 T
92769961 CTAAATGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.13, G:0.06, T:0.57
Consensus pattern (26 bp):
TATAATTCTCCTTTTATAAACTTTGT
Found at i:92771966 original size:9 final size:9
Alignment explanation
Indices: 92771952--92772010 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
92771942 ATAAGTATTA
*
92771952 AATTAATCG
1 AATTAACCG
92771961 AATTAACCG
1 AATTAACCG
92771970 AATTAACCG
1 AATTAACCG
*
92771979 AATTAGCCG
1 AATTAACCG
* *
92771988 AATCAGCCG
1 AATTAACCG
92771997 AATTAACCG
1 AATTAACCG
92772006 AATTA
1 AATTA
92772011 TTTGTATAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:92772041 original size:6 final size:6
Alignment explanation
Indices: 92772030--92772082 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
92772020 AATTATATGT
* * * *
92772030 TTTTTA TTTTTA GTTTTA GTTTTA GTTTTA GTTTTAGA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA
92772080 TTT
1 TTT
92772083 ATTAAATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 33 0.80
7 7 0.17
8 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:92772052 original size:12 final size:12
Alignment explanation
Indices: 92772031--92772071 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
92772021 ATTATATGTT
*
92772031 TTTTATTTTTAG
1 TTTTAGTTTTAG
92772043 TTTTAGTTTTAG
1 TTTTAGTTTTAG
92772055 TTTTAGTTTTAG
1 TTTTAGTTTTAG
92772067 ATTTT
1 -TTTT
92772072 TATTTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 23 0.85
13 4 0.15
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.71
Consensus pattern (12 bp):
TTTTAGTTTTAG
Found at i:92772058 original size:18 final size:19
Alignment explanation
Indices: 92772031--92772071 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
92772021 ATTATATGTT
*
92772031 TTTTATTTTTAGTTTTAG-
1 TTTTAGTTTTAGTTTTAGA
92772049 TTTTAGTTTTAGTTTTAGA
1 TTTTAGTTTTAGTTTTAGA
92772068 TTTT
1 TTTT
92772072 TATTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.71
Consensus pattern (19 bp):
TTTTAGTTTTAGTTTTAGA
Found at i:92772083 original size:18 final size:18
Alignment explanation
Indices: 92772030--92772083 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
92772020 AATTATATGT
92772030 TTTTTATTTTTAGTTTTAG
1 TTTTTATTTTTAG-TTTAG
*
92772049 -TTTTAGTTTTAGTTTTAG
1 TTTTTATTTTTAG-TTTAG
92772067 ATTTTTATTTTTA-TTTA
1 -TTTTTATTTTTAGTTTA
92772084 TTAAATTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 21 0.68
20 10 0.32
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (18 bp):
TTTTTATTTTTAGTTTAG
Found at i:92772123 original size:13 final size:13
Alignment explanation
Indices: 92772107--92772131 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92772097 AATTTTTATG
92772107 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
92772120 ATTGGGTTGGGT
1 ATTGGGTTGGGT
92772132 TGGGTACTTG
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:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:92772131 original size:18 final size:18
Alignment explanation
Indices: 92772108--92772145 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
92772098 ATTTTTATGA
92772108 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
92772126 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
92772144 TT
1 TT
92772146 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:92783442 original size:3 final size:3
Alignment explanation
Indices: 92783434--92783481 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
92783424 AGCAACCTCA
** * *
92783434 ACC ACC ACC ACC AAG A-C ACC ACC ACC ACC ACC TCC ACC TCC ACC ACC
1 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC
92783481 A
1 A
92783482 ACAACAACCA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
2 1 0.03
3 36 0.97
ACGTcount: A:0.33, C:0.60, G:0.02, T:0.04
Consensus pattern (3 bp):
ACC
Found at i:92783506 original size:3 final size:3
Alignment explanation
Indices: 92783500--92783527 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
92783490 CATGACGACG
92783500 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
92783528 AAACGACAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:92790082 original size:13 final size:13
Alignment explanation
Indices: 92790064--92790089 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
92790054 CGAAATCATA
92790064 ATTATAATAATTT
1 ATTATAATAATTT
92790077 ATTATAATAATTT
1 ATTATAATAATTT
92790090 CAGTAAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATAATAATTT
Found at i:92798706 original size:9 final size:9
Alignment explanation
Indices: 92798679--92798715 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
92798669 TGAGTTTTCG
92798679 AATTCGAAT
1 AATTCGAAT
* *
92798688 AACTCAAAT
1 AATTCGAAT
92798697 AATTCGAAT
1 AATTCGAAT
92798706 AATTCGAAT
1 AATTCGAAT
92798715 A
1 A
92798716 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:92803106 original size:44 final size:45
Alignment explanation
Indices: 92803018--92803106 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 45
92803008 AGAACAGAAA
*
92803018 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAT
* *
92803064 TGAGCCGTGTAAGTCCATATT-ATATATGGCATTGGAGACAGGA
1 TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGA
92803107 ATAAGTCCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 20 0.50
46 20 0.50
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAT
Found at i:92819351 original size:131 final size:131
Alignment explanation
Indices: 92819080--92819558 Score: 448
Period size: 131 Copynumber: 3.6 Consensus size: 131
92819070 TGAAATTCCA
* * * * * * * *
92819080 AAGGGATCTTCGATTATTTTGAATAAATGAGAAAGCGCAACCCAGCACGATAGGGCTCGATT-CT
1 AAGGGATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGTTAGGGCACGATTCCG
* * * **
92819144 CAAATTGCCAAACATCGAACATCGCCTTCGTTTTGAAA-GATTTTTAATAAACATGAATGAAAAC
66 CGAATTGCCAAACATCGAACATTGCCTTCGTTTT-AAATGATTTTTAA-AGACATGAATGAAATT
* *
92819208 CTA
129 TTG
* * * * * *
92819211 AAGGAATATTTGATTGTTTTGAACAAAAGAGAGATCACAACCCAGCACGATT-GGGCATGATTCC
1 AAGGGATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACG-TTAGGGCACGATTCC
* * ** * *
92819275 -CGAATTGTCAAACACCGAGTATTACCTTCGTTTTAAATGATTTTTAGAAGACATGAATGGAATT
65 GCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAATGATTTTTA-AAGACATGAATGAAATT
92819339 TTG
129 TTG
* **
92819342 AAGGGATATTCGATCATTTT-AAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCC
1 AAGGGATATTCGATTATTTTGAA-CAAACGAGAAATCACAACCCAGCACGTTAGGGCACGATTCC
* ** * * * * * *
92819406 TGCGAATTTCCAAATGTCAAACCTTGCCTTCGTTTTAAAT-AGTTCTTAAAAGGCGTGAGTGAAA
65 -GCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAATGA-TT-TTTAAAGACATGAATGAAA
92819470 TTTTG
127 TTTTG
* * * *
92819475 AAGGGATATTCGATTATTTTGAGCAAACGTGAAATTACAACCCAACACGTTAGGGCACGATTCCG
1 AAGGGATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGTTAGGGCACGATTCCG
*
92819540 CGAATTGCCAAATATCGAA
66 CGAATTGCCAAACATCGAA
92819559 TCTCGTCTTC
Statistics
Matches: 280, Mismatches: 57, Indels: 21
0.78 0.16 0.06
Matches are distributed among these distances:
130 7 0.03
131 145 0.52
132 21 0.08
133 103 0.37
134 4 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (131 bp):
AAGGGATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGTTAGGGCACGATTCCG
CGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAATGATTTTTAAAGACATGAATGAAATTTT
G
Found at i:92819475 original size:133 final size:132
Alignment explanation
Indices: 92819299--92819552 Score: 375
Period size: 133 Copynumber: 1.9 Consensus size: 132
92819289 CCGAGTATTA
* * *
92819299 CCTTCGTTTTAAATGATTTTTAGAAGACATGAATGGAATTTTGAAGGGATATTCGATCATTTTAA
1 CCTTCGTTTTAAATGATTCTTAAAAGACATGAATGAAATTTTGAAGGGATATTCGATCATTTTAA
* * *
92819364 GCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCTGCGAATTTCCAAATGTCAAACC
66 GCAAACGAGAAATTACAACCCAACACGTTAGGGCACGATTCC-GCGAATTGCCAAATGTCAAACC
92819429 TTG
130 TTG
* * * * *
92819432 CCTTCGTTTTAAAT-AGTTCTTAAAAGGCGTGAGTGAAATTTTGAAGGGATATTCGATTATTTTG
1 CCTTCGTTTTAAATGA-TTCTTAAAAGACATGAATGAAATTTTGAAGGGATATTCGATCATTTTA
*
92819496 AGCAAACGTGAAATTACAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAAT
65 AGCAAACGAGAAATTACAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAAT
92819553 ATCGAATCTC
Statistics
Matches: 108, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
132 14 0.13
133 94 0.87
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (132 bp):
CCTTCGTTTTAAATGATTCTTAAAAGACATGAATGAAATTTTGAAGGGATATTCGATCATTTTAA
GCAAACGAGAAATTACAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATGTCAAACCT
TG
Found at i:92824780 original size:22 final size:22
Alignment explanation
Indices: 92824755--92824802 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
92824745 ACTATTGTAA
92824755 GGTTTATGGATTATGGGTTTA-G
1 GGTTTATGGATTAT-GGTTTATG
*
92824777 GGTTTATGGTTTATGGTTTATG
1 GGTTTATGGATTATGGTTTATG
92824799 GGTT
1 GGTT
92824803 AAGGGTTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (22 bp):
GGTTTATGGATTATGGTTTATG
Found at i:92824787 original size:29 final size:28
Alignment explanation
Indices: 92824755--92824817 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 28
92824745 ACTATTGTAA
* *
92824755 GGTTTATGGATTATGGGTTTAGGGTTTAT
1 GGTTTATGGATTATGGGTTAAGGG-TTAG
*
92824784 GGTTTATGGTTTATGGGTTAAGGGTTAG
1 GGTTTATGGATTATGGGTTAAGGGTTAG
92824812 GGTTTA
1 GGTTTA
92824818 AGTTTCAGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
28 9 0.29
29 22 0.71
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (28 bp):
GGTTTATGGATTATGGGTTAAGGGTTAG
Found at i:92824912 original size:22 final size:21
Alignment explanation
Indices: 92824879--92824919 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
92824869 GTTTTATAGT
92824879 TTAAGGTTTAGGGGTTAGAGG
1 TTAAGGTTTAGGGGTTAGAGG
*
92824900 TTAAGGATTTAGGGTTTAGA
1 TTAAGG-TTTAGGGGTTAGA
92824920 TTAATTAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.27, C:0.00, G:0.37, T:0.37
Consensus pattern (21 bp):
TTAAGGTTTAGGGGTTAGAGG
Found at i:92824918 original size:7 final size:7
Alignment explanation
Indices: 92824755--92824918 Score: 73
Period size: 7 Copynumber: 23.0 Consensus size: 7
92824745 ACTATTGTAA
*
92824755 GGTTTAT
1 GGTTTAG
*
92824762 GGATTATG
1 GGTTTA-G
92824770 GGTTTAG
1 GGTTTAG
*
92824777 GGTTTAT
1 GGTTTAG
*
92824784 GGTTTAT
1 GGTTTAG
92824791 GGTTTATG
1 GGTTTA-G
*
92824799 GGTTAAG
1 GGTTTAG
92824806 GG-TTAG
1 GGTTTAG
92824812 GGTTTA-
1 GGTTTAG
*
92824818 AGTTTCAGG
1 GGTTT-A-G
*
92824827 GGGTT-G
1 GGTTTAG
*
92824833 GGTTTAA
1 GGTTTAG
*
92824840 TGTTTAG
1 GGTTTAG
*
92824847 GGATTAAG
1 GG-TTTAG
*
92824855 GGTTAAG
1 GGTTTAG
* *
92824862 AGTTTAT
1 GGTTTAG
* *
92824869 GTTTTAT
1 GGTTTAG
* *
92824876 AGTTTAA
1 GGTTTAG
92824883 GGTTTAG
1 GGTTTAG
*
92824890 GGGTTAG
1 GGTTTAG
*
92824897 AGGTTAAG
1 -GGTTTAG
*
92824905 GATTTAG
1 GGTTTAG
92824912 GGTTTAG
1 GGTTTAG
92824919 ATTAATTAGT
Statistics
Matches: 116, Mismatches: 32, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
6 14 0.12
7 78 0.67
8 21 0.18
9 3 0.03
ACGTcount: A:0.21, C:0.01, G:0.35, T:0.43
Consensus pattern (7 bp):
GGTTTAG
Found at i:92831478 original size:8 final size:8
Alignment explanation
Indices: 92831465--92831490 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
92831455 ATTGTAACAC
92831465 TTTGTGTG
1 TTTGTGTG
92831473 TTTGTGTG
1 TTTGTGTG
92831481 TTTGTGTG
1 TTTGTGTG
92831489 TT
1 TT
92831491 ATTTTTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.35, T:0.65
Consensus pattern (8 bp):
TTTGTGTG
Found at i:92831796 original size:41 final size:41
Alignment explanation
Indices: 92831728--92831818 Score: 128
Period size: 41 Copynumber: 2.2 Consensus size: 41
92831718 TTTTTAAAAG
* *
92831728 GTCATGATTTTTAGTGGCATTTTTGGGAAAAGCGTCGCTAA
1 GTCATGATTTTTAATGGCATTTGTGGGAAAAGCGTCGCTAA
* *
92831769 GTCATGTTTTTTAATGGCGTTTGTGGGAAAAGCGTCGCTAAA
1 GTCATGATTTTTAATGGCATTTGTGGGAAAAGCGTCGCT-AA
92831811 GGTCATGA
1 -GTCATGA
92831819 CCTTTAGCGG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 35 0.81
42 2 0.05
43 6 0.14
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.35
Consensus pattern (41 bp):
GTCATGATTTTTAATGGCATTTGTGGGAAAAGCGTCGCTAA
Found at i:92831831 original size:43 final size:43
Alignment explanation
Indices: 92831724--92831869 Score: 163
Period size: 43 Copynumber: 3.4 Consensus size: 43
92831714 TAAATTTTTA
* * *
92831724 AAAGGTCATGATTTTTAGTGGCATTTTTGGGAAAAGCGTCGCT
1 AAAGGTCATGACTTTTAGCGGCGTTTTTGGGAAAAGCGTCGCT
** ** *
92831767 -AA-GTCATGTTTTTTAATGGCGTTTGTGGGAAAAGCGTCGCT
1 AAAGGTCATGACTTTTAGCGGCGTTTTTGGGAAAAGCGTCGCT
* *
92831808 AAAGGTCATGACCTTTAGCGGCGTTTTTGGTAAAAGCG-CTGCT
1 AAAGGTCATGACTTTTAGCGGCGTTTTTGGGAAAAGCGTC-GCT
*
92831851 AAAGATCATGACTTTTAGC
1 AAAGGTCATGACTTTTAGC
92831870 AATGTTTTTT
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
41 35 0.40
42 5 0.06
43 47 0.54
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (43 bp):
AAAGGTCATGACTTTTAGCGGCGTTTTTGGGAAAAGCGTCGCT
Found at i:92831934 original size:12 final size:14
Alignment explanation
Indices: 92831899--92831937 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
92831889 CCACAAAATG
92831899 TTAGCGGCGTTGTCT
1 TTAGCGGCGTT-TCT
92831914 TTAGCGGCGTTT-T
1 TTAGCGGCGTTTCT
92831927 TT-GCGGCGTTT
1 TTAGCGGCGTTT
92831938 GTAAAAGCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 9 0.38
13 3 0.12
14 1 0.04
15 11 0.46
ACGTcount: A:0.05, C:0.18, G:0.33, T:0.44
Consensus pattern (14 bp):
TTAGCGGCGTTTCT
Found at i:92834919 original size:14 final size:14
Alignment explanation
Indices: 92834900--92834927 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
92834890 CATGAGTAAA
92834900 GCTTACAATAGGGT
1 GCTTACAATAGGGT
92834914 GCTTACAATAGGGT
1 GCTTACAATAGGGT
92834928 CAAATAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (14 bp):
GCTTACAATAGGGT
Found at i:92837548 original size:9 final size:9
Alignment explanation
Indices: 92837534--92837601 Score: 84
Period size: 9 Copynumber: 7.6 Consensus size: 9
92837524 ATAAGTATAA
92837534 AATTAACCG
1 AATTAACCG
92837543 AATTAACCG
1 AATTAACCG
*
92837552 AATTAATCG
1 AATTAACCG
*
92837561 AATTACCCG
1 AATTAACCG
*
92837570 AATT-ACCTA
1 AATTAACC-G
*
92837579 AATTAATCG
1 AATTAACCG
92837588 AATTAACCG
1 AATTAACCG
92837597 AATTA
1 AATTA
92837602 TTTGTATAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 2 0.04
9 45 0.92
10 2 0.04
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:92837582 original size:27 final size:26
Alignment explanation
Indices: 92837534--92837601 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 26
92837524 ATAAGTATAA
*
92837534 AATTAACCGAATTAACCGAATTAATCG
1 AATTAACCGAATT-ACCAAATTAATCG
*
92837561 AATTACCCGAATTACCTAAATTAATCG
1 AATTAACCGAATTACC-AAATTAATCG
92837588 AATTAACCGAATTA
1 AATTAACCGAATTA
92837602 TTTGTATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 3 0.08
27 34 0.92
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (26 bp):
AATTAACCGAATTACCAAATTAATCG
Found at i:92837632 original size:6 final size:6
Alignment explanation
Indices: 92837621--92837667 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
92837611 AATTATATGT
* *
92837621 TTTTTA TTTTTA GTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
92837668 ATTAAATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
6 26 0.74
7 8 0.23
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:92837639 original size:12 final size:12
Alignment explanation
Indices: 92837622--92837667 Score: 65
Period size: 12 Copynumber: 3.7 Consensus size: 12
92837612 ATTATATGTT
92837622 TTTTATTTTTAG
1 TTTTATTTTTAG
92837634 TTTTATTTTTAG
1 TTTTATTTTTAG
*
92837646 TTTTAGATTTTTAT
1 TTTT--ATTTTTAG
92837660 TTTTATTT
1 TTTTATTT
92837668 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 20 0.65
14 11 0.35
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (12 bp):
TTTTATTTTTAG
Found at i:92839737 original size:27 final size:26
Alignment explanation
Indices: 92839707--92839757 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
92839697 TAATTTTAAA
*
92839707 AAATTAAAAAAATCTTAAAATAAAAAT
1 AAATTAAAAAAATATT-AAATAAAAAT
**
92839734 AAATTATTAAAATATTAAATAAAA
1 AAATTAAAAAAATATTAAATAAAA
92839758 CACATTTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (26 bp):
AAATTAAAAAAATATTAAATAAAAAT
Found at i:92864019 original size:21 final size:21
Alignment explanation
Indices: 92863993--92864038 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
92863983 TCGATCCTGT
*
92863993 TCCTCATAAATAAAGTTTAAA
1 TCCTCATAAACAAAGTTTAAA
92864014 TCCTCATAAACAAAGTTTAAA
1 TCCTCATAAACAAAGTTTAAA
92864035 TCCT
1 TCCT
92864039 TATAGATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (21 bp):
TCCTCATAAACAAAGTTTAAA
Found at i:92867556 original size:11 final size:11
Alignment explanation
Indices: 92867510--92867561 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
92867500 AAGAAGACCT
92867510 AGAAAA-AAAA
1 AGAAAAGAAAA
92867520 AGAAAAGAAAA
1 AGAAAAGAAAA
*
92867531 TGAGAGAATGAAAA
1 --AGA-AAAGAAAA
*
92867545 ATAAAAGAAAA
1 AGAAAAGAAAA
92867556 AGAAAA
1 AGAAAA
92867562 ATGAGGTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
10 6 0.18
11 16 0.47
12 2 0.06
13 3 0.09
14 7 0.21
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (11 bp):
AGAAAAGAAAA
Found at i:92867809 original size:20 final size:20
Alignment explanation
Indices: 92867786--92867847 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 20
92867776 TTTTTTTTAC
*
92867786 AAAATTGCTGAATTTCTTAT
1 AAAATTGATGAATTTCTTAT
* *
92867806 AAAATTGTTGAA-TCCTTAT
1 AAAATTGATGAATTTCTTAT
* *
92867825 ATAATTAATGAATTTCTTA-
1 AAAATTGATGAATTTCTTAT
92867844 AAAA
1 AAAA
92867848 ACAAGGTGCT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (20 bp):
AAAATTGATGAATTTCTTAT
Found at i:92872992 original size:44 final size:44
Alignment explanation
Indices: 92872929--92873020 Score: 184
Period size: 44 Copynumber: 2.1 Consensus size: 44
92872919 CGAAGGTTGC
92872929 AATCTTAAATAAAGTGAACAGTAAAAATGATAGTCGCGATATTA
1 AATCTTAAATAAAGTGAACAGTAAAAATGATAGTCGCGATATTA
92872973 AATCTTAAATAAAGTGAACAGTAAAAATGATAGTCGCGATATTA
1 AATCTTAAATAAAGTGAACAGTAAAAATGATAGTCGCGATATTA
92873017 AATC
1 AATC
92873021 AAGTGAATTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.48, C:0.10, G:0.15, T:0.27
Consensus pattern (44 bp):
AATCTTAAATAAAGTGAACAGTAAAAATGATAGTCGCGATATTA
Found at i:92876528 original size:22 final size:22
Alignment explanation
Indices: 92876482--92876528 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
92876472 TTGGAGTTCG
**
92876482 CAGAGAATGTTAGTACTAGGGA
1 CAGAGAATGTTAGTACTAGAAA
*
92876504 CAGAGAATGTTAGTATTAGAAA
1 CAGAGAATGTTAGTACTAGAAA
92876526 CAG
1 CAG
92876529 CAAACCTAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.23
Consensus pattern (22 bp):
CAGAGAATGTTAGTACTAGAAA
Found at i:92877813 original size:19 final size:20
Alignment explanation
Indices: 92877780--92877826 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
92877770 CCGGAAAATA
92877780 ATTTCTAGAAAATGATTTAC
1 ATTTCTAGAAAATGATTTAC
92877800 ATTTCTAG-AAATGATTTAC
1 ATTTCTAGAAAATGATTTAC
*
92877819 TTTTCTAG
1 ATTTCTAG
92877827 TGTTTAGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (20 bp):
ATTTCTAGAAAATGATTTAC
Found at i:92881892 original size:68 final size:68
Alignment explanation
Indices: 92881808--92881951 Score: 171
Period size: 68 Copynumber: 2.1 Consensus size: 68
92881798 TCAACGCAGG
* * *
92881808 TCAACAAGTTGTTAGGAATTACGATCTTAAATCAACTAACTTAAATAATCAGAAGTTGTAATCTT
1 TCAACGAGTTGTTAGGAATTACGATCTTAAATCAACGAACTCAAATAATCAGAAGTTGTAATCTT
92881873 AAA
66 AAA
* * * * ** ** * *
92881876 TCAGCGAGTTGTTAGGAGTTGCGTTCTTAAATCGGCGAACTCAAATAATTGGAGGTTGTGATCTT
1 TCAACGAGTTGTTAGGAATTACGATCTTAAATCAACGAACTCAAATAATCAGAAGTTGTAATCTT
92881941 AAA
66 AAA
92881944 TCAACGAG
1 TCAACGAG
92881952 CTTTAGTAAT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.31
Consensus pattern (68 bp):
TCAACGAGTTGTTAGGAATTACGATCTTAAATCAACGAACTCAAATAATCAGAAGTTGTAATCTT
AAA
Found at i:92882375 original size:105 final size:105
Alignment explanation
Indices: 92882081--92882757 Score: 423
Period size: 105 Copynumber: 6.5 Consensus size: 105
92882071 TTGGGAATAT
** * * *
92882081 AAGTCTGCGAGCTATTTCGGAA-TTGCGAGCTTAACTCAACTAACTTAAATAGTTTGGAGGTTGT
1 AAGTCTGCGAGCTATTTC-GAAGTTGCGAGCTTAACTCAACTAACTCGAATAATCTGGAGGCTGT
* * *
92882145 GAGTTTTAACTCAACTAACCTTTAAACATTAGCTGGGAACGC
65 GAG-CTTAACTCAACTAACCTTTAAACATGAGCTGAGAACGC
** * * *
92882187 AAGTCCACGAGCTCTTTCAAAGTTTGCGAGCTTAACTCAACTAACTCGAATAATCTAGAGGCTGT
1 AAGTCTGCGAGCTATTTCGAAG-TTGCGAGCTTAACTCAACTAACTCGAATAATCTGGAGGCTGT
92882252 GAGCTTAACTCAACTAACCTTTAAACATGAGCTGAGAACGC
65 GAGCTTAACTCAACTAACCTTTAAACATGAGCTGAGAACGC
* * * * * *
92882293 AAGTCTGCGAACTGTTTCGAAGTTGCAAGCTTAACTTAGCTAACTCGAATAATCTGGAGACTGTG
1 AAGTCTGCGAGCTATTTCGAAGTTGCGAGCTTAACTCAACTAACTCGAATAATCTGGAGGCTGTG
* * * * * * **
92882358 AGCTTAACTTAGCTAACCCTTAAACATCAACTGGGAACAT
66 AGCTTAACTCAACTAACCTTTAAACATGAGCTGAGAACGC
* * * * ** * * * *
92882398 AGGT-TAGCAAGTTGTTAAGAA-ATGCGATCTTAGA-TCAACGAACTCAAATAAT-T--A-----
1 AAGTCT-GCGAGCTATTTCGAAGTTGCGAGCTTA-ACTCAACTAACTCGAATAATCTGGAGGCTG
* * * * * * * **
92882452 -GAG-ATAAATCAACTAGCCTTAGTAGA-ATCAACTGGGAACAT
64 TGAGCTTAACTCAACTAACCTT--TAAACATGAGCTGAGAACGC
* * * * * * * * **
92882493 AAGTTTGCGAGTTGTTTCAAAGTTGCCAGCTTAACTCAGCTAACTCGAATAATTTGAAGGCTACG
1 AAGTCTGCGAGCTATTTCGAAGTTGCGAGCTTAACTCAACTAACTCGAATAATCTGGAGGCTGTG
* * *
92882558 AGCTTAACTCAACTAACCTTTAAATATCAGCTG-GAAACGT
66 AGCTTAACTCAACTAACCTTTAAACATGAGCTGAG-AACGC
* * * * * * * * * * *
92882598 AAGTTTGCAAGTTGTTTTGGAGTTACAAGCTTAACTCAATTAACTCGAATAATTTGGAGGTTGTG
1 AAGTCTGCGAGCTATTTCGAAGTTGCGAGCTTAACTCAACTAACTCGAATAATCTGGAGGCTGTG
* * * * **
92882663 AACTTAACACAACTAACCTTTAAACATCAGCTAAGAACAT
66 AGCTTAACTCAACTAACCTTTAAACATGAGCTGAGAACGC
* * * ** * *
92882703 AAGTCTGCGAGCTGTTTCGAAATTACGAGCTTAACTTTACTAACTAGAATTATCT
1 AAGTCTGCGAGCTATTTCGAAGTTGCGAGCTTAACTCAACTAACTCGAATAATCT
92882758 AGAGATCGCG
Statistics
Matches: 451, Mismatches: 98, Indels: 45
0.76 0.16 0.08
Matches are distributed among these distances:
94 11 0.02
95 33 0.07
96 27 0.06
97 1 0.00
99 1 0.00
101 1 0.00
103 1 0.00
104 27 0.06
105 228 0.51
106 82 0.18
107 39 0.09
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (105 bp):
AAGTCTGCGAGCTATTTCGAAGTTGCGAGCTTAACTCAACTAACTCGAATAATCTGGAGGCTGTG
AGCTTAACTCAACTAACCTTTAAACATGAGCTGAGAACGC
Found at i:92892163 original size:28 final size:28
Alignment explanation
Indices: 92892102--92892163 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
92892092 TCAGTGTACG
*
92892102 AAATATTGAGAATGACACTTAGTATGCG
1 AAATATTGAGAATGACACTTAGTATGCA
* *
92892130 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAGTATGCA
92892158 AAATAT
1 AAATAT
92892164 CAAATGATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAGTATGCA
Found at i:92896466 original size:33 final size:33
Alignment explanation
Indices: 92896429--92896496 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
92896419 GGTAGCATGG
92896429 TTCAAATATTAATATTTGTAAATTATTTATTTA
1 TTCAAATATTAATATTTGTAAATTATTTATTTA
92896462 TTCAAATATTAATATTTGTAAATTATTTATTTA
1 TTCAAATATTAATATTTGTAAATTATTTATTTA
92896495 TT
1 TT
92896497 TTTTTAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (33 bp):
TTCAAATATTAATATTTGTAAATTATTTATTTA
Found at i:92896484 original size:16 final size:16
Alignment explanation
Indices: 92896432--92896484 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
92896422 AGCATGGTTC
92896432 AAATATTAATATTTGT
1 AAATATTAATATTTGT
*
92896448 AAATTATT--TATTTATT
1 AAA-TATTAATATTT-GT
92896464 CAAATATTAATATTTGT
1 -AAATATTAATATTTGT
92896481 AAAT
1 AAAT
92896485 TATTTATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
15 5 0.17
16 12 0.40
17 8 0.27
18 5 0.17
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (16 bp):
AAATATTAATATTTGT
Found at i:92898307 original size:13 final size:13
Alignment explanation
Indices: 92898289--92898318 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
92898279 TGATCGACTA
92898289 TTATAATAAATTT
1 TTATAATAAATTT
92898302 TTATAATAAATTT
1 TTATAATAAATTT
92898315 TTAT
1 TTAT
92898319 TCTCATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTATAATAAATTT
Found at i:92899350 original size:10 final size:10
Alignment explanation
Indices: 92899335--92899359 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
92899325 TATTTTAGAG
92899335 AAAAATATGA
1 AAAAATATGA
92899345 AAAAATATGA
1 AAAAATATGA
92899355 AAAAA
1 AAAAA
92899360 AATTAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (10 bp):
AAAAATATGA
Found at i:92901154 original size:24 final size:24
Alignment explanation
Indices: 92901122--92901168 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
92901112 GGTTTCAGGA
92901122 TTTGGCTAAATTCAATATTGCTCT
1 TTTGGCTAAATTCAATATTGCTCT
92901146 TTTGGCTAAATTCAATATTGCTC
1 TTTGGCTAAATTCAATATTGCTC
92901169 GTCTAATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.45
Consensus pattern (24 bp):
TTTGGCTAAATTCAATATTGCTCT
Found at i:92903370 original size:11 final size:11
Alignment explanation
Indices: 92903354--92903379 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
92903344 GATCTGTGAA
92903354 AAAATAAAAAT
1 AAAATAAAAAT
92903365 AAAATAAAAAT
1 AAAATAAAAAT
92903376 AAAA
1 AAAA
92903380 AACAAACAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:92908372 original size:28 final size:28
Alignment explanation
Indices: 92908319--92908402 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
92908309 CACTTTGTGC
92908319 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
92908348 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
92908376 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
92908403 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:92908414 original size:23 final size:24
Alignment explanation
Indices: 92908323--92908416 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 24
92908313 TTGTGCTATT
92908323 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-TATA-TA
*
92908350 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGG---ATAT-ATA
92908380 CTGGTGTGTTTTGGAGGAT-TATA
1 CTGGTGTGTTTTGGAGGATATATA
92908403 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
92908417 TTGGACATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
23 17 0.29
24 1 0.02
25 2 0.03
28 18 0.31
29 14 0.24
30 5 0.08
31 2 0.03
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.46
Consensus pattern (24 bp):
CTGGTGTGTTTTGGAGGATATATA
Found at i:92908645 original size:23 final size:23
Alignment explanation
Indices: 92908619--92908692 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
92908609 AGGTACTTTA
92908619 TGTGTCGTATTTCAGGCACCTTG
1 TGTGTCGTATTTCAGGCACCTTG
*
92908642 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTTG
* *
92908663 TGTGTCG--TTTCAGGCA-TTTA
1 TGTGTCGTATTTCAGGCACCTTG
92908683 TGTGTCGTAT
1 TGTGTCGTAT
92908693 ACTGATCAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
20 8 0.19
21 25 0.58
22 1 0.02
23 9 0.21
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTTG
Found at i:92909932 original size:46 final size:48
Alignment explanation
Indices: 92909774--92909942 Score: 159
Period size: 46 Copynumber: 3.5 Consensus size: 48
92909764 TGGTTGGACC
*
92909774 ATGGCATCA-A-TGTGATATGTGATTTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
* * * * *
92909820 ATGGCATCAGAGATATGTGATTACGTGCTTTCGTATAAGACCATATCTGGGAT
1 ATGGCATCAGAG---TGTGA-TATGTG-ATTCGTGTAAGACCATAGCTGGGCT
* *
92909873 ATGGCATC--AGTGTGATATGTGATTCGTGTAAGGCCATGGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
* *
92909919 ATGGC-TACGGTGTGTGATATGTGA
1 ATGGCAT-CAGAGTGTGATATGTGA
92909943 CTATGTAAAA
Statistics
Matches: 99, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
45 1 0.01
46 34 0.34
47 6 0.06
48 18 0.18
51 7 0.07
52 5 0.05
53 28 0.28
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (48 bp):
ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
Found at i:92911177 original size:22 final size:22
Alignment explanation
Indices: 92911152--92911197 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
92911142 TTTCATTGGA
92911152 AAAATGTAGATGTAATTGTGTT
1 AAAATGTAGATGTAATTGTGTT
92911174 AAAATGTAGATGTAATTGTGTT
1 AAAATGTAGATGTAATTGTGTT
92911196 AA
1 AA
92911198 CGCCTTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (22 bp):
AAAATGTAGATGTAATTGTGTT
Found at i:92924595 original size:11 final size:11
Alignment explanation
Indices: 92924579--92924612 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
92924569 ATAGAGATTA
*
92924579 GATACTATAGC
1 GATACTGTAGC
*
92924590 GATACTGTAGT
1 GATACTGTAGC
92924601 GATACTGTAGC
1 GATACTGTAGC
92924612 G
1 G
92924613 TGAGACAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (11 bp):
GATACTGTAGC
Found at i:92930157 original size:15 final size:15
Alignment explanation
Indices: 92930134--92930169 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
92930124 ATCATCAAGG
*
92930134 TTTTATTATTATTAT
1 TTTTTTTATTATTAT
*
92930149 TTTTTTTATTTTTAT
1 TTTTTTTATTATTAT
92930164 TTTTTT
1 TTTTTT
92930170 GCATTGTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTATTATTAT
Found at i:92936144 original size:44 final size:44
Alignment explanation
Indices: 92936085--92936176 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
92936075 CAGAAGTAAC
* *
92936085 AGTAATAGTATGACACATAAT-GTGCCTCATCGACTCGAA-GTCGA
1 AGTAACAGTACGACAC-TAATAGTGCCTCATCGACTC-AAGGTCGA
*
92936129 AGTAACAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACTAATAGTGCCTCATCGACTCAAGGTCGA
92936173 AGTA
1 AGTA
92936177 TCCCTGAACA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 5 0.12
44 38 0.88
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.24
Consensus pattern (44 bp):
AGTAACAGTACGACACTAATAGTGCCTCATCGACTCAAGGTCGA
Found at i:92937386 original size:17 final size:17
Alignment explanation
Indices: 92937362--92937399 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
92937352 ATTTATTTCT
92937362 TAATATAAT--ATTT-A
1 TAATATAATAAATTTAA
92937376 TAATATAATAAATTTAA
1 TAATATAATAAATTTAA
92937393 TAATATA
1 TAATATA
92937400 CTTTATAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
16 4 0.19
17 8 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAATATAATAAATTTAA
Found at i:92939583 original size:55 final size:55
Alignment explanation
Indices: 92939465--92939583 Score: 150
Period size: 55 Copynumber: 2.2 Consensus size: 55
92939455 CTTAAATTTT
* * *
92939465 TAAATCAGTATTGTCCACGATTAGGCCACACGGGCGTGTGCCATAGCCGTGTCTA
1 TAAATCAGTATTGCCCACGAGTAGGCCACACGGGCGTGTGCCATAGCCGTGCCTA
* * * * *
92939520 TAAGTCAGTATTGCCCATGGGTAGGCCACACGGGCGTGTGCCATGGCTGTGCCCTA
1 TAAATCAGTATTGCCCACGAGTAGGCCACACGGGCGTGTGCCATAGCCGTG-CCTA
92939576 -AAATCAGT
1 TAAATCAGT
92939584 GTCGCACATC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 51 0.94
56 3 0.06
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (55 bp):
TAAATCAGTATTGCCCACGAGTAGGCCACACGGGCGTGTGCCATAGCCGTGCCTA
Found at i:92944359 original size:44 final size:44
Alignment explanation
Indices: 92944286--92944377 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
92944276 CTGAAGTAAT
*
92944286 AGTAACAGTACGACACACAAGGTGTCTCATCGACTCGAA-GTCGA
1 AGTAACAGTACGACACACAAGGTGACTCATCGACTC-AAGGTCGA
92944330 AGTAACAGTACGACACTTAC-A-GTGACTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACAC--ACAAGGTGACTCATCGACTCAAGGTCGA
92944374 AGTA
1 AGTA
92944378 TCCCTGAACA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
43 2 0.05
44 39 0.89
45 1 0.02
46 2 0.05
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.20
Consensus pattern (44 bp):
AGTAACAGTACGACACACAAGGTGACTCATCGACTCAAGGTCGA
Found at i:92945444 original size:13 final size:12
Alignment explanation
Indices: 92945411--92945452 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
92945401 TAATATTAAG
92945411 AATAATAA-TTA
1 AATAATAATTTA
*
92945422 TAACAATAATTTA
1 -AATAATAATTTA
92945435 ATATAATAATTTA
1 A-ATAATAATTTA
92945448 AATAA
1 AATAA
92945453 ATATCTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 12 0.46
13 14 0.54
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (12 bp):
AATAATAATTTA
Found at i:92945547 original size:156 final size:158
Alignment explanation
Indices: 92945269--92945554 Score: 348
Period size: 157 Copynumber: 1.8 Consensus size: 158
92945259 ATTTGTTTAT
* *
92945269 TAATTTAATATAATAATAGTTAAAATAAATATCTATTTAATATCAAATACATGTATTACAATTGT
1 TAATTTAATATAATAATA-TTAAAATAAATATCTATTTAATATCAAATACAAGTATTACAAATGT
* ***
92945334 ATACATACATATTATTACACATTTATTTTATCATCACGCTACATTTGTCATAATTTAATTTATTT
65 ATACATACATATTAATACACATTTATCAAATCATCACGCTACATTTGTCATAATTTAATTTATTT
92945399 GATAATATTAAGAATAATAATTATAACAA
130 GATAATATTAAGAATAATAATTATAACAA
* * *
92945428 TAATTTAATATAATAAT-TT-AAATAAATATCTATTTAATAATTAATTATAAGTATTACAAATGT
1 TAATTTAATATAATAATATTAAAATAAATATCTATTTAAT-ATCAAATACAAGTATTACAAATGT
** *** * * *
92945491 ATGTATTTTTATTAATACAC-TTGTATCAAATCATCAC-CATGCA-TTGTCTTTATTTAATTTAT
65 ATACATACATATTAATACACATT-TATCAAATCATCACGC-TACATTTGTCATAATTTAATTTAT
92945553 TT
128 TT
92945555 CTTAATATAA
Statistics
Matches: 107, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
156 41 0.38
157 49 0.46
159 17 0.16
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (158 bp):
TAATTTAATATAATAATATTAAAATAAATATCTATTTAATATCAAATACAAGTATTACAAATGTA
TACATACATATTAATACACATTTATCAAATCATCACGCTACATTTGTCATAATTTAATTTATTTG
ATAATATTAAGAATAATAATTATAACAA
Found at i:92946683 original size:43 final size:43
Alignment explanation
Indices: 92946593--92946706 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
92946583 TGATTACATG
* * * *
92946593 TAAGACCATGTTTGGGACATTGGAATTGTATTGAGATTATGTG
1 TAAGACCATGTCTGGGACATTGGCATCGTATTGAGATTATGTA
92946636 TAAGACCATGTCTGGGACATTGGCATCGTTAATT-A-ATT-TCGTA
1 TAAGACCATGTCTGGGACATTGGCATCG-T-ATTGAGATTAT-GTA
* * *
92946679 TAAGACCCTGTCTGGGATAGTGGCATCG
1 TAAGACCATGTCTGGGACATTGGCATCG
92946707 ATATAAAATA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
42 1 0.02
43 55 0.90
44 2 0.03
45 3 0.05
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACATTGGCATCGTATTGAGATTATGTA
Found at i:92949689 original size:11 final size:11
Alignment explanation
Indices: 92949675--92949719 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
92949665 AGATAAATAT
92949675 TATTTTATTAA
1 TATTTTATTAA
*
92949686 TATTTTAATAATA
1 TATTTT-ATTA-A
*
92949699 TATTTTATTAT
1 TATTTTATTAA
92949710 TATTTTATTA
1 TATTTTATTA
92949720 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:92949702 original size:24 final size:24
Alignment explanation
Indices: 92949670--92949725 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
92949660 TAATTAGATA
92949670 AATATTATTTTATTAATATTTTAAT
1 AATA-TATTTTATTAATATTTTAAT
* *
92949695 AATATATTTTATTATTATTTTATT
1 AATATATTTTATTAATATTTTAAT
*
92949719 AGTATAT
1 AATATAT
92949726 AAAGAAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AATATATTTTATTAATATTTTAAT
Found at i:92951902 original size:46 final size:46
Alignment explanation
Indices: 92951850--92952123 Score: 381
Period size: 46 Copynumber: 6.0 Consensus size: 46
92951840 AGTGTGCTCT
*
92951850 CTGATATGAAATGTGTAAGAACATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
92951896 CTGATATGAAATGTGTAAGACCATGGTCGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
92951942 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
92951988 ATGATATGAAATG-GATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTG-TAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** *
92952034 GTGACATGAAAAGAATAAGATCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
92952080 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
92952124 TCATGTCAAA
Statistics
Matches: 209, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
45 2 0.01
46 207 0.99
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:92953130 original size:46 final size:46
Alignment explanation
Indices: 92953062--92953358 Score: 427
Period size: 46 Copynumber: 6.5 Consensus size: 46
92953052 TATTCATTTC
* *
92953062 TATCTTTCAACCATGGTATTATTCA-TTTCTTGTCATGTTGCTATGG
1 TATCTTTCAACCATGGTCTTATTCATTTTC-TGTCATGTTGCCATGG
* * *
92953108 TATCTTTCAACCGTGGTCTTATTCATTTTCTGTCATGTTTCTATGG
1 TATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGTTGCCATGG
* * *
92953154 TATCTTTCAACCGTGGTCTTATTCATTTTCTGTCATGTTGTCATAG
1 TATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGTTGCCATGG
92953200 TATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGTTGCCATGG
* *
92953246 TATCTTTCAACCATGGTCTTATTAATTTTCTATCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGTTGCCATGG
* *
92953292 TATCTTTCAACCATGGTCTTATTCA-TTTCTCGTCATATTGCCATAG
1 TATCTTTCAACCATGGTCTTATTCATTTTCT-GTCATGTTGCCATGG
* * *
92953338 CATCTTTCAACTATGATCTTA
1 TATCTTTCAACCATGGTCTTA
92953359 CATATCTAAA
Statistics
Matches: 230, Mismatches: 19, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
45 5 0.02
46 221 0.96
47 4 0.02
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.46
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGTTGCCATGG
Found at i:92953236 original size:22 final size:22
Alignment explanation
Indices: 92953167--92953236 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
92953157 CTTTCAACCG
92953167 TGGTCTTATTCATTTTCTGTCA
1 TGGTCTTATTCATTTTCTGTCA
* * ***
92953189 TGTTGTCATAGT-ATCTTTCAACCA
1 TG--GTCTTATTCAT-TTTCTGTCA
92953213 TGGTCTTATTCATTTTCTGTCA
1 TGGTCTTATTCATTTTCTGTCA
92953235 TG
1 TG
92953237 TTGCCATGGT
Statistics
Matches: 34, Mismatches: 10, Indels: 8
0.65 0.19 0.15
Matches are distributed among these distances:
22 16 0.47
23 4 0.12
24 14 0.41
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.50
Consensus pattern (22 bp):
TGGTCTTATTCATTTTCTGTCA
Found at i:92953452 original size:45 final size:45
Alignment explanation
Indices: 92953330--92953453 Score: 151
Period size: 45 Copynumber: 2.8 Consensus size: 45
92953320 CTCGTCATAT
* * * * * **
92953330 TGCCATAGCATCTTTCAACTATGATCTTACAT-ATCTAAATCGTGA
1 TGCCATAACGTCTTTCAGCTATGGTCTTAC-TCGTCTAAATCGCAA
*
92953375 TGCCATAACGTCTTTCAGCTATGGTCTTACTCGTCTGAATCGCAA
1 TGCCATAACGTCTTTCAGCTATGGTCTTACTCGTCTAAATCGCAA
*
92953420 TGCCATATCGTCTTTCAGCTATGGTCTTACTCGT
1 TGCCATAACGTCTTTCAGCTATGGTCTTACTCGT
92953454 TTCTGGTATG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 1 0.01
45 68 0.99
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.36
Consensus pattern (45 bp):
TGCCATAACGTCTTTCAGCTATGGTCTTACTCGTCTAAATCGCAA
Found at i:92953468 original size:45 final size:42
Alignment explanation
Indices: 92953372--92953471 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 42
92953362 ATCTAAATCG
92953372 TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGTCTGAA
1 TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGTCTGAA
* *
92953414 TCGCAATGCCATATCGTCTTTCAGCTATGGTCTTACTCGTTTCTGGTA
1 T-G--ATGCCATAACGTCTTTCAGCTATGGTCTTACTCG--TCT-GAA
92953462 TGATGCCATA
1 TGATGCCATA
92953472 GTCCAACTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
42 1 0.02
43 1 0.02
45 41 0.82
47 4 0.08
48 3 0.06
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (42 bp):
TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGTCTGAA
Found at i:92953523 original size:22 final size:22
Alignment explanation
Indices: 92953480--92953525 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
92953470 TAGTCCAACT
*
92953480 ATGGTCTTACACATGTATTGCC
1 ATGGTCTTACACATGTAGTGCC
*
92953502 ATGGTCTTATAC-TCGTAGTGCC
1 ATGGTCTTACACAT-GTAGTGCC
92953524 AT
1 AT
92953526 ATCCCAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (22 bp):
ATGGTCTTACACATGTAGTGCC
Found at i:92957645 original size:30 final size:30
Alignment explanation
Indices: 92957610--92957667 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
92957600 TAGGCACTTT
* *
92957610 CACACGGGTAATCCACACGCCCGTGTGTGA
1 CACACGGGTAAGCCACACGCCCATGTGTGA
* *
92957640 CACACGGTTAGGCCACACGCCCATGTGT
1 CACACGGGTAAGCCACACGCCCATGTGT
92957668 AGTGACCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.22, C:0.34, G:0.26, T:0.17
Consensus pattern (30 bp):
CACACGGGTAAGCCACACGCCCATGTGTGA
Found at i:92962730 original size:27 final size:27
Alignment explanation
Indices: 92962673--92962730 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
92962663 TTTCTCTTCT
** *
92962673 TTCCTACTTCTCCTTCTTCATTTTTCT
1 TTCCTACTTCTCCTTCTTCATTCCTCC
**
92962700 TTCCTACTTCTCCTTCTTTGTTCCTCC
1 TTCCTACTTCTCCTTCTTCATTCCTCC
92962727 TTCC
1 TTCC
92962731 CTTTTTCCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.05, C:0.38, G:0.02, T:0.55
Consensus pattern (27 bp):
TTCCTACTTCTCCTTCTTCATTCCTCC
Found at i:92964449 original size:17 final size:17
Alignment explanation
Indices: 92964425--92964471 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
92964415 TTATTTTTAC
*
92964425 TTTATTTTTCTTTTCCT
1 TTTATTTTTATTTTCCT
* *
92964442 TTTGTTTTTATTTTTCT
1 TTTATTTTTATTTTCCT
92964459 TTTATTTTTATTT
1 TTTATTTTTATTT
92964472 CTATTTCTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.81
Consensus pattern (17 bp):
TTTATTTTTATTTTCCT
Found at i:92964467 original size:23 final size:23
Alignment explanation
Indices: 92964425--92964477 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
92964415 TTATTTTTAC
* *
92964425 TTTATTTTTCTTTTCCTTTTGTT
1 TTTATTTTTCTTTTACTTTTATT
*
92964448 TTTATTTTTCTTTTATTTTTATT
1 TTTATTTTTCTTTTACTTTTATT
*
92964471 TCTATTT
1 TTTATTT
92964478 CTAGTTTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.79
Consensus pattern (23 bp):
TTTATTTTTCTTTTACTTTTATT
Found at i:92964476 original size:12 final size:11
Alignment explanation
Indices: 92964414--92964477 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
92964404 TTTGAGTCCA
*
92964414 TTTATTTTTAC
1 TTTATTTTTAT
*
92964425 TTTATTTTTCT
1 TTTATTTTTAT
*
92964436 TTTCCTTTTGT-T
1 TTT-ATTTT-TAT
*
92964448 TTTATTTTTCT
1 TTTATTTTTAT
92964459 TTTATTTTTAT
1 TTTATTTTTAT
92964470 TTCTATTT
1 TT-TATTT
92964478 CTAGTTTTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
10 1 0.02
11 29 0.66
12 13 0.30
13 1 0.02
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.78
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:92969055 original size:39 final size:39
Alignment explanation
Indices: 92969001--92969078 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
92968991 TGGAATTAAA
*
92969001 GATAATTATTTAGATAAAGGGAAATACCTATGATTTTAT
1 GATAATTATTTAGATAAAGGGAAATACCTATGATATTAT
92969040 GATAATTATTTAGATAAAGGGAAATACCTATGATATTAT
1 GATAATTATTTAGATAAAGGGAAATACCTATGATATTAT
92969079 TTTAGTTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.37
Consensus pattern (39 bp):
GATAATTATTTAGATAAAGGGAAATACCTATGATATTAT
Found at i:92972064 original size:19 final size:18
Alignment explanation
Indices: 92972040--92972086 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
92972030 TTTAACCGAG
92972040 TAATAAATTATAAAAAAA
1 TAATAAATTATAAAAAAA
**
92972058 TTAATAATATT-TAAACTAA
1 -TAATAA-ATTATAAAAAAA
92972077 TAATAAATTA
1 TAATAAATTA
92972087 AAATTTTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 3 0.12
18 6 0.25
19 12 0.50
20 3 0.12
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
TAATAAATTATAAAAAAA
Found at i:92976429 original size:22 final size:21
Alignment explanation
Indices: 92976393--92976433 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
92976383 TTTCTAAATT
*
92976393 TATTTATGTATATATATGTTC
1 TATTTATATATATATATGTTC
92976414 TATTATATATATATATATGT
1 TATT-TATATATATATATGT
92976434 ATATAAGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.56
Consensus pattern (21 bp):
TATTTATATATATATATGTTC
Found at i:92977729 original size:127 final size:125
Alignment explanation
Indices: 92977495--92977812 Score: 395
Period size: 127 Copynumber: 2.5 Consensus size: 125
92977485 GAAAATCCCT
* * * *
92977495 TAAAACGAAGGCAATGTTCGATGTTTGGAAATTCGGGAAATCGTGCTCTACTGTTCTAGGTTTCG
1 TAAAAC-AAGGCAATGTTCGATGTTTGG-AATTCGGGGAATCGTGCCCTAC-GTGCTGGGTTTCG
* * * * *
92977560 ATTTCCCGTTTGTTCAAAATAATCGAACCCTCCTTTAGAATTTCATTCGTGTTTTTCTAAATTC
63 ATTTCCCGTTTATTCAAAATAATCGAAACATCCTTTAGAATTTCATTCGTATTCTT-TAAATTC
* * *
92977624 TAAAACAAGGCAATGTTTGATGCTTGGAATTCGGGGAACCGTGCCCTATCGTGCTGGGTTTCGAT
1 TAAAACAAGGCAATGTTCGATGTTTGGAATTCGGGGAATCGTGCCCTA-CGTGCTGGGTTTCGAT
* *
92977689 TTCTCGTTTATTCAAAATAATC-AAATATACCTTTAGAATTTCATTCGTATTCTTTAAATTC
65 TTCCCGTTTATTCAAAATAATCGAAACAT-CCTTTAGAATTTCATTCGTATTCTTTAAATTC
* * **
92977750 TAAAACAAGGTAATGTTCAATGTTTGGAAGTTCAAGGAATCGTGCCCTACCGTGCTGGGTTTC
1 TAAAACAAGGCAATGTTCGATGTTTGGAA-TTCGGGGAATCGTGCCCTA-CGTGCTGGGTTTC
92977813 AGTTTTCCGT
Statistics
Matches: 164, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
126 35 0.21
127 103 0.63
128 20 0.12
129 6 0.04
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (125 bp):
TAAAACAAGGCAATGTTCGATGTTTGGAATTCGGGGAATCGTGCCCTACGTGCTGGGTTTCGATT
TCCCGTTTATTCAAAATAATCGAAACATCCTTTAGAATTTCATTCGTATTCTTTAAATTC
Found at i:92978571 original size:25 final size:27
Alignment explanation
Indices: 92978515--92978570 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
92978505 TATAAAGACC
* *
92978515 AAAATAAGTAATGTATATAATAACTTA
1 AAAATAAATAATATATATAATAACTTA
*
92978542 AAAATAAATAATATATATAA-AATTTA
1 AAAATAAATAATATATATAATAACTTA
92978568 AAA
1 AAA
92978571 TGGGCAATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (27 bp):
AAAATAAATAATATATATAATAACTTA
Found at i:92981328 original size:16 final size:15
Alignment explanation
Indices: 92981302--92981336 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
92981292 TGATGTGAAT
92981302 AATATAAAATATTAA
1 AATATAAAATATTAA
*
92981317 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
92981333 AATA
1 AATA
92981337 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:92981516 original size:47 final size:48
Alignment explanation
Indices: 92981464--92981598 Score: 114
Period size: 48 Copynumber: 2.7 Consensus size: 48
92981454 TGTACATATA
* * * * *
92981464 TAAAAATAAATACGTGATA-ATATTAAAAATATGTACATAATAT-A-GTG
1 TAAAAATAAATACATAATATA-ATT-AAAATATATACATAAGATAACATG
*
92981511 TAAAAAATACATACATAATATAATTAAAATATATACATAAGATAACATG
1 T-AAAAATAAATACATAATATAATTAAAATATATACATAAGATAACATG
*
92981560 TAAAAATAAATATATATAATATAGTATTAAAGATATATA
1 TAAAAAT-AA-ATACATAATATA--ATTAAA-ATATATA
92981599 TATACGTAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
47 17 0.24
48 25 0.35
49 5 0.07
50 11 0.15
52 6 0.08
53 7 0.10
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.32
Consensus pattern (48 bp):
TAAAAATAAATACATAATATAATTAAAATATATACATAAGATAACATG
Found at i:92981546 original size:22 final size:24
Alignment explanation
Indices: 92981487--92981582 Score: 88
Period size: 25 Copynumber: 3.9 Consensus size: 24
92981477 GTGATAATAT
* *
92981487 TAAAAATATGTACATAATATAGTG
1 TAAAAATATATACATAATATAATG
*
92981511 TAAAAAATACATACATAATATAAT-
1 T-AAAAATATATACATAATATAATG
*
92981535 T-AAAATATATACATAAGATAACATG
1 TAAAAATATATACATAATAT-A-ATG
*
92981560 TAAAAATAAATATATATAATATA
1 TAAAAAT--ATATACATAATATA
92981583 GTATTAAAGA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
22 16 0.28
23 1 0.02
24 4 0.07
25 20 0.34
26 5 0.09
27 1 0.02
28 11 0.19
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.31
Consensus pattern (24 bp):
TAAAAATATATACATAATATAATG
Found at i:92981675 original size:21 final size:21
Alignment explanation
Indices: 92981618--92981674 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
92981608 TATAGAATTT
92981618 AGAATATACCTAAT-ATATTAAA
1 AGAATATA--TAATAATATTAAA
92981640 AGAATATATATATAATATT--A
1 AGAATATATA-ATAATATTAAA
92981660 AGAA-ATATAATAATA
1 AGAATATATAATAATA
92981675 ACAAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 6 0.18
19 5 0.15
20 7 0.21
21 2 0.06
22 13 0.39
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (21 bp):
AGAATATATAATAATATTAAA
Found at i:92982244 original size:30 final size:30
Alignment explanation
Indices: 92982154--92982252 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
92982144 TAGGTACAAG
*
92982154 TGGTGGTGGAGCAAGTGTGACTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
92982184 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
92982214 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
92982244 TAGTGGTGG
1 TGGTGGTGG
92982253 CAAAGGCTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.19, C:0.06, G:0.48, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:92982248 original size:18 final size:18
Alignment explanation
Indices: 92982187--92982242 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
92982177 GTGGAGTAGG
92982187 TAGTGGAGCAAGTGTGGC
1 TAGTGGAGCAAGTGTGGC
92982205 TAGT-G-G--AGT-TGG-
1 TAGTGGAGCAAGTGTGGC
*
92982217 TGGTGGAGCAAGTGTGGC
1 TAGTGGAGCAAGTGTGGC
92982235 TAGTGGAG
1 TAGTGGAG
92982243 TTAGTGGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 3 0.10
13 4 0.13
14 4 0.13
16 4 0.13
17 4 0.13
18 11 0.37
ACGTcount: A:0.20, C:0.07, G:0.48, T:0.25
Consensus pattern (18 bp):
TAGTGGAGCAAGTGTGGC
Found at i:92982747 original size:14 final size:15
Alignment explanation
Indices: 92982712--92982749 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
92982702 TACAATATTC
*
92982712 AAATAATAACAATTA
1 AAATAGTAACAATTA
92982727 AAATAGTAACAA-TA
1 AAATAGTAACAATTA
*
92982741 TAATAGTAA
1 AAATAGTAA
92982750 AATGACAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.26
Consensus pattern (15 bp):
AAATAGTAACAATTA
Found at i:92992746 original size:20 final size:20
Alignment explanation
Indices: 92992705--92992747 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
92992695 AAAGTAAACC
**
92992705 AAATTTTTTTTAAAATTTTA
1 AAATTTTTTTTAAAATGATA
92992725 AAATTTCTTTTTAAAA-GATA
1 AAATTT-TTTTTAAAATGATA
92992745 AAA
1 AAA
92992748 GGTGTTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (20 bp):
AAATTTTTTTTAAAATGATA
Found at i:92993761 original size:11 final size:11
Alignment explanation
Indices: 92993747--92993791 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
92993737 AAATAATAGC
92993747 AAAACAATAAA
1 AAAACAATAAA
* *
92993758 AAAA-AGTAAC
1 AAAACAATAAA
92993768 AAAACAATAAA
1 AAAACAATAAA
92993779 AAAACAA-AAA
1 AAAACAATAAA
92993789 AAA
1 AAA
92993792 TCTTACACAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
10 14 0.48
11 15 0.52
ACGTcount: A:0.82, C:0.09, G:0.02, T:0.07
Consensus pattern (11 bp):
AAAACAATAAA
Found at i:92996550 original size:24 final size:25
Alignment explanation
Indices: 92996518--92996574 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 25
92996508 TGATGTGTTC
*
92996518 AAGTCGATTAAGCCGATTGTAA-AA
1 AAGTCGATTAAGCCAATTGTAAGAA
92996542 AAGTCGATTAAGCCAATTGTAAGAA
1 AAGTCGATTAAGCCAATTGTAAGAA
92996567 AA-TCGATT
1 AAGTCGATT
92996575 GAACAAACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 27 0.87
25 4 0.13
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.26
Consensus pattern (25 bp):
AAGTCGATTAAGCCAATTGTAAGAA
Found at i:92998489 original size:43 final size:43
Alignment explanation
Indices: 92998384--92998571 Score: 268
Period size: 43 Copynumber: 4.3 Consensus size: 43
92998374 AATGCTGCTA
* *
92998384 AAAAAACGCCGCTAAAGACTAGGACTTTTAGCTGCACTTATAT
1 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCAGCACTTATAT
* * *
92998427 AAAAAAACGCCGCTAAAGACCAGGACTTATAGCGGCGCTTATAT
1 -AAAAAACGCCGCTAAAGACCAGGACTTTTAGCAGCACTTATAT
* *
92998471 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCAGCACTTTTCT
1 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCAGCACTTATAT
* * *
92998514 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCAGCGCTTTTTT
1 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCAGCACTTATAT
*
92998557 AAAAAACGCCACTAA
1 AAAAAACGCCGCTAA
92998572 TTTGTCCAGT
Statistics
Matches: 132, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
43 93 0.70
44 39 0.30
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGACCAGGACTTTTAGCAGCACTTATAT
Found at i:92998888 original size:21 final size:21
Alignment explanation
Indices: 92998864--92998911 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
92998854 TTCTGTTCTG
92998864 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCGCTGCTGC
* *
92998885 CTCCACTTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCGCTGCTGC
92998906 CTCCGC
1 CTCCGC
92998912 TCTAAGTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.02, C:0.56, G:0.17, T:0.25
Consensus pattern (21 bp):
CTCCGCCTCCCTCGCTGCTGC
Found at i:92999309 original size:13 final size:14
Alignment explanation
Indices: 92999288--92999316 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
92999278 AAAAACAACG
92999288 AATTAAAATATTAT
1 AATTAAAATATTAT
92999302 AATT-AAATATTAT
1 AATTAAAATATTAT
92999315 AA
1 AA
92999317 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTAAAATATTAT
Found at i:93004476 original size:9 final size:9
Alignment explanation
Indices: 93004462--93004628 Score: 145
Period size: 9 Copynumber: 17.6 Consensus size: 9
93004452 ATGTATTAGT
93004462 TAAGTTATG
1 TAAGTTATG
93004471 TAAGTTGTTATG
1 TAA---GTTATG
* *
93004483 TACGTTAAG
1 TAAGTTATG
*
93004492 TGAGTTATG
1 TAAGTTATG
*
93004501 TAAATTATG
1 TAAGTTATG
93004510 TAAGTTATG
1 TAAGTTATG
*
93004519 TGAGTTATG
1 TAAGTTATG
93004528 TAAGTTGTTATG
1 TAA---GTTATG
*
93004540 TAAATTATG
1 TAAGTTATG
93004549 TAAGTTATG
1 TAAGTTATG
*
93004558 TGAGTTATG
1 TAAGTTATG
93004567 TAAGTTGTTATG
1 TAA---GTTATG
*
93004579 TAAATTATG
1 TAAGTTATG
*
93004588 TAAGTTATA
1 TAAGTTATG
*
93004597 TGAGTTATG
1 TAAGTTATG
93004606 TAAGTTATG
1 TAAGTTATG
* *
93004615 TAATTTATT
1 TAAGTTATG
93004624 TAAGT
1 TAAGT
93004629 AATGATCAAT
Statistics
Matches: 126, Mismatches: 23, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
9 100 0.79
12 26 0.21
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:93004528 original size:57 final size:56
Alignment explanation
Indices: 93004462--93004628 Score: 185
Period size: 57 Copynumber: 2.9 Consensus size: 56
93004452 ATGTATTAGT
* *
93004462 TAAGTTATGTAAGTTGTTATGTACGTTAAGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTA-GTTATGTAAGTTATGTAAATTATGTAAGTTATG
* * * *
93004519 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTTGTTATG
1 TAAGTTATGTAAGTTGTTATGT-AGTTATGTAAGTTATGTAAATTATGTAA---GTTATG
* * * *
93004579 TAAATTATGTAAGTT-ATATG-AGTTATGTAAGTTATGTAATTTATTTAAGT
1 TAAGTTATGTAAGTTGTTATGTAGTTATGTAAGTTATGTAAATTATGTAAGT
93004629 AATGATCAAT
Statistics
Matches: 93, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
54 2 0.02
57 67 0.72
58 1 0.01
59 4 0.04
60 19 0.20
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.46
Consensus pattern (56 bp):
TAAGTTATGTAAGTTGTTATGTAGTTATGTAAGTTATGTAAATTATGTAAGTTATG
Found at i:93004611 original size:39 final size:39
Alignment explanation
Indices: 93004495--93004611 Score: 225
Period size: 39 Copynumber: 3.0 Consensus size: 39
93004485 CGTTAAGTGA
93004495 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
93004534 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
*
93004573 GTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
93004612 ATGTAATTTA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (39 bp):
GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
Found at i:93004612 original size:48 final size:48
Alignment explanation
Indices: 93004462--93004617 Score: 179
Period size: 48 Copynumber: 3.2 Consensus size: 48
93004452 ATGTATTAGT
* * * *
93004462 TAAGTTATGTAAGTTGTTATGTACGTTAAGTGAGTTATGTAAATTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
* * * * *
93004510 TAAGTTATGTGAGTTATGTAAGT-TGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGT-TATGTAAGTTATGTAAGTTATGTAAGTTATG
* * * *
93004558 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
93004606 TAAGTTATGTAA
1 TAAGTTATGTAA
93004618 TTTATTTAAG
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
47 4 0.05
48 80 0.91
49 4 0.05
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.45
Consensus pattern (48 bp):
TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
Found at i:93007691 original size:19 final size:19
Alignment explanation
Indices: 93007667--93007704 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
93007657 GGTCGTCCAC
*
93007667 TCGGAGTCTTCAACGGCAG
1 TCGGAGCCTTCAACGGCAG
93007686 TCGGAGCCTTCAACGGCAG
1 TCGGAGCCTTCAACGGCAG
93007705 AAGGATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.29, G:0.32, T:0.18
Consensus pattern (19 bp):
TCGGAGCCTTCAACGGCAG
Done.