Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 33 of 145
Found at i:11887879 original size:31 final size:31
Alignment explanation
Indices: 11887843--11887977 Score: 111
Period size: 31 Copynumber: 4.4 Consensus size: 31
11887833 ATATGGCTGA
11887843 ACATTGCTGAAAATAATATTTATATGGTTAT
1 ACATTGCTGAAAATAATATTTATATGGTTAT
* * *
11887874 TCATTGCTGAAATTGA-A-TTATATAGGTATAT
1 ACATTGCTGAAAATAATATTTATAT-GGT-TAT
* * *
11887905 A-AGTTGATG-AAATGAT-TCGTATATGGTTGA-
1 ACA-TTGCTGAAAATAATAT-TTATATGGTT-AT
*
11887935 ACATTGCTGAAAATAATTTTTATATGGTTAT
1 ACATTGCTGAAAATAATATTTATATGGTTAT
*
11887966 ACATTGTTGAAA
1 ACATTGCTGAAA
11887978 TTAAATTGTT
Statistics
Matches: 82, Mismatches: 11, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
29 6 0.07
30 18 0.22
31 52 0.63
32 6 0.07
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.41
Consensus pattern (31 bp):
ACATTGCTGAAAATAATATTTATATGGTTAT
Found at i:11887997 original size:92 final size:92
Alignment explanation
Indices: 11887776--11888007 Score: 315
Period size: 92 Copynumber: 2.5 Consensus size: 92
11887766 GAATTGTTTT
* *
11887776 TGGTTATACATTGCTGATATTGAATTGTATAT-TACATAAGTTGTCGAAATGATTCATATATGGC
1 TGGTTATACATTGCTGAAATTGAATTGTATATGTATATAAGTTGTCGAAATGATTCATATATGGC
11887840 TGAACATTGCTGAAAATAATATTTATA
66 TGAACATTGCTGAAAATAATATTTATA
* * * *
11887867 TGGTTATTCATTGCTGAAATTGAATTATATAGGTATATAAGTTGAT-GAAATGATTCGTATATGG
1 TGGTTATACATTGCTGAAATTGAATTGTATATGTATATAAGTTG-TCGAAATGATTCATATATGG
* *
11887931 TTGAACATTGCTGAAAATAATTTTTATA
65 CTGAACATTGCTGAAAATAATATTTATA
* * * * * *
11887959 TGGTTATACATTGTTGAAATTAAATTGTTTATGAATATAGGATGTCGAA
1 TGGTTATACATTGCTGAAATTGAATTGTATATGTATATAAGTTGTCGAA
11888008 TTTGATTTGT
Statistics
Matches: 121, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
91 29 0.24
92 91 0.75
93 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (92 bp):
TGGTTATACATTGCTGAAATTGAATTGTATATGTATATAAGTTGTCGAAATGATTCATATATGGC
TGAACATTGCTGAAAATAATATTTATA
Found at i:11888041 original size:31 final size:31
Alignment explanation
Indices: 11888006--11888071 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
11887996 TAGGATGTCG
11888006 AATTTGATT-TGTATATGATTATACATTGCCA
1 AATTTGATTCT-TATATGATTATACATTGCCA
* * *
11888037 AATTTGATTCTTATATGGTTATATATTGCCG
1 AATTTGATTCTTATATGATTATACATTGCCA
11888068 AATT
1 AATT
11888072 GCTTGGTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.47
Consensus pattern (31 bp):
AATTTGATTCTTATATGATTATACATTGCCA
Found at i:11888112 original size:31 final size:30
Alignment explanation
Indices: 11888056--11888136 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 30
11888046 CTTATATGGT
* * * *
11888056 TATATATTGCCGAATTGCTTGGTATATCAA
1 TATATATTGCTGAATTGATTCGTATATAAA
*
11888086 TAT-TCATTGTTGAATTTGATTCGTATATAAA
1 TATAT-ATTGCTGAA-TTGATTCGTATATAAA
11888117 TATATATTGCTGAATTGATT
1 TATATATTGCTGAATTGATT
11888137 GGAGCATTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
29 1 0.02
30 16 0.38
31 24 0.57
32 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.46
Consensus pattern (30 bp):
TATATATTGCTGAATTGATTCGTATATAAA
Found at i:11894607 original size:26 final size:26
Alignment explanation
Indices: 11894571--11894624 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
11894561 TATGTATAAC
11894571 CATGTACTCAATTTGGTCAAAATGAT
1 CATGTACTCAATTTGGTCAAAATGAT
11894597 CATGTACTCAATTTGGTCAAAATGAT
1 CATGTACTCAATTTGGTCAAAATGAT
11894623 CA
1 CA
11894625 ACTAACTTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (26 bp):
CATGTACTCAATTTGGTCAAAATGAT
Found at i:11904914 original size:56 final size:50
Alignment explanation
Indices: 11904647--11904944 Score: 255
Period size: 50 Copynumber: 5.9 Consensus size: 50
11904637 TGATAATAAC
* * ** * * *
11904647 ATGCCAAAGCCATGTCCCAGACATGGTTTTACATGGGATGTTTCATGT--
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCG
* * * * * ** *
11904695 ACTGCCAATGCCATATCCCAGATATGGTCTTAAATGGAAGTTCTCATAC-CTG
1 A-TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTC-G
* * * *
11904747 -TGCCCATGCCATGTCCCAAACATGGTCTTACA-GAGGACCTCTCATCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATG-GGACCTCTCGTCTCG
*
11904796 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCG
*
11904846 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAATG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--G-TCTC---G
* * *
11904902 ATGCCAATGCCATGTCCCAGACATAGTCTTACATGGGATCTCT
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
11904945 TTACCCAAAT
Statistics
Matches: 209, Mismatches: 26, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
48 1 0.00
49 39 0.19
50 123 0.59
51 1 0.00
52 1 0.00
53 4 0.02
56 40 0.19
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCG
Found at i:11907214 original size:5 final size:5
Alignment explanation
Indices: 11907204--11907229 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11907194 AAGCATTCGG
11907204 TCAAA TCAAA TCAAA TCAAA TCAAA T
1 TCAAA TCAAA TCAAA TCAAA TCAAA T
11907230 AAAAAAAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (5 bp):
TCAAA
Found at i:11907864 original size:44 final size:46
Alignment explanation
Indices: 11907782--11907875 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 46
11907772 AAAAACTTGG
* *
11907782 GTTTGGGGGGAAGTAAAAGTTTTGGAGAGAAAGTAAAAGGAAAAAA
1 GTTTGGGGGAAAGTAAAAGTTTTGGAGAGAAAATAAAAGGAAAAAA
* * *
11907828 GTTT-GGGGAAAGTAAAGGTTTT-GAGGGAAAATAAAAGGAAAAGA
1 GTTTGGGGGAAAGTAAAAGTTTTGGAGAGAAAATAAAAGGAAAAAA
11907872 GTTT
1 GTTT
11907876 TGGAGGGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 23 0.53
45 16 0.37
46 4 0.09
ACGTcount: A:0.44, C:0.00, G:0.34, T:0.22
Consensus pattern (46 bp):
GTTTGGGGGAAAGTAAAAGTTTTGGAGAGAAAATAAAAGGAAAAAA
Found at i:11907878 original size:45 final size:46
Alignment explanation
Indices: 11907782--11907878 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 46
11907772 AAAAACTTGG
* * *
11907782 GTTTGGGGGGAAGTAAAAGTTTTGGAGAGAAAGTAAAAGGAAAAAA
1 GTTTTGGGGAAAGTAAAAGTTTTGGAGAGAAAATAAAAGGAAAAAA
* * *
11907828 G-TTTGGGGAAAGTAAAGGTTTT-GAGGGAAAATAAAAGGAAAAGA
1 GTTTTGGGGAAAGTAAAAGTTTTGGAGAGAAAATAAAAGGAAAAAA
11907872 GTTTTGG
1 GTTTTGG
11907879 AGGGTTTGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
44 20 0.45
45 23 0.52
46 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (46 bp):
GTTTTGGGGAAAGTAAAAGTTTTGGAGAGAAAATAAAAGGAAAAAA
Found at i:11909875 original size:18 final size:18
Alignment explanation
Indices: 11909852--11909886 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11909842 ACAAAATACA
* *
11909852 TGGCCCGATTTCAAACGG
1 TGGCCCAATTACAAACGG
11909870 TGGCCCAATTACAAACG
1 TGGCCCAATTACAAACG
11909887 CGGCCCAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (18 bp):
TGGCCCAATTACAAACGG
Found at i:11912679 original size:5 final size:5
Alignment explanation
Indices: 11912669--11912694 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11912659 AAGCATTCGG
11912669 TCAAA TCAAA TCAAA TCAAA TCAAA T
1 TCAAA TCAAA TCAAA TCAAA TCAAA T
11912695 AAAAAAAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (5 bp):
TCAAA
Found at i:11913324 original size:44 final size:46
Alignment explanation
Indices: 11913242--11913335 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 46
11913232 AAAAACTTGG
* *
11913242 GTTTGGGGGGAAGTAAAAGTTTTGGAGAGAAAGTAAAAGGAAAAAA
1 GTTTGGGGGAAAGTAAAAGTTTTGGAGAGAAAATAAAAGGAAAAAA
* * *
11913288 GTTT-GGGGAAAGTAAAGGTTTT-GAGGGAAAATAAAAGGAAAAGA
1 GTTTGGGGGAAAGTAAAAGTTTTGGAGAGAAAATAAAAGGAAAAAA
11913332 GTTT
1 GTTT
11913336 TGGAGGGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 23 0.53
45 16 0.37
46 4 0.09
ACGTcount: A:0.44, C:0.00, G:0.34, T:0.22
Consensus pattern (46 bp):
GTTTGGGGGAAAGTAAAAGTTTTGGAGAGAAAATAAAAGGAAAAAA
Found at i:11913338 original size:45 final size:46
Alignment explanation
Indices: 11913242--11913338 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 46
11913232 AAAAACTTGG
* * *
11913242 GTTTGGGGGGAAGTAAAAGTTTTGGAGAGAAAGTAAAAGGAAAAAA
1 GTTTTGGGGAAAGTAAAAGTTTTGGAGAGAAAATAAAAGGAAAAAA
* * *
11913288 G-TTTGGGGAAAGTAAAGGTTTT-GAGGGAAAATAAAAGGAAAAGA
1 GTTTTGGGGAAAGTAAAAGTTTTGGAGAGAAAATAAAAGGAAAAAA
11913332 GTTTTGG
1 GTTTTGG
11913339 AGGGTTTGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
44 20 0.45
45 23 0.52
46 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (46 bp):
GTTTTGGGGAAAGTAAAAGTTTTGGAGAGAAAATAAAAGGAAAAAA
Found at i:11915335 original size:18 final size:18
Alignment explanation
Indices: 11915312--11915346 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11915302 ACAAAATACA
* *
11915312 TGGCCCGATTTCAAACGG
1 TGGCCCAATTACAAACGG
11915330 TGGCCCAATTACAAACG
1 TGGCCCAATTACAAACG
11915347 CGGCCCAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (18 bp):
TGGCCCAATTACAAACGG
Found at i:11916319 original size:20 final size:21
Alignment explanation
Indices: 11916294--11916336 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
11916284 GTAATTATTA
* *
11916294 TTTTTATTTTTATATGTA-AT
1 TTTTTATCTATATATGTATAT
11916314 TTTTTATCTATATATGTATAT
1 TTTTTATCTATATATGTATAT
11916335 TT
1 TT
11916337 GTTGTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTTTATCTATATATGTATAT
Found at i:11921424 original size:14 final size:15
Alignment explanation
Indices: 11921400--11921432 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
11921390 TCCCAAGCTG
11921400 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
11921415 GGAA-GACCTTATTT
1 GGAAGGACCTTATGT
11921429 GGAA
1 GGAA
11921433 AAGCGTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:11929332 original size:88 final size:88
Alignment explanation
Indices: 11929183--11929402 Score: 307
Period size: 88 Copynumber: 2.5 Consensus size: 88
11929173 GTGAAGAGAG
* * * *
11929183 CAGATCTTGCCTTCCTGCACTGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAACAGATCGAAGACACCAGCCTTGCCTCCCTGGGCT
*
11929248 GCAGCAAAGCAGGTTAAAAATAA
66 GCAGCAAAGCAGGCTAAAAATAA
* *
11929271 CAGATCTTGCCTTCCTGCACCAACAGCGAAACAGATCAAAGACACCAGCCTTGCCTCCCTGGGCT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAACAGATCGAAGACACCAGCCTTGCCTCCCTGGGCT
* * *
11929336 GCAGTAGAGCAGGCTAAAAATAG
66 GCAGCAAAGCAGGCTAAAAATAA
* * *
11929359 CAAATCTTGCATTCCTGCACCGATAGC-AAAGCAGATCGAAGACA
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAA-CAGATCGAAGACA
11929403 TCTAGTCTTA
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
87 3 0.03
88 113 0.97
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAACAGATCGAAGACACCAGCCTTGCCTCCCTGGGCT
GCAGCAAAGCAGGCTAAAAATAA
Found at i:11929658 original size:217 final size:217
Alignment explanation
Indices: 11929400--11929873 Score: 849
Period size: 217 Copynumber: 2.2 Consensus size: 217
11929390 CAGATCGAAG
* *
11929400 ACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAGGTTTTATCCCCCTG
1 ACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAAGTCTTATCCCCCTG
* * * *
11929465 AAGTTGCAGTGGGGCAGACCCAAAATGGCGAATATTATCTCCCTGAAGTTGCAATGGAGTAGATT
66 AAGTTGCAATGGGACAGACCCAAAATGGCGAATATTATCTCCCTGAAATTGCAATGGAGCAGATT
*
11929530 TAAGCCTATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCT
131 TAAGCCTATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCACAGATCTTATCTCT
*
11929595 CTGAAGTTGCAGAGAGCAGATC
196 CTGAAGTTGCAGAGAGCAAATC
11929617 ACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAAGTCTTATCCCCCTG
1 ACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAAGTCTTATCCCCCTG
* *
11929682 AAGTTGCAATGGGACAGACCCAAAATGGCGAATCTTATCTCCCTGAAATTGCAGTGGAGCAGATT
66 AAGTTGCAATGGGACAGACCCAAAATGGCGAATATTATCTCCCTGAAATTGCAATGGAGCAGATT
11929747 TAAGCCTATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCACAGATCTTATCTCT
131 TAAGCCTATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCACAGATCTTATCTCT
11929812 CTGAAGTTGCAGAGAGCAAATC
196 CTGAAGTTGCAGAGAGCAAATC
*
11929834 ACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGGGCAGAC
1 ACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
11929874 CCAAAAATGG
Statistics
Matches: 246, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
217 246 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (217 bp):
ACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAAGTCTTATCCCCCTG
AAGTTGCAATGGGACAGACCCAAAATGGCGAATATTATCTCCCTGAAATTGCAATGGAGCAGATT
TAAGCCTATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCACAGATCTTATCTCT
CTGAAGTTGCAGAGAGCAAATC
Found at i:11929736 original size:89 final size:88
Alignment explanation
Indices: 11929625--11930045 Score: 389
Period size: 89 Copynumber: 4.8 Consensus size: 88
11929615 TCACATCTAG
*
11929625 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGC-A-AGTCTTATCCCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T--ATAAGCTATAATCTTATCCCCCTGAAGTTG
*
11929688 CAATGGGACAGACCCAAAATGGCGAA
63 CAGTGGGACAGACCCAAAATGGCGAA
* * * *
11929714 TCTTATCTCCCTGAAATTGCAGTGGAGCAGATTTAAGCCTATAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATATAAG-CTATAATCTTATCCCCCTGAAGTTGCA
*** **
11929779 GT-GGAGC-GAATTAAAATCAC-AGA
65 GTGGGA-CAGACCCAAAATGGCGA-A
* * * * * *
11929802 TCTTATCTCTCTGAAGTTGCAG-AGAGCA-A-ATCA-CATCTAGTCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATATAAGC-TATAATCTTATCCCCCTGAAGTTGCA
* *
11929863 GTGGGGCAGACCCAAAAATGGTGAA
65 GTGGGACAGACCC-AAAATGGCGAA
* * *
11929888 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTTAAGCTTATAATCTTATCCCCCTGAGGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATATAAGC-TATAATCTTATCCCCCTGAAGTTGCA
** *
11929953 GTGAGG-CAGA-CTGAAGTGGGCGAA
65 GTG-GGACAGACCCAAAAT-GGCGAA
* * *
11929977 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAGGCCAATAATCCTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATATAA-G-CTATAATCTTATCCCCCTGAAGTTGC
11930041 AGTGG
64 AGTGG
11930046 AGCGGATTAA
Statistics
Matches: 271, Mismatches: 43, Indels: 37
0.77 0.12 0.11
Matches are distributed among these distances:
83 1 0.00
84 26 0.10
85 6 0.02
86 33 0.12
87 13 0.05
88 42 0.15
89 117 0.43
90 31 0.11
91 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (88 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATATAAGCTATAATCTTATCCCCCTGAAGTTGCAG
TGGGACAGACCCAAAATGGCGAA
Found at i:11930072 original size:44 final size:44
Alignment explanation
Indices: 11929408--11930079 Score: 358
Period size: 44 Copynumber: 15.3 Consensus size: 44
11929398 AGACATCTAG
* *
11929408 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCA-GG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AATCATGGA
* * * ** *** *
11929452 TTTTATCCCCCTGAAGTTGCAGTGGGGCAGACCCAAAATGGCGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAATCATGGA
* * * * ** *
11929497 TATTATCTCCCTGAAGTTGCAATGGAGTAGATTTAAGCCTAT-AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-ATGGA
* * **
11929541 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATGGA
* * * * *
11929585 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCACATC-TAG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATGGA
* * *
11929625 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCA-AG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AATCATGGA
* * ** *** *
11929669 TCTTATCCCCCTGAAGTTGCAATGG-GACAGACCCAAAATGGCGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAG-CAGA-TTAAAATCATGGA
* * ** *
11929714 TCTTATCTCCCTGAAATTGCAGTGGAGCAGATTTAAGCCTAT-AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-ATGGA
* **
11929758 TCCTATCTCCCTGAAGTTGCAGTGGAGC-GAATTAAAATCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAATCATGGA
* * * * * *
11929802 TCTTATCTCTCTGAAGTTGCAG-AGAGCA-AATCACATC-TAG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATGGA
* ** ** *
11929842 TCTTATCTCCCTGAAGTTGCAGTGGGGCAGACCCAAAAATGGTGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA--TTAAAATCATGGA
* ** * *
11929888 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTTAAGCTTAT-AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAATCATGGA
* * * * * **
11929932 TCTTATCCCCCTGAGGTTGCAGT-GAGGCAGACTGAAGT-GGGCGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGA-GCAGATTAAAATCATG-G-A
*** *
11929977 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGGCCAAT-AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-ATGGA
* *
11930021 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCATGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATGGA
*
11930065 TCTTATCTCGCTGAA
1 TCTTATCTCCCTGAA
11930080 ATCACAGTAG
Statistics
Matches: 472, Mismatches: 125, Indels: 62
0.72 0.19 0.09
Matches are distributed among these distances:
40 42 0.09
41 15 0.03
42 12 0.03
43 26 0.06
44 258 0.55
45 87 0.18
46 32 0.07
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATGGA
Found at i:11931853 original size:27 final size:27
Alignment explanation
Indices: 11931823--11931885 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
11931813 TTATTATTTA
*
11931823 ATATTTTTAATCTATATATATATATAT
1 ATATTTTTAATCTACATATATATATAT
* *
11931850 ATA-TTTT-ATGTACATGTATATATAT
1 ATATTTTTAATCTACATATATATATAT
11931875 AT-TTATTTAAT
1 ATATT-TTTAAT
11931886 GAATATTTNN
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 18 0.60
26 7 0.23
27 5 0.17
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (27 bp):
ATATTTTTAATCTACATATATATATAT
Found at i:11931891 original size:21 final size:23
Alignment explanation
Indices: 11931844--11931891 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
11931834 CTATATATAT
*
11931844 ATATATATATTTTATGTACATGT
1 ATATATATATTTTATGTACATGA
*
11931867 ATATATATA-TTTATTTA-ATGA
1 ATATATATATTTTATGTACATGA
11931888 ATAT
1 ATAT
11931892 TTNNNNNNNN
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 7 0.30
23 9 0.39
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (23 bp):
ATATATATATTTTATGTACATGA
Found at i:11933759 original size:18 final size:18
Alignment explanation
Indices: 11933736--11933781 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
11933726 ATACTATTTT
11933736 TACTTTTGAGTTCAAAAA
1 TACTTTTGAGTTCAAAAA
11933754 TACTTTTGAGTTCAAAAA
1 TACTTTTGAGTTCAAAAA
11933772 TACTTTTGAG
1 TACTTTTGAG
11933782 AAGGAATGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (18 bp):
TACTTTTGAGTTCAAAAA
Found at i:11934031 original size:100 final size:100
Alignment explanation
Indices: 11933919--11934110 Score: 262
Period size: 100 Copynumber: 1.9 Consensus size: 100
11933909 ATTGGAGTAC
* * ** * * *
11933919 CCATATTTAAAAA-ATAAAACATGATTGATGGAATTGGAAGTTCAATCGCTGAATTAATGACGTT
1 CCATATTCAAAAAGA-AAAACATAATCAATGGAATTGAAAGTTCAATCGCTGAAATAATGACATT
11933983 AAAAA-TTTTCTTCATTTAATACAAAATTTTAGCCG
65 AAAAACTTTTCTTCATTTAATACAAAATTTTAGCCG
* *
11934018 CCATACTTCAAAAAGAAAAACATAATCAATGGAATTGAAAGTTCAATCGTTGAAATAATTACATT
1 CCATA-TTCAAAAAGAAAAACATAATCAATGGAATTGAAAGTTCAATCGCTGAAATAATGACATT
*
11934083 AAAAACTTTTTTTCATTTAATACAAAAT
65 AAAAACTTTTCTTCATTTAATACAAAAT
11934111 GTTGATCAGG
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
99 5 0.06
100 53 0.66
101 22 0.28
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.33
Consensus pattern (100 bp):
CCATATTCAAAAAGAAAAACATAATCAATGGAATTGAAAGTTCAATCGCTGAAATAATGACATTA
AAAACTTTTCTTCATTTAATACAAAATTTTAGCCG
Found at i:11938627 original size:22 final size:22
Alignment explanation
Indices: 11938602--11938647 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
11938592 ACTTAACTAT
11938602 CATATCCAAAAGGGAATCCAAA
1 CATATCCAAAAGGGAATCCAAA
11938624 CATATCCAAAAGGGAATCCAAA
1 CATATCCAAAAGGGAATCCAAA
11938646 CA
1 CA
11938648 ATCTCATCCA
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:0.50, C:0.24, G:0.13, T:0.13
Consensus pattern (22 bp):
CATATCCAAAAGGGAATCCAAA
Found at i:11947905 original size:57 final size:54
Alignment explanation
Indices: 11947821--11947926 Score: 140
Period size: 57 Copynumber: 1.9 Consensus size: 54
11947811 AGTGATTATC
* * * *
11947821 TTAATATTAAGTTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAATAAGAT
*
11947878 TTAATGTTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAAT
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAAT
11947927 TTAATATTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
54 17 0.39
55 1 0.02
56 1 0.02
57 25 0.57
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.50
Consensus pattern (54 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATAAGAT
Found at i:11962364 original size:45 final size:45
Alignment explanation
Indices: 11962292--11962386 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
11962282 TACTATATGA
* * * *
11962292 ACCGAACATCATTGATTAGCAATGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTAATTAACAAGGTGGTTGCTATGTGCTGAATCC
* *
11962337 ACCGGACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTAATTAACAAGGTGGTTGCTATGTGCTGAATCC
11962382 ACCGA
1 ACCGA
11962387 GTATCTGTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTAATTAACAAGGTGGTTGCTATGTGCTGAATCC
Found at i:11965632 original size:41 final size:41
Alignment explanation
Indices: 11965600--11965681 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
11965590 ATATTTCATT
* *
11965600 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTAGTTTACTAAAATAAGGGAATTATTTTCC
*
11965641 TTATCTTTTAGTAGTTTACTAAAATAAGAGAATTATTTTCC
1 TTATCTTTTAGTAGTTTACTAAAATAAGGGAATTATTTTCC
11965682 CAATTAGATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.48
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTACTAAAATAAGGGAATTATTTTCC
Found at i:11968076 original size:19 final size:19
Alignment explanation
Indices: 11968052--11968092 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
11968042 TATTTTAAGG
11968052 TTATTTAGATAGATAAATC
1 TTATTTAGATAGATAAATC
*
11968071 TTATTTAGGTAGATAAATC
1 TTATTTAGATAGATAAATC
11968090 TTA
1 TTA
11968093 GAATAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (19 bp):
TTATTTAGATAGATAAATC
Found at i:11968171 original size:37 final size:37
Alignment explanation
Indices: 11968130--11968200 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
11968120 ATATTTTATT
11968130 TTATCCTTTAGTAGTATATTAGAATAAGGGAATTTCC
1 TTATCCTTTAGTAGTATATTAGAATAAGGGAATTTCC
* *
11968167 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATT
1 TTATCCTTTAGTAGTATATTAGAATAAGGGAATT
11968201 ATTTTCCCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.44
Consensus pattern (37 bp):
TTATCCTTTAGTAGTATATTAGAATAAGGGAATTTCC
Found at i:11971672 original size:29 final size:30
Alignment explanation
Indices: 11971606--11971685 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 30
11971596 ATCCCAAAAC
* *
11971606 TATACATGAACTTTGGTTTAATGTGCAATTG
1 TATACATGAACTTTGATTT-ATGAGCAATTG
*
11971637 TATACATGAACTTTGATTT-TGAGCAATTT
1 TATACATGAACTTTGATTTATGAGCAATTG
*
11971666 TATACATGAAATTTTGATTT
1 TATACATG-AACTTTGATTT
11971686 GATTCAATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 16 0.36
30 10 0.23
31 18 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (30 bp):
TATACATGAACTTTGATTTATGAGCAATTG
Found at i:11991645 original size:18 final size:19
Alignment explanation
Indices: 11991609--11991646 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
11991599 AGACCAACAG
11991609 AAAGTATTTACAGTTTTTA
1 AAAGTATTTACAGTTTTTA
11991628 AAAGTAATTT-CA-TTTTTA
1 AAAGT-ATTTACAGTTTTTA
11991646 A
1 A
11991647 GTGACGGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 7 0.39
20 4 0.22
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.47
Consensus pattern (19 bp):
AAAGTATTTACAGTTTTTA
Found at i:12004711 original size:13 final size:13
Alignment explanation
Indices: 12004693--12004728 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
12004683 AAAAAAGAGA
12004693 TTGTTTTAAATTC
1 TTGTTTTAAATTC
12004706 TTGTTTTAAATTC
1 TTGTTTTAAATTC
12004719 TAT-TTTTAAA
1 T-TGTTTTAAA
12004729 ATATTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 21 0.95
14 1 0.05
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (13 bp):
TTGTTTTAAATTC
Found at i:12008807 original size:13 final size:13
Alignment explanation
Indices: 12008789--12008821 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
12008779 GAGTGTTAGA
12008789 ATATTATTATAGG
1 ATATTATTATAGG
*
12008802 ATATTATTATGGG
1 ATATTATTATAGG
12008815 ATATTAT
1 ATATTAT
12008822 CTCTTAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
ATATTATTATAGG
Found at i:12009133 original size:9 final size:9
Alignment explanation
Indices: 12009103--12009169 Score: 71
Period size: 9 Copynumber: 7.4 Consensus size: 9
12009093 TTTGGTTAAA
12009103 AATTAACCG
1 AATTAACCG
* * *
12009112 AATTCAGCA
1 AATTAACCG
12009121 AATTAACCG
1 AATTAACCG
*
12009130 AATTACCCG
1 AATTAACCG
*
12009139 AATTACCCG
1 AATTAACCG
12009148 AATTAACCG
1 AATTAACCG
* *
12009157 GATTAACCT
1 AATTAACCG
12009166 AATT
1 AATT
12009170 GAATCATACA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 47 1.00
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:12012913 original size:17 final size:17
Alignment explanation
Indices: 12012891--12012925 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
12012881 TAATTTAAAT
*
12012891 AAATAAATTAGTTTCTC
1 AAATAAATAAGTTTCTC
*
12012908 AAATAAATAATTTTCTC
1 AAATAAATAAGTTTCTC
12012925 A
1 A
12012926 GCCCTATTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (17 bp):
AAATAAATAAGTTTCTC
Found at i:12020636 original size:21 final size:20
Alignment explanation
Indices: 12020596--12020637 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
12020586 TTTGACTTGT
*
12020596 TTAACTTTGAATTAAAAAAA
1 TTAAATTTGAATTAAAAAAA
*
12020616 TTAAATTTTAATTATAAAAAA
1 TTAAATTTGAATTA-AAAAAA
12020637 T
1 T
12020638 CATGCCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TTAAATTTGAATTAAAAAAA
Found at i:12023421 original size:23 final size:23
Alignment explanation
Indices: 12023392--12023513 Score: 138
Period size: 23 Copynumber: 5.3 Consensus size: 23
12023382 AGTGTTATTG
*
12023392 ATCAGTGGTAGCTTCGGCTATAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
12023415 TTTAGTGGTAG-TTACGGCTACAT
1 ATCAGTGGTAGCTT-CGGCTACAT
*
12023438 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * * *
12023461 TTCAGTGGTAGCTACGGTTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
12023484 ATTAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
12023507 ATCAGTG
1 ATCAGTG
12023514 TGGCACTTAT
Statistics
Matches: 79, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
22 2 0.03
23 75 0.95
24 2 0.03
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.35
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:12023444 original size:46 final size:46
Alignment explanation
Indices: 12023392--12023513 Score: 163
Period size: 46 Copynumber: 2.7 Consensus size: 46
12023382 AGTGTTATTG
* * *
12023392 ATCAGTGGTAGCTTCGGCTATATTTTAGTGGTAGTTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
* * *
12023438 ATCAGTGGTAGCTTCAGCTACATTTCAGTGGTAGCTACGGTTACGT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
* * *
12023484 ATTAGTGGTAGCTTTGGCTACATATCAGTG
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTG
12023514 TGGCACTTAT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 66 1.00
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.35
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
Found at i:12025244 original size:34 final size:34
Alignment explanation
Indices: 12025206--12025273 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
12025196 AGTATATGGG
12025206 ATAGATTAGCAAATCTTTACAAGATATTGAATAT
1 ATAGATTAGCAAATCTTTACAAGATATTGAATAT
*
12025240 ATAGATTAGCGAATCTTTACAAGATATTGAATAT
1 ATAGATTAGCAAATCTTTACAAGATATTGAATAT
12025274 TTAATATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (34 bp):
ATAGATTAGCAAATCTTTACAAGATATTGAATAT
Found at i:12027182 original size:98 final size:97
Alignment explanation
Indices: 12027006--12027191 Score: 248
Period size: 98 Copynumber: 1.9 Consensus size: 97
12026996 GAAATCAGGC
* * * * *
12027006 TTTTATTTGAATCAAAGTATACGAGTCACGCATACATAGTCCATTATCCACTTAGGATTAAGATA
1 TTTTATTTGAATCAAAGTATACGAGCCACACATACATAGTCCATCATCCACTCAGAATTAAGATA
12027071 TGACACACAATGAACGTCACAAGTGAATAAAA
66 TGACACACAATGAACGTCACAAGTGAATAAAA
* * * *
12027103 TTTTCATTTGCATCACAGTATACGAGCCACACATACATAGTCTATCATCCACTCAGAATTAAGGT
1 TTTT-ATTTGAATCAAAGTATACGAGCCACACATACATAGTCCATCATCCACTCAGAATTAAGAT
* *
12027168 AT-AGCACACTATGAAGGTCACAAG
65 ATGA-CACACAATGAACGTCACAAG
12027192 ATTTATTTTA
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
97 5 0.07
98 71 0.93
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (97 bp):
TTTTATTTGAATCAAAGTATACGAGCCACACATACATAGTCCATCATCCACTCAGAATTAAGATA
TGACACACAATGAACGTCACAAGTGAATAAAA
Found at i:12030757 original size:13 final size:13
Alignment explanation
Indices: 12030739--12030763 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12030729 CCTTATTCAT
12030739 CTTCTCCTTTCCC
1 CTTCTCCTTTCCC
12030752 CTTCTCCTTTCC
1 CTTCTCCTTTCC
12030764 TTTCTTGGTC
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (13 bp):
CTTCTCCTTTCCC
Found at i:12031280 original size:51 final size:51
Alignment explanation
Indices: 12031212--12031366 Score: 256
Period size: 51 Copynumber: 3.0 Consensus size: 51
12031202 AATTATAAGA
* * *
12031212 CAACATTATCCAGTCCATTTAATGTTGCAAAATCACCAGCATATTCATCAG
1 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAG
* *
12031263 CAACATTATACACTCCATCTGATGTTGCAAAATCACCAACATATTCATCAG
1 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAG
*
12031314 CAACATTATCCACTCTATCTGATGTTGCAAAATCACCAGCATATTCATCAG
1 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAG
12031365 CA
1 CA
12031367 GCAACTTCAC
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 96 1.00
ACGTcount: A:0.35, C:0.27, G:0.09, T:0.28
Consensus pattern (51 bp):
CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAG
Found at i:12031526 original size:33 final size:32
Alignment explanation
Indices: 12031470--12031582 Score: 100
Period size: 33 Copynumber: 3.4 Consensus size: 32
12031460 ATAGCAGACA
* *
12031470 CACCCTCCCCATCAGCTTGTACCTCTCCTACAT
1 CACCCTCCCCATCAGATTCTACCTCTCC-ACAT
* * *
12031503 CACCCTCCCCACCAGATTCTACCTATCCGAGAT
1 CACCCTCCCCATCAGATTCTACCTCTCC-ACAT
* ** * * *
12031536 CACCTTTACCATCATATTCTACCCCTTCATCAT
1 CACCCTCCCCATCAGATTCTACCTCTCCA-CAT
12031569 CACCCTCCCCATCA
1 CACCCTCCCCATCA
12031583 ACTTCCACCC
Statistics
Matches: 61, Mismatches: 18, Indels: 2
0.75 0.22 0.02
Matches are distributed among these distances:
32 1 0.02
33 60 0.98
ACGTcount: A:0.22, C:0.47, G:0.04, T:0.27
Consensus pattern (32 bp):
CACCCTCCCCATCAGATTCTACCTCTCCACAT
Found at i:12032404 original size:117 final size:117
Alignment explanation
Indices: 12032198--12032408 Score: 332
Period size: 117 Copynumber: 1.8 Consensus size: 117
12032188 GGTAACAAAA
* * *
12032198 ATCAACATCATCGGAACCACTGTCGCATCACAAATCGACAAAACAAACCCTACATCGTGGCATTA
1 ATCAACAACATCGGAACCACTATCGCATCACAAATCGACAAAACAAACCCTACATCGTGGCACTA
* *
12032263 AAATTACAATAATAAATCATAAATAACCATCTACAATTTTAACAACAGTTTT
66 AAATTACAATAATAAATAAAAAATAACCATCTACAATTTTAACAACAGTTTT
* * * *
12032315 ATCAACAACATCGGGACCACTATCGCATTACAAATCGACAAAACAAACCCTACATTGTGGCACTG
1 ATCAACAACATCGGAACCACTATCGCATCACAAATCGACAAAACAAACCCTACATCGTGGCACTA
*
12032380 AAATTGCAATAATAAATAAAAAATAACCA
66 AAATTACAATAATAAATAAAAAATAACCA
12032409 ACAAATCAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
117 84 1.00
ACGTcount: A:0.45, C:0.24, G:0.09, T:0.22
Consensus pattern (117 bp):
ATCAACAACATCGGAACCACTATCGCATCACAAATCGACAAAACAAACCCTACATCGTGGCACTA
AAATTACAATAATAAATAAAAAATAACCATCTACAATTTTAACAACAGTTTT
Found at i:12038092 original size:46 final size:46
Alignment explanation
Indices: 12038042--12038136 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
12038032 TCTATTTTCT
*
12038042 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAATATTTTGG
12038088 TTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAATATTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAATATTTTGG
12038134 TTT
1 TTT
12038137 CTATCTTTGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.35, C:0.02, G:0.22, T:0.41
Consensus pattern (46 bp):
TTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAATATTTTGG
Found at i:12043450 original size:171 final size:170
Alignment explanation
Indices: 12043145--12043455 Score: 455
Period size: 171 Copynumber: 1.8 Consensus size: 170
12043135 ATTCAGAAAC
* *
12043145 AAACTAAAAATGCATTAATTTGATCAAATTACTAAAATTTGCATCCTAATTGTGCCATCATCAAA
1 AAACTAAAAATGCATTAACTTGATCAAATTACTAAAATTTACATCCTAATTGTGCCATCATCAAA
** *
12043210 TCAACTTGATGATGAACACCAATCAACCAATAAACAACTGCCAAAAGTCCCAAGAGACCCATCAT
66 TCAACTTGACAATGAACACCAATCAACCAATAAACAACTGCCAAAAGGCCCAAGAGACCCATCAT
12043275 ATCAAATGATGCACGAAAGATCAAGTCTTAGATGCAAAAAT
131 ATC-AATGATGCACGAAAGATCAAGTCTTAGATGCAAAAAT
* ** *
12043316 AAACTAACAATGCATTAACTTGATCAAATTA-TAGAAATTTACATTTTAGTTGTGCCATCATCAA
1 AAACTAAAAATGCATTAACTTGATCAAATTACTA-AAATTTACATCCTAATTGTGCCATCATCAA
* * * * *
12043380 ATCAACTTGACAATGAATATCAATCAACTAATAAACAACTGCCAAAAGGCCCAAGA-AGCCTATT
65 ATCAACTTGACAATGAACACCAATCAACCAATAAACAACTGCCAAAAGGCCCAAGAGA-CCCATC
12043444 ATATCAATGATG
129 ATATCAATGATG
12043456 GTGGAAGGTG
Statistics
Matches: 124, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
170 10 0.08
171 114 0.92
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (170 bp):
AAACTAAAAATGCATTAACTTGATCAAATTACTAAAATTTACATCCTAATTGTGCCATCATCAAA
TCAACTTGACAATGAACACCAATCAACCAATAAACAACTGCCAAAAGGCCCAAGAGACCCATCAT
ATCAATGATGCACGAAAGATCAAGTCTTAGATGCAAAAAT
Found at i:12050540 original size:49 final size:50
Alignment explanation
Indices: 12050446--12050540 Score: 129
Period size: 49 Copynumber: 1.9 Consensus size: 50
12050436 CCTTATTCCT
* * **
12050446 AATCAATGTCAAATATAAGAAGAGTAGTTCTATATTGATTCTACTTATAC
1 AATCAATGTCAAATAGAAGAAGAGTAATTCTATACGGATTCTACTTATAC
* *
12050496 AATCAATGTCAAATAGAAGTA-AGTAATTCTATACGGGTTCTACTT
1 AATCAATGTCAAATAGAAGAAGAGTAATTCTATACGGATTCTACTT
12050541 GTCCAACTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 20 0.51
50 19 0.49
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (50 bp):
AATCAATGTCAAATAGAAGAAGAGTAATTCTATACGGATTCTACTTATAC
Found at i:12051124 original size:85 final size:86
Alignment explanation
Indices: 12050965--12051277 Score: 224
Period size: 86 Copynumber: 3.6 Consensus size: 86
12050955 GCGCCACTAA
* * * * *
12050965 CTTTAGCGGCGTTTTTTACTAAAAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTATCAC
1 CTTTAGCGGCG-TCTTTAGTAGAAGCGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTAGCAC
* * *
12051030 AAACGCCGCTGAAGAATAAGA-
65 AAACACCGCTAAAGAACAAGAT
* * * * * *
12051051 CTTTTAGCGGCG-CTTTAGTAGAAGCGCCGCTACAGACCCTGATCTTTAGCGGCGTTTTTGGGAT
1 C-TTTAGCGGCGTCTTTAGTAGAAGCGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTAGCAC
* * **
12051115 AAGCACCGCTAAAGACCCTGAT
65 AAACACCGCTAAAGAACAAGAT
* * * * * *
12051137 CTTTAGCGGCGTTTTTGGTATAAGCGCCGCTATAGACCCTGATCTATAGCGGCGC--ATAGACAA
1 CTTTAGCGGCGTCTTTAGTAGAAGCGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTAG-C-A
* * *
12051200 CAAACGCCACTAAAGAAC-CGAAT
64 CAAACACCGCTAAAGAACAAG-AT
* * * * * * *
12051223 CTTTAGTGGCG-CTTTCACTACAAACGCCGCTAAAGACCATGAGCTTTAGTGGCGC
1 CTTTAGCGGCGTCTTT-AGTAGAAGCGCCGCTAAAGACCCTGATCTTTAGCGGCGC
12051278 CTTTTCCACA
Statistics
Matches: 176, Mismatches: 44, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
84 2 0.01
85 69 0.39
86 95 0.54
87 10 0.06
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.25
Consensus pattern (86 bp):
CTTTAGCGGCGTCTTTAGTAGAAGCGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTAGCACA
AACACCGCTAAAGAACAAGAT
Found at i:12051131 original size:43 final size:43
Alignment explanation
Indices: 12051072--12051190 Score: 193
Period size: 43 Copynumber: 2.8 Consensus size: 43
12051062 GCTTTAGTAG
*
12051072 AAGCGCCGCTACAGACCCTGATCTTTAGCGGCGTTTTTGGGAT
1 AAGCGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTGGGAT
* *
12051115 AAGCACCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTGGTAT
1 AAGCGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTGGGAT
* *
12051158 AAGCGCCGCTATAGACCCTGATCTATAGCGGCG
1 AAGCGCCGCTAAAGACCCTGATCTTTAGCGGCG
12051191 CATAGACAAC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (43 bp):
AAGCGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTGGGAT
Found at i:12051248 original size:43 final size:41
Alignment explanation
Indices: 12051199--12051343 Score: 132
Period size: 43 Copynumber: 3.4 Consensus size: 41
12051189 CGCATAGACA
12051199 ACAAACGCCACTAAAGAACCGAATCTTTAGTGGCGCTTTCAC
1 ACAAACGCCACTAAAGAACC-AATCTTTAGTGGCGCTTTCAC
* *
12051241 TACAAACGCCGCTAAAG-ACCATGAGCTTTAGTGGCGCCTTTTC-C
1 -ACAAACGCCACTAAAGAACCA--ATCTTTAGTGGCG-C-TTTCAC
* * * * *
12051285 ACAAACGCCGCAAAAGACCCTAATCTTTAGCGGCGCTTTGACC
1 ACAAACGCCACTAAAGAACC-AATCTTTAGTGGCGCTTTCA-C
*
12051328 AAAAACGCCACTAAAG
1 ACAAACGCCACTAAAG
12051344 GCCAAGCACC
Statistics
Matches: 84, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
41 4 0.05
42 4 0.05
43 67 0.80
44 4 0.05
45 5 0.06
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (41 bp):
ACAAACGCCACTAAAGAACCAATCTTTAGTGGCGCTTTCAC
Found at i:12051251 original size:86 final size:86
Alignment explanation
Indices: 12051161--12051343 Score: 195
Period size: 86 Copynumber: 2.1 Consensus size: 86
12051151 TTGGTATAAG
* * * *
12051161 CGCCGCTATAGACCCTGATCTATAGCGGCGCATAGACAACAAACGCCACTAAAGAACCGAATCTT
1 CGCCGCTAAAGACCATGAGCTATAGCGGCGCATAGACAACAAACGCCACAAAAGAACCGAATCTT
*
12051226 TAGTGGCGCTTTCACTACAAA
66 TAGCGGCGCTTTCACTACAAA
* * * *** * * * *
12051247 CGCCGCTAAAGACCATGAGCTTTAGTGGCGCCTTTTCCACAAACGCCGCAAAAGACCCTAATCTT
1 CGCCGCTAAAGACCATGAGCTATAGCGGCGCATAGACAACAAACGCCACAAAAGAACCGAATCTT
* * *
12051312 TAGCGGCGCTTTGACCAAAAA
66 TAGCGGCGCTTTCACTACAAA
*
12051333 CGCCACTAAAG
1 CGCCGCTAAAG
12051344 GCCAAGCACC
Statistics
Matches: 78, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
86 78 1.00
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (86 bp):
CGCCGCTAAAGACCATGAGCTATAGCGGCGCATAGACAACAAACGCCACAAAAGAACCGAATCTT
TAGCGGCGCTTTCACTACAAA
Found at i:12051727 original size:21 final size:21
Alignment explanation
Indices: 12051697--12051768 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
12051687 TTTGACGCTG
* *
12051697 CTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCACTGCAGC
* **
12051718 CTCTATTTCCCTCACTTTAGC
1 CTCTACTTCCCTCACTGCAGC
*
12051739 CTCTGCTTCCCTCACTGCAGC
1 CTCTACTTCCCTCACTGCAGC
*
12051760 CTGTACTTC
1 CTCTACTTC
12051769 TCTTGCTGCC
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.10, C:0.43, G:0.12, T:0.35
Consensus pattern (21 bp):
CTCTACTTCCCTCACTGCAGC
Found at i:12051777 original size:21 final size:21
Alignment explanation
Indices: 12051753--12051795 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
12051743 GCTTCCCTCA
*
12051753 CTGCAGCCTGTACTTCTCTTG
1 CTGCAGCCTCTACTTCTCTTG
* *
12051774 CTGCCGCCTCTGCTTCTCTTG
1 CTGCAGCCTCTACTTCTCTTG
12051795 C
1 C
12051796 CGCCACATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.40, G:0.19, T:0.37
Consensus pattern (21 bp):
CTGCAGCCTCTACTTCTCTTG
Found at i:12051806 original size:21 final size:21
Alignment explanation
Indices: 12051765--12051808 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
12051755 GCAGCCTGTA
* * *
12051765 CTTCTCTTGCTGCCGCCTCTG
1 CTTCTCTTGCCGCCACATCTG
12051786 CTTCTCTTGCCGCCACATCTG
1 CTTCTCTTGCCGCCACATCTG
12051807 CT
1 CT
12051809 CTAAGCTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.05, C:0.43, G:0.16, T:0.36
Consensus pattern (21 bp):
CTTCTCTTGCCGCCACATCTG
Found at i:12051891 original size:66 final size:66
Alignment explanation
Indices: 12051821--12051949 Score: 197
Period size: 66 Copynumber: 2.0 Consensus size: 66
12051811 AAGCTGTTGT
* *
12051821 TGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTTTCGCTGCTGCATCTGCTTTAAGTTGTA
1 TGGAGTTCTTCATATCTTT-GTTGAACCTCAGCTTCTCTCGATGCTGCATCTGCTTTAAGTTGTA
12051885 AC
65 AC
* * *
12051887 TGGAGTTCTTCATATCTTTTTTGAACCTCAGCTTCTCTCGATGTTGCCTCTGCTTTAAGTTGT
1 TGGAGTTCTTCATATCTTTGTTGAACCTCAGCTTCTCTCGATGCTGCATCTGCTTTAAGTTGT
12051950 GTAATTTGCT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 53 0.93
67 4 0.07
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (66 bp):
TGGAGTTCTTCATATCTTTGTTGAACCTCAGCTTCTCTCGATGCTGCATCTGCTTTAAGTTGTAA
C
Found at i:12060773 original size:21 final size:21
Alignment explanation
Indices: 12060726--12060779 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
12060716 TGAATCTCTA
* *
12060726 AACCCTAAATCACTAACTCCT
1 AACCCCAAACCACTAACTCCT
*
12060747 AGCCCCAAACCACTAAC-CACT
1 AACCCCAAACCACTAACTC-CT
12060768 AACCCCTAAACC
1 AACCCC-AAACC
12060780 TTATCTAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 21 0.78
22 5 0.19
ACGTcount: A:0.39, C:0.44, G:0.02, T:0.15
Consensus pattern (21 bp):
AACCCCAAACCACTAACTCCT
Found at i:12060940 original size:89 final size:87
Alignment explanation
Indices: 12060757--12061034 Score: 371
Period size: 89 Copynumber: 3.1 Consensus size: 87
12060747 AGCCCCAAAC
* * * *
12060757 CACTAACCACTAACCCCTAAACCTTATCTAATATATAAATTAAAAACACTAATTAATCTAAACCC
1 CACTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAACACTAATTAATCTAAA-TC
* * *
12060822 TAAACCCTAATCTGACCCGAAAT
65 TAAACCCTAACCCGACCCTAAAT
* *
12060845 CCCTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAGTACTAATTAATCTAAATC
1 CACTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAA-CACTAATTAATCTAAATC
12060910 ATAAACCCTAACCCGACCCTAAAT
65 -TAAACCCTAACCCGACCCTAAAT
*
12060934 CACTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATTTAAAT-
1 CACTAACCCCTAACCCCTAAACATTATTTAATATATAAATT-AAAAACACTAATTAATCTAAATC
* *
12060998 T-AATCCTAAACCCTAACCCTAAAT
65 TAAACCCT-AACCC-GACCCTAAAT
*
12061022 CCCTAACCCCTAA
1 CACTAACCCCTAA
12061035 ACAATATTAT
Statistics
Matches: 170, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
86 5 0.03
87 6 0.04
88 64 0.38
89 90 0.53
90 5 0.03
ACGTcount: A:0.44, C:0.28, G:0.01, T:0.27
Consensus pattern (87 bp):
CACTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAACACTAATTAATCTAAATCT
AAACCCTAACCCGACCCTAAAT
Found at i:12061027 original size:14 final size:14
Alignment explanation
Indices: 12061002--12061036 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
12060992 TTAAATTAAT
12061002 CCTAAACCCTAA-C
1 CCTAAACCCTAACC
12061015 CCTAAATCCCTAACC
1 CCTAAA-CCCTAACC
12061030 CCTAAAC
1 CCTAAAC
12061037 AATATTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.30
14 7 0.35
15 7 0.35
ACGTcount: A:0.37, C:0.46, G:0.00, T:0.17
Consensus pattern (14 bp):
CCTAAACCCTAACC
Found at i:12061061 original size:15 final size:14
Alignment explanation
Indices: 12061038--12061071 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
12061028 CCCCTAAACA
*
12061038 ATATTATTTAATATT
1 ATATAATTTAATA-T
12061053 ATATAATTTAATAT
1 ATATAATTTAATAT
12061067 ATATA
1 ATATA
12061072 TTACTTAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATAATTTAATAT
Found at i:12061824 original size:114 final size:113
Alignment explanation
Indices: 12061590--12062416 Score: 1159
Period size: 114 Copynumber: 7.3 Consensus size: 113
12061580 AGATAAAATG
*
12061590 TTTTTGCGGCGCTTTTTAAAAAACGCCGCTAAAGACTTGAGCATTAGCGGCGCTTATTCAGAAAC
1 TTTTTGCGGCGC-TTTTAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCAGAAAC
12061655 GCCGCTAAAGACCCC-AAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
65 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
12061703 TTTTTGCGGCGCTTTTAGAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCAGAAAC
1 TTTTTGCGGCGCTTTTA-AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCAGAAAC
*
12061768 GCCGCTAAAGACCCTAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
65 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
12061817 TTTTTGCGGCGCTTTTAGAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCAGAAAC
1 TTTTTGCGGCGCTTTTA-AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCAGAAAC
*
12061882 GCCGCTAAAGACCCTAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
65 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * * * ** *
12061931 TTTTTGCAGCGCTTTTAAAAAAACGCTGCTAAACACCTCAGCATTAGCGGCGCTT-TGAAAAAAC
1 TTTTTGCGGCGCTTTT-AAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCAGAAAC
*
12061995 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTTGGCTTAGGC
65 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * * * *
12062044 TTTTTGCAGCGCTTTTAACAAAATGCCGCTAAAAGACCTAAGAATTAGCGGCGC--ATTACAAAA
1 TTTTTGCGGCGCTTTTAA-AAAACGCCGCT-AAAGACCTGAGCATTAGCGGCGCTTATT-CAGAA
* * *
12062107 ATGCCGCGAAAGACCCCCAAAAACTCAGAAAACGGTGCCGTTGGGTTTAGGC
63 ACGCCGCTAAAGA-CCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * *
12062159 TTGTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTCAGCATTAGCGGCGC--AGTGCAGAAA
1 TTTTTGCGGCGCTTTT-AAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTA-TTCAGAAA
* * * *
12062222 CGTCGCTAAAGACCCC-AAAACTCAGAAAACGGTACTGTTGGGTTTAGGC
64 CGCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * * *
12062271 TTTTTGCGGCGCTGTTAAAAAACCGCCGCTACAGACCTGAGAATTAGCTGCGCTT-TAT-AGAAA
1 TTTTTGCGGCGCTTTTAAAAAA-CGCCGCTAAAGACCTGAGCATTAGCGGCGCTTAT-TCAGAAA
* * *
12062334 CGCCACTAAAGACCCCCAAAAACTCAGAAAACGGTACCGTTTGGCTTAGGC
64 CGCCGCTAAAGA-CCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
*
12062385 TTTTTGCGGCGCTTTCAAATAAACGCCGCTAA
1 TTTTTGCGGCGCTTTTAAA-AAACGCCGCTAA
12062417 TGCTTATTTT
Statistics
Matches: 648, Mismatches: 49, Indels: 33
0.89 0.07 0.05
Matches are distributed among these distances:
111 6 0.01
112 94 0.15
113 159 0.25
114 322 0.50
115 65 0.10
116 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (113 bp):
TTTTTGCGGCGCTTTTAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCAGAAACG
CCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
Found at i:12062081 original size:228 final size:227
Alignment explanation
Indices: 12061590--12062416 Score: 1202
Period size: 227 Copynumber: 3.6 Consensus size: 227
12061580 AGATAAAATG
* *
12061590 TTTTTGCGGCGCTTTTTAAAAAACGCCGCTAAAGACTTGAGCATTAGCGGCGCTTATTCAGAAAC
1 TTTTTGCGGCGC-TTTTAAAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGCTTATTCAGAAAC
12061655 GCCGCTAAAGA-CCCC-AAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTT
65 GCCGCTAAAGACCCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTT
* * * *
12061718 TAGAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCAGAAACGCCGCTAAAGACCCT
130 TAAAAAAACGCCGCTAAAGACCTCAGCATTAGCGGCGCTT-TGCAGAAACGCCGCTAAAGACCCC
12061783 AAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
194 AAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
*
12061817 TTTTTGCGGCGCTTTTAGAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCAGAAAC
1 TTTTTGCGGCGCTTTTA-AAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGCTTATTCAGAAAC
* *
12061882 GCCGCTAAAGA-CCCTAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCAGCGCTTT
65 GCCGCTAAAGACCCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTT
* * * *
12061946 TAAAAAAACGCTGCTAAACACCTCAGCATTAGCGGCGCTTTGAAAAAACGCCGCTAAAGACCCCA
130 TAAAAAAACGCCGCTAAAGACCTCAGCATTAGCGGCGCTTTGCAGAAACGCCGCTAAAGACCCCA
*
12062011 AAAACTCAGAAAACGGTGCCGTTTGGCTTAGGC
195 AAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * * *
12062044 TTTTTGCAGCGCTTTTAACAAAATGCCGCTAAAAGACCTAAGAATTAGCGGCGC--ATTACAAAA
1 TTTTTGCGGCGCTTTTAA-AAAACGCCGCT-AAAGACCTGAGAATTAGCGGCGCTTATT-CAGAA
* * * *
12062107 ATGCCGCGAAAGACCCCCAAAAACTCAGAAAACGGTGCCGTTGGGTTTAGGCTTGTTGCGGCGCT
63 ACGCCGCTAAAGACCCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCT
** *
12062172 TTTAAAAAAACGCCGCTAAAGACCTCAGCATTAGCGGCGCAGTGCAGAAACGTCGCTAAAGACCC
128 TTTAAAAAAACGCCGCTAAAGACCTCAGCATTAGCGGCGCTTTGCAGAAACGCCGCTAAAGACCC
* * *
12062237 C-AAAACTCAGAAAACGGTACTGTTGGGTTTAGGC
193 CAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * *
12062271 TTTTTGCGGCGCTGTTAAAAAACCGCCGCTACAGACCTGAGAATTAGCTGCGCTT-TAT-AGAAA
1 TTTTTGCGGCGCTTTTAAAAAA-CGCCGCTAAAGACCTGAGAATTAGCGGCGCTTAT-TCAGAAA
* * *
12062334 CGCCACTAAAGACCCCCAAAAACTCAGAAAACGGTACCGTTTGGCTTAGGCTTTTTGCGGCGCTT
64 CGCCGCTAAAGACCCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTT
* *
12062399 TCAAATAAACGCCGCTAA
129 TTAAAAAAACGCCGCTAA
12062417 TGCTTATTTT
Statistics
Matches: 540, Mismatches: 50, Indels: 21
0.88 0.08 0.03
Matches are distributed among these distances:
226 111 0.21
227 218 0.40
228 211 0.39
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (227 bp):
TTTTTGCGGCGCTTTTAAAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGCTTATTCAGAAACG
CCGCTAAAGACCCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTT
AAAAAAACGCCGCTAAAGACCTCAGCATTAGCGGCGCTTTGCAGAAACGCCGCTAAAGACCCCAA
AAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
Found at i:12064444 original size:18 final size:18
Alignment explanation
Indices: 12064405--12064444 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12064395 TCTCTTAAAA
* * *
12064405 TTTTTGTGTTAAAAGCAT
1 TTTTTGTGGTAAAAACAC
12064423 TTTTTGTGGTAAAAACAC
1 TTTTTGTGGTAAAAACAC
12064441 TTTT
1 TTTT
12064445 GAGAAACACG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (18 bp):
TTTTTGTGGTAAAAACAC
Found at i:12070570 original size:25 final size:26
Alignment explanation
Indices: 12070534--12070606 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 26
12070524 GCCCTCTCTC
* *
12070534 GAGCTATA-TAACGGGAAGCTCATGT
1 GAGCCATAGTAACGGGAAGCTCATCT
* * *
12070559 GAGCCAT-GTAACCGAAAGCTTATCT
1 GAGCCATAGTAACGGGAAGCTCATCT
*
12070584 GAGCTATAG-AACGGGAAGCTCAT
1 GAGCCATAGTAACGGGAAGCTCAT
12070607 AATAGCCAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
25 36 0.97
26 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (26 bp):
GAGCCATAGTAACGGGAAGCTCATCT
Found at i:12078936 original size:13 final size:12
Alignment explanation
Indices: 12078918--12078962 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
12078908 CTTTTTCCAG
12078918 TTTTCTTCTTCTT
1 TTTTCTTCTT-TT
12078931 TTTTCTT-TTTT
1 TTTTCTTCTTTT
12078942 TTTT-TTCCTTTT
1 TTTTCTT-CTTTT
12078954 TTTT-TTCTT
1 TTTTCTTCTT
12078963 CTCTCACTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.07
11 9 0.30
12 12 0.40
13 7 0.23
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTCTTCTTTT
Found at i:12078952 original size:14 final size:13
Alignment explanation
Indices: 12078918--12078964 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
12078908 CTTTTTCCAG
* *
12078918 TTTTCTTCTTCTT
1 TTTTCTTTTTTTT
12078931 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
12078944 TTTTCCTTTTTTTT
1 TTTT-CTTTTTTTT
12078958 TTCTTCT
1 TT-TTCT
12078965 CTCACTTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 15 0.50
14 13 0.43
15 2 0.07
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:12094122 original size:10 final size:10
Alignment explanation
Indices: 12094107--12094134 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
12094097 ATTGATGAAT
12094107 ACAAGTTGGA
1 ACAAGTTGGA
12094117 ACAAGTTGGA
1 ACAAGTTGGA
12094127 ACAAGTTG
1 ACAAGTTG
12094135 AAAGGAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.29, T:0.21
Consensus pattern (10 bp):
ACAAGTTGGA
Found at i:12096981 original size:118 final size:118
Alignment explanation
Indices: 12096737--12096981 Score: 386
Period size: 118 Copynumber: 2.1 Consensus size: 118
12096727 GATCTTCTTC
*
12096737 TTGA-TTTTTGTGGAGAGGGAGCAATCATACATACGTAACTAGCCATGCTTGTCTTTATGTCTAT
1 TTGACTTTTTGTGGAGAGGGAGCAATCATACATACGTAACTAGCCATGCTTGTCTTTATGCCTAT
*
12096801 ATGCAGAGCCTAGAACTCAAACTAATTGATGCATTAATTGCCCAAAGCAGACA
66 AAGCAGAGCCTAGAACTCAAACTAATTGATGCATTAATTGCCCAAAGCAGACA
* * * *
12096854 TTGATTTTTTGTGGGGAGGGAGCAATCATACTTATGTAACTAGCCATGCTTGTCTTTATGCCTAT
1 TTGACTTTTTGTGGAGAGGGAGCAATCATACATACGTAACTAGCCATGCTTGTCTTTATGCCTAT
* * *
12096919 AAGCAGAGCTTCGAACTC-AACTAATTGATGCATTAATTGGCCAAAGCAGACA
66 AAGCAGAGCCTAGAACTCAAACTAATTGATGCATTAATTGCCCAAAGCAGACA
12096971 TTGACCTTTTT
1 TTGA-CTTTTT
12096982 TTCTTTTTCT
Statistics
Matches: 117, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
117 41 0.35
118 76 0.65
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (118 bp):
TTGACTTTTTGTGGAGAGGGAGCAATCATACATACGTAACTAGCCATGCTTGTCTTTATGCCTAT
AAGCAGAGCCTAGAACTCAAACTAATTGATGCATTAATTGCCCAAAGCAGACA
Found at i:12102377 original size:20 final size:18
Alignment explanation
Indices: 12102353--12102471 Score: 93
Period size: 20 Copynumber: 6.4 Consensus size: 18
12102343 AATAATTAAA
12102353 TATAAAAATTATAAAAAT
1 TATAAAAATTATAAAAAT
*
12102371 TCAATAAAAAGTATAAAAAATT
1 T--ATAAAAATTAT-AAAAA-T
* *
12102393 TTTAAAAAATATAAATAAT
1 TATAAAAATTATAAA-AAT
*
12102412 TATAAAAATGATAAAAAT
1 TATAAAAATTATAAAAAT
12102430 TATAAGAAA-TAT-AAAAT
1 TATAA-AAATTATAAAAAT
* *
12102447 ACATAAAAA--ATGAAAAT
1 -TATAAAAATTATAAAAAT
12102464 TATAAAAA
1 TATAAAAA
12102472 ATAAATAAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
16 9 0.11
17 13 0.15
18 15 0.18
19 19 0.23
20 21 0.25
21 5 0.06
22 2 0.02
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (18 bp):
TATAAAAATTATAAAAAT
Found at i:12102379 original size:11 final size:9
Alignment explanation
Indices: 12102353--12102471 Score: 93
Period size: 9 Copynumber: 12.9 Consensus size: 9
12102343 AATAATTAAA
12102353 TATAAAAAT
1 TATAAAAAT
12102362 TATAAAAAT
1 TATAAAAAT
*
12102371 TCAATAAAAAG
1 T--ATAAAAAT
12102382 TATAAAAAATT
1 TAT-AAAAA-T
* *
12102393 TTTAAAAAA
1 TATAAAAAT
12102402 TATAAATAAT
1 TATAAA-AAT
12102412 TATAAAAAT
1 TATAAAAAT
*
12102421 GATAAAAAT
1 TATAAAAAT
12102430 TATAAGAAA-
1 TATAA-AAAT
12102439 TAT-AAAAT
1 TATAAAAAT
*
12102447 ACATAAAAA-
1 -TATAAAAAT
*
12102456 -ATGAAAAT
1 TATAAAAAT
12102464 TATAAAAA
1 TATAAAAA
12102472 ATAAATAAAT
Statistics
Matches: 88, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
7 9 0.10
8 1 0.01
9 43 0.49
10 25 0.28
11 10 0.11
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (9 bp):
TATAAAAAT
Found at i:12102427 original size:27 final size:27
Alignment explanation
Indices: 12102397--12102480 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
12102387 AAAATTTTTA
*
12102397 AAAAATATAAATAATTATAAAAAT-GAT
1 AAAAATATAAA-AATTATAAAAATACAT
12102424 AAAAATTATAAGAAA-TAT-AAAATACAT
1 AAAAA-TATAA-AAATTATAAAAATACAT
* *
12102451 AAAAA-ATGAAAATTATAAAAAATAAAT
1 AAAAATATAAAAATTAT-AAAAATACAT
12102478 AAA
1 AAA
12102481 TTTCCCAACA
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.06
25 6 0.12
26 5 0.10
27 26 0.54
28 7 0.15
29 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (27 bp):
AAAAATATAAAAATTATAAAAATACAT
Found at i:12102972 original size:29 final size:27
Alignment explanation
Indices: 12102937--12103005 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
12102927 TAGGTCATAG
*
12102937 ATAATTTTCTATATTGTTTTGTAGTTTTT
1 ATAATTTTCTATATT-TCTT-TAGTTTTT
* * *
12102966 ATCATTTTATATATTTCTTTATTTTTT
1 ATAATTTTCTATATTTCTTTAGTTTTT
*
12102993 GTAATTTTCTATA
1 ATAATTTTCTATA
12103006 ATTTTTAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
27 17 0.52
28 3 0.09
29 13 0.39
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (27 bp):
ATAATTTTCTATATTTCTTTAGTTTTT
Found at i:12103054 original size:23 final size:23
Alignment explanation
Indices: 12103002--12103048 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
12102992 TGTAATTTTC
* *
12103002 TATAAT-TT-TTAATTTAATTTA
1 TATAATATTCTTAATATAAGTTA
12103023 TATAATATTCTTAATATAAGTTA
1 TATAATATTCTTAATATAAGTTA
12103046 TAT
1 TAT
12103049 TTTATTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 6 0.27
22 2 0.09
23 14 0.64
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TATAATATTCTTAATATAAGTTA
Found at i:12118647 original size:509 final size:509
Alignment explanation
Indices: 12117690--12118707 Score: 2036
Period size: 509 Copynumber: 2.0 Consensus size: 509
12117680 GTTGTAGGTC
12117690 CACACTATCAACAAACATGAGCAATGATAACTCTTGAAGTAGCTCCATATCTAGGAAACAACTAG
1 CACACTATCAACAAACATGAGCAATGATAACTCTTGAAGTAGCTCCATATCTAGGAAACAACTAG
12117755 CACAGTCAACTATCGGATGTATATCCAGCCAACTGTCAAAACCAGACCTTGAACACAACATTTCA
66 CACAGTCAACTATCGGATGTATATCCAGCCAACTGTCAAAACCAGACCTTGAACACAACATTTCA
12117820 GAACCAAAATCACATGCAGTAGAGTTTGCCCCAAAAATAGCTTCACCAGTCCCATATTTGCTCAA
131 GAACCAAAATCACATGCAGTAGAGTTTGCCCCAAAAATAGCTTCACCAGTCCCATATTTGCTCAA
12117885 CAATTTGCATTTCTCATGTTCAAACCGTTTCAAAAGCATCTGGATACAGTAAGTTCAAATCCACA
196 CAATTTGCATTTCTCATGTTCAAACCGTTTCAAAAGCATCTGGATACAGTAAGTTCAAATCCACA
12117950 AGTGTCAGATAGTAATGCCAAATGATTAAAAAAAAAGGCCTGAATAATAAAGAAACAAAAATAAT
261 AGTGTCAGATAGTAATGCCAAATGATTAAAAAAAAAGGCCTGAATAATAAAGAAACAAAAATAAT
12118015 ACGTGAACAGGAAACAACCTGATACACCTCCCCCATTTGATGAGAAACATGGATTTCATCTTCAT
326 ACGTGAACAGGAAACAACCTGATACACCTCCCCCATTTGATGAGAAACATGGATTTCATCTTCAT
12118080 CACGTTTACCCATAATAAAGGATGACATGCAAATGCCTAAAGAAAGAAGACAAAAAGAGAAATTG
391 CACGTTTACCCATAATAAAGGATGACATGCAAATGCCTAAAGAAAGAAGACAAAAAGAGAAATTG
12118145 AGATGGATAAAGATATAAACTTTTAAGTGCTGAAGGAGCAAGACAAAACACAAA
456 AGATGGATAAAGATATAAACTTTTAAGTGCTGAAGGAGCAAGACAAAACACAAA
12118199 CACACTATCAACAAACATGAGCAATGATAACTCTTGAAGTAGCTCCATATCTAGGAAACAACTAG
1 CACACTATCAACAAACATGAGCAATGATAACTCTTGAAGTAGCTCCATATCTAGGAAACAACTAG
12118264 CACAGTCAACTATCGGATGTATATCCAGCCAACTGTCAAAACCAGACCTTGAACACAACATTTCA
66 CACAGTCAACTATCGGATGTATATCCAGCCAACTGTCAAAACCAGACCTTGAACACAACATTTCA
12118329 GAACCAAAATCACATGCAGTAGAGTTTGCCCCAAAAATAGCTTCACCAGTCCCATATTTGCTCAA
131 GAACCAAAATCACATGCAGTAGAGTTTGCCCCAAAAATAGCTTCACCAGTCCCATATTTGCTCAA
12118394 CAATTTGCATTTCTCATGTTCAAACCGTTTCAAAAGCATCTGGATACAGTAAGTTCAAATCCACA
196 CAATTTGCATTTCTCATGTTCAAACCGTTTCAAAAGCATCTGGATACAGTAAGTTCAAATCCACA
12118459 AGTGTCAGATAGTAATGCCAAATGATTAAAAAAAAAGGCCTGAATAATAAAGAAACAAAAATAAT
261 AGTGTCAGATAGTAATGCCAAATGATTAAAAAAAAAGGCCTGAATAATAAAGAAACAAAAATAAT
12118524 ACGTGAACAGGAAACAACCTGATACACCTCCCCCATTTGATGAGAAACATGGATTTCATCTTCAT
326 ACGTGAACAGGAAACAACCTGATACACCTCCCCCATTTGATGAGAAACATGGATTTCATCTTCAT
12118589 CACGTTTACCCATAATAAAGGATGACATGCAAATGCCTAAAGAAAGAAGACAAAAAGAGAAATTG
391 CACGTTTACCCATAATAAAGGATGACATGCAAATGCCTAAAGAAAGAAGACAAAAAGAGAAATTG
12118654 AGATGGATAAAGATATAAACTTTTAAGTGCTGAAGGAGCAAGACAAAACACAAA
456 AGATGGATAAAGATATAAACTTTTAAGTGCTGAAGGAGCAAGACAAAACACAAA
12118708 AATTCCACAT
Statistics
Matches: 509, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
509 509 1.00
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (509 bp):
CACACTATCAACAAACATGAGCAATGATAACTCTTGAAGTAGCTCCATATCTAGGAAACAACTAG
CACAGTCAACTATCGGATGTATATCCAGCCAACTGTCAAAACCAGACCTTGAACACAACATTTCA
GAACCAAAATCACATGCAGTAGAGTTTGCCCCAAAAATAGCTTCACCAGTCCCATATTTGCTCAA
CAATTTGCATTTCTCATGTTCAAACCGTTTCAAAAGCATCTGGATACAGTAAGTTCAAATCCACA
AGTGTCAGATAGTAATGCCAAATGATTAAAAAAAAAGGCCTGAATAATAAAGAAACAAAAATAAT
ACGTGAACAGGAAACAACCTGATACACCTCCCCCATTTGATGAGAAACATGGATTTCATCTTCAT
CACGTTTACCCATAATAAAGGATGACATGCAAATGCCTAAAGAAAGAAGACAAAAAGAGAAATTG
AGATGGATAAAGATATAAACTTTTAAGTGCTGAAGGAGCAAGACAAAACACAAA
Found at i:12137914 original size:87 final size:86
Alignment explanation
Indices: 12137735--12137901 Score: 214
Period size: 87 Copynumber: 1.9 Consensus size: 86
12137725 AAAATGCTAT
* * *
12137735 ATATTTTAAAAAATTCATATAAATATTGATAATTTAATAGATATATGGGTAAAGTCTAAGATGTT
1 ATATTTTAAAAAATTCATATAAATATTGATAAATTAATAGATATATGGATAAAGTCTAAGATATT
12137800 TTGGTAAATCTAAAAGGTTAG
66 TTGGTAAATCTAAAAGGTTAG
* * *
12137821 ATATTTTAAGAAA-TC-TATAAAATATTGATAAATTGATAGAAATATATTGATAAAGTCTTAA-A
1 ATATTTTAAAAAATTCATAT-AAATATTGATAAATTAATAG--ATATATGGATAAAGTC-TAAGA
*
12137883 TATTTTGGTAAATTTAAAA
62 TATTTTGGTAAATCTAAAA
12137902 TTTTAGTTAT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
84 3 0.04
85 20 0.29
86 12 0.17
87 32 0.46
88 3 0.04
ACGTcount: A:0.46, C:0.03, G:0.13, T:0.39
Consensus pattern (86 bp):
ATATTTTAAAAAATTCATATAAATATTGATAAATTAATAGATATATGGATAAAGTCTAAGATATT
TTGGTAAATCTAAAAGGTTAG
Found at i:12137921 original size:20 final size:20
Alignment explanation
Indices: 12137896--12137940 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
12137886 TTTGGTAAAT
* *
12137896 TTAAAATTTTAGTTATTTTG
1 TTAAAATATTAGATATTTTG
12137916 TTAAAATATTAGATATTTTG
1 TTAAAATATTAGATATTTTG
*
12137936 GTAAA
1 TTAAA
12137941 TTAATATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (20 bp):
TTAAAATATTAGATATTTTG
Found at i:12138018 original size:20 final size:20
Alignment explanation
Indices: 12137990--12138038 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
12137980 ATCCAAAGTG
*
12137990 TTTGGTAAAATATTAGATAT
1 TTTGATAAAATATTAGATAT
* *
12138010 TTTGATAAATTGTTAGATAT
1 TTTGATAAAATATTAGATAT
*
12138030 ATTGATAAA
1 TTTGATAAA
12138039 TCTTTAGCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (20 bp):
TTTGATAAAATATTAGATAT
Found at i:12138045 original size:20 final size:20
Alignment explanation
Indices: 12138002--12138096 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
12137992 TGGTAAAATA
*
12138002 TTAGATATTTTGATAAAT-T
1 TTAGATATATTGATAAATCT
12138021 GTTAGATATATTGATAAATCT
1 -TTAGATATATTGATAAATCT
* * * *
12138042 TTAGCA-ATTTTGGTAAACCG
1 TTAG-ATATATTGATAAATCT
*
12138062 TTAGATGT-TTGAATAAATCT
1 TTAGATATATTG-ATAAATCT
*
12138082 TTAGAAATATTGATA
1 TTAGATATATTGATA
12138097 TATCGCTAGA
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
19 4 0.07
20 50 0.85
21 5 0.08
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.43
Consensus pattern (20 bp):
TTAGATATATTGATAAATCT
Found at i:12140101 original size:18 final size:18
Alignment explanation
Indices: 12140078--12140113 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12140068 GTAGGTTTCC
*
12140078 AAAAATCGAAATGGAAAT
1 AAAAATCGAAATGAAAAT
*
12140096 AAAAATGGAAATGAAAAT
1 AAAAATCGAAATGAAAAT
12140114 TTGCAATCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.64, C:0.03, G:0.17, T:0.17
Consensus pattern (18 bp):
AAAAATCGAAATGAAAAT
Found at i:12140288 original size:26 final size:26
Alignment explanation
Indices: 12140252--12140327 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 26
12140242 ACGAGTTTTC
12140252 TCAAAATTTTACTGGGGGTAAAATCA
1 TCAAAATTTTACTGGGGGTAAAATCA
* * * **
12140278 TCAAAATTTTACCAGAGGATAAAATTG
1 TCAAAATTTTA-CTGGGGGTAAAATCA
*
12140305 TCAAAATTTTACT-GGAGTAAAAT
1 TCAAAATTTTACTGGGGGTAAAAT
12140328 TGAGATGAGA
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
25 7 0.17
26 12 0.30
27 21 0.52
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (26 bp):
TCAAAATTTTACTGGGGGTAAAATCA
Found at i:12155564 original size:43 final size:43
Alignment explanation
Indices: 12155503--12155589 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
12155493 CAGGTAAGTA
12155503 CAAAAAAATAAATAAATAAAAATAATGCAGAGACCGGTTTTTT
1 CAAAAAAATAAATAAATAAAAATAATGCAGAGACCGGTTTTTT
12155546 CAAAAAAATAAATAAATAAAAATAATGCAGAGACCGGTTTTTT
1 CAAAAAAATAAATAAATAAAAATAATGCAGAGACCGGTTTTTT
12155589 C
1 C
12155590 TCTTTTATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.53, C:0.10, G:0.11, T:0.25
Consensus pattern (43 bp):
CAAAAAAATAAATAAATAAAAATAATGCAGAGACCGGTTTTTT
Found at i:12160649 original size:27 final size:27
Alignment explanation
Indices: 12160619--12160685 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
12160609 CCTATCAGGT
12160619 AGGCGCCAATGAAGGTGCCTCACAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
*
12160646 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
12160673 AGGCGCCAATGAA
1 AGGCGCCAATGAA
12160686 TATTGTAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.31, C:0.24, G:0.33, T:0.12
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCACAGAG
Found at i:12160784 original size:21 final size:21
Alignment explanation
Indices: 12160755--12160798 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
12160745 TGGATTAGTA
*
12160755 TTTTGTATGAATATTGTAATT
1 TTTTATATGAATATTGTAATT
12160776 TTTTATATGAATATTGTAATT
1 TTTTATATGAATATTGTAATT
12160797 TT
1 TT
12160799 GTGTTTGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (21 bp):
TTTTATATGAATATTGTAATT
Found at i:12160856 original size:19 final size:19
Alignment explanation
Indices: 12160832--12160966 Score: 109
Period size: 19 Copynumber: 6.8 Consensus size: 19
12160822 AAAAAATTAT
12160832 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
12160851 AATTACAATATTCATACAAAA
1 AATTACAATATTCATAC--AA
*
12160872 AATTACAATATTCTTACAA
1 AATTACAATATTCATACAA
*
12160891 AA-TAC--TATTCCAAAACTATA
1 AATTACAATATT-C-ATAC-A-A
*
12160911 AA-TACAAATTTAATT-ATAAAA
1 AATTAC-AA--T-ATTCATACAA
12160932 TAATTACAATATTCATACAA
1 -AATTACAATATTCATACAA
12160952 AATTACAATATTCAT
1 AATTACAATATTCAT
12160967 TGGCGCCTTT
Statistics
Matches: 95, Mismatches: 6, Indels: 30
0.73 0.05 0.23
Matches are distributed among these distances:
16 4 0.04
17 1 0.01
18 5 0.05
19 40 0.42
20 12 0.13
21 19 0.20
22 5 0.05
23 5 0.05
25 1 0.01
26 3 0.03
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (19 bp):
AATTACAATATTCATACAA
Found at i:12160875 original size:21 final size:21
Alignment explanation
Indices: 12160832--12160892 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
12160822 AAAAAATTAT
12160832 AATTACAATATTCATAC--AA
1 AATTACAATATTCATACAAAA
12160851 AATTACAATATTCATACAAAA
1 AATTACAATATTCATACAAAA
*
12160872 AATTACAATATTCTTACAAAA
1 AATTACAATATTCATACAAAA
12160893 TACTATTCCA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 17 0.44
21 22 0.56
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (21 bp):
AATTACAATATTCATACAAAA
Found at i:12161000 original size:27 final size:27
Alignment explanation
Indices: 12160962--12161028 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
12160952 AATTACAATA
*
12160962 TTCATTGGCGCCTTTCTATGAGGCAAC
1 TTCATTGGCGCCTCTCTATGAGGCAAC
* *
12160989 TTCATTGGCGCCTCTCTGTGAGGCACC
1 TTCATTGGCGCCTCTCTATGAGGCAAC
12161016 TTCATTGGCGCCT
1 TTCATTGGCGCCT
12161029 ACCTGATAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.13, C:0.30, G:0.24, T:0.33
Consensus pattern (27 bp):
TTCATTGGCGCCTCTCTATGAGGCAAC
Found at i:12161039 original size:27 final size:27
Alignment explanation
Indices: 12160962--12161039 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 27
12160952 AATTACAATA
*
12160962 TTCATTGGCGCCTTTCT-ATGAGGCAAC
1 TTCATTGGCGCC-TCCTGATGAGGCAAC
*
12160989 TTCATTGGCGCCTCTCTG-TGAGGCACC
1 TTCATTGGCGCCTC-CTGATGAGGCAAC
12161016 TTCATTGGCGCCTACCTGAT-AGGC
1 TTCATTGGCGCCT-CCTGATGAGGC
12161040 GCCACCCGAC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
26 1 0.02
27 42 0.93
28 2 0.04
ACGTcount: A:0.15, C:0.29, G:0.24, T:0.31
Consensus pattern (27 bp):
TTCATTGGCGCCTCCTGATGAGGCAAC
Found at i:12166076 original size:30 final size:30
Alignment explanation
Indices: 12165999--12166076 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
12165989 AAAGCCCTAA
*
12165999 ATAAATATCTTCGAATAAACTTAAACCTTAT
1 ATAAATATCTTCTAA-AAACTTAAACCTTAT
* *
12166030 ATAAATATTTTTTAAAAACTT-AACCTTTAT
1 ATAAATATCTTCTAAAAACTTAAACC-TTAT
*
12166060 ATAAATAACTTCTAAAA
1 ATAAATATCTTCTAAAA
12166077 TATTCCCCCC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 4 0.10
30 24 0.60
31 12 0.30
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.38
Consensus pattern (30 bp):
ATAAATATCTTCTAAAAACTTAAACCTTAT
Found at i:12169019 original size:20 final size:21
Alignment explanation
Indices: 12168980--12169019 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
12168970 AATTTACTAA
*
12168980 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
12169001 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
12169020 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:12173114 original size:12 final size:12
Alignment explanation
Indices: 12173097--12173150 Score: 60
Period size: 11 Copynumber: 4.8 Consensus size: 12
12173087 AAACTAATCC
12173097 CCTCTCAAAATT
1 CCTCTCAAAATT
*
12173109 CCTCTC-AATTT
1 CCTCTCAAAATT
*
12173120 CCTCTC-AATTT
1 CCTCTCAAAATT
12173131 CCT-TCAAAATT
1 CCTCTCAAAATT
*
12173142 TCTCTCAAA
1 CCTCTCAAA
12173151 TCCATATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
10 2 0.05
11 24 0.65
12 11 0.30
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.39
Consensus pattern (12 bp):
CCTCTCAAAATT
Found at i:12173176 original size:51 final size:51
Alignment explanation
Indices: 12173113--12173318 Score: 191
Period size: 51 Copynumber: 3.8 Consensus size: 51
12173103 AAAATTCCTC
* * *
12173113 TCAATTTCCTCTCAATTTCCTTCAAAATTTCTCTCAAATCCATATTTAATT
1 TCAATTTGCTCTCAAATTCCTTCTAAATTTCTCTCAAATCCATATTTAATT
* *
12173164 TCAATTTGCTCTCAAATT-CTTCTTAAATTTCTCTTAAATCTCTATTTTTAAATAAATTTCCT
1 TCAATTTGCTCTCAAATTCCTTC-TAAATTTCTCTCAAATC-C-A-TATT---T-AA--T--T
*
12173226 CTCAATTTGCTCTCAAATTCCTTCTAAATTTCTCTCAAATCCATATTTAATC
1 -TCAATTTGCTCTCAAATTCCTTCTAAATTTCTCTCAAATCCATATTTAATT
* * *
12173278 TCAATTTGCTCTCAAGTTCC-TCTTAAATTTATCTTAAATCC
1 TCAATTTGCTCTCAAATTCCTTC-TAAATTTCTCTCAAATCC
12173319 CTAATTTTAA
Statistics
Matches: 129, Mismatches: 11, Indels: 30
0.76 0.06 0.18
Matches are distributed among these distances:
50 6 0.05
51 66 0.51
52 1 0.01
53 1 0.01
54 4 0.03
56 2 0.02
57 2 0.02
58 2 0.02
60 4 0.03
61 1 0.01
62 2 0.02
63 34 0.26
64 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.02, T:0.46
Consensus pattern (51 bp):
TCAATTTGCTCTCAAATTCCTTCTAAATTTCTCTCAAATCCATATTTAATT
Found at i:12173192 original size:29 final size:28
Alignment explanation
Indices: 12173138--12173194 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
12173128 TTTCCTTCAA
*
12173138 AATTTCTCTCAAATCCATATTTAATTTC
1 AATTTCTCTCAAATCCATATTAAATTTC
* * *
12173166 AATTTGCTCTCAAATTCTTCTTAAATTTC
1 AATTT-CTCTCAAATCCATATTAAATTTC
12173195 TCTTAAATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.30, C:0.21, G:0.02, T:0.47
Consensus pattern (28 bp):
AATTTCTCTCAAATCCATATTAAATTTC
Found at i:12173243 original size:23 final size:23
Alignment explanation
Indices: 12173217--12173265 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
12173207 ATTTTTAAAT
*
12173217 AAATTTCC-TCTCAATTTGCTCTC
1 AAATTTCCTTCTAAATTT-CTCTC
12173240 AAA-TTCCTTCTAAATTTCTCTC
1 AAATTTCCTTCTAAATTTCTCTC
12173262 AAAT
1 AAAT
12173266 CCATATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.29, C:0.27, G:0.02, T:0.43
Consensus pattern (23 bp):
AAATTTCCTTCTAAATTTCTCTC
Found at i:12173265 original size:11 final size:12
Alignment explanation
Indices: 12173217--12173265 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
12173207 ATTTTTAAAT
12173217 AAATTTCCTCTC
1 AAATTTCCTCTC
*
12173229 -AATTTGCTCTC
1 AAATTTCCTCTC
12173240 AAA-TTCCT-TC
1 AAATTTCCTCTC
12173250 TAAATTT-CTCTC
1 -AAATTTCCTCTC
12173262 AAAT
1 AAAT
12173266 CCATATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
10 2 0.06
11 23 0.74
12 6 0.19
ACGTcount: A:0.29, C:0.27, G:0.02, T:0.43
Consensus pattern (12 bp):
AAATTTCCTCTC
Found at i:12173307 original size:114 final size:114
Alignment explanation
Indices: 12173107--12173332 Score: 371
Period size: 114 Copynumber: 2.0 Consensus size: 114
12173097 CCTCTCAAAA
* *
12173107 TTCCTCTCAATTTCCTCTCAATTTCCTTCAAAATTTCTCTCAAATCCATATTTAATTTCAATTTG
1 TTCCTCTCAATTTCCTCTCAAATTCCTTCAAAATTTCTCTCAAATCCATATTTAATCTCAATTTG
* * * *
12173172 CTCTCAAATTCTTCTTAAATTTCTCTTAAATCTCTATTTTTAAATAAAT
66 CTCTCAAATTCCTCTTAAATTTATCTTAAATCCCTAATTTTAAATAAAT
* *
12173221 TTCCTCTCAATTTGCTCTCAAATTCCTTCTAAATTTCTCTCAAATCCATATTTAATCTCAATTTG
1 TTCCTCTCAATTTCCTCTCAAATTCCTTCAAAATTTCTCTCAAATCCATATTTAATCTCAATTTG
*
12173286 CTCTCAAGTTCCTCTTAAATTTATCTTAAATCCCTAATTTTAAATAA
66 CTCTCAAATTCCTCTTAAATTTATCTTAAATCCCTAATTTTAAATAA
12173333 TTTTAAAAAA
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 103 1.00
ACGTcount: A:0.29, C:0.23, G:0.02, T:0.46
Consensus pattern (114 bp):
TTCCTCTCAATTTCCTCTCAAATTCCTTCAAAATTTCTCTCAAATCCATATTTAATCTCAATTTG
CTCTCAAATTCCTCTTAAATTTATCTTAAATCCCTAATTTTAAATAAAT
Found at i:12173316 original size:62 final size:63
Alignment explanation
Indices: 12173172--12173316 Score: 163
Period size: 62 Copynumber: 2.3 Consensus size: 63
12173162 TTTCAATTTG
* * * *
12173172 CTCTCAAATTCTTCTTAAATTTCTCTTAAATCTCTATTTTTAAATAAATTTCCTCTCAATTTG
1 CTCTCAAATTCTTCTTAAATTTCTCTCAAATCTCTATATTTAAATAAATTTCCTCTCAAGTTC
* * *
12173235 CTCTCAAATTCCTTC-TAAATTTCTCTCAAATC-C-ATATTTAATCTCAATTTGCTCTCAAGTTC
1 CTCTCAAATT-CTTCTTAAATTTCTCTCAAATCTCTATATTTAA-ATAAATTTCCTCTCAAGTTC
*
12173297 CTCTTAAATT-TATCTTAAAT
1 CTCTCAAATTCT-TCTTAAAT
12173317 CCCTAATTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
60 1 0.01
61 9 0.13
62 30 0.43
63 26 0.37
64 4 0.06
ACGTcount: A:0.29, C:0.23, G:0.02, T:0.46
Consensus pattern (63 bp):
CTCTCAAATTCTTCTTAAATTTCTCTCAAATCTCTATATTTAAATAAATTTCCTCTCAAGTTC
Found at i:12175476 original size:21 final size:21
Alignment explanation
Indices: 12175433--12175477 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
12175423 ATCTGCTGTA
* * **
12175433 CCGAAAGAACCAGAATCTTCG
1 CCGAAAGAACAACAATCGCCG
12175454 CCGAAAGAACAACAATCGCCG
1 CCGAAAGAACAACAATCGCCG
12175475 CCG
1 CCG
12175478 GAAGCTAGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.33, G:0.20, T:0.09
Consensus pattern (21 bp):
CCGAAAGAACAACAATCGCCG
Found at i:12179107 original size:124 final size:123
Alignment explanation
Indices: 12178814--12179158 Score: 532
Period size: 124 Copynumber: 2.8 Consensus size: 123
12178804 CCAAACATGT
* *
12178814 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCAT-CATAC
1 TACTGTAGCAAAAGCGTGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCA-GC
*
12178878 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTTCATGACC
65 TAGAAGCGATTTTATACTATTTCCTCAGAAACGTCAAAAAAATTATTTCTTTCATGACC
* * * * *
12178937 AACAGTAGCAAAATCGTGACCACGAGGGCGCGATTTCACAAATTCTTCCCAAATAGCATCCAGCT
1 TACTGTAGCAAAAGCGTGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGCT
* * *
12179002 AGATGCGATTTTATACAATTTCCTCGGAAACGTCAAAAAAAATTATTTC-TTCAATGACC
66 AGAAGCGATTTTATACTATTTCCTCAGAAACGTC-AAAAAAATTATTTCTTTC-ATGACC
12179061 TACTGTAGCAAAAGCGTGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGCT
1 TACTGTAGCAAAAGCGTGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGCT
**
12179126 AGAAGCGATTTTATACTATTTGATCAGAAACGT
66 AGAAGCGATTTTATACTATTTCCTCAGAAACGT
12179159 TAACTCGAAA
Statistics
Matches: 198, Mismatches: 21, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
123 88 0.44
124 110 0.56
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (123 bp):
TACTGTAGCAAAAGCGTGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGCT
AGAAGCGATTTTATACTATTTCCTCAGAAACGTCAAAAAAATTATTTCTTTCATGACC
Found at i:12182760 original size:21 final size:21
Alignment explanation
Indices: 12182726--12182765 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12182716 ACAGCCTTAG
*
12182726 GAGGCTGCGGTGGAGGCGACT
1 GAGGCGGCGGTGGAGGCGACT
*
12182747 GAGGCGGCGTTGGAGGCGA
1 GAGGCGGCGGTGGAGGCGA
12182766 TGCTGCGGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.17, G:0.55, T:0.12
Consensus pattern (21 bp):
GAGGCGGCGGTGGAGGCGACT
Found at i:12187176 original size:23 final size:23
Alignment explanation
Indices: 12187150--12187196 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
12187140 TAAGGTGGAG
*
12187150 TTAGAGTTAAGGTTTTATAGGTT
1 TTAGAGTTAAGGGTTTATAGGTT
* * *
12187173 TTAGTGTTTAGGGTTTATCGGTT
1 TTAGAGTTAAGGGTTTATAGGTT
12187196 T
1 T
12187197 ACGATTTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.19, C:0.02, G:0.28, T:0.51
Consensus pattern (23 bp):
TTAGAGTTAAGGGTTTATAGGTT
Found at i:12194874 original size:24 final size:24
Alignment explanation
Indices: 12194847--12194901 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
12194837 AAAGATGATT
* *
12194847 ATATAAAAAATATAA-AATTATTAA
1 ATATAAAAAATAAAATAATTA-CAA
*
12194871 ATATTAAAAATAAAATAATTACAA
1 ATATAAAAAATAAAATAATTACAA
12194895 ATATAAA
1 ATATAAA
12194902 TGTATATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (24 bp):
ATATAAAAAATAAAATAATTACAA
Found at i:12194900 original size:17 final size:16
Alignment explanation
Indices: 12194847--12194901 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
12194837 AAAGATGATT
12194847 ATATAAAA-AATATAAA
1 ATATAAAATAAT-TAAA
*
12194863 ATTATTAAAT-ATTAAA
1 A-TATAAAATAATTAAA
12194879 A-ATAAAATAATTACAA
1 ATATAAAATAATTA-AA
12194895 ATATAAA
1 ATATAAA
12194902 TGTATATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 6 0.19
15 4 0.12
16 9 0.28
17 13 0.41
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (16 bp):
ATATAAAATAATTAAA
Found at i:12195433 original size:27 final size:27
Alignment explanation
Indices: 12195403--12195471 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
12195393 TGTGAATTAG
* * *
12195403 ATGTTTGATTTGGTAAGTTACTTAGAA
1 ATGTATGATTTGGTAAATGACTTAGAA
12195430 ATGTATGATTTGGTAAATGACTTAGAA
1 ATGTATGATTTGGTAAATGACTTAGAA
*
12195457 TTGTATGATTTGGTA
1 ATGTATGATTTGGTA
12195472 TTTGCAATGC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.43
Consensus pattern (27 bp):
ATGTATGATTTGGTAAATGACTTAGAA
Found at i:12200623 original size:8 final size:8
Alignment explanation
Indices: 12200610--12200634 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
12200600 CTGTTAAAAA
12200610 CAAAACGC
1 CAAAACGC
12200618 CAAAACGC
1 CAAAACGC
12200626 CAAAACGC
1 CAAAACGC
12200634 C
1 C
12200635 CCGTTTCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.40, G:0.12, T:0.00
Consensus pattern (8 bp):
CAAAACGC
Found at i:12204172 original size:20 final size:19
Alignment explanation
Indices: 12204130--12204172 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
12204120 TTAAAATACT
* *
12204130 TTTAAAATATTTTTTATTT
1 TTTAAAATATTTTTTAATG
12204149 TTTAAAATAATTTTTTAATG
1 TTTAAAAT-ATTTTTTAATG
12204169 TTTA
1 TTTA
12204173 TTAAAAATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTAAAATATTTTTTAATG
Found at i:12215817 original size:15 final size:15
Alignment explanation
Indices: 12215797--12215827 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12215787 AAGTAAATAT
*
12215797 AACAATTCAATAAAA
1 AACAATTCAACAAAA
12215812 AACAATTCAACAAAA
1 AACAATTCAACAAAA
12215827 A
1 A
12215828 GTGTTTCCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (15 bp):
AACAATTCAACAAAA
Found at i:12218271 original size:28 final size:28
Alignment explanation
Indices: 12218218--12218271 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
12218208 TTTAGTATTA
* * *
12218218 TTTTTTACTTAATACAAAATTTAAATAT
1 TTTTTTACTTAATAAAAAACTCAAATAT
12218246 TTTTTTA-TTAATTAAAAAACTCAAAT
1 TTTTTTACTTAA-TAAAAAACTCAAAT
12218272 TACACTGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (28 bp):
TTTTTTACTTAATAAAAAACTCAAATAT
Found at i:12229877 original size:20 final size:21
Alignment explanation
Indices: 12229839--12229879 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
12229829 AAAAAATAAG
12229839 GAAGTATAAAAAATGTATGAA
1 GAAGTATAAAAAATGTATGAA
12229860 GAAGTATAAAAAAT-TATGAA
1 GAAGTATAAAAAATGTATGAA
12229880 TTAACACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.59, C:0.00, G:0.17, T:0.24
Consensus pattern (21 bp):
GAAGTATAAAAAATGTATGAA
Found at i:12229910 original size:20 final size:21
Alignment explanation
Indices: 12229818--12229913 Score: 58
Period size: 21 Copynumber: 4.7 Consensus size: 21
12229808 AAAATTTTTG
*
12229818 AGGAAATACAAAAAA-AAT-A
1 AGGAAGTACAAAAAAGAATGA
* *
12229837 AGGAAGTATAAAAAATGTATGA
1 AGGAAGTACAAAAAA-GAATGA
* **
12229859 A-GAAGTATAAAAAATTATGA
1 AGGAAGTACAAAAAAGAATGA
** *
12229879 ATTAA-CACCAAAAAAGAATGA
1 AGGAAGTA-CAAAAAAGAATGA
12229900 A-GAAGTACAAAAAA
1 AGGAAGTACAAAAAA
12229914 AACTATAAGA
Statistics
Matches: 60, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
19 13 0.22
20 16 0.27
21 29 0.48
22 2 0.03
ACGTcount: A:0.64, C:0.05, G:0.15, T:0.17
Consensus pattern (21 bp):
AGGAAGTACAAAAAAGAATGA
Found at i:12229955 original size:22 final size:22
Alignment explanation
Indices: 12229930--12229978 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
12229920 AAGAGAAGTC
12229930 CAAATAACACGAGGAGATACCA
1 CAAATAACACGAGGAGATACCA
12229952 CAAATAACACGAGGAGATACCA
1 CAAATAACACGAGGAGATACCA
*
12229974 AAAAT
1 CAAAT
12229979 TGTGAGGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.53, C:0.20, G:0.16, T:0.10
Consensus pattern (22 bp):
CAAATAACACGAGGAGATACCA
Found at i:12230406 original size:39 final size:41
Alignment explanation
Indices: 12230325--12230415 Score: 123
Period size: 39 Copynumber: 2.3 Consensus size: 41
12230315 TAGATGTATC
* * * *
12230325 AAAAATCACGAGGGAATACCAAAAAAATATGAGGAAGTACA
1 AAAAATTATGAGGGAATACCAAAAAAATACGAGGAAGCACA
*
12230366 AAAAATTATGAGGG-ATACC-AAAAAATACGAGGATGCACA
1 AAAAATTATGAGGGAATACCAAAAAAATACGAGGAAGCACA
12230405 AAAAATTATGA
1 AAAAATTATGA
12230416 AGATGTATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
39 28 0.62
40 5 0.11
41 12 0.27
ACGTcount: A:0.55, C:0.11, G:0.19, T:0.15
Consensus pattern (41 bp):
AAAAATTATGAGGGAATACCAAAAAAATACGAGGAAGCACA
Found at i:12230467 original size:59 final size:59
Alignment explanation
Indices: 12230325--12230800 Score: 215
Period size: 59 Copynumber: 8.1 Consensus size: 59
12230315 TAGATGTATC
* * *
12230325 AAAAATCACGAGGGAATACCAAAAAAATATGAGGAAGTACAAAAAATTATGAG-GGATACCA
1 AAAAAT-ACGAGGGAATA-CAAAAAAATATGAAGAAGTAAAAAAAATTATGAGAGAATA-CA
* * * *
12230386 AAAAATACGA-GG-ATGCACAAAAAATTATGAAGATGTATAAAACATTATGAGAGAATAC-
1 AAAAATACGAGGGAAT--ACAAAAAAATATGAAGAAGTAAAAAAAATTATGAGAGAATACA
12230444 AAAAA-ACGAGGGAATACTAAAAAAAT-TG-AGAAGTAAAAAAAATTATGAGAGAATACTA
1 AAAAATACGAGGGAATAC-AAAAAAATATGAAGAAGTAAAAAAAATTATGAGAGAATAC-A
* * * * **
12230502 TAAAAT-CTGA-GAAAGTATAAAAAAA-ATGAAGATGTACTAAAAATTA-GA-AGGATATATCA
1 AAAAATAC-GAGGGAA-TACAAAAAAATATGAAGAAGTAAAAAAAATTATGAGA-GA-ATA-CA
* * * ** ** * * *
12230561 AAACATACGA-GGAAGTATCAAAAGATTATGAGAGAA-TACCAAAAACAAAGAGAGTATAAA
1 AAAAATACGAGGGAA-TA-CAAAAAAATATGA-AGAAGTAAAAAAAATTATGAGAGAATACA
* ** * * ** *
12230621 AAAAATATGA-GG-AT--GTAAAAATATGATGATGTATTAAAAATTATGAGAAAATACCA
1 AAAAATACGAGGGAATACAAAAAAATATGAAGAAGTAAAAAAAATTATGAGAGAATA-CA
* * * * *
12230677 AAAATTACGAGGGAATATTAAAAAAATAAG-AGAAAGTACAAAAAATTATAAGAGAATACTA
1 AAAAATACGAGGGAATA-CAAAAAAATATGAAG-AAGTAAAAAAAATTATGAGAGAATAC-A
* * * * **
12230738 TAAAATATGA-GGAAGTACTAAAAAA-ACG-AGAAAGTACCAAAAATTATGA-AGGAATACA
1 AAAAATACGAGGGAA-TACAAAAAAATATGAAG-AAGTAAAAAAAATTATGAGA-GAATACA
12230796 AAAAA
1 AAAAA
12230801 ATATGAGGAA
Statistics
Matches: 318, Mismatches: 64, Indels: 69
0.71 0.14 0.15
Matches are distributed among these distances:
54 2 0.01
55 23 0.07
56 34 0.11
57 11 0.03
58 46 0.14
59 96 0.30
60 39 0.12
61 60 0.19
62 6 0.02
63 1 0.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.19
Consensus pattern (59 bp):
AAAAATACGAGGGAATACAAAAAAATATGAAGAAGTAAAAAAAATTATGAGAGAATACA
Found at i:12230507 original size:116 final size:116
Alignment explanation
Indices: 12230324--12230750 Score: 365
Period size: 116 Copynumber: 3.6 Consensus size: 116
12230314 TTAGATGTAT
* * *
12230324 CAAAAATCACGAGGGAATACCAAAAAAATATGAGGAAGTACAAAAAATTATGAG-GGATACCAAA
1 CAAAAAT-ACGAGGGAATACTAAAAAAATATGA-GAAGTACAAAAAATTATGAGAGAATACTAAA
12230388 AAATACGAGGATGCACAAAAAATTATGAAGATGTA-TAAAACATTATGAGAGAATA-
64 AAATACGAGGATG-A-AAAAAA-TATGAAGATGTACTAAAA-ATTATGAGAGAATAC
* *
12230443 CAAAAA-ACGAGGGAATACTAAAAAAAT-TGAGAAGTAAAAAAAATTATGAGAGAATACTATAAA
1 CAAAAATACGAGGGAATACTAAAAAAATATGAGAAGTACAAAAAATTATGAGAGAATACTAAAAA
* * * *
12230506 AT-CTGAGAAAGTATAAAAAAAATGAAGATGTACTAAAAATTA-GA-AGGATATAT
66 ATAC-GAGGATG-A-AAAAAATATGAAGATGTACTAAAAATTATGAGA-GA-ATAC
* * * * ** * * *
12230559 CAAAACATACGA-GGAAGTA-TCAAAAGATTATGAGAGAATACCAAAAACAAAGAGAGTATA-AA
1 CAAAA-ATACGAGGGAA-TACT-AAAAAAATATGAGA-AGTACAAAAAATTATGAGAGAATACTA
* * * * *
12230621 AAAAATATGAGGATG-TAAAAATATGATGATGTATTAAAAATTATGAGAAAATAC
62 AAAAATACGAGGATGAAAAAAATATGAAGATGTACTAAAAATTATGAGAGAATAC
* * * *
12230675 CAAAAATTACGAGGGAATATTAAAAAAATAAGAGAAAGTACAAAAAATTATAAGAGAATACTATA
1 CAAAAA-TACGAGGGAATACTAAAAAAATATGAG-AAGTACAAAAAATTATGAGAGAATACTAAA
*
12230740 AAATATGAGGA
64 AAATACGAGGA
12230751 AGTACTAAAA
Statistics
Matches: 246, Mismatches: 42, Indels: 42
0.75 0.13 0.13
Matches are distributed among these distances:
113 1 0.00
114 4 0.02
115 39 0.16
116 102 0.41
117 48 0.20
118 13 0.05
119 22 0.09
120 17 0.07
ACGTcount: A:0.56, C:0.07, G:0.17, T:0.20
Consensus pattern (116 bp):
CAAAAATACGAGGGAATACTAAAAAAATATGAGAAGTACAAAAAATTATGAGAGAATACTAAAAA
ATACGAGGATGAAAAAAATATGAAGATGTACTAAAAATTATGAGAGAATAC
Found at i:12230540 original size:39 final size:36
Alignment explanation
Indices: 12230455--12230551 Score: 92
Period size: 39 Copynumber: 2.6 Consensus size: 36
12230445 AAAAACGAGG
12230455 GAATACTAAAAAAATTGAGAAGTAAAAAAAATTATGAGA
1 GAATACT--AAAAATTGAGAAGTAAAAAAAA-TATGAGA
12230494 GAATACTATAAAATCTGAGAAAGTATAAAAAAA-ATGA-A
1 GAATACTA-AAAAT-TGAG-AAGTA-AAAAAAATATGAGA
*
12230532 GATGTACTAAAAATT-AGAAG
1 GA-ATACTAAAAATTGAGAAG
12230552 GATATATCAA
Statistics
Matches: 52, Mismatches: 1, Indels: 14
0.78 0.01 0.21
Matches are distributed among these distances:
35 3 0.06
36 2 0.04
37 2 0.04
38 13 0.25
39 20 0.38
40 5 0.10
41 7 0.13
ACGTcount: A:0.59, C:0.04, G:0.15, T:0.22
Consensus pattern (36 bp):
GAATACTAAAAATTGAGAAGTAAAAAAAATATGAGA
Found at i:12230640 original size:16 final size:16
Alignment explanation
Indices: 12230621--12230653 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
12230611 AGAGTATAAA
12230621 AAAAATATGAGGATGT
1 AAAAATATGAGGATGT
*
12230637 AAAAATATGATGATGT
1 AAAAATATGAGGATGT
12230653 A
1 A
12230654 TTAAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.27
Consensus pattern (16 bp):
AAAAATATGAGGATGT
Found at i:12230721 original size:61 final size:59
Alignment explanation
Indices: 12230656--12230820 Score: 156
Period size: 59 Copynumber: 2.8 Consensus size: 59
12230646 ATGATGTATT
*
12230656 AAAAATTATGAGAAAATACCA-AAAATTACGAGGGAA-TATTAAAAAAATAAGAGAAAGTACA
1 AAAAATTATGAGAAAATACCATAAAA-TACGA-GGAAGTACT-AAAAAA-AAGAGAAAGTACA
* * * * * *
12230717 AAAAATTATAAGAGAATACTATAAAATATGAGGAAGTACTAAAAAAACGAGAAAGTACC
1 AAAAATTATGAGAAAATACCATAAAATACGAGGAAGTACTAAAAAAAAGAGAAAGTACA
* * * * *
12230776 AAAAATTATGA-AGGAATACAAAAAAATATGAGGAAGTACCAAAAA
1 AAAAATTATGAGA-AAATACCATAAAATACGAGGAAGTACTAAAAA
12230821 TTGTAAGGGG
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
58 1 0.01
59 50 0.56
60 10 0.11
61 25 0.28
62 4 0.04
ACGTcount: A:0.60, C:0.07, G:0.15, T:0.18
Consensus pattern (59 bp):
AAAAATTATGAGAAAATACCATAAAATACGAGGAAGTACTAAAAAAAAGAGAAAGTACA
Found at i:12230734 original size:41 final size:40
Alignment explanation
Indices: 12230652--12230762 Score: 114
Period size: 41 Copynumber: 2.7 Consensus size: 40
12230642 TATGATGATG
* * * * *
12230652 TATTAAAAATTATGAGAAAATACCAAAAATTACGAGGGAA
1 TATTAAAAAATATGAGAAAGTACAAAAAATTACAAGAGAA
* *
12230692 TATTAAAAAAATAAGAGAAAGTACAAAAAATTATAAGAGAA
1 TATT-AAAAAATATGAGAAAGTACAAAAAATTACAAGAGAA
* * *
12230733 TACTATAAAATATGAGGAAGTACTAAAAAA
1 TATTAAAAAATATGAGAAAGTAC-AAAAAA
12230763 ACGAGAAAGT
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
40 20 0.34
41 38 0.66
ACGTcount: A:0.59, C:0.05, G:0.14, T:0.22
Consensus pattern (40 bp):
TATTAAAAAATATGAGAAAGTACAAAAAATTACAAGAGAA
Found at i:12230819 original size:20 final size:20
Alignment explanation
Indices: 12230248--12230820 Score: 145
Period size: 20 Copynumber: 29.2 Consensus size: 20
12230238 GATGATGTAT
**
12230248 AAAAAATTATGAGGAAGTATA
1 AAAAAA-TATGAGGAAGTACC
*
12230269 AAAAAATATGAGGAATTACC
1 AAAAAATATGAGGAAGTACC
* * *
12230289 AAAAATTATGAGGGAGTGCC
1 AAAAAATATGAGGAAGTACC
* * *
12230309 -AAAACT-T-A-GATGTATC
1 AAAAAATATGAGGAAGTACC
*
12230325 -AAAAATCACGAGGGAA-TACC
1 AAAAAAT-ATGA-GGAAGTACC
12230345 AAAAAAATATGAGGAAGTA-C
1 -AAAAAATATGAGGAAGTACC
*
12230365 AAAAAATTATGAGGGA-TACC
1 AAAAAA-TATGAGGAAGTACC
* * *
12230385 AAAAAATACGAGGATGCA-C
1 AAAAAATATGAGGAAGTACC
* * *
12230404 AAAAAATTATGAAGATGTA-T
1 AAAAAA-TATGAGGAAGTACC
*
12230424 AAAACATTATGAGAGAA-TA-C
1 AAAA-AATATGAG-GAAGTACC
* *
12230444 -AAAAA-ACGAGGGAA-TACT
1 AAAAAATATGA-GGAAGTACC
*
12230462 AAAAAA-ATTGA-GAAGTA-A
1 AAAAAATA-TGAGGAAGTACC
*
12230480 AAAAAATTATGAGAGAA-TACT
1 AAAAAA-TATGAG-GAAGTACC
* * * *
12230501 ATAAAATCTGAGAAAGTA-T
1 AAAAAATATGAGGAAGTACC
* * * *
12230520 AAAAAAAATGAAGATGTACT
1 AAAAAATATGAGGAAGTACC
* *
12230540 AAAAATTA-GAAGGATA-TATC
1 AAAAAATATG-AGGA-AGTACC
* * *
12230560 AAAACATACGAGGAAGTATC
1 AAAAAATATGAGGAAGTACC
*
12230580 AAAAGATTATGAGAGAA-TACC
1 AAAA-AATATGAG-GAAGTACC
* **
12230601 AAAAACA-AAGA-G-AGTATAA
1 AAAAA-ATATGAGGAAGTA-CC
*
12230620 AAAAAATATGAGGATGT---
1 AAAAAATATGAGGAAGTACC
* * **
12230637 -AAAAATATGATGATGTATT
1 AAAAAATATGAGGAAGTACC
* * *
12230656 AAAAATTATGAGAAAATACC
1 AAAAAATATGAGGAAGTACC
* * **
12230676 AAAAATTACGAGGGAA-TATTA
1 AAAAAATATGA-GGAAGTA-CC
* *
12230697 AAAAAATAAGAGAAAGTA-C
1 AAAAAATATGAGGAAGTACC
* *
12230716 AAAAAATTATAAGAGAA-TACT
1 AAAAAA-TATGAG-GAAGTACC
* *
12230737 ATAAAATATGAGGAAGTACT
1 AAAAAATATGAGGAAGTACC
* *
12230757 AAAAAA-ACGAGAAAGTACC
1 AAAAAATATGAGGAAGTACC
* *
12230776 AAAAATTATGAAGGAA-TACA
1 AAAAAATATG-AGGAAGTACC
12230796 AAAAAATATGAGGAAGTACC
1 AAAAAATATGAGGAAGTACC
12230816 AAAAA
1 AAAAA
12230821 TTGTAAGGGG
Statistics
Matches: 405, Mismatches: 95, Indels: 105
0.67 0.16 0.17
Matches are distributed among these distances:
16 24 0.06
17 10 0.02
18 16 0.04
19 95 0.23
20 187 0.46
21 64 0.16
22 9 0.02
ACGTcount: A:0.56, C:0.07, G:0.17, T:0.20
Consensus pattern (20 bp):
AAAAAATATGAGGAAGTACC
Found at i:12240782 original size:21 final size:21
Alignment explanation
Indices: 12240757--12240862 Score: 79
Period size: 21 Copynumber: 5.0 Consensus size: 21
12240747 TGAGCTTCAG
*
12240757 TTAACTCATATGAGTTTCCGT
1 TTAACTCCTATGAGTTTCCGT
* *
12240778 TTAAC-CCTAATGGGTTTCAGT
1 TTAACTCCT-ATGAGTTTCCGT
* * * * *
12240799 TCAGCTCCTTTGAGCTTCAGT
1 TTAACTCCTATGAGTTTCCGT
* *
12240820 TTAACTCCTATGGGTTTTCGT
1 TTAACTCCTATGAGTTTCCGT
* * *
12240841 TTAGCTCATATGAGCTTCCGT
1 TTAACTCCTATGAGTTTCCGT
12240862 T
1 T
12240863 CAACCCTTAT
Statistics
Matches: 63, Mismatches: 20, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
20 2 0.03
21 58 0.92
22 3 0.05
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.42
Consensus pattern (21 bp):
TTAACTCCTATGAGTTTCCGT
Found at i:12240864 original size:63 final size:62
Alignment explanation
Indices: 12240747--12240864 Score: 139
Period size: 63 Copynumber: 1.9 Consensus size: 62
12240737 TTAGCTTTCA
* * *
12240747 TGAGCTTCAGTTAACTCATATGAGTTTCCGTTTAACCCTAATGGGTTTCAGTTCAGCTCCTT
1 TGAGCTTCAGTTAACTCATATGAGTTTCCGTTTAACCATAATGAGCTTCAGTTCAGCTCCTT
* * * * *
12240809 TGAGCTTCAGTTTAACTCCTATGGGTTTTCGTTTAGCTCAT-ATGAGCTTCCGTTCA
1 TGAGCTTCAG-TTAACTCATATGAGTTTCCGTTTAAC-CATAATGAGCTTCAGTTCA
12240865 ACCCTTATAG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
62 10 0.22
63 34 0.74
64 2 0.04
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (62 bp):
TGAGCTTCAGTTAACTCATATGAGTTTCCGTTTAACCATAATGAGCTTCAGTTCAGCTCCTT
Done.