Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 158 of 161
Found at i:49242846 original size:14 final size:14
Alignment explanation
Indices: 49242827--49242856 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
49242817 GTCATTTAGG
49242827 CCAACCAAACTGGC
1 CCAACCAAACTGGC
49242841 CCAACCAAACTGGC
1 CCAACCAAACTGGC
49242855 CC
1 CC
49242857 GGTGATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.47, G:0.13, T:0.07
Consensus pattern (14 bp):
CCAACCAAACTGGC
Found at i:49245336 original size:18 final size:18
Alignment explanation
Indices: 49245313--49245349 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
49245303 TTACTTTTAT
*
49245313 TATTATTGTTATTGGTAC
1 TATTATTATTATTGGTAC
*
49245331 TATTATTATTTTTGGTAC
1 TATTATTATTATTGGTAC
49245349 T
1 T
49245350 TCCCTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.59
Consensus pattern (18 bp):
TATTATTATTATTGGTAC
Found at i:49249947 original size:23 final size:23
Alignment explanation
Indices: 49249920--49249964 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
49249910 TTATCTGCTA
* *
49249920 GGAGCAGTCTGTGCTTTTGATAG
1 GGAGCAGTCTATGCCTTTGATAG
*
49249943 GGAGCAGTGTATGCCTTTGATA
1 GGAGCAGTCTATGCCTTTGATA
49249965 CATATCGAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.13, G:0.33, T:0.33
Consensus pattern (23 bp):
GGAGCAGTCTATGCCTTTGATAG
Found at i:49252213 original size:32 final size:32
Alignment explanation
Indices: 49252177--49252237 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
49252167 ATAGACTTAG
* *
49252177 CTAACTTTAATGTAAAAATGTGACTGAATTGT
1 CTAACTTGAATGTAAAAATGAGACTGAATTGT
*
49252209 CTAACTTGAATGTAAAAATGAGGCTGAAT
1 CTAACTTGAATGTAAAAATGAGACTGAAT
49252238 AAGTTTAACG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (32 bp):
CTAACTTGAATGTAAAAATGAGACTGAATTGT
Found at i:49255946 original size:261 final size:261
Alignment explanation
Indices: 49255482--49255993 Score: 911
Period size: 261 Copynumber: 2.0 Consensus size: 261
49255472 AATTGTTACC
*
49255482 TAACCATATACTATTCGTCAGAATTATAACATAAGCCCATATTCCTTCTCTCTGCCATTTTTGCC
1 TAACCATATACTATTCGTCAGAATTATAACATAAGCCCATATTCCTTCTCTCTACCATTTTTGCC
* *
49255547 CATATCTTTAAAAAAGTGGCTAGATTATTTATCGATTTTGCTTCAATAGTTCCCCTAACATATTT
66 CATATCTTTAAAAAAGTGGCTAGATGATTTATCGATTTTGCTTCAATAGTTCCCCTAACATATTG
49255612 CTGCCTTTAGAAAGTTGGGTGCCAAAATCGTTATATCCACAGGGAATTTGAAACTGCCCTCATTA
131 CTGCCTTTAGAAAGTTGGGTGCCAAAATCGTTATATCCACAGGGAATTTGAAACTGCCCTCATTA
*
49255677 CCTTGCCAAGTTCCTTTACGATTATTTTTGACACATAGCATTTGCTACTTCTGTTCGTCAGAATT
196 CCTTGCCAAATTCCTTTACGATTATTTTTGACACATAGCATTTGCTACTTCTGTTCGTCAGAATT
49255742 A
261 A
*
49255743 TAACCATATACTGA-TCGTCAGAATTATAACATAAGCCCTTCA-TCCTTCTCTCTACCATTTTTG
1 TAACCATATACT-ATTCGTCAGAATTATAACATAAGCCCAT-ATTCCTTCTCTCTACCATTTTTG
*
49255806 CCCATATCTTTAAAAAAGTGGCTAGATGATTTATTGATTTTGCTTCAATAGTTCCCCTAACATAT
64 CCCATATCTTTAAAAAAGTGGCTAGATGATTTATCGATTTTGCTTCAATAGTTCCCCTAACATAT
* * *
49255871 TGCTGCCTTTAGAAAGTTGGGTGCCAAAATTGTTATATCCACAGGGAATTTGTAACTTCCCTCAT
129 TGCTGCCTTTAGAAAGTTGGGTGCCAAAATCGTTATATCCACAGGGAATTTGAAACTGCCCTCAT
49255936 TACCTTGCCAAATTCCTTTACGATTATTTTTGACACATAGCATTTGCTACTTCTGTTC
194 TACCTTGCCAAATTCCTTTACGATTATTTTTGACACATAGCATTTGCTACTTCTGTTC
49255994 ATAGGCACTA
Statistics
Matches: 240, Mismatches: 9, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
261 238 0.99
262 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (261 bp):
TAACCATATACTATTCGTCAGAATTATAACATAAGCCCATATTCCTTCTCTCTACCATTTTTGCC
CATATCTTTAAAAAAGTGGCTAGATGATTTATCGATTTTGCTTCAATAGTTCCCCTAACATATTG
CTGCCTTTAGAAAGTTGGGTGCCAAAATCGTTATATCCACAGGGAATTTGAAACTGCCCTCATTA
CCTTGCCAAATTCCTTTACGATTATTTTTGACACATAGCATTTGCTACTTCTGTTCGTCAGAATT
A
Found at i:49261673 original size:3 final size:3
Alignment explanation
Indices: 49261665--49261721 Score: 98
Period size: 3 Copynumber: 19.3 Consensus size: 3
49261655 CGCTATTAGT
*
49261665 ATA ATA AT- ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
49261712 ATA ATA ATA A
1 ATA ATA ATA A
49261722 AGCATATTTA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
2 2 0.04
3 50 0.96
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:49263665 original size:19 final size:20
Alignment explanation
Indices: 49263627--49263665 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
49263617 TTTATCACGA
**
49263627 GTATCGATACCCTTATTTGG
1 GTATCGATACCCAAATTTGG
49263647 GTATCGATA-CCAAATTTGG
1 GTATCGATACCCAAATTTGG
49263666 TTGCTGTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (20 bp):
GTATCGATACCCAAATTTGG
Found at i:49281165 original size:29 final size:31
Alignment explanation
Indices: 49281108--49281166 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
49281098 GGTTGGGATG
* * *
49281108 GGAAGGGAGTAAAAGTTTTGGGGGGAAAGTA
1 GGAAGGGAGTAAAAGTTTTGAGAGAAAAGTA
49281139 GGAA-GGAGT-AAAGTTTTGAGAGAAAAGT
1 GGAAGGGAGTAAAAGTTTTGAGAGAAAAGT
49281167 CAAAAGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.64
30 5 0.20
31 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (31 bp):
GGAAGGGAGTAAAAGTTTTGAGAGAAAAGTA
Found at i:49285014 original size:15 final size:16
Alignment explanation
Indices: 49284992--49285042 Score: 70
Period size: 15 Copynumber: 3.2 Consensus size: 16
49284982 AATAAATAGT
49284992 TAATAATAAAATGATA
1 TAATAATAAAATGATA
*
49285008 TAA-AATAAAATAATA
1 TAATAATAAAATGATA
49285023 -AATAATAAAAATGATA
1 TAATAAT-AAAATGATA
49285039 TAAT
1 TAAT
49285043 GATTTACATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 2 0.07
15 14 0.47
16 11 0.37
17 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (16 bp):
TAATAATAAAATGATA
Found at i:49290717 original size:3 final size:3
Alignment explanation
Indices: 49290709--49290738 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
49290699 GGGGTGGGGG
49290709 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
49290739 GGGATTAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:49291841 original size:5 final size:5
Alignment explanation
Indices: 49291831--49291856 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
49291821 TGACGAAGAG
49291831 AGGGA AGGGA AGGGA AGGGA AGGGA A
1 AGGGA AGGGA AGGGA AGGGA AGGGA A
49291857 ACCTGAGTAA
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:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (5 bp):
AGGGA
Found at i:49292629 original size:6 final size:6
Alignment explanation
Indices: 49292618--49292657 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
49292608 AACTTTAGAA
*
49292618 AGAGGG AGAGGG AGAGGG AGAGGG AGTGGG AGAGGG AGAG
1 AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAG
49292658 CAACATGGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.33, C:0.00, G:0.65, T:0.03
Consensus pattern (6 bp):
AGAGGG
Found at i:49296961 original size:156 final size:156
Alignment explanation
Indices: 49296677--49296988 Score: 529
Period size: 156 Copynumber: 2.0 Consensus size: 156
49296667 TCGATATCAA
*
49296677 ATGTAAGCTCAAATAAACATGTCATGGAACGATGGTATGTAAATGATATATCAATTCATAGCATG
1 ATGTAAGCTCAAATAAACATGTCATGGAACAATGGTATGTAAATGATATATCAATTCATAGCATG
*
49296742 ATACCATTGAGAATTCCAAAGTCTTAAGCCTAAGTAAAAATATTAATCTTATATCCTAAGTCTAA
66 ATACCATCGAGAATTCCAAAGTCTTAAGCCTAAGTAAAAATATTAATCTTATATCCTAAGTCTAA
* *
49296807 -TCCTAATTCTAATTGTAGTTCTAAAC
131 GT-CTAATCCTAATTCTAGTTCTAAAC
* *
49296833 ATGTAAGCTCAAATAAACATGTCATGGAACAATGGTATGT-ATTGATATATTAATTCATAGCATG
1 ATGTAAGCTCAAATAAACATGTCATGGAACAATGGTATGTAAATGATATATCAATTCATAGCATG
49296897 ATACCATCGAGAATTCCAAAGTCTTTAAGCCTAAGTAAAAATATTAATCTTATATCCTAAGTCTA
66 ATACCATCGAGAATTCCAAAGTC-TTAAGCCTAAGTAAAAATATTAATCTTATATCCTAAGTCTA
*
49296962 AGTTTAATCCTAATTCTAGTTCTAAAC
130 AGTCTAATCCTAATTCTAGTTCTAAAC
49296989 CTAGTTTTGT
Statistics
Matches: 147, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
155 44 0.30
156 102 0.69
157 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (156 bp):
ATGTAAGCTCAAATAAACATGTCATGGAACAATGGTATGTAAATGATATATCAATTCATAGCATG
ATACCATCGAGAATTCCAAAGTCTTAAGCCTAAGTAAAAATATTAATCTTATATCCTAAGTCTAA
GTCTAATCCTAATTCTAGTTCTAAAC
Found at i:49297055 original size:36 final size:36
Alignment explanation
Indices: 49296964--49297058 Score: 95
Period size: 36 Copynumber: 2.6 Consensus size: 36
49296954 TAAGTCTAAG
* * * * *
49296964 TTTAATCCTAATTCTAGTTCTAAACCTAGTTTTGTT
1 TTTAATCCTAATTCTAATTCTAAACCTAATCTAGTA
* *
49297000 TTTAATCCTAAGTT-GAATTCTAAACTTAATGCTAG-A
1 TTTAATCCTAA-TTCTAATTCTAAACCTAAT-CTAGTA
49297036 TTTAATCCTAATTCTAATTCTAA
1 TTTAATCCTAATTCTAATTCTAA
49297059 TTTTATAAAC
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
35 2 0.04
36 42 0.88
37 4 0.08
ACGTcount: A:0.32, C:0.16, G:0.07, T:0.45
Consensus pattern (36 bp):
TTTAATCCTAATTCTAATTCTAAACCTAATCTAGTA
Found at i:49303899 original size:41 final size:42
Alignment explanation
Indices: 49303835--49303938 Score: 124
Period size: 41 Copynumber: 2.5 Consensus size: 42
49303825 ACATAAAATT
*
49303835 TGCTAGGC-ATAAAGCCT-AGTATAATACACCAGC-ACAGAGCC
1 TGCTAGGCAAT-AAGCCTGA-TATAATACACCAGCAACAAAGCC
* * *
49303876 TTCTAGGCAATAAGCCTGATATAATACACCGGCATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCAGCA-ACAAAGCC
49303919 TGCTAGGCAATAAGCCTGAT
1 TGCTAGGCAATAAGCCTGAT
49303939 TATACAATCA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
41 26 0.48
42 3 0.06
43 25 0.46
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (42 bp):
TGCTAGGCAATAAGCCTGATATAATACACCAGCAACAAAGCC
Found at i:49305021 original size:41 final size:41
Alignment explanation
Indices: 49304983--49305142 Score: 257
Period size: 41 Copynumber: 3.9 Consensus size: 41
49304973 TAAAGCCTAG
* * *
49304983 TATAATACACCAGCACAGAGCCTGCTAGGCAATAAGCCTGA
1 TATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCTTGA
*
49305024 TATAATACACCGGCATATAAGGCCTGCTAGGCAATAAGCTTGA
1 TATAATACACCGGCACA-AA-GCCTGCTAGGCAATAAGCTTGA
49305067 TATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCTTGA
1 TATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCTTGA
*
49305108 TATAATACACTGGCACAAAGCCTGCTAGGCAATAA
1 TATAATACACCGGCACAAAGCCTGCTAGGCAATAA
49305143 AGCCCGAATA
Statistics
Matches: 111, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
41 71 0.64
42 3 0.03
43 37 0.33
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (41 bp):
TATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCTTGA
Found at i:49305109 original size:84 final size:82
Alignment explanation
Indices: 49304983--49305142 Score: 257
Period size: 84 Copynumber: 1.9 Consensus size: 82
49304973 TAAAGCCTAG
* *
49304983 TATAATACACCAGCACAGAGCCTGCTAGGCAATAAGCCTGATATAATACACCGGCATATAAGGCC
1 TATAATACACCAGCACAAAGCCTGCTAGGCAATAAGCCTGATATAATACACCGGCACA-AA-GCC
49305048 TGCTAGGCAATAAGCTTGA
64 TGCTAGGCAATAAGCTTGA
* * *
49305067 TATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCTTGATATAATACACTGGCACAAAGCCTG
1 TATAATACACCAGCACAAAGCCTGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTG
49305132 CTAGGCAATAA
66 CTAGGCAATAA
49305143 AGCCCGAATA
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
82 16 0.23
83 2 0.03
84 53 0.75
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (82 bp):
TATAATACACCAGCACAAAGCCTGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTG
CTAGGCAATAAGCTTGA
Found at i:49307888 original size:23 final size:24
Alignment explanation
Indices: 49307844--49307888 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
49307834 CTTCTGACGT
49307844 GGAGAAATAAGGAAGGTGAGAGAA
1 GGAGAAATAAGGAAGGTGAGAGAA
*
49307868 GGAGAAATAAGG-TGGTGAGAG
1 GGAGAAATAAGGAAGGTGAGAG
49307889 GGCATGGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.11
Consensus pattern (24 bp):
GGAGAAATAAGGAAGGTGAGAGAA
Found at i:49310149 original size:13 final size:13
Alignment explanation
Indices: 49310131--49310172 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
49310121 GTTTTGTATA
49310131 TTTCTCGAAAGTT
1 TTTCTCGAAAGTT
*
49310144 TTTCTCGAAATTT
1 TTTCTCGAAAGTT
49310157 TTTCTCGAAAGTT
1 TTTCTCGAAAGTT
49310170 TTT
1 TTT
49310173 TGATCTCCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.52
Consensus pattern (13 bp):
TTTCTCGAAAGTT
Found at i:49315884 original size:18 final size:19
Alignment explanation
Indices: 49315844--49315885 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
49315834 GCAAATGAAT
*
49315844 CATTTCTCAGTTTCATTTT
1 CATTTCTCAGTTTCATTTC
49315863 CATTTC-CA-TTTCAATTTC
1 CATTTCTCAGTTTC-ATTTC
49315881 CATTT
1 CATTT
49315886 TGATAAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 11 0.52
19 6 0.29
ACGTcount: A:0.19, C:0.24, G:0.02, T:0.55
Consensus pattern (19 bp):
CATTTCTCAGTTTCATTTC
Found at i:49330939 original size:21 final size:23
Alignment explanation
Indices: 49330903--49330947 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
49330893 TATTAACATG
*
49330903 CCTAAACTCTTATACAA-GTATT
1 CCTAAACTCATATACAATGTATT
49330925 CCTAAA-TCATATACAATGTATT
1 CCTAAACTCATATACAATGTATT
49330947 C
1 C
49330948 TAATAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (23 bp):
CCTAAACTCATATACAATGTATT
Found at i:49333239 original size:51 final size:51
Alignment explanation
Indices: 49333155--49333257 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 51
49333145 ACTCTTTCCT
* * *
49333155 TAAGGTTAAGAGGAAAACAAAATTGCTTAATTTGATACATAGTGATTTATG
1 TAAGGTTAAAAGGAAAACAAAAATACTTAATTTGATACATAGTGATTTATG
*
49333206 TAAGGTTAAAAGGAAAACAAAAATACTTGATTTGATACATAGTGATTTATG
1 TAAGGTTAAAAGGAAAACAAAAATACTTAATTTGATACATAGTGATTTATG
49333257 T
1 T
49333258 CACATGCATA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.33
Consensus pattern (51 bp):
TAAGGTTAAAAGGAAAACAAAAATACTTAATTTGATACATAGTGATTTATG
Found at i:49335133 original size:141 final size:140
Alignment explanation
Indices: 49334811--49335609 Score: 965
Period size: 141 Copynumber: 5.7 Consensus size: 140
49334801 TTATGGGGCA
* * * *
49334811 ACACTTTCTTAAGTGTTGGGATAGAC-TGGCCAACATACGCTTTAGCCAACTTTTTGTATAAAGG
1 ACACTTTCTTAAGTGTTGGGATAGACAT-GCCAATATACGCTTTAGGCAACTCTTTGTATAAGGG
* * * * * * *
49334875 TTGGGATATGCATGCTTAAAGCAATGCTTAAATAAGAGTTGGCTTTGTCTAGCCCTAAGACGACA
65 TTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGGTTTTGTGTAGTCCTAAGACGACA
* *
49334940 CTATAATGACG
130 CTATTATGGCG
* * * * *
49334951 ACTCTTTTTTAACTGTTGCGATAGACATGCCAAGATACGCTTTAGGCAACTCTTTGTATAAGGGT
1 ACACTTTCTTAAGTGTTGGGATAGACATGCCAATATACGCTTTAGGCAACTCTTTGTATAAGGGT
* *
49335016 TGAGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGTTTTTGTGTAGTCCTAAGACGACA
66 TGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGG-TTTTGTGTAGTCCTAAGACGACA
*
49335081 CTATTTTGGCG
130 CTATTATGGCG
* *
49335092 ACACTTTCTTATGTGTTGGGATAGACATGCCAATATACGCTTTAAGCAACTCTTTGTATAAGGGT
1 ACACTTTCTTAAGTGTTGGGATAGACATGCCAATATACGCTTTAGGCAACTCTTTGTATAAGGGT
*
49335157 TGGGATATGTATGCCTAAGGCAACGCTGAAATAAGAGTTGGCTTTTGTGTAGTCCTAAGACGACA
66 TGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGG-TTTTGTGTAGTCCTAAGACGACA
*
49335222 CTATTGTGGCG
130 CTATTATGGCG
*
49335233 ACACTTTCTTAAGTGTTGGGATATACATGCCAATATACGCTTTAGGCAACTCTTTGTATAAGGG-
1 ACACTTTCTTAAGTGTTGGGATAGACATGCCAATATACGCTTTAGGCAACTCTTTGTATAAGGGT
* * *
49335297 TGGGAATATGTATGCCTAAGGAAACGCTTGAATAAGAGTTGGCTTTTGTGTAGTCCTAAGACAAC
66 TGGG-ATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGG-TTTTGTGTAGTCCTAAGACGAC
*
49335362 ACTATTGTGGCG
129 ACTATTATGGCG
* * * *
49335374 ACACTTTCTTAAGTGTTGGGATAGACTTGCCAACT-TATG-TTTTGGCCAACTCTTTGTATAAGA
1 ACACTTTCTTAAGTGTTGGGATAGACATGCCAA-TATACGCTTTAGG-CAACTCTTTGTATAAGG
* * * * ** *
49335437 GTTGGTATATGTATGCCTAAGTCAACGCTTAAATAATAGTTGGATTTGTCCAGTCCTAAGACGAT
64 GTTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGGTTTTGTGTAGTCCTAAGACGAC
49335502 A-TA-TAT----
129 ACTATTATGGCG
* * * * * * *
49335508 ATA-TATTCCTAAGTGTTGGGATAGACTTTCCGACATACGCTTT-GGTCAACTTTTTGTATAAGG
1 ACACT-TTCTTAAGTGTTGGGATAGACATGCCAATATACGCTTTAGG-CAACTCTTTGTATAAGG
* * **
49335571 ATTGGGATATGTATGCTTAAGGCAAAACTTAAATAAGAG
64 GTTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAG
49335610 CCGGCTTTAT
Statistics
Matches: 579, Mismatches: 71, Indels: 24
0.86 0.11 0.04
Matches are distributed among these distances:
133 1 0.00
134 79 0.14
135 3 0.01
138 2 0.00
139 2 0.00
140 117 0.20
141 371 0.64
142 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (140 bp):
ACACTTTCTTAAGTGTTGGGATAGACATGCCAATATACGCTTTAGGCAACTCTTTGTATAAGGGT
TGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGGTTTTGTGTAGTCCTAAGACGACAC
TATTATGGCG
Found at i:49335761 original size:7 final size:7
Alignment explanation
Indices: 49335736--49335805 Score: 69
Period size: 7 Copynumber: 10.7 Consensus size: 7
49335726 CATATATAAG
49335736 GGGTTTA
1 GGGTTTA
*
49335743 GGGTGTA
1 GGGTTTA
*
49335750 TGGTTTA
1 GGGTTTA
49335757 GGGTTTA
1 GGGTTTA
*
49335764 TGGTTTA
1 GGGTTTA
49335771 GGGTTTA
1 GGGTTTA
*
49335778 GGG--TG
1 GGGTTTA
49335783 GGGTTTA
1 GGGTTTA
49335790 --G-TTA
1 GGGTTTA
49335794 GGGTTTA
1 GGGTTTA
49335801 GGGTT
1 GGGTT
49335806 AAGAGTTAGC
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
4 3 0.06
5 5 0.10
6 1 0.02
7 41 0.82
ACGTcount: A:0.13, C:0.00, G:0.44, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:49336832 original size:35 final size:35
Alignment explanation
Indices: 49336786--49336884 Score: 126
Period size: 35 Copynumber: 2.8 Consensus size: 35
49336776 GAAAACCAAT
* *
49336786 TGCATCTGCCGTCCACAACCTGCTCCAGGCACTAG
1 TGCATCTGCCGTCCACCACCTGCTCCAGCCACTAG
* * * *
49336821 TGCATCTGCCGTTCACCACCTGATCCACCCACTGG
1 TGCATCTGCCGTCCACCACCTGCTCCAGCCACTAG
* *
49336856 TGCATTTGTCGTCCACCACCTGCTCCAGC
1 TGCATCTGCCGTCCACCACCTGCTCCAGC
49336885 TACTGGCATT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 53 1.00
ACGTcount: A:0.17, C:0.41, G:0.18, T:0.23
Consensus pattern (35 bp):
TGCATCTGCCGTCCACCACCTGCTCCAGCCACTAG
Found at i:49338552 original size:12 final size:12
Alignment explanation
Indices: 49338535--49338560 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49338525 ACCTTGTAGA
49338535 CAGGGCCAAAGC
1 CAGGGCCAAAGC
49338547 CAGGGCCAAAGC
1 CAGGGCCAAAGC
49338559 CA
1 CA
49338561 CCTTGCCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.35, G:0.31, T:0.00
Consensus pattern (12 bp):
CAGGGCCAAAGC
Found at i:49346074 original size:23 final size:18
Alignment explanation
Indices: 49346028--49346067 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
49346018 TTTTTGCATA
49346028 TGATTTCCATGAGTGCAG
1 TGATTTCCATGAGTGCAG
49346046 TGATTTCCATGAGTGCAG
1 TGATTTCCATGAGTGCAG
49346064 TGAT
1 TGAT
49346068 AAAATTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.35
Consensus pattern (18 bp):
TGATTTCCATGAGTGCAG
Found at i:49350116 original size:45 final size:45
Alignment explanation
Indices: 49350052--49350138 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
49350042 CAGTTGTCTC
* *
49350052 ATAATTTTTTGGTGTCATGGGAATCAAGTCGACAAAATGTTTTGT
1 ATAATTTTTTGATATCATGGGAATCAAGTCGACAAAATGTTTTGT
* *
49350097 ATAATTTTTTGATATCATGGGAATCAAGTTGACAACATGTTT
1 ATAATTTTTTGATATCATGGGAATCAAGTCGACAAAATGTTT
49350139 GCAACGTTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (45 bp):
ATAATTTTTTGATATCATGGGAATCAAGTCGACAAAATGTTTTGT
Found at i:49350612 original size:73 final size:73
Alignment explanation
Indices: 49350493--49350960 Score: 479
Period size: 73 Copynumber: 6.4 Consensus size: 73
49350483 TGTAAATAGG
* * * * * * *
49350493 TCTATCCCAACATTTTTAACGTTGTCTTAGATAGGTCAATACCAACCTTTTTTAAAAGTTACCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGATGGGTCTATCCCAACCTTTTTTAAAAGTTGCCTT
**
49350558 AGATGAGA
66 AGACAAGA
* * * * * * * *
49350566 TTTATCTCAACCTTTTTAAGGTTACCTTAGATGGGTTTATCACAACCTTTTTTAAAGGTTTCATT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGATGGGTCTATCCCAACCTTTTTTAAAAGTTGCCTT
*
49350631 AGACAATA
66 AGACAAGA
* ** * * ** *
49350639 TTTATCCCAACCTTTCCAAGGTTGCTTTAAATGGACCTATGCCAACCTTTTTTAAAAGTTGCCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGATGGGTCTATCCCAACCTTTTTTAAAAGTTGCCTT
*
49350704 AGACAAGG
66 AGACAAGA
* * * * *
49350712 TCCATCCCAACCATTTTAATGTTGCCTTAGATGGGTCTATCCCAACATTTTTTAAAGGTTGCCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGATGGGTCTATCCCAACCTTTTTTAAAAGTTGCCTT
* *
49350777 AGACATGG
66 AGACAAGA
* * * * *
49350785 TCTATCCCAACCTATCTAAGGTTGCCTTAGATAGGTCTATCCCAACCTTTTTTTATAAGTTGTCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGATGGGTCTATCCCAACC-TTTTTTAAAAGTTGCCT
*
49350850 TAGACAAGG
65 TAGACAAGA
* * * **
49350859 TCTATACCAACCTTTTTAAGGTTGCCTTAGACGGATCTATCCCAACAGTTTTT-AAAGTTGCCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGATGGGTCTATCCCAACCTTTTTTAAAAGTTGCCTT
49350923 AGACAAGA
66 AGACAAGA
* ** *
49350931 ACTATAGCAACCTTTTTAATGTTGCCTTAG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAG
49350961 CAAGGGGTCT
Statistics
Matches: 322, Mismatches: 72, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
72 43 0.13
73 217 0.67
74 62 0.19
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (73 bp):
TCTATCCCAACCTTTTTAAGGTTGCCTTAGATGGGTCTATCCCAACCTTTTTTAAAAGTTGCCTT
AGACAAGA
Found at i:49350737 original size:36 final size:36
Alignment explanation
Indices: 49350447--49350965 Score: 226
Period size: 36 Copynumber: 14.3 Consensus size: 36
49350437 TTAAGTTACA
* * * *
49350447 TTAGAAAAGGTCTATCCTAACCTTTTTTAGTGTTG-C
1 TTAGACAAGGTCTATCCCAACCATTTTAAG-GTTGCC
* *
49350483 TGTA-A-ATAGGTCTATCCCAA-CATTTTTAACGTTGTC
1 T-TAGACA-AGGTCTATCCCAACCA-TTTTAAGGTTGCC
* * * * * *
49350519 TTAGA-TAGGTCAATACCAACCTTTTTTAAAAGTTACC
1 TTAGACAAGGTCTATCCCAACC-ATTTT-AAGGTTGCC
** * * * * *
49350556 TTAGATGAGATTTATCTCAACCTTTTTAAGGTTACC
1 TTAGACAAGGTCTATCCCAACCATTTTAAGGTTGCC
** * * * * *
49350592 TTAGA-TGGGTTTATCACAACCTTTTTTAAAGGTTTCA
1 TTAGACAAGGTCTATCCCAACC-ATTTT-AAGGTTGCC
** * * *
49350629 TTAGACAATATTTATCCCAACC-TTTCCAAGGTTGCT
1 TTAGACAAGGTCTATCCCAACCATTT-TAAGGTTGCC
* * * * *
49350665 TTA-A-ATGGACCTATGCCAACCTTTTTTAAAAGTTGCC
1 TTAGACAAGG-TCTATCCCAACC-ATTTT-AAGGTTGCC
* *
49350702 TTAGACAAGGTCCATCCCAACCATTTTAATGTTGCC
1 TTAGACAAGGTCTATCCCAACCATTTTAAGGTTGCC
**
49350738 TTAGA-TGGGTCTATCCCAA-CATTTTTTAAAGGTTGCC
1 TTAGACAAGGTCTATCCCAACCA--TTTT-AAGGTTGCC
* *
49350775 TTAGACATGGTCTATCCCAACC-TATCTAAGGTTGCC
1 TTAGACAAGGTCTATCCCAACCAT-TTTAAGGTTGCC
* * * *
49350811 TTAGA-TAGGTCTATCCCAACCTTTTTTTATAAGTTGTC
1 TTAGACAAGGTCTATCCCAACC--ATTTTA-AGGTTGCC
* *
49350849 TTAGACAAGGTCTATACCAACCTTTTTAAGGTTGCC
1 TTAGACAAGGTCTATCCCAACCATTTTAAGGTTGCC
*
49350885 TTAGAC--GGATCTATCCCAA-CAGTTTTTAAAGTTGCC
1 TTAGACAAGG-TCTATCCCAACCA--TTTTAAGGTTGCC
** ** * *
49350921 TTAGACAAGAACTATAGCAACCTTTTTAATGTTGCC
1 TTAGACAAGGTCTATCCCAACCATTTTAAGGTTGCC
49350957 TTAG-CAAGG
1 TTAGACAAGG
49350966 GGTCTCACAT
Statistics
Matches: 374, Mismatches: 73, Indels: 73
0.72 0.14 0.14
Matches are distributed among these distances:
34 6 0.02
35 79 0.21
36 136 0.36
37 78 0.21
38 57 0.15
39 18 0.05
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (36 bp):
TTAGACAAGGTCTATCCCAACCATTTTAAGGTTGCC
Found at i:49350918 original size:219 final size:219
Alignment explanation
Indices: 49350490--49350960 Score: 531
Period size: 219 Copynumber: 2.2 Consensus size: 219
49350480 TGCTGTAAAT
* * *
49350490 AGGTCTATCCCAA-CATTTTTAACGTTGTCTTAGATAGGTCAATACCAACCTTTTTTAAAAGTTA
1 AGGTCTATCCCAACCA-TTTTAATGTTGCCTTAGATAGGTCAATACCAACATTTTTTAAAAGTTA
* * * * * *
49350554 CCTTAGATGAGATTTATCTCAACCTTTTTAAGGTTACCTTAGATGGGTTTATCACAACCTTTTTT
65 CCTTAGATGAGATCTATCCCAACCTATCTAAGGTTACCTTAGATAGGTCTATCACAACCTTTTTT
* * * * * *
49350619 AAAGGTTTCATTAGACAATATTTATCCCAACCTTTCCAAGGTTGCTTTAAATGGACCTATGCCAA
130 AAAGGTTTCATTAGACAAGATCTATACCAACCTTTCCAAGGTTGCCTTAAACGGACCTATCCCAA
**
49350684 CCTTTTTTAAAAGTTGCCTTAGACA
195 CAGTTTTTAAAAGTTGCCTTAGACA
* * * * * *
49350709 AGGTCCATCCCAACCATTTTAATGTTGCCTTAGATGGGTCTATCCCAACATTTTTTAAAGGTTGC
1 AGGTCTATCCCAACCATTTTAATGTTGCCTTAGATAGGTCAATACCAACATTTTTTAAAAGTTAC
* *
49350774 CTTAGACATG-G-TCTATCCCAACCTATCTAAGGTTGCCTTAGATAGGTCTATCCCAACCTTTTT
66 CTTAG--ATGAGATCTATCCCAACCTATCTAAGGTTACCTTAGATAGGTCTATCACAACC-TTTT
* ** * *
49350837 TTATAA-GTTGTC-TTAGACAAGGTCTATACCAACCTTTTTAAGGTTGCCTTAGACGGATCTATC
128 TTA-AAGGTT-TCATTAGACAAGATCTATACCAACCTTTCCAAGGTTGCCTTAAACGGACCTATC
49350900 CCAACAGTTTTT-AAAGTTGCCTTAGACA
191 CCAACAGTTTTTAAAAGTTGCCTTAGACA
** ** *
49350928 AGAACTATAGCAACCTTTTTAATGTTGCCTTAG
1 AGGTCTATCCCAACCATTTTAATGTTGCCTTAG
49350961 CAAGGGGTCT
Statistics
Matches: 210, Mismatches: 36, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
219 140 0.67
220 63 0.30
221 7 0.03
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.37
Consensus pattern (219 bp):
AGGTCTATCCCAACCATTTTAATGTTGCCTTAGATAGGTCAATACCAACATTTTTTAAAAGTTAC
CTTAGATGAGATCTATCCCAACCTATCTAAGGTTACCTTAGATAGGTCTATCACAACCTTTTTTA
AAGGTTTCATTAGACAAGATCTATACCAACCTTTCCAAGGTTGCCTTAAACGGACCTATCCCAAC
AGTTTTTAAAAGTTGCCTTAGACA
Found at i:49355108 original size:19 final size:19
Alignment explanation
Indices: 49355080--49355126 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
49355070 ATTCAAACGT
*
49355080 CGTCTTGACGCCAGTTTCA
1 CGTCTCGACGCCAGTTTCA
49355099 CGTCTCGACGCCAGTTTCA
1 CGTCTCGACGCCAGTTTCA
49355118 CGTCTCGAC
1 CGTCTCGAC
49355127 AACGTTCGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.15, C:0.36, G:0.21, T:0.28
Consensus pattern (19 bp):
CGTCTCGACGCCAGTTTCA
Found at i:49368414 original size:34 final size:33
Alignment explanation
Indices: 49368334--49368428 Score: 109
Period size: 34 Copynumber: 2.8 Consensus size: 33
49368324 TGTGTTTGCA
49368334 TACTGTACTGAAATGGGCTAAGGCCCAGACTGC
1 TACTGTACTGAAATGGGCTAAGGCCCAGACTGC
* * * *
49368367 CACTAATACTGAAATGGGCTCAGGCCCAGACTGT
1 TACT-GTACTGAAATGGGCTAAGGCCCAGACTGC
*
49368401 TACTGCTATTGAAAAATGGGCTAAGGCC
1 TACTG-TACTG--AAATGGGCTAAGGCC
49368429 TTTAACTGAA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
33 3 0.06
34 33 0.66
36 14 0.28
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.22
Consensus pattern (33 bp):
TACTGTACTGAAATGGGCTAAGGCCCAGACTGC
Found at i:49371599 original size:39 final size:39
Alignment explanation
Indices: 49371541--49371645 Score: 131
Period size: 39 Copynumber: 2.7 Consensus size: 39
49371531 TTTAGTGATG
* * *
49371541 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
*
49371580 TATATCCGGACTTAAGGTCCACAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
* * *
49371619 TATGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATATCCGGACTTAAGGT-CCGCAGGCT
49371646 TCGAGCTAGT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 5 0.09
39 52 0.91
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
Found at i:49376770 original size:26 final size:24
Alignment explanation
Indices: 49376741--49376820 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 24
49376731 CCATGATCGA
**
49376741 TAAGCTCCTCCTCAGCTGATGAACAG
1 TAAGCTCCTAATCAGCTGA--AACAG
*
49376767 TAAGCT-CTAATGAGCTGAAACAG
1 TAAGCTCCTAATCAGCTGAAACAG
* *
49376790 TAAGCTCC-AATGAGCTGAAAATAG
1 TAAGCTCCTAATCAGCTG-AAACAG
49376814 TAAGCTC
1 TAAGCTC
49376821 TTACGAGCTG
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
23 20 0.42
24 13 0.27
25 9 0.19
26 6 0.12
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (24 bp):
TAAGCTCCTAATCAGCTGAAACAG
Found at i:49376791 original size:23 final size:24
Alignment explanation
Indices: 49376762--49376830 Score: 95
Period size: 23 Copynumber: 2.9 Consensus size: 24
49376752 TCAGCTGATG
49376762 AACAGTAAGCTCTAATGAGCTG-A
1 AACAGTAAGCTCTAATGAGCTGAA
*
49376785 AACAGTAAGCTCCAATGAGCTGAA
1 AACAGTAAGCTCTAATGAGCTGAA
* * *
49376809 AATAGTAAGCTCTTACGAGCTG
1 AACAGTAAGCTCTAATGAGCTG
49376831 TGGTGAGTCC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 21 0.52
24 19 0.47
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (24 bp):
AACAGTAAGCTCTAATGAGCTGAA
Found at i:49378431 original size:20 final size:20
Alignment explanation
Indices: 49378360--49378448 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 20
49378350 AGGGGAACTG
* *
49378360 AAGTGCAAAAAGGGGCA-CA
1 AAGTGCAAACAGAGGCACCA
*
49378379 AATGTGCAAACA-AGG-ATCCTG
1 AA-GTGCAAACAGAGGCA-CC-A
* * *
49378400 AAGTGTATACAGGGGCACCA
1 AAGTGCAAACAGAGGCACCA
*
49378420 AAGTGCAAACAGAGACACCA
1 AAGTGCAAACAGAGGCACCA
49378440 AAGTGCAAA
1 AAGTGCAAA
49378449 TCCCGTACAA
Statistics
Matches: 53, Mismatches: 11, Indels: 11
0.71 0.15 0.15
Matches are distributed among these distances:
18 1 0.02
19 4 0.08
20 41 0.77
21 6 0.11
22 1 0.02
ACGTcount: A:0.44, C:0.19, G:0.26, T:0.11
Consensus pattern (20 bp):
AAGTGCAAACAGAGGCACCA
Found at i:49378553 original size:47 final size:47
Alignment explanation
Indices: 49378484--49378578 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
49378474 CTATTAGCAT
49378484 TCCAATAGTATCCTAATCGTTTACTATGTCTAAACGAGCATTTTAAC
1 TCCAATAGTATCCTAATCGTTTACTATGTCTAAACGAGCATTTTAAC
*
49378531 TCCAATAGTATCCTAATCGTTTACTATGTCTAAATGAGCATTTTAAC
1 TCCAATAGTATCCTAATCGTTTACTATGTCTAAACGAGCATTTTAAC
49378578 T
1 T
49378579 AACTTATAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (47 bp):
TCCAATAGTATCCTAATCGTTTACTATGTCTAAACGAGCATTTTAAC
Found at i:49380668 original size:6 final size:6
Alignment explanation
Indices: 49380657--49380741 Score: 125
Period size: 6 Copynumber: 14.2 Consensus size: 6
49380647 TGGGGGTAGG
49380657 ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT
1 ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT
* * * * *
49380705 ATTTGT ATCTGT ATCTGT ATATGC ATTTGT ATATGT A
1 ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT A
49380742 ACTGATTTGT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 73 1.00
ACGTcount: A:0.20, C:0.04, G:0.16, T:0.60
Consensus pattern (6 bp):
ATTTGT
Found at i:49394401 original size:7 final size:7
Alignment explanation
Indices: 49394389--49394416 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
49394379 AGTTAAAAAA
49394389 TTTTAAG
1 TTTTAAG
49394396 TTTTAAG
1 TTTTAAG
49394403 TTTTAAG
1 TTTTAAG
49394410 TTTTAAG
1 TTTTAAG
49394417 CGGTGAGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (7 bp):
TTTTAAG
Found at i:49397693 original size:31 final size:29
Alignment explanation
Indices: 49397638--49397701 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 29
49397628 GCACTTACGT
* *
49397638 ACATGAAACTTTAGTTATGGTTCAAATGTAC
1 ACATGAAACTTTAATTATGATTC-AAT-TAC
* *
49397669 ACATTAAACTTTAATTTTGATTCAATTAC
1 ACATGAAACTTTAATTATGATTCAATTAC
49397698 ACAT
1 ACAT
49397702 ATTTAAAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 7 0.24
30 3 0.10
31 19 0.66
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (29 bp):
ACATGAAACTTTAATTATGATTCAATTAC
Found at i:49403226 original size:57 final size:57
Alignment explanation
Indices: 49403111--49403227 Score: 164
Period size: 57 Copynumber: 2.1 Consensus size: 57
49403101 AATTTGCACT
** * *
49403111 TGTAATTTACAGCTGTTGTCAAAACATCTCTTAATGTGCATATTTATGCTTTCCAAA
1 TGTAATTTACAGCTACTGTCAAAACATCTCTTAATGCGCATATTTATGCTTTCAAAA
* *
49403168 TGTAATTTACAGCTACTGTCATAATATCTCTTAATGCGCATATTTATG-TTGTCAAAA
1 TGTAATTTACAGCTACTGTCAAAACATCTCTTAATGCGCATATTTATGCTT-TCAAAA
49403225 TGT
1 TGT
49403228 GAATAATGAC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
56 2 0.04
57 51 0.96
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (57 bp):
TGTAATTTACAGCTACTGTCAAAACATCTCTTAATGCGCATATTTATGCTTTCAAAA
Found at i:49406396 original size:43 final size:43
Alignment explanation
Indices: 49406330--49406422 Score: 159
Period size: 43 Copynumber: 2.1 Consensus size: 43
49406320 TACTTATATC
* *
49406330 ATAGTACGGGACTCAGATGATGCTCTTGTCTATTTCCCTTGAAA
1 ATAG-ACGGGACTCAGATGATGCTCTCGTCTATTTCCCTTAAAA
49406374 ATAGACGGGACTCAGATGATGCTCTCGTCTATTTCCCTTAAAA
1 ATAGACGGGACTCAGATGATGCTCTCGTCTATTTCCCTTAAAA
49406417 ATAGAC
1 ATAGAC
49406423 TCATTAAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
43 43 0.91
44 4 0.09
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (43 bp):
ATAGACGGGACTCAGATGATGCTCTCGTCTATTTCCCTTAAAA
Found at i:49411464 original size:21 final size:22
Alignment explanation
Indices: 49411440--49411486 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
49411430 GGTTTTCTTC
49411440 TTCCAT-TAATTTTTTTAGTTT
1 TTCCATGTAATTTTTTTAGTTT
* *
49411461 TTCCTTGTAATTTTTTTATTTT
1 TTCCATGTAATTTTTTTAGTTT
49411483 TTCC
1 TTCC
49411487 TCGTATTTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.15, C:0.13, G:0.04, T:0.68
Consensus pattern (22 bp):
TTCCATGTAATTTTTTTAGTTT
Found at i:49411471 original size:22 final size:22
Alignment explanation
Indices: 49411446--49411487 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
49411436 CTTCTTCCAT
49411446 TAATTTTTTTAGTTTTTCCTTG
1 TAATTTTTTTAGTTTTTCCTTG
*
49411468 TAATTTTTTTATTTTTTCCT
1 TAATTTTTTTAGTTTTTCCT
49411488 CGTATTTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.10, G:0.05, T:0.71
Consensus pattern (22 bp):
TAATTTTTTTAGTTTTTCCTTG
Found at i:49412146 original size:20 final size:20
Alignment explanation
Indices: 49412103--49412147 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
49412093 GAAAGATATG
* * *
49412103 CAAATTTACAAAAATAATCG
1 CAAATTTACAAAAACAAGCA
*
49412123 CAAATTTACAAGAACAAGCA
1 CAAATTTACAAAAACAAGCA
49412143 CAAAT
1 CAAAT
49412148 GAAACTTAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.18, G:0.07, T:0.20
Consensus pattern (20 bp):
CAAATTTACAAAAACAAGCA
Found at i:49418301 original size:44 final size:45
Alignment explanation
Indices: 49418195--49418328 Score: 126
Period size: 46 Copynumber: 3.0 Consensus size: 45
49418185 ACAGGACAGA
* * * *
49418195 ACAGAAATGAGCCATGTAAGTCCCTATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * *
49418241 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
49418285 ACTGGAATAATTCATGTAAGTGCATGTCAAAGATATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
49418329 CAGTATATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 34 0.47
45 1 0.01
46 37 0.51
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:49420800 original size:20 final size:20
Alignment explanation
Indices: 49420756--49420801 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
49420746 ATGAAAATAC
49420756 ATATAAAAAAATAAAGATTT
1 ATATAAAAAAATAAAGATTT
49420776 A-ATAAAAAAATATAA-ATTT
1 ATATAAAAAAATA-AAGATTT
49420795 ATATAAA
1 ATATAAA
49420802 TTTAGTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
ATATAAAAAAATAAAGATTT
Found at i:49431379 original size:103 final size:104
Alignment explanation
Indices: 49431148--49431412 Score: 426
Period size: 103 Copynumber: 2.6 Consensus size: 104
49431138 TTGTACATAA
** * *
49431148 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTC
**
49431213 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
49431252 AGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
49431316 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* * *
49431355 AGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
49431413 AATAACGGTT
Statistics
Matches: 150, Mismatches: 9, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
103 84 0.56
104 66 0.44
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTC
TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:49445755 original size:10 final size:11
Alignment explanation
Indices: 49445714--49445755 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
49445704 GATTCATTCT
49445714 AAAATTATAAA
1 AAAATTATAAA
*
49445725 AAAA-CATAAA
1 AAAATTATAAA
49445735 AAAATTATAAA
1 AAAATTATAAA
49445746 AAAATT-TAAA
1 AAAATTATAAA
49445756 TTTATAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 13 0.46
11 15 0.54
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:49446104 original size:9 final size:9
Alignment explanation
Indices: 49446073--49446150 Score: 54
Period size: 9 Copynumber: 8.6 Consensus size: 9
49446063 AAACTATTCC
49446073 TTTTATAGA-
1 TTTTATA-AT
*
49446082 TTTTATAAAA
1 TTTTAT-AAT
*
49446092 TTTTATGAT
1 TTTTATAAT
*
49446101 TTTTA-ATT
1 TTTTATAAT
*
49446109 ATTTTATAAA
1 -TTTTATAAT
*
49446119 TTTTA-AGT
1 TTTTATAAT
49446127 TTTTCATAAT
1 TTTT-ATAAT
49446137 TTTTATAAT
1 TTTTATAAT
49446146 TTTTA
1 TTTTA
49446151 ATTTTTCTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
8 6 0.11
9 34 0.63
10 14 0.26
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:49446112 original size:18 final size:19
Alignment explanation
Indices: 49446073--49446123 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
49446063 AAACTATTCC
49446073 TTTTATAGATTTTATAAAA
1 TTTTATAGATTTTATAAAA
*
49446092 TTTTAT-GATTTT-TAATTA
1 TTTTATAGATTTTATAA-AA
*
49446110 TTTTATAAATTTTA
1 TTTTATAGATTTTA
49446124 AGTTTTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.11
18 13 0.48
19 11 0.41
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTATAGATTTTATAAAA
Found at i:49446119 original size:27 final size:26
Alignment explanation
Indices: 49446073--49446156 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
49446063 AAACTATTCC
*
49446073 TTTT-ATAGATTTTATAAAATTTTATGAT
1 TTTTAATA-ATTTTAT-AAATTTTAAG-T
*
49446101 TTTTAATTATTTTATAAATTTTAAGT
1 TTTTAATAATTTTATAAATTTTAAGT
* *
49446127 TTTTCATAATTTTTATAATTTTTAA-T
1 TTTTAATAA-TTTTATAAATTTTAAGT
49446153 TTTT
1 TTTT
49446157 CTTATAATTC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
26 13 0.27
27 23 0.47
28 11 0.22
29 2 0.04
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (26 bp):
TTTTAATAATTTTATAAATTTTAAGT
Found at i:49447156 original size:23 final size:23
Alignment explanation
Indices: 49447121--49447164 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
49447111 ATATGAACAA
49447121 TATACAAAAGGATAACATATATG
1 TATACAAAAGGATAACATATATG
*
49447144 TATA-AAAACGGATAATATATA
1 TATACAAAA-GGATAACATATA
49447165 AATGATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.55, C:0.07, G:0.11, T:0.27
Consensus pattern (23 bp):
TATACAAAAGGATAACATATATG
Found at i:49447273 original size:13 final size:13
Alignment explanation
Indices: 49447255--49447279 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49447245 ACATATTTAT
49447255 ATGAAAATAATAA
1 ATGAAAATAATAA
49447268 ATGAAAATAATA
1 ATGAAAATAATA
49447280 TATATACAAA
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
ATGAAAATAATAA
Found at i:49447378 original size:27 final size:27
Alignment explanation
Indices: 49447344--49447463 Score: 81
Period size: 27 Copynumber: 4.5 Consensus size: 27
49447334 AAAGAAAGCC
49447344 AAAT-TATATATGAATA-ATTTTAAAGA
1 AAATATATATAT-AATAGATTTTAAAGA
* *
49447370 AAATATATATAAAAATA-A-ATTAGAAGA
1 AAATATATAT-ATAATAGATTTTA-AAGA
* * * *
49447397 AAATATTTACATAACAGATTTGAAAAGA
1 AAATATATATATAATAGATTT-TAAAGA
*
49447425 AAATATACAT-TAA-AGATTTTAAAGA
1 AAATATATATATAATAGATTTTAAAGA
* *
49447450 AACTATATAAATAA
1 AAATATATATATAA
49447464 AATACCATAG
Statistics
Matches: 72, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
25 12 0.17
26 20 0.28
27 26 0.36
28 13 0.18
29 1 0.01
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATATATATATAATAGATTTTAAAGA
Found at i:49447441 original size:26 final size:25
Alignment explanation
Indices: 49447393--49447456 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 25
49447383 AATAAATTAG
49447393 AAGAAAATATTTACATAACAGATTTGAA
1 AAGAAAATA--TACATAACAGATTT-AA
*
49447421 AAGAAAATATACATTAA-AGATTTTA
1 AAGAAAATATACA-TAACAGATTTAA
*
49447446 AAGAAACTATA
1 AAGAAAATATA
49447457 TAAATAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
25 11 0.33
26 10 0.30
27 3 0.09
28 9 0.27
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.28
Consensus pattern (25 bp):
AAGAAAATATACATAACAGATTTAA
Found at i:49447632 original size:15 final size:14
Alignment explanation
Indices: 49447593--49447633 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
49447583 TTTAAAAGAA
49447593 AATATATAAAATAAT
1 AATATATAAAA-AAT
49447608 AATA-AT-AAAAAT
1 AATATATAAAAAAT
49447620 AATATATACAAAAA
1 AATATATA-AAAAA
49447634 CATAATATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 7 0.30
13 5 0.22
14 2 0.09
15 9 0.39
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (14 bp):
AATATATAAAAAAT
Found at i:49452123 original size:23 final size:23
Alignment explanation
Indices: 49452097--49452141 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
49452087 TTAAAATTTG
*
49452097 AATTATTTAATGATAATATTTAA
1 AATTACTTAATGATAATATTTAA
*
49452120 AATTACTTAGTGATAATATTTA
1 AATTACTTAATGATAATATTTA
49452142 GGAAAAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (23 bp):
AATTACTTAATGATAATATTTAA
Found at i:49460876 original size:32 final size:27
Alignment explanation
Indices: 49460810--49460861 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
49460800 TCTGCAAGTC
49460810 TTGATGTT-TTCGTTTTCTTTCAATCT
1 TTGATGTTGTTCGTTTTCTTTCAATCT
49460836 TT-A-GTTGTTCTGTTTTCTTTCAATCT
1 TTGATGTTGTTC-GTTTTCTTTCAATCT
49460862 GTAGTTGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 3 0.12
25 4 0.17
26 17 0.71
ACGTcount: A:0.12, C:0.15, G:0.12, T:0.62
Consensus pattern (27 bp):
TTGATGTTGTTCGTTTTCTTTCAATCT
Found at i:49461075 original size:49 final size:49
Alignment explanation
Indices: 49460989--49461084 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 49
49460979 TATAAACAAG
* * *
49460989 GGCTAAAATTATTGAATTACTGATTTTAGGATCAAATTGATAAAATGAA
1 GGCTAAAATTATTGAATTACTGATTTCAAGATAAAATTGATAAAATGAA
* *
49461038 GGCTAAAATTATTGAATT-TTTAGTTTCAAGATAAAATTGATAAAATG
1 GGCTAAAATTATTGAATTACTGA-TTTCAAGATAAAATTGATAAAATG
49461085 TGTAAACATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
48 2 0.05
49 39 0.95
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.36
Consensus pattern (49 bp):
GGCTAAAATTATTGAATTACTGATTTCAAGATAAAATTGATAAAATGAA
Found at i:49462120 original size:3 final size:3
Alignment explanation
Indices: 49462114--49462173 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
49462104 CAACAGCAAC
* *
49462114 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG TAG AAG ATG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
49462162 AAG AAG AAG AAG
1 AAG AAG AAG AAG
49462174 CGCCAAAACC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:49463240 original size:3 final size:3
Alignment explanation
Indices: 49463232--49463271 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
49463222 TCAGGGACTT
* * *
49463232 ATG ATG ATG ATG ATA ATA ATG ATG ATG ATG ATA ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
49463272 CATGGGACGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:49463255 original size:15 final size:15
Alignment explanation
Indices: 49463235--49463271 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
49463225 GGGACTTATG
49463235 ATGATGATGATAATA
1 ATGATGATGATAATA
*
49463250 ATGATGATGATGATA
1 ATGATGATGATAATA
49463265 ATGATGA
1 ATGATGA
49463272 CATGGGACGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.24, T:0.32
Consensus pattern (15 bp):
ATGATGATGATAATA
Found at i:49463255 original size:18 final size:18
Alignment explanation
Indices: 49463232--49463271 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
49463222 TCAGGGACTT
49463232 ATGATGATGATGATAATA
1 ATGATGATGATGATAATA
*
49463250 ATGATGATGATGATAATG
1 ATGATGATGATGATAATA
49463268 ATGA
1 ATGA
49463272 CATGGGACGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
ATGATGATGATGATAATA
Found at i:49463576 original size:2 final size:2
Alignment explanation
Indices: 49463569--49463595 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
49463559 ATACTTTAGA
49463569 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
49463596 AAAAAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:49468393 original size:41 final size:41
Alignment explanation
Indices: 49468340--49468423 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
49468330 AATTGGAATG
49468340 TTAGCATATATGTGATAACATGACAATATTAGAGCTAGGAA
1 TTAGCATATATGTGATAACATGACAATATTAGAGCTAGGAA
*
49468381 TTAGGATATATGTGATAACATGACAATATTAGAGCTAGGAA
1 TTAGCATATATGTGATAACATGACAATATTAGAGCTAGGAA
49468422 TT
1 TT
49468424 GGTTGTTTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.31
Consensus pattern (41 bp):
TTAGCATATATGTGATAACATGACAATATTAGAGCTAGGAA
Found at i:49469344 original size:32 final size:32
Alignment explanation
Indices: 49469300--49469363 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
49469290 AGGTTGAGTA
*
49469300 TATTATTTATTTCGGTTAATTACCCGATTTTG
1 TATTATTAATTTCGGTTAATTACCCGATTTTG
49469332 TATTATTAATTTCGGTTAATTACCCGATTTTG
1 TATTATTAATTTCGGTTAATTACCCGATTTTG
49469364 AACCAAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.52
Consensus pattern (32 bp):
TATTATTAATTTCGGTTAATTACCCGATTTTG
Found at i:49483100 original size:18 final size:18
Alignment explanation
Indices: 49483079--49483126 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
49483069 ATAAAATTTT
*
49483079 TAAAAAAATTTAAATATA
1 TAAAAAAATTTAAAAATA
** *
49483097 TAAATTAATATAAAAATA
1 TAAAAAAATTTAAAAATA
49483115 TAAAAAAATTTA
1 TAAAAAAATTTA
49483127 CATCAAGAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAAAAATTTAAAAATA
Found at i:49486956 original size:23 final size:22
Alignment explanation
Indices: 49486908--49486973 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
49486898 GCATTTTTGG
*
49486908 CACTTATGTGCAA-CATTCTGG
1 CACTTATGTGCAATCATTCTGA
* *
49486929 TACTTATGTGCAATTCAATCTGA
1 CACTTATGTGCAA-TCATTCTGA
49486952 CACTT-TAGTGCAAATCATTCTG
1 CACTTAT-GTGC-AATCATTCTG
49486974 GTATCATACG
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
21 12 0.33
22 1 0.03
23 21 0.58
24 2 0.06
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (22 bp):
CACTTATGTGCAATCATTCTGA
Found at i:49489622 original size:30 final size:30
Alignment explanation
Indices: 49489588--49489649 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
49489578 CAACTTAACA
49489588 AACAAATACCTCTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
* *
49489618 AACAAATGCCTTTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
49489648 AA
1 AA
49489650 TAATAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.24
Consensus pattern (30 bp):
AACAAATACCTCTAAAATAATAACAAAATT
Found at i:49494864 original size:3 final size:3
Alignment explanation
Indices: 49494856--49494891 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
49494846 TCAACGATAG
49494856 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
49494892 GCCTTCCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:49499110 original size:20 final size:20
Alignment explanation
Indices: 49499085--49499123 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
49499075 ACATTTAACT
49499085 ATTTA-TGTGATATTATTAAA
1 ATTTATTGTGATATT-TTAAA
*
49499105 ATTTATTGTTATATTTTAA
1 ATTTATTGTGATATTTTAA
49499124 TTGATTCTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (20 bp):
ATTTATTGTGATATTTTAAA
Found at i:49502884 original size:22 final size:22
Alignment explanation
Indices: 49502856--49502897 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
49502846 GCGTTGAACC
49502856 TTCTTTTC-TTCTTTCTTTTTCT
1 TTCTTTTCTTTC-TTCTTTTTCT
49502878 TTCTTTTCTTTCTTCTTTTT
1 TTCTTTTCTTTCTTCTTTTT
49502898 ACTAAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (22 bp):
TTCTTTTCTTTCTTCTTTTTCT
Found at i:49502897 original size:13 final size:12
Alignment explanation
Indices: 49502859--49502897 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
49502849 TTGAACCTTC
49502859 TTTTCTTCTTTCT
1 TTTTCTTCTTT-T
49502872 TTTTCTTTCTTTT
1 TTTTC-TTCTTTT
*
49502885 CTTTCTTCTTTT
1 TTTTCTTCTTTT
49502897 T
1 T
49502898 ACTAAATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 7 0.30
13 10 0.43
14 6 0.26
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTCTTCTTTT
Found at i:49512315 original size:48 final size:49
Alignment explanation
Indices: 49512234--49512377 Score: 145
Period size: 48 Copynumber: 3.0 Consensus size: 49
49512224 TGTCATTAGG
* **
49512234 AGATA-CATTTATTTGGCTTCGGGCCATGATATTGGCACTTCAGGTGCGA
1 AGATATCATTGATTTGGCTTCAAGCCATGATATTGGCACTT-AGGTGCGA
* * *
49512283 A-CT-TCATTGATTTGGCTTCATGCCATGATATTGGCACTTTGGGTGC-A
1 AGATATCATTGATTTGGCTTCAAGCCATGATATTGGCAC-TTAGGTGCGA
* * *
49512330 AGATAT-ATTGAGTTGTCTTTAAGCCATGATATTGGCACTTAGTGTGCG
1 AGATATCATTGATTTGGCTTCAAGCCATGATATTGGCACTTAG-GTGCG
49512378 GGACTCCTGA
Statistics
Matches: 78, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
47 5 0.06
48 69 0.88
49 4 0.05
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (49 bp):
AGATATCATTGATTTGGCTTCAAGCCATGATATTGGCACTTAGGTGCGA
Found at i:49520183 original size:37 final size:37
Alignment explanation
Indices: 49520142--49520309 Score: 205
Period size: 37 Copynumber: 4.5 Consensus size: 37
49520132 GTATAGTTTG
* **
49520142 TATAAGCATCTGATGTGTTTACAGTTGGATTAGCTCT
1 TATAAGCATTTGGCGTGTTTACAGTTGGATTAGCTCT
* **
49520179 TATAAGTATTTGGCGTGTTTGTAGTTGGATTAGCTCT
1 TATAAGCATTTGGCGTGTTTACAGTTGGATTAGCTCT
* *
49520216 TATGAGCATTTGGCGTGTTTACGGTTGGATTAGCTCT
1 TATAAGCATTTGGCGTGTTTACAGTTGGATTAGCTCT
*
49520253 TATGAA-CATTTGGTGTG-TTATCAGTTGGATTAGCTCT
1 TAT-AAGCATTTGGCGTGTTTA-CAGTTGGATTAGCTCT
* *
49520290 TATGAGCGTTTGGCGTGTTT
1 TATAAGCATTTGGCGTGTTT
49520310 CGATTGGATT
Statistics
Matches: 110, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
36 4 0.04
37 103 0.94
38 3 0.03
ACGTcount: A:0.19, C:0.11, G:0.27, T:0.43
Consensus pattern (37 bp):
TATAAGCATTTGGCGTGTTTACAGTTGGATTAGCTCT
Found at i:49520244 original size:74 final size:74
Alignment explanation
Indices: 49520156--49520320 Score: 237
Period size: 74 Copynumber: 2.2 Consensus size: 74
49520146 AGCATCTGAT
* * *
49520156 GTGTTTACAGTTGGATTAGCTCTTAT-AAGTATTTGGCGTGTT-TGTAGTTGGATTAGCTCTTAT
1 GTGTTTACGGTTGGATTAGCTCTTATGAA-CATTTGGCGTGTTAT-CAGTTGGATTAGCTCTTAT
49520219 GAGCATTTGGC
64 GAGCATTTGGC
*
49520230 GTGTTTACGGTTGGATTAGCTCTTATGAACATTTGGTGTGTTATCAGTTGGATTAGCTCTTATGA
1 GTGTTTACGGTTGGATTAGCTCTTATGAACATTTGGCGTGTTATCAGTTGGATTAGCTCTTATGA
*
49520295 GCGTTTGGC
66 GCATTTGGC
*
49520304 GTGTTT-CGATTGGATTA
1 GTGTTTACGGTTGGATTA
49520321 CTTGTGTACT
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
73 10 0.12
74 70 0.84
75 3 0.04
ACGTcount: A:0.18, C:0.11, G:0.28, T:0.43
Consensus pattern (74 bp):
GTGTTTACGGTTGGATTAGCTCTTATGAACATTTGGCGTGTTATCAGTTGGATTAGCTCTTATGA
GCATTTGGC
Found at i:49522319 original size:24 final size:21
Alignment explanation
Indices: 49522290--49522341 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
49522280 ATTGATATTT
49522290 AAAGTTGTAATAAATTTTATTATG
1 AAAGTT-TAA-AAATTTT-TTATG
* *
49522314 CAAGTTTCAAAATTTTTTATG
1 AAAGTTTAAAAATTTTTTATG
49522335 AAAGTTT
1 AAAGTTT
49522342 TATTGTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 11 0.44
22 7 0.28
23 2 0.08
24 5 0.20
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (21 bp):
AAAGTTTAAAAATTTTTTATG
Found at i:49522339 original size:21 final size:22
Alignment explanation
Indices: 49522301--49522341 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
49522291 AAGTTGTAAT
*
49522301 AAATTTTATTATGCAAGTTTCA
1 AAATTTTATTATGAAAGTTTCA
49522323 AAATTTT-TTATGAAAGTTT
1 AAATTTTATTATGAAAGTTT
49522342 TATTGTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.49
Consensus pattern (22 bp):
AAATTTTATTATGAAAGTTTCA
Found at i:49525960 original size:339 final size:336
Alignment explanation
Indices: 49525335--49526011 Score: 1227
Period size: 339 Copynumber: 2.0 Consensus size: 336
49525325 GAATATCTGT
49525335 TTATCAACTTTCTCTTCAGTTTCAAATTCAATTCTTCATATGCATATGCATATGCATGTATATAT
1 TTATCAACTTTCTCTTCAGTTTCAAATTCAA-T-TTCATATGCATATGCATATGCATGTATATAT
*
49525400 ATACACACGTCTTCCATCTCATTCTCATTCTCATTCTCATGGCTGCTCTCTCCTATTCTTCTTCA
64 ATACACACGTCTTCCATCTCATTCTCATTCTCATTCTCATGGCTCCTCTCTCCTATTCTTCTTCA
49525465 AAGCCCATCTCTTCATCTTATCAAGCCCTTAATTATCGTCTTCTCTTGCTTTTGACTCTCCTTCC
129 AAGCCCATCTCTTCATCTTATCAAGCCCTTAATTATCGTCTTCTCTTGCTTTTGACTCTCCTTCC
49525530 ATTAACCGTTGCCTTCTTTGCTTTTATTCTCCAATGGCAAGGTGGTCTCATTGACCCCCTTCTTT
194 ATTAACCGTTGCCTTCTTTGCTTTTATTCTCCAATGGCAAGGTGGTCTCATTGACCCCCTTCTTT
49525595 CGTCTCCTGATCCTTTCCAGTTTCCCGGCATGGACTATCCTGGATCAAACTCTCGCCCCCATCGG
259 CGTCTCCTGATCCTTTCCAGTTTCCCGGCATGGACTATCCTGGATCAAACTCTCGCCCCCATCGG
49525660 CGCTCCGTTTCCG
324 CGCTCCGTTTCCG
*
49525673 TTATCTACTTTCTCTTCAGTTTCAAATTCAA-TTC-T-T-CATATGCATATGCATGTATATATAT
1 TTATCAACTTTCTCTTCAGTTTCAAATTCAATTTCATATGCATATGCATATGCATGTATATATAT
49525734 ACACACGTCTTCCATCTCTGTATCTCATCTCATTCTCATTCTCATGGCTCCTCTCTCCTATTCTT
66 ACACACGTCTTCCATCTC---A--T--TCTCATTCTCATTCTCATGGCTCCTCTCTCCTATTCTT
49525799 CTTCAAAGCCCATCTCTTCATCTTATCAAGCCCTTAATTATCGTCTTCTCTTGCTTTTGACTCTC
124 CTTCAAAGCCCATCTCTTCATCTTATCAAGCCCTTAATTATCGTCTTCTCTTGCTTTTGACTCTC
49525864 CTTCCATTAACCGTTGCCTTCTTTGCTTTTATTCTCCAATGGCAAGGTGGTCTCATTGACCCCCT
189 CTTCCATTAACCGTTGCCTTCTTTGCTTTTATTCTCCAATGGCAAGGTGGTCTCATTGACCCCCT
49525929 TCTTTCGTCTCCTGATCCTTTCCAGTTTCCCGGCATGGACTATCCTGGATCAAACTCTCGCCCCC
254 TCTTTCGTCTCCTGATCCTTTCCAGTTTCCCGGCATGGACTATCCTGGATCAAACTCTCGCCCCC
49525994 ATCGGCGCTCCGTTTCCG
319 ATCGGCGCTCCGTTTCCG
49526012 ATTGCGTCGA
Statistics
Matches: 330, Mismatches: 2, Indels: 13
0.96 0.01 0.04
Matches are distributed among these distances:
332 43 0.13
333 1 0.00
334 1 0.00
335 4 0.01
337 1 0.00
338 30 0.09
339 250 0.76
ACGTcount: A:0.18, C:0.32, G:0.11, T:0.39
Consensus pattern (336 bp):
TTATCAACTTTCTCTTCAGTTTCAAATTCAATTTCATATGCATATGCATATGCATGTATATATAT
ACACACGTCTTCCATCTCATTCTCATTCTCATTCTCATGGCTCCTCTCTCCTATTCTTCTTCAAA
GCCCATCTCTTCATCTTATCAAGCCCTTAATTATCGTCTTCTCTTGCTTTTGACTCTCCTTCCAT
TAACCGTTGCCTTCTTTGCTTTTATTCTCCAATGGCAAGGTGGTCTCATTGACCCCCTTCTTTCG
TCTCCTGATCCTTTCCAGTTTCCCGGCATGGACTATCCTGGATCAAACTCTCGCCCCCATCGGCG
CTCCGTTTCCG
Found at i:49532890 original size:88 final size:89
Alignment explanation
Indices: 49532722--49532898 Score: 225
Period size: 88 Copynumber: 2.0 Consensus size: 89
49532712 TGACTGTAAA
* ** * * *
49532722 GAAAAAGAACAAAGAAGGTTTGAAGCAAGCAACTTAGAGTAAGATGAATAAATATTTAGTTATCC
1 GAAAAAGAACAAAGAACGTTAAAAGCAAGCAACTTAGAGTAAGATGAAT-AACATCTAG-CATCC
*
49532787 TCTGGAGAATAAATTAGAAATTCTAT
64 TCTAGAGAATAAATTAGAAATTCTAT
*
49532813 GAAAAAGCACAAAGAACGTATAAAAGCAAG-AACTTAGAGTGAAGATGAAT-ACATCTA-CATCC
1 GAAAAAGAACAAAGAACGT-TAAAAGCAAGCAACTTAGAGT-AAGATGAATAACATCTAGCATCC
49532875 TCTAGAGAATAAATTAGAAATTCT
64 TCTAGAGAATAAATTAGAAATTCT
49532899 TAGTCAATAA
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
88 27 0.36
90 5 0.07
91 27 0.36
92 17 0.22
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (89 bp):
GAAAAAGAACAAAGAACGTTAAAAGCAAGCAACTTAGAGTAAGATGAATAACATCTAGCATCCTC
TAGAGAATAAATTAGAAATTCTAT
Found at i:49538980 original size:16 final size:17
Alignment explanation
Indices: 49538949--49538981 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
49538939 TTCATAAGTA
49538949 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
49538966 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
49538982 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:49539327 original size:46 final size:46
Alignment explanation
Indices: 49539262--49539535 Score: 388
Period size: 46 Copynumber: 6.0 Consensus size: 46
49539252 TTATCTTTGA
* * * *
49539262 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
*
49539308 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * *
49539354 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCACGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
49539400 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
49539446 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
49539492 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
49539536 ATCAGAGAGC
Statistics
Matches: 211, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 207 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:49542669 original size:27 final size:26
Alignment explanation
Indices: 49542609--49542670 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
49542599 ATTTTATTTT
49542609 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
49542635 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
49542663 ATTTTATT
1 ATTTTATT
49542671 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:49555421 original size:21 final size:19
Alignment explanation
Indices: 49555397--49555453 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
49555387 TTCTTTTAAA
*
49555397 AAATAATTAAAAAGTTAATAG
1 AAATTATTAAAAA-TT-ATAG
*
49555418 AAATTATTAATATATTATAG
1 AAATTATTAA-AAATTATAG
49555438 AAATTATT-AAAATTAT
1 AAATTATTAAAAATTAT
49555454 TAATTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 6 0.19
19 1 0.03
20 12 0.38
21 11 0.34
22 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
AAATTATTAAAAATTATAG
Found at i:49555434 original size:29 final size:28
Alignment explanation
Indices: 49555398--49555457 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
49555388 TCTTTTAAAA
49555398 AATAATTA-A-AAAGTTAATAGAAATTATT
1 AATAATTATAGAAA-TTAATA-AAATTATT
*
49555426 AATATATTATAGAAATTATTAAAATTATT
1 AATA-ATTATAGAAATTAATAAAATTATT
49555455 AAT
1 AAT
49555458 TTTTTTATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 4 0.14
29 15 0.54
30 6 0.21
31 3 0.11
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (28 bp):
AATAATTATAGAAATTAATAAAATTATT
Found at i:49555470 original size:29 final size:29
Alignment explanation
Indices: 49555418--49555485 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
49555408 AAGTTAATAG
*
49555418 AAATTATTAATATATTATAGAAATTATTA
1 AAATTATTAATATATTATAGAAATTATAA
* *
49555447 AAATTATTAATTTTTTTATA-AAATTATAA
1 AAATTATTAA-TATATTATAGAAATTATAA
*
49555476 AAAATATTAA
1 AAATTATTAA
49555486 AAAATGTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 27 0.79
30 7 0.21
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (29 bp):
AAATTATTAATATATTATAGAAATTATAA
Found at i:49556942 original size:16 final size:18
Alignment explanation
Indices: 49556912--49556954 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
49556902 AGAATTTATC
* *
49556912 AATTCTAAAATACT-AAT
1 AATTTTAAAAAACTAAAT
49556929 -ATTTTAAAAAACTAAAT
1 AATTTTAAAAAACTAAAT
49556946 AATTTTAAA
1 AATTTTAAA
49556955 TATTTTCACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 11 0.50
17 3 0.14
18 8 0.36
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTTTAAAAAACTAAAT
Found at i:49567722 original size:20 final size:18
Alignment explanation
Indices: 49567699--49567751 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
49567689 TTTTTTTATC
49567699 ATTTTTATACTTTTTAAATA
1 ATTTTTATA-TTTTTAAA-A
49567719 ATTTTTA-ATTTTTAAAA
1 ATTTTTATATTTTTAAAA
49567736 ATAATTTTATATTTTT
1 AT--TTTTATATTTTT
49567752 GAGTTTTCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 3 0.10
18 8 0.27
19 6 0.20
20 13 0.43
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTTATATTTTTAAAA
Found at i:49570060 original size:3 final size:3
Alignment explanation
Indices: 49570052--49570084 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
49570042 TTTCCCTACT
49570052 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
49570085 TGTCACTAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:49572411 original size:14 final size:14
Alignment explanation
Indices: 49572392--49572422 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
49572382 ATTGTTTTAG
*
49572392 TTTCTTTTTATTAT
1 TTTCTTTTTATCAT
49572406 TTTCTTTTTATCAT
1 TTTCTTTTTATCAT
49572420 TTT
1 TTT
49572423 ATTATTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTCTTTTTATCAT
Found at i:49580924 original size:16 final size:16
Alignment explanation
Indices: 49580903--49580935 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49580893 TAAAAGATTA
49580903 AAAGTAA-ATGATATAC
1 AAAGTAATAT-ATATAC
49580919 AAAGTAATATATATAC
1 AAAGTAATATATATAC
49580935 A
1 A
49580936 TGAAAAACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.58, C:0.06, G:0.09, T:0.27
Consensus pattern (16 bp):
AAAGTAATATATATAC
Found at i:49582546 original size:85 final size:84
Alignment explanation
Indices: 49582406--49582705 Score: 387
Period size: 84 Copynumber: 3.6 Consensus size: 84
49582396 GGAAGATGAT
* * * *
49582406 ATCTGTAATTTT-TAGCCTGTTACCCTATTGCTTAAGGGGTTAAGGCTCA-CTGTCTTTGATCTG
1 ATCTGT-ATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCTGTCTTTAATCTG
*
49582469 CTCCACTACTATTTAGGGATAAG
65 CTCCACTACTGTTTAGGG---AG
* * *
49582492 ATCTATATTTTTCAACCTGTTACCCTACTGCTTA-GGGGTTAAGGCTCATC-GTCTTTAATCTGC
1 ATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCTGTCTTTAATCTGC
49582555 TCCACTACTGTTTAGGGGAG
66 TCCACTACTGTTTA-GGGAG
* *
49582575 ATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCT--TGCTATCTTCAATCTG
1 ATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCAT-CTGTCTTTAATCTG
49582638 CTCCACTACTGTTTATGGGAG
65 CTCCACTACTGTTTA-GGGAG
**
49582659 ATCTGTATTTTCCAGCCTACTACCCTACTGCTTAGGGGGTTAAGGCT
1 ATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCT
49582706 TGCATCTTCA
Statistics
Matches: 194, Mismatches: 14, Indels: 14
0.87 0.06 0.06
Matches are distributed among these distances:
82 1 0.01
83 34 0.18
84 87 0.45
85 44 0.23
86 28 0.14
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (84 bp):
ATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCTGTCTTTAATCTGC
TCCACTACTGTTTAGGGAG
Found at i:49582564 original size:43 final size:43
Alignment explanation
Indices: 49582434--49582572 Score: 108
Period size: 43 Copynumber: 3.2 Consensus size: 43
49582424 GTTACCCTAT
*
49582434 TGCTTAAGGGGTTAAGGCTCA-CTGTCTTTGATCTGCTCCACTAC
1 TGCTT-AGGGGTTAAGGCTCATC-GTCTTTAATCTGCTCCACTAC
** * * * * * *
49582478 TATTTA-GGGATAA-GATCTAT-ATTTTTCAACCTGTTACC-CTAC
1 TGCTTAGGGGTTAAGGCTC-ATCGTCTTT-AATCTGCT-CCACTAC
49582520 TGCTTAGGGGTTAAGGCTCATCGTCTTTAATCTGCTCCACTAC
1 TGCTTAGGGGTTAAGGCTCATCGTCTTTAATCTGCTCCACTAC
*
49582563 TGTTTAGGGG
1 TGCTTAGGGG
49582573 AGATCTGTAT
Statistics
Matches: 69, Mismatches: 18, Indels: 17
0.66 0.17 0.16
Matches are distributed among these distances:
41 7 0.10
42 22 0.32
43 30 0.43
44 10 0.14
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.37
Consensus pattern (43 bp):
TGCTTAGGGGTTAAGGCTCATCGTCTTTAATCTGCTCCACTAC
Found at i:49582610 original size:40 final size:40
Alignment explanation
Indices: 49582551--49582696 Score: 111
Period size: 40 Copynumber: 3.5 Consensus size: 40
49582541 CGTCTTTAAT
*
49582551 CTGCT-CCACTACTGTTTAGGGGAGATCTGTATTTTCCAGC
1 CTGCTACC-CTACTGCTTAGGGGAGATCTGTATTTTCCAGC
* * * **
49582591 CTGTTACCCTACTGCTTAGGGG-GTTAAGGCTTGCTATCTT-CAAT
1 CTGCTACCCTACTGCTTAGGGGAG---A-TC-TG-TATTTTCCAGC
* *
49582635 CTGCT-CCACTACTGTTTATGGGAGATCTGTATTTTCCAGC
1 CTGCTACC-CTACTGCTTAGGGGAGATCTGTATTTTCCAGC
*
49582675 CTACTACCCTACTGCTTAGGGG
1 CTGCTACCCTACTGCTTAGGGG
49582697 GTTAAGGCTT
Statistics
Matches: 79, Mismatches: 16, Indels: 22
0.68 0.14 0.19
Matches are distributed among these distances:
39 6 0.08
40 37 0.47
41 5 0.06
42 2 0.03
43 3 0.04
44 20 0.25
45 6 0.08
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (40 bp):
CTGCTACCCTACTGCTTAGGGGAGATCTGTATTTTCCAGC
Found at i:49582964 original size:44 final size:44
Alignment explanation
Indices: 49582915--49583056 Score: 144
Period size: 44 Copynumber: 3.2 Consensus size: 44
49582905 GCTACCTCAG
* *
49582915 AGAGATAAGGTCGGTGGCTAAAATCTACTCCATAGCCGATACAT
1 AGAGATAAGGTCGGTTGCTAAAATCTGCTCCATAGCCGATACAT
* * * * *
49582959 AGAGATAAGACTCGCCATTTCT--GATCTGCTCCATAGTCGATACAT
1 AGAGATAAG-GTCG--GTTGCTAAAATCTGCTCCATAGCCGATACAT
* * *
49583004 GGAGATAAAGTCGGTTGCTAAAATTTGCTCCATAGCCGATACAT
1 AGAGATAAGGTCGGTTGCTAAAATCTGCTCCATAGCCGATACAT
*
49583048 GGAGATAAG
1 AGAGATAAG
49583057 ATCTGTAATT
Statistics
Matches: 77, Mismatches: 16, Indels: 10
0.75 0.16 0.10
Matches are distributed among these distances:
42 4 0.05
44 40 0.52
45 30 0.39
47 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (44 bp):
AGAGATAAGGTCGGTTGCTAAAATCTGCTCCATAGCCGATACAT
Found at i:49582967 original size:177 final size:177
Alignment explanation
Indices: 49582657--49583011 Score: 527
Period size: 177 Copynumber: 2.0 Consensus size: 177
49582647 TGTTTATGGG
* * * * *
49582657 AGATCTGTATTTTCCAGCCTACTACCCTACTGCTTAGGGGGTTAAGGCTTGCATCTTCAATCTAC
1 AGATATGTATTTTCCAGCCTACTAACCTACTGCTCAGGGGGTTAAGGCTCGCATCTTCAACCTAC
* ** *
49582722 TCTCTTGCTACCTTAGAGAGATAAGACTGGTGGCTAAAATCTGTTCCATAGCTGATACATAGAGA
66 TCTCTTGCTACCTCAGAGAGATAAGACTGGTGGCTAAAATCTACTCCATAGCCGATACATAGAGA
49582787 TAAGACTCGCCATTT-TCGATCTGCTCCATAGCCGATACATGGAGATA
131 TAAGACTCGCCATTTCT-GATCTGCTCCATAGCCGATACATGGAGATA
* * * *
49582834 AGATATGTAATTTT-CAGCCTATTAACCTACTGCTCAGGGGGTTAAGGCTCGTATCTTTAACCTG
1 AGATATGT-ATTTTCCAGCCTACTAACCTACTGCTCAGGGGGTTAAGGCTCGCATCTTCAACCTA
*
49582898 CTCTCTTGCTACCTCAGAGAGATAAG-GTCGGTGGCTAAAATCTACTCCATAGCCGATACATAGA
65 CTCTCTTGCTACCTCAGAGAGATAAGACT-GGTGGCTAAAATCTACTCCATAGCCGATACATAGA
*
49582962 GATAAGACTCGCCATTTCTGATCTGCTCCATAGTCGATACATGGAGATA
129 GATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATA
49583011 A
1 A
49583012 AGTCGGTTGC
Statistics
Matches: 160, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
176 1 0.01
177 153 0.96
178 6 0.04
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (177 bp):
AGATATGTATTTTCCAGCCTACTAACCTACTGCTCAGGGGGTTAAGGCTCGCATCTTCAACCTAC
TCTCTTGCTACCTCAGAGAGATAAGACTGGTGGCTAAAATCTACTCCATAGCCGATACATAGAGA
TAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATA
Found at i:49583311 original size:64 final size:64
Alignment explanation
Indices: 49583185--49583312 Score: 177
Period size: 64 Copynumber: 2.0 Consensus size: 64
49583175 GCTTATGCCG
* ** * * **
49583185 AATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAGCTAGATGTGATGTTTATGTCA
1 AATAATTAGGATGCTATGATCAAAATGAATCAAATAATCCTAACTAGATGTGATATGAATGTCA
49583249 AATAATTAGGATGCTATGATCAAAATGAATCAAATAATCCTAACTAGATGT-ACTATGAATGTCA
1 AATAATTAGGATGCTATGATCAAAATGAATCAAATAATCCTAACTAGATGTGA-TATGAATGTCA
49583313 TTGGTATGAA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
63 1 0.02
64 55 0.98
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.31
Consensus pattern (64 bp):
AATAATTAGGATGCTATGATCAAAATGAATCAAATAATCCTAACTAGATGTGATATGAATGTCA
Found at i:49584003 original size:48 final size:47
Alignment explanation
Indices: 49583948--49584038 Score: 137
Period size: 48 Copynumber: 1.9 Consensus size: 47
49583938 CCCTTTGGTC
*
49583948 TCAAAGCGCCCTTTGCTGGTTTTCACCTTGGCCTCTCCATTTTTTTTT
1 TCAAAGCGCCCTTTGCGGGTTTTCACCTTGGCCTCTCC-TTTTTTTTT
* * *
49583996 TCAAAGCGCCCTTTTCGGGTTTTCGCCTTGGCCTTTCCTTTTT
1 TCAAAGCGCCCTTTGCGGGTTTTCACCTTGGCCTCTCCTTTTT
49584039 CAGGTGAAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 5 0.13
48 34 0.87
ACGTcount: A:0.09, C:0.30, G:0.16, T:0.45
Consensus pattern (47 bp):
TCAAAGCGCCCTTTGCGGGTTTTCACCTTGGCCTCTCCTTTTTTTTT
Found at i:49596291 original size:16 final size:16
Alignment explanation
Indices: 49596270--49596302 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49596260 TAAAAGATTA
49596270 AAAGTAA-ATGATATAC
1 AAAGTAATAT-ATATAC
49596286 AAAGTAATATATATAC
1 AAAGTAATATATATAC
49596302 A
1 A
49596303 TGAAAAACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.58, C:0.06, G:0.09, T:0.27
Consensus pattern (16 bp):
AAAGTAATATATATAC
Found at i:49599077 original size:18 final size:19
Alignment explanation
Indices: 49599054--49599091 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
49599044 TCTCCAATTA
*
49599054 AAATAA-ACATGATATAAT
1 AAATAACACATGATAAAAT
*
49599072 AAATAACTCATGATAAAAT
1 AAATAACACATGATAAAAT
49599091 A
1 A
49599092 TACCTGAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.61, C:0.08, G:0.05, T:0.26
Consensus pattern (19 bp):
AAATAACACATGATAAAAT
Found at i:49599363 original size:22 final size:24
Alignment explanation
Indices: 49599337--49599390 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
49599327 TTATAAATGC
*
49599337 AATTTAAAAGATA-TAAT-ACAAT
1 AATTTAAAACATATTAATAACAAT
*
49599359 AATTTAAAACATATTTAATAATAAT
1 AATTTAAAACATA-TTAATAACAAT
49599384 AATTTAA
1 AATTTAA
49599391 TTATAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 12 0.44
24 4 0.15
25 11 0.41
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (24 bp):
AATTTAAAACATATTAATAACAAT
Found at i:49601360 original size:12 final size:13
Alignment explanation
Indices: 49601331--49601360 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
49601321 ATAATGTCAA
49601331 AAATTAAATATAC
1 AAATTAAATATAC
49601344 AAATTAAATAT-C
1 AAATTAAATATAC
49601356 AAATT
1 AAATT
49601361 TTAGCATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (13 bp):
AAATTAAATATAC
Found at i:49610280 original size:16 final size:18
Alignment explanation
Indices: 49610241--49610282 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
49610231 TAAGTTTATA
49610241 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
49610258 ATTTTTATATATTATG-T
1 ATATTTATATATTATGTT
49610275 A-ATTTATA
1 ATATTTATA
49610283 ACATATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:49610418 original size:16 final size:16
Alignment explanation
Indices: 49610373--49610420 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
49610363 TAAAACATTG
*
49610373 AATAAATAAAAAT-AT
1 AATAATTAAAAATAAT
* *
49610388 ATTAATTTAAAATAAT
1 AATAATTAAAAATAAT
49610404 AATAATTAAAAATAAT
1 AATAATTAAAAATAAT
49610420 A
1 A
49610421 TGAATGGATC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 10 0.37
16 17 0.63
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAATTAAAAATAAT
Found at i:49611100 original size:19 final size:18
Alignment explanation
Indices: 49611065--49611113 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
49611055 TCTCTTTCAA
49611065 TAAAAA-TTATGAAAAATT
1 TAAAAATTTAT-AAAAATT
49611083 TAAAATATTTATAAAAATT
1 TAAAA-ATTTATAAAAATT
*
49611102 TCAAAATTTATA
1 TAAAAATTTATA
49611114 TTTTTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 12 0.43
19 12 0.43
20 4 0.14
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (18 bp):
TAAAAATTTATAAAAATT
Found at i:49612915 original size:2 final size:2
Alignment explanation
Indices: 49612908--49612949 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
49612898 TAAGCTTCAA
49612908 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
49612950 CACCATTTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:49613618 original size:6 final size:6
Alignment explanation
Indices: 49613607--49613632 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
49613597 ATGTATAGAC
49613607 ACATGT ACATGT ACATGT ACATGT AC
1 ACATGT ACATGT ACATGT ACATGT AC
49613633 TCAACTGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (6 bp):
ACATGT
Found at i:49628058 original size:21 final size:20
Alignment explanation
Indices: 49628032--49628082 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
49628022 CTATTTTCTC
* *
49628032 ATTAAAATTTATTTTTAAATT
1 ATTAAAATTTATATCT-AATT
*
49628053 ATTAAAATTAATATCTAATT
1 ATTAAAATTTATATCTAATT
49628073 A-TAAAATTTA
1 ATTAAAATTTA
49628083 ATTTAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 8 0.31
20 5 0.19
21 13 0.50
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTAAAATTTATATCTAATT
Found at i:49628090 original size:31 final size:29
Alignment explanation
Indices: 49628054--49628126 Score: 76
Period size: 32 Copynumber: 2.4 Consensus size: 29
49628044 TTTTAAATTA
*
49628054 TTAAAATTAATATCTAAT-TATAAAATTTAAT
1 TTAAAATTAA-ATCTAATGGA-AAAA-TTAAT
*
49628085 TTAAAAAATTAAATTTAATGGAAAAATTAAT
1 TT--AAAATTAAATCTAATGGAAAAATTAAT
49628116 TTAAAATTAAA
1 TTAAAATTAAA
49628127 GTTTAGCAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
29 9 0.24
31 9 0.24
32 10 0.27
33 9 0.24
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (29 bp):
TTAAAATTAAATCTAATGGAAAAATTAAT
Found at i:49628795 original size:6 final size:6
Alignment explanation
Indices: 49628786--49628812 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
49628776 TAGCTATAGC
49628786 TTGGCG TTGGCG TTGGCG TTGGCG TTG
1 TTGGCG TTGGCG TTGGCG TTGGCG TTG
49628813 TTATTTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.48, T:0.37
Consensus pattern (6 bp):
TTGGCG
Found at i:49639074 original size:48 final size:46
Alignment explanation
Indices: 49638993--49639126 Score: 142
Period size: 46 Copynumber: 2.9 Consensus size: 46
49638983 CAAGTGAAAG
* * * *
49638993 TAATAGTGTCTAGTTACCCATTTGGGCTAAACCTACACAAATAATGAA
1 TAATAGTGTCTAGTTACCCATTAGGGTTGAACCTACACAAAT--CGAA
* * ** *
49639041 TCATAGTGTCTAGTTACCCATCAGGGTTGAACCTACATGAATCGGA
1 TAATAGTGTCTAGTTACCCATTAGGGTTGAACCTACACAAATCGAA
* * *
49639087 TAATAGTGTCTGGTCACCCATTAGGGTTGAACGTACACAA
1 TAATAGTGTCTAGTTACCCATTAGGGTTGAACCTACACAA
49639127 CAAATAGCCT
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
46 35 0.50
48 35 0.50
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28
Consensus pattern (46 bp):
TAATAGTGTCTAGTTACCCATTAGGGTTGAACCTACACAAATCGAA
Found at i:49640164 original size:31 final size:31
Alignment explanation
Indices: 49640121--49640181 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
49640111 CTTGTCACTT
49640121 GTAGCCGAAGCTACCACTAT-TCACTGATCAA
1 GTAGCCGAAGCTACCACT-TCTCACTGATCAA
*
49640152 GTAGCCGGAGCTACCACTTCTCACTGATCA
1 GTAGCCGAAGCTACCACTTCTCACTGATCA
49640182 GATTACTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTCTCACTGATCAA
Found at i:49640328 original size:35 final size:35
Alignment explanation
Indices: 49640277--49640473 Score: 209
Period size: 35 Copynumber: 5.6 Consensus size: 35
49640267 TCCTCATTGA
* *
49640277 AATACCATACCTACATTTCACAACTCGGTATGGAA
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
**
49640312 AATGA-CATACCTACATTTCTTAACTCAGTATGGAT
1 AAT-ACCATACCTACATTTCACAACTCAGTATGGAT
* * *
49640347 AATACCATACCTACGTTTCACAACTCAGTACGGTT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
* * *
49640382 AATACCATACTTACGTTTCACAACTCAATATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
* * ** * *
49640417 GATACTATACCTATGTTTCACAACTTAGTATGGTT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
49640452 AATATCATACCTA-AGTTTCACA
1 AATACCATACCTACA-TTTCACA
49640474 TCTTGCCATG
Statistics
Matches: 135, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
34 1 0.01
35 133 0.99
36 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:49640461 original size:105 final size:105
Alignment explanation
Indices: 49640277--49640473 Score: 252
Period size: 105 Copynumber: 1.9 Consensus size: 105
49640267 TCCTCATTGA
** **
49640277 AATACCATACCTACATTTCACAACTCGGTATGGAAAATGACATACCTACATTTCTTAACTCAGTA
1 AATACCATACCTACATTTCACAACTCAATATGGAAAATGACATACCTACATTTCACAACTCAGTA
*
49640342 TGGATAATACCATACCTACGTTTCACAACTCAGTACGGTT
66 TGGATAATACCATACCTAAGTTTCACAACTCAGTACGGTT
* * ** ** *
49640382 AATACCATACTTACGTTTCACAACTCAATATGGATGAT-ACTATACCTATGTTTCACAACTTAGT
1 AATACCATACCTACATTTCACAACTCAATATGGAAAATGAC-ATACCTACATTTCACAACTCAGT
* *
49640446 ATGGTTAATATCATACCTAAGTTTCACA
65 ATGGATAATACCATACCTAAGTTTCACA
49640474 TCTTGCCATG
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
104 2 0.03
105 75 0.97
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.32
Consensus pattern (105 bp):
AATACCATACCTACATTTCACAACTCAATATGGAAAATGACATACCTACATTTCACAACTCAGTA
TGGATAATACCATACCTAAGTTTCACAACTCAGTACGGTT
Found at i:49644645 original size:25 final size:27
Alignment explanation
Indices: 49644616--49644673 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
49644606 AAAAACAACC
*
49644616 AAAATCATA-AAATATATAT-TTTCAT
1 AAAATCATACAAATATATATAATTCAT
49644641 AAAAT-A-ACAAATATATATAATTCAT
1 AAAATCATACAAATATATATAATTCAT
49644666 AAAA-CATA
1 AAAATCATA
49644674 TTTGGAGTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 1 0.04
24 11 0.39
25 15 0.54
26 1 0.04
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.33
Consensus pattern (27 bp):
AAAATCATACAAATATATATAATTCAT
Found at i:49646066 original size:13 final size:13
Alignment explanation
Indices: 49646048--49646072 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49646038 ATGAGAACAA
49646048 AACAACAACAAAC
1 AACAACAACAAAC
49646061 AACAACAACAAA
1 AACAACAACAAA
49646073 AAAAGAAATT
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:0.72, C:0.28, G:0.00, T:0.00
Consensus pattern (13 bp):
AACAACAACAAAC
Found at i:49652592 original size:20 final size:19
Alignment explanation
Indices: 49652544--49652581 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
49652534 TCATATTTGA
49652544 ATCAACATTTAAATTTTTT
1 ATCAACATTTAAATTTTTT
49652563 ATCAACATTTAAATTTTTT
1 ATCAACATTTAAATTTTTT
49652582 TAGTCATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (19 bp):
ATCAACATTTAAATTTTTT
Found at i:49652655 original size:19 final size:19
Alignment explanation
Indices: 49652623--49652661 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
49652613 TCAAATAATT
*
49652623 AAATAAAAATTGATTTGTC
1 AAATAAAAACTGATTTGTC
*
49652642 AAATAGAAACTGATTTGTC
1 AAATAAAAACTGATTTGTC
49652661 A
1 A
49652662 CTAAACCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (19 bp):
AAATAAAAACTGATTTGTC
Done.