Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 106 of 240
Found at i:32842472 original size:227 final size:228
Alignment explanation
Indices: 32842074--32842585 Score: 717
Period size: 227 Copynumber: 2.2 Consensus size: 228
32842064 TCAAGAATTA
* * *
32842074 TTTTCAATTTCTGTGTTTCAAAAATCAAATTATAATGCGAGAGGTGAGTTGAGCCTCGGGCAAAT
1 TTTTCAATTTATGTTTTTCAAAAATCAAATCATAATGCGAGAGGTGAGTTGAGCCTCGGGCAAAT
* *
32842139 GCCGGGATATTTTTAAATTTATATTTTTTTCAAAAATCAACTCATAATGCGTGAGGTGAGTTGAG
66 GCCGGGATATTTTTAAATTTATATTTTTTTCAAAAATCAACTCAAAATGCGAGAGGTGAGTTGAG
* * *
32842204 CGTCGGGCACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGGGAGAG
131 CCTCGGGCACATGCCGAGGTATTTTTCAAATTCTGTTTTTCAAAAATCAACTCATAATGCGAGAG
* * **
32842269 GTGAGTTGAGCCTCGGG-CACA-TGCTGAGGTAT
196 GTAAGTTAAGCCTCGGGTCACACT-CCAAGGTAT
* * * *
32842301 TTTTCAATTTATGTTTTTCAAAAATTAAGTCAGAATGCGAGAGGTGAGTTGAGCCTCGGGCACAT
1 TTTTCAATTTATGTTTTTCAAAAATCAAATCATAATGCGAGAGGTGAGTTGAGCCTCGGGCAAAT
* * *
32842366 GCCGAGG-TATTTTTCAATTTCTA-TTTTTTCAAAAATCAACTCAAAATGCGAGAGGTGAGTTTA
66 GCCG-GGATATTTTTAAATTTATATTTTTTTCAAAAATCAACTCAAAATGCGAGAGGTGAGTTGA
*
32842429 GCCTCGGGCACATGCTGAGGTATTTTTCAAATTCTGTTTTTTCAAAAATCAACTCATAATGCGAG
130 GCCTCGGGCACATGCCGAGGTATTTTTCAAATTCTG-TTTTTCAAAAATCAACTCATAATGCGAG
*
32842494 AGGTAAGTTAAGCCTCGGGTTACACTCCAAGGTAT
194 AGGTAAGTTAAGCCTCGGGTCACACTCCAAGGTAT
* * *
32842529 TTTCCAATTTATGTTTTTTTAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAG
1 TTTTCAATTTATG--TTTTT--CAAAAATCAAATCATAATGCGAGAGGTGAGTTGAG
32842586 GTTCGGGTCA
Statistics
Matches: 251, Mismatches: 26, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
226 70 0.28
227 120 0.48
228 24 0.10
229 1 0.00
230 5 0.02
232 31 0.12
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.34
Consensus pattern (228 bp):
TTTTCAATTTATGTTTTTCAAAAATCAAATCATAATGCGAGAGGTGAGTTGAGCCTCGGGCAAAT
GCCGGGATATTTTTAAATTTATATTTTTTTCAAAAATCAACTCAAAATGCGAGAGGTGAGTTGAG
CCTCGGGCACATGCCGAGGTATTTTTCAAATTCTGTTTTTCAAAAATCAACTCATAATGCGAGAG
GTAAGTTAAGCCTCGGGTCACACTCCAAGGTAT
Found at i:32842819 original size:30 final size:29
Alignment explanation
Indices: 32842774--32842858 Score: 102
Period size: 29 Copynumber: 2.9 Consensus size: 29
32842764 TAATAATATC
* * *
32842774 ATTTTGACCCT-AACTTTCCAAAAATTAT
1 ATTTTGAACCTAAACTTTCCTAAAATTAA
32842802 ATTTT-AACTCCTAAACTTTCCTAAAATTAA
1 ATTTTGAA--CCTAAACTTTCCTAAAATTAA
*
32842832 ATTTTGAACCTAAAATTTCCTAAAATT
1 ATTTTGAACCTAAACTTTCCTAAAATT
32842859 TCACTTTGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
27 1 0.02
28 5 0.10
29 21 0.43
30 20 0.41
31 2 0.04
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.40
Consensus pattern (29 bp):
ATTTTGAACCTAAACTTTCCTAAAATTAA
Found at i:32842866 original size:29 final size:29
Alignment explanation
Indices: 32842811--32842867 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
32842801 TATTTTAACT
* *
32842811 CCTAAACTTTCCTAAAATTAAATTTTGAA
1 CCTAAAATTTCCTAAAATTAAACTTTGAA
**
32842840 CCTAAAATTTCCTAAAATTTCACTTTGA
1 CCTAAAATTTCCTAAAATTAAACTTTGA
32842868 CCCCAGAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.39
Consensus pattern (29 bp):
CCTAAAATTTCCTAAAATTAAACTTTGAA
Found at i:32844185 original size:27 final size:29
Alignment explanation
Indices: 32844154--32844225 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
32844144 TTTTTAAAAA
32844154 AAAATT-CATTTTGACCCTAA-CTTTCCT
1 AAAATTACATTTTGACCCTAACCTTTCCT
*
32844181 TAAATTACA-TTTGACCCCTAACCTTTCCT
1 AAAATTACATTTTGA-CCCTAACCTTTCCT
32844210 AAAATTACATTTTGAC
1 AAAATTACATTTTGAC
32844226 ATCAAATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 10 0.26
28 8 0.21
29 16 0.41
30 5 0.13
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.39
Consensus pattern (29 bp):
AAAATTACATTTTGACCCTAACCTTTCCT
Found at i:32844216 original size:29 final size:27
Alignment explanation
Indices: 32844154--32844255 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
32844144 TTTTTAAAAA
32844154 AAAATT-CATTTTGACCCTAACTTTCCT
1 AAAATTACA-TTTGACCCTAACTTTCCT
*
32844181 TAAATTACATTTGACCCCTAACCTTTCCT
1 AAAATTACATTTGA-CCCTAA-CTTTCCT
* * *
32844210 AAAATTACATTTTGACATCAAATTTTCCT
1 AAAATTACA-TTTGAC-CCTAACTTTCCT
*
32844239 AAAATAACACTTTGACC
1 AAAATTACA-TTTGACC
32844256 ATAGAAGTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
27 10 0.16
28 8 0.13
29 36 0.58
30 8 0.13
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (27 bp):
AAAATTACATTTGACCCTAACTTTCCT
Found at i:32846043 original size:75 final size:74
Alignment explanation
Indices: 32845757--32846098 Score: 490
Period size: 76 Copynumber: 4.5 Consensus size: 74
32845747 TCAAGAATTA
* *
32845757 TTTTCAATTTTTGTTTTTTCAAAAATCAACTCATAATGCGAGATGTGAGTTGAGCCTCAGGCACA
1 TTTTCAA-TTTT-TTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
32845822 TGCCGAGGTAT
64 TGCCGAGGTAT
*
32845833 TTTT-AATTTTTTTTTTCAAATATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACATG
1 TTTTCAATTTTTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACATG
*
32845897 CTGAGGTAT
66 CCGAGGTAT
*
32845906 TTTTCAATTTATGTTTTTTCAAAAATCAATTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
1 TTTTCAATTT-T-TTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
32845971 TGCCGAGGTAT
64 TGCCGAGGTAT
* * ** * *
32845982 TTTTCAATTTTTATTTTTCAAAAAT-ACTCTCACAATATGAGAGGTGAATTGAACCTCGGGCACA
1 TTTTCAATTTTT-TTTTTCAAAAATCA-ACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
*
32846046 TGCCGTGGTAT
64 TGCCGAGGTAT
32846057 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAG
1 TTTTCAATTT-T-TTTTTTCAAAAATCAACTCATAATGCGAG
32846099 GTATTTTTCA
Statistics
Matches: 239, Mismatches: 19, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
73 63 0.26
74 11 0.05
75 66 0.28
76 97 0.41
77 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (74 bp):
TTTTCAATTTTTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACATG
CCGAGGTAT
Found at i:32846083 original size:151 final size:149
Alignment explanation
Indices: 32845757--32846098 Score: 515
Period size: 151 Copynumber: 2.3 Consensus size: 149
32845747 TCAAGAATTA
* *
32845757 TTTTCAATTTTTGTTTTTTCAAAAATCAACTCATAATGCGAGATGTGAGTTGAGCCTCAGGCACA
1 TTTTCAATTTATGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGCACA
* * * * *
32845822 TGCCGAGGTATTTTTAATTTTTTTTTTCAAATATCAACTCATAATGCGAGAGGTGAGTTGAGCCT
66 TGCCGAGGTATTTTTAATTTTTTTTTTCAAAAATCAACTCACAATACGAGAGGTGAATTGAACCT
*
32845887 CGGGCACATGCTGAGGTAT
131 CGGGCACATGCCGAGGTAT
* *
32845906 TTTTCAATTTATGTTTTTTCAAAAATCAATTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
1 TTTTCAATTTATGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGCACA
* *
32845971 TGCCGAGGTATTTTTCAATTTTTATTTTTCAAAAAT-ACTCTCACAATATGAGAGGTGAATTGAA
66 TGCCGAGGTATTTTT-AATTTTT-TTTTTCAAAAATCA-ACTCACAATACGAGAGGTGAATTGAA
*
32846035 CCTCGGGCACATGCCGTGGTAT
128 CCTCGGGCACATGCCGAGGTAT
* *
32846057 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAG
1 TTTTCAATTTATGTTTTTTCAAAAATCAACTCATAATGCGAG
32846099 GTATTTTTCA
Statistics
Matches: 174, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
149 76 0.44
150 8 0.05
151 90 0.52
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (149 bp):
TTTTCAATTTATGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGCACA
TGCCGAGGTATTTTTAATTTTTTTTTTCAAAAATCAACTCACAATACGAGAGGTGAATTGAACCT
CGGGCACATGCCGAGGTAT
Found at i:32846194 original size:122 final size:121
Alignment explanation
Indices: 32845974--32846216 Score: 371
Period size: 122 Copynumber: 2.0 Consensus size: 121
32845964 GGGCACATGC
32845974 CGAGGTATTTTTCAATTTTTATTTTTCAAAAATACTCTCACAATATGAGAGGTGAATTGAACCTC
1 CGAGGTATTTTTCAATTTTTATTTTTCAAAAATACTCTCACAATATGAGAGGTGAATTGAACCTC
* *
32846039 GGGCACATGCCGTGGTATTTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATG
66 GGGCACATGCCGAGGTATTTTTCAATTTATATTTTTTCAAAAATCAACTCATAATG
* * * * *
32846095 CGAGGTATTTTTCAATTTCTGT-TTTTTCAAAAATACTCTTATAATGTGAGAGGTGAGTTGAGCC
1 CGAGGTATTTTTCAATTT-T-TATTTTTCAAAAATACTCTCACAATATGAGAGGTGAATTGAACC
* * *
32846159 TCGGGGACATGCCGAGGTATTTTTTAATTTATATTTTTTCAAAAATTAACTCATAATG
64 TCGGGCACATGCCGAGGTATTTTTCAATTTATATTTTTTCAAAAATCAACTCATAATG
32846217 TGAGAGATGA
Statistics
Matches: 110, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
121 18 0.16
122 91 0.83
123 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (121 bp):
CGAGGTATTTTTCAATTTTTATTTTTCAAAAATACTCTCACAATATGAGAGGTGAATTGAACCTC
GGGCACATGCCGAGGTATTTTTCAATTTATATTTTTTCAAAAATCAACTCATAATG
Found at i:32846221 original size:76 final size:76
Alignment explanation
Indices: 32846095--32846584 Score: 524
Period size: 76 Copynumber: 6.4 Consensus size: 76
32846085 ACTCATAATG
*
32846095 CGAGGTATTTTTCAATTTCTGTTTTTTCAAAAAT--ACTCTTATAATGTGAGAGGTGAGTTGAGC
1 CGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTC--ATAATGCGAGAGGTGAGTTGAGC
*
32846158 CTCGGGGACATGC
64 CTCGGGCACATGC
* * * * * *
32846171 CGAGGTATTTTTTAATTTATATTTTTTCAAAAATTAACTCATAATGTGAGAGATGAGTTGAGCCT
1 CGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCT
*
32846236 CGAGTCACATGC
66 CG-GGCACATGC
* * *
32846248 TGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCAAGATGTGAGTTGAGCCT
1 CGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCT
*
32846313 CAGGCACATGC
66 CGGGCACATGC
* * * *
32846324 CGAGTTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCTTAATGCGAGATGTGAGTTTAGCCT
1 CGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCT
* *
32846389 TGGGCACTTGC
66 CGGGCACATGC
** * * *
32846400 CGAATTAATTTTTCAATGTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGATCC
1 CGAGGT-ATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCC
*
32846465 TTGGGTCACACT-C
65 TCGGG-CACA-TGC
* * **** * *
32846478 CGAGGTA-TTTCCAATTTATGTTTTTTTTTTAATCAATTCATAATGCGAGAGGTGAGTTGAGCTT
1 CGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCT
* *
32846542 CGGGTCATACGC
66 CGGG-CACATGC
* * * *
32846554 CAAGCTA-TTTTCGATTTCT-ATTTTTCAAAAA
1 CGAGGTATTTTTCAATTTCTGTTTTTTCAAAAA
32846585 AAAAAAGAAT
Statistics
Matches: 348, Mismatches: 59, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
75 7 0.02
76 206 0.59
77 122 0.35
78 12 0.03
79 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (76 bp):
CGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCT
CGGGCACATGC
Found at i:32846381 original size:153 final size:150
Alignment explanation
Indices: 32846092--32846544 Score: 518
Period size: 153 Copynumber: 3.0 Consensus size: 150
32846082 TCAACTCATA
*
32846092 ATGCGAGGTATTTTTCAATTTCTGTTTTTTCAAAAAT--ACTCTTATAATGTGAGAGGTGAGTTG
1 ATGCGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTC--ATAATGCGAGAGGTGAGTTG
* * * * *
32846155 AGCCTCGGGGACATGCCGAGGTATTTTTTAATTTATATTTTTTCAAAAATTAACTCATAATGTGA
64 AGCCTCGGGCACATGCCGAGGTATTTTTCAATTTATGTTTTTTCAAAAATCAACTCATAATGCGA
32846220 GAGATGAGTTGAGCCTCGAGTCAC
129 GAG-TGAGTTGAGCCTCG-GTCAC
* *
32846244 ATGCTGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCAAGATGTGAGTTGA
1 ATGC-GAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGA
* * * *
32846309 GCCTCAGGCACATGCCGAGTTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCTTAATGCGAG
65 GCCTCGGGCACATGCCGAGGTATTTTTCAATTTATGTTTTTTCAAAAATCAACTCATAATGCGAG
* * *
32846374 ATGTGAGTTTAGCCTTGGGCAC
130 A-GTGAGTTGAGCCTCGGTCAC
* ** * *
32846396 TTGCCGAATTAATTTTTCAATGTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTG
1 ATG-CGAGGT-ATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTG
* * * **** *
32846461 ATCCTTGGGTCACACT-CCGAGGTA-TTTCCAATTTATGTTTTTTTTTTAATCAATTCATAATGC
64 AGCCTCGGG-CACA-TGCCGAGGTATTTTTCAATTTATGTTTTTTCAAAAATCAACTCATAATGC
*
32846524 GAGAGGTGAGTTGAGCTTCGG
127 GAGA-GTGAGTTGAGCCTCGG
32846545 GTCATACGCC
Statistics
Matches: 255, Mismatches: 38, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
152 13 0.05
153 225 0.88
154 12 0.05
155 5 0.02
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (150 bp):
ATGCGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAG
CCTCGGGCACATGCCGAGGTATTTTTCAATTTATGTTTTTTCAAAAATCAACTCATAATGCGAGA
GTGAGTTGAGCCTCGGTCAC
Found at i:32846790 original size:30 final size:29
Alignment explanation
Indices: 32846742--32846870 Score: 143
Period size: 31 Copynumber: 4.4 Consensus size: 29
32846732 TTTTTAATAT
*
32846742 CATTTTAACCC-CAACTTTCCTAAAATTA
1 CATTTTAACCCTAAACTTTCCTAAAATTA
*
32846770 CATTTTAACCCTTAAACTTTCCCAAAAATTA
1 CATTTTAACCC-TAAACTTT-CCTAAAATTA
* *
32846801 CATTTTAACCCTTAAATTTTCCTAATATTA
1 CATTTTAACCC-TAAACTTTCCTAAAATTA
* * * * *
32846831 TATTTTGACCCTAAAATTTCCCAAAATTT
1 CATTTTAACCCTAAACTTTCCTAAAATTA
32846860 CATTTTAACCC
1 CATTTTAACCC
32846871 CAAAGGTTTT
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
28 11 0.13
29 23 0.27
30 23 0.27
31 28 0.33
ACGTcount: A:0.35, C:0.25, G:0.01, T:0.40
Consensus pattern (29 bp):
CATTTTAACCCTAAACTTTCCTAAAATTA
Found at i:32846801 original size:31 final size:30
Alignment explanation
Indices: 32846742--32846870 Score: 140
Period size: 30 Copynumber: 4.4 Consensus size: 30
32846732 TTTTTAATAT
*
32846742 CATTTTAACCC-CAACTTT-CCTAAAATTA
1 CATTTTAACCCTAAACTTTCCCTAAAATTA
*
32846770 CATTTTAACCCTTAAACTTTCCCAAAAATTA
1 CATTTTAACCC-TAAACTTTCCCTAAAATTA
* *
32846801 CATTTTAACCCTTAAA-TTTTCCTAATATTA
1 CATTTTAACCC-TAAACTTTCCCTAAAATTA
* * * *
32846831 TATTTTGACCCTAAAATTTCCC-AAAATTT
1 CATTTTAACCCTAAACTTTCCCTAAAATTA
32846860 CATTTTAACCC
1 CATTTTAACCC
32846871 CAAAGGTTTT
Statistics
Matches: 85, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
28 11 0.13
29 18 0.21
30 31 0.36
31 25 0.29
ACGTcount: A:0.35, C:0.25, G:0.01, T:0.40
Consensus pattern (30 bp):
CATTTTAACCCTAAACTTTCCCTAAAATTA
Found at i:32846836 original size:61 final size:59
Alignment explanation
Indices: 32846757--32846870 Score: 165
Period size: 61 Copynumber: 1.9 Consensus size: 59
32846747 TAACCCCAAC
*
32846757 TTTCCTAAAATTACATTTTAACCCTTAAACTTTCCCAAAAATTACATTTTAACCCTTAAAT
1 TTTCCTAAAATTACATTTTAACCC-TAAAATTTCCC-AAAATTACATTTTAACCCTTAAAT
* * * *
32846818 TTTCCTAATATTATATTTTGACCCTAAAATTTCCCAAAATTTCATTTTAACCC
1 TTTCCTAAAATTACATTTTAACCCTAAAATTTCCCAAAATTACATTTTAACCC
32846871 CAAAGGTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 17 0.35
60 10 0.21
61 21 0.44
ACGTcount: A:0.35, C:0.23, G:0.01, T:0.41
Consensus pattern (59 bp):
TTTCCTAAAATTACATTTTAACCCTAAAATTTCCCAAAATTACATTTTAACCCTTAAAT
Found at i:32846864 original size:59 final size:59
Alignment explanation
Indices: 32846741--32846870 Score: 165
Period size: 59 Copynumber: 2.2 Consensus size: 59
32846731 TTTTTTAATA
* *
32846741 TCATTTTAACCCCAACTTTCCTAAAATTACATTTTAACCCTTAAACTTTCCCAAAAATT
1 TCATTTTAACCCAAACTTTCCTAAAATTACATTTTAACCCTTAAAATTTCCCAAAAATT
* * * * *
32846800 ACATTTTAACCCTTAAATTTTCCTAATATTATATTTTGACCC-TAAAATTTCCC-AAAATT
1 TCATTTTAACCC--AAACTTTCCTAAAATTACATTTTAACCCTTAAAATTTCCCAAAAATT
32846859 TCATTTTAACCC
1 TCATTTTAACCC
32846871 CAAAGGTTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
59 28 0.46
60 10 0.16
61 23 0.38
ACGTcount: A:0.35, C:0.25, G:0.01, T:0.40
Consensus pattern (59 bp):
TCATTTTAACCCAAACTTTCCTAAAATTACATTTTAACCCTTAAAATTTCCCAAAAATT
Found at i:32847379 original size:8 final size:8
Alignment explanation
Indices: 32847368--32847430 Score: 53
Period size: 8 Copynumber: 8.2 Consensus size: 8
32847358 AAAAAGAGAG
*
32847368 AAGAATGA
1 AAGAAAGA
32847376 AAGAAAG-
1 AAGAAAGA
*
32847383 AAGAAAAA
1 AAGAAAGA
*
32847391 AAGAAGGA
1 AAGAAAGA
32847399 AAG-AAGA
1 AAGAAAGA
32847406 AAGAAA-A
1 AAGAAAGA
*
32847413 AAGGAAAAA
1 AA-GAAAGA
32847422 AAG-AAGA
1 AAGAAAGA
32847429 AA
1 AA
32847431 AAAATAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
7 20 0.44
8 22 0.49
9 3 0.07
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.02
Consensus pattern (8 bp):
AAGAAAGA
Found at i:32847384 original size:15 final size:14
Alignment explanation
Indices: 32847356--32847429 Score: 55
Period size: 15 Copynumber: 5.3 Consensus size: 14
32847346 TGGAGGAGAG
*
32847356 AGAA-AAAGAGAGA
1 AGAAGAAAGAAAGA
32847369 AGAATGAAAGAAAGA
1 AGAA-GAAAGAAAGA
* *
32847384 AGAAAAAAAGAAGGAA
1 AG-AAGAAAGAAAG-A
32847400 AGAAGAAAGAAA-A
1 AGAAGAAAGAAAGA
* *
32847413 A-AGGAAAAAAAGA
1 AGAAGAAAGAAAGA
32847426 AGAA
1 AGAA
32847430 AAAAATAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
12 8 0.17
13 8 0.17
14 1 0.02
15 25 0.53
16 5 0.11
ACGTcount: A:0.73, C:0.00, G:0.26, T:0.01
Consensus pattern (14 bp):
AGAAGAAAGAAAGA
Found at i:32847395 original size:23 final size:22
Alignment explanation
Indices: 32847368--32847434 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 22
32847358 AAAAAGAGAG
32847368 AAGAATGAAAGAAAGAAGAAAAA
1 AAGAA-GAAAGAAAGAAGAAAAA
32847391 AAGAAG---GAAAGAAGAAAGAA
1 AAGAAGAAAGAAAGAAGAAA-AA
*
32847411 AA-AAGGAAAAAAAGAAGAAAAA
1 AAGAA-GAAAGAAAGAAGAAAAA
32847433 AA
1 AA
32847435 TAAAAAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
19 13 0.34
20 5 0.13
22 5 0.13
23 15 0.39
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.01
Consensus pattern (22 bp):
AAGAAGAAAGAAAGAAGAAAAA
Found at i:32847439 original size:19 final size:19
Alignment explanation
Indices: 32847374--32847442 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 19
32847364 AGAGAAGAAT
*
32847374 GAAAGAAAGAAGAAAAAAA
1 GAAAAAAAGAAGAAAAAAA
*
32847393 GAAGGAAAGAAGAAAGAAAAAAG
1 GAA--AAA-AAG-AAGAAAAAAA
32847416 GAAAAAAAGAAGAAAAAAA
1 GAAAAAAAGAAGAAAAAAA
*
32847435 TAAAAAAA
1 GAAAAAAA
32847443 ATAAACAGTC
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 19 0.45
20 3 0.07
21 5 0.12
22 3 0.07
23 12 0.29
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.01
Consensus pattern (19 bp):
GAAAAAAAGAAGAAAAAAA
Found at i:32847443 original size:23 final size:23
Alignment explanation
Indices: 32847376--32847443 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 23
32847366 AGAAGAATGA
*
32847376 AAGAAAGAAGAAAAAAAGAAGGAAAG
1 AAGAAAGAA-AAAAAAA-AA-AAAAG
**
32847402 AAGAAAGAAAAAAGGAAAAAAAG
1 AAGAAAGAAAAAAAAAAAAAAAG
*
32847425 AAGAAA-AAAATAAAAAAAA
1 AAGAAAGAAAAAAAAAAAAA
32847444 TAAACAGTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
22 10 0.28
23 10 0.28
24 2 0.06
25 5 0.14
26 9 0.25
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.01
Consensus pattern (23 bp):
AAGAAAGAAAAAAAAAAAAAAAG
Found at i:32856679 original size:76 final size:76
Alignment explanation
Indices: 32856574--32857941 Score: 1779
Period size: 75 Copynumber: 18.2 Consensus size: 76
32856564 CCAAGAATTA
* * * *
32856574 TTTTCAATTTCTATTTTTTTCAAAAATCAACTCATAATGCAATAGGTGAATTGAGCCCCGGGCAC
1 TTTTCAATTTCTA-TTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCAC
* *
32856639 ATGTCGAGGAAT
65 ATGCCGAGGTAT
* * * *
32856651 TTTTAAATTTCTATCTTTTT-AAAAATCAACTCATAATGCGAGAGATTAGTTCAGCCTCGGGCAC
1 TTTTCAATTTCTAT-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCAC
32856715 ATGCCGAGGTAT
65 ATGCCGAGGTAT
* * *
32856727 TTTTCAATTTCTA-TTTTTCAAAAATCAACTCATAATACGACAGGTGAGTTGAGCCTCAGGCACA
1 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
32856791 TGCCGAGGTAT
66 TGCCGAGGTAT
* *
32856802 TTTTCAA-TT-TATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGCGCAC
1 TTTTCAATTTCTAT-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCAC
*
32856865 ATGCCAAGGTA-
65 ATGCCGAGGTAT
* * * * *
32856876 TTTTCAATTTCTGTTCTTTCAAAAATCAACTGATAATGCGAGAGATGAGTTGAGCCTGGGGCACA
1 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
*
32856941 TGCTGAGGTAT
66 TGCCGAGGTAT
** * *
32856952 TTTTCAA-TT-TATTTTTTTTAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGG-TCA
1 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
*
32857014 TACACTGAGGTAT
66 TGC-C-GAGGTAT
* *
32857027 TTTTTAATTTCTGTTTTTT-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
1 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
*
32857091 TGCCGAAGTAT
66 TGCCGAGGTAT
* * *
32857102 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCTAGAGGTGAGTGGAGCCTAGGGCACA
1 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
* *
32857167 TGCTGAGGTGT
66 TGCCGAGGTAT
* * *
32857178 TTTTCAATTTCTATTTTTTCAAAAATCAAATGATAATGCAAGAGGTGAGTTGAGCCTCGGGCACA
1 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
32857243 TGCCGAGGTAT
66 TGCCGAGGTAT
* *
32857254 TTTTCAATTGCT-GTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG-CAC
* *
32857318 ACGCTGAGGTAT
65 ATGCCGAGGTAT
* *
32857330 TTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGC-AGAGGTGAGTTGAGCCTCAGGCACA
1 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
32857394 TGCCGAGGTAT
66 TGCCGAGGTAT
*
32857405 TTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
1 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
*
32857470 TGCCGAAGTAT
66 TGCCGAGGTAT
* * * *
32857481 TTTTTAATTTCTATTTTTTTCAAAAATCAAATGATAATGCGAGAGGTGAGTTGAGCATCGGGCAC
1 TTTTCAATTTCTA-TTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCAC
*
32857546 ATGCCGAGGTAG
65 ATGCCGAGGTAT
*
32857558 TTTTCAATTTCTA-TTTTTCAAAAATCAACTCATAGTGCGAGAGGTGAGTTGAGCCTCGGGCACA
1 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
*
32857622 TGTCGAGGTAT
66 TGCCGAGGTAT
* * **
32857633 TTTTTAA-TT-TATGTTTTTCAAAAATCAACTAATAACACGAGAGGTGAGTTGAGCCTC-GGCAC
1 TTTTCAATTTCTAT-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCAC
32857695 ATGCCGAGGTAT
65 ATGCCGAGGTAT
* *
32857707 TTTTCAA--T-T-TTTTTT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGGCACA
1 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
*
32857767 TGCC-ATGTAT
66 TGCCGAGGTAT
* * * * * *
32857777 TTTTCAATTTCTGTTTTTTCAAAAATAAACTCATGATGAGAGAGGTGAGCTGAGTCTCGGGCACA
1 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
* * *
32857842 TGCTGAGCTAA
66 TGCCGAGGTAT
* ** * * * * * *
32857853 TTTGCAATTGATGTTTTTTCAAAAACCAACTCATAATTCGAGAGGTGAGTTGAGCCTTAGGTCGC
1 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCC-TCGGGCAC
* * *
32857918 ACGCTGATGTAT
65 ATGCCGAGGTAT
32857930 TTTTCAATTTCT
1 TTTTCAATTTCT
32857942 GTGTAATACT
Statistics
Matches: 1128, Mismatches: 136, Indels: 54
0.86 0.10 0.04
Matches are distributed among these distances:
70 45 0.04
71 15 0.01
72 2 0.00
73 11 0.01
74 86 0.08
75 445 0.39
76 379 0.34
77 145 0.13
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (76 bp):
TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
TGCCGAGGTAT
Found at i:32857222 original size:152 final size:152
Alignment explanation
Indices: 32856574--32857941 Score: 1770
Period size: 152 Copynumber: 9.1 Consensus size: 152
32856564 CCAAGAATTA
* * * *
32856574 TTTTCAATTTCTATTTTTTTCAAAAATCAACTCATAATGCAATAGGTGAATTGAGCCCCGGGCAC
1 TTTTCAATTTCTA-TTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCAC
* * * * * *
32856639 ATGTCGAGGAATTTTTAAATTTCTATCTTTTT-AAAAATCAACTCATAATGCGAGAGATTAGTTC
65 ATGCCGAGGTATTTTTCAATTTCTAT-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTG
*
32856703 AGCCTCGGGCACATGCCGAGGTAT
129 AGCCTCGGGCACATGCTGAGGTAT
* * *
32856727 TTTTCAATTTCTA-TTTTTCAAAAATCAACTCATAATACGACAGGTGAGTTGAGCCTCAGGCACA
1 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
32856791 TGCCGAGGTATTTTTCAA-TT-TATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGA
66 TGCCGAGGTATTTTTCAATTTCTAT-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGA
* * **
32856854 GCCTTGCGCACATGCCAAGGTA-
130 GCCTCGGGCACATGCTGAGGTAT
* * * * *
32856876 TTTTCAATTTCTGTTCTTTCAAAAATCAACTGATAATGCGAGAGATGAGTTGAGCCTGGGGCACA
1 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
* ** *
32856941 TGCTGAGGTATTTTTCAA-TT-TATTTTTTTTAAAATCAACTCATAATGCGAGAAGTGAGTTGAG
66 TGCCGAGGTATTTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAG
* **
32857004 CCTCGGGTCATACACTGAGGTAT
131 CCTCGGG-CACATGCTGAGGTAT
* *
32857027 TTTTTAATTTCTGTTTTTT-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
1 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
* * *
32857091 TGCCGAAGTATTTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCTAGAGGTGAGTGGAG
66 TGCCGAGGTATTTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAG
* *
32857156 CCTAGGGCACATGCTGAGGTGT
131 CCTCGGGCACATGCTGAGGTAT
* * *
32857178 TTTTCAATTTCTATTTTTTCAAAAATCAAATGATAATGCAAGAGGTGAGTTGAGCCTCGGGCACA
1 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
* *
32857243 TGCCGAGGTATTTTTCAATTGCT-GTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAG
66 TGCCGAGGTATTTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAG
*
32857307 CCTCGGGTCACACGCTGAGGTAT
131 CCTCGGG-CACATGCTGAGGTAT
* *
32857330 TTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGC-AGAGGTGAGTTGAGCCTCAGGCACA
1 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
*
32857394 TGCCGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAG
66 TGCCGAGGTATTTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAG
* *
32857459 CCTCGGGCACATGCCGAAGTAT
131 CCTCGGGCACATGCTGAGGTAT
* * * *
32857481 TTTTTAATTTCTATTTTTTTCAAAAATCAAATGATAATGCGAGAGGTGAGTTGAGCATCGGGCAC
1 TTTTCAATTTCTA-TTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCAC
* *
32857546 ATGCCGAGGTAGTTTTCAATTTCTA-TTTTTCAAAAATCAACTCATAGTGCGAGAGGTGAGTTGA
65 ATGCCGAGGTATTTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGA
32857610 GCCTCGGGCACATG-TCGAGGTAT
130 GCCTCGGGCACATGCT-GAGGTAT
* * **
32857633 TTTTTAA-TT-TATGTTTTTCAAAAATCAACTAATAACACGAGAGGTGAGTTGAGCCTC-GGCAC
1 TTTTCAATTTCTAT-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCAC
*
32857695 ATGCCGAGGTATTTTTCAA--T-T-TTTTTT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
65 ATGCCGAGGTATTTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGA
* * *
32857755 ACCTCGGGCACATGC-CATGTAT
130 GCCTCGGGCACATGCTGAGGTAT
* * * * * *
32857777 TTTTCAATTTCTGTTTTTTCAAAAATAAACTCATGATGAGAGAGGTGAGCTGAGTCTCGGGCACA
1 TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
* * * * ** * * *
32857842 TGCTGAGCTAATTTGCAATTGATGTTTTTTCAAAAACCAACTCATAATTCGAGAGGTGAGTTGAG
66 TGCCGAGGTATTTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAG
* * * * *
32857907 CCTTAGGTCGCACGCTGATGTAT
131 CC-TCGGGCACATGCTGAGGTAT
32857930 TTTTCAATTTCT
1 TTTTCAATTTCT
32857942 GTGTAATACT
Statistics
Matches: 1071, Mismatches: 119, Indels: 50
0.86 0.10 0.04
Matches are distributed among these distances:
144 11 0.01
145 83 0.08
146 28 0.03
147 1 0.00
149 87 0.08
150 231 0.22
151 254 0.24
152 300 0.28
153 76 0.07
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (152 bp):
TTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACA
TGCCGAGGTATTTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAG
CCTCGGGCACATGCTGAGGTAT
Found at i:32861564 original size:22 final size:25
Alignment explanation
Indices: 32861508--32861564 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 25
32861498 AATAGCACGG
*
32861508 TAGTGCTCTCCGATTATTAGCACATT
1 TAGTGCTCTCCGA-TATTAACACATT
32861534 TA-TGCTCTCCG-TA-TAACAC-TT
1 TAGTGCTCTCCGATATTAACACATT
32861555 TAGTGCTCTC
1 TAGTGCTCTC
32861565 TGTTTAATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 4 0.14
22 12 0.41
23 2 0.07
25 9 0.31
26 2 0.07
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.39
Consensus pattern (25 bp):
TAGTGCTCTCCGATATTAACACATT
Found at i:32866662 original size:76 final size:77
Alignment explanation
Indices: 32866576--32866787 Score: 275
Period size: 76 Copynumber: 2.7 Consensus size: 77
32866566 GGATGTTATA
*
32866576 TTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGCTGAGCCTTAGG-CACATG-CTGA
1 TTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGCTGAGCCTCAGGTCACATGTC-GA
32866639 GGTATTTTTCAAT
65 GGTATTTTTCAAT
* * * *
32866652 TTCTGTTTTTTCAAAAATCAACTCATAATGCGAGTGGTGAGTTGAGCCTCGGGTCACATGTCGAT
1 TTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGCTGAGCCTCAGGTCACATGTCGAG
32866717 GTATTTTTCAAT
66 GTATTTTTCAAT
* * ** *
32866729 TTATGTTTTTTCGAAATAAAATCAACGCATAATGCGAGAGGTGAATTGAGCTTCAGGTC
1 TTCTGTTTTTTC---A-AAAATCAACTCATAATGCGAGAGGTGAGCTGAGCCTCAGGTC
32866788 GTACGCCTAG
Statistics
Matches: 119, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
76 49 0.41
77 31 0.26
78 1 0.01
80 1 0.01
81 37 0.31
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (77 bp):
TTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGCTGAGCCTCAGGTCACATGTCGAG
GTATTTTTCAAT
Found at i:32866803 original size:81 final size:77
Alignment explanation
Indices: 32866576--32866827 Score: 259
Period size: 76 Copynumber: 3.3 Consensus size: 77
32866566 GGATGTTATA
*
32866576 TTCTGTTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGCTGAGCCTT-AGG-CACATGCT
1 TTCTGTTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAG-CTTCAGGTCACATGCT
32866637 GAGGTATTTTTCAAT
65 -A-GTATTTTTCAAT
* * * *
32866652 TTCTGTTTTTTC--AAAAATCAACTCATAATGCGAGTGGTGAGTTGAGCCTCGGGTCACATGTCG
1 TTCTGTTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCTTCAGGTCACATG-CT
32866715 ATGTATTTTTCAAT
65 A-GTATTTTTCAAT
* * * ** *
32866729 TTATGTTTTTTCGAAATAAAATCAACGCATAATGCGAGAGGTGAATTGAGCTTCAGGTCGTACGC
1 TTCTGTTTTTTC-AAA-AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCTTCAGGTCACATG-
*
32866794 CTAGCTA-TTTTCGAT
63 CTAG-TATTTTTCAAT
32866809 TTCT-TTTTTTCAAAAAAAT
1 TTCTGTTTTTTCAAAAAAAT
32866828 AAAATAAAAT
Statistics
Matches: 149, Mismatches: 19, Indels: 15
0.81 0.10 0.08
Matches are distributed among these distances:
75 2 0.01
76 46 0.31
77 35 0.23
78 4 0.03
79 7 0.05
80 12 0.08
81 43 0.29
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (77 bp):
TTCTGTTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCTTCAGGTCACATGCTA
GTATTTTTCAAT
Found at i:32867022 original size:30 final size:30
Alignment explanation
Indices: 32866988--32867130 Score: 130
Period size: 30 Copynumber: 4.8 Consensus size: 30
32866978 TGACCCCAAC
* *
32866988 TTTCCTAAAATAACATTTTAACCCCTAAAG
1 TTTCCTAAAATTACATTTTAACCCCTAAAA
* * * *
32867018 TTTCCAAAAATTATATTTTGACCCTTAAAA
1 TTTCCTAAAATTACATTTTAACCCCTAAAA
*
32867048 TTTCC-AAACATTA-ATTTTGACCCCTAAAA
1 TTTCCTAAA-ATTACATTTTAACCCCTAAAA
* * * *
32867077 TTTCTTAAATTTACATTTTAA-CCCGAAATT
1 TTTCCTAAAATTACATTTTAACCCCTAAA-A
* *
32867107 TTTCCCAAAATTACACTTTAACCC
1 TTTCCTAAAATTACATTTTAACCC
32867131 GAGAAGTTTT
Statistics
Matches: 92, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
29 31 0.34
30 59 0.64
31 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.38
Consensus pattern (30 bp):
TTTCCTAAAATTACATTTTAACCCCTAAAA
Found at i:32867065 original size:29 final size:30
Alignment explanation
Indices: 32866974--32867080 Score: 121
Period size: 30 Copynumber: 3.7 Consensus size: 30
32866964 AAAAAAAATC
* * * *
32866974 ATTTTGACCCC--AACTTTCCTAAAATAAC
1 ATTTTGACCCCTAAAATTTCCAAAAATTAT
* *
32867002 ATTTTAACCCCTAAAGTTTCCAAAAATTAT
1 ATTTTGACCCCTAAAATTTCCAAAAATTAT
* *
32867032 ATTTTGACCCTTAAAATTTCCAAACATTA-
1 ATTTTGACCCCTAAAATTTCCAAAAATTAT
32867061 ATTTTGACCCCTAAAATTTC
1 ATTTTGACCCCTAAAATTTC
32867081 TTAAATTTAC
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
28 10 0.15
29 19 0.28
30 38 0.57
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.36
Consensus pattern (30 bp):
ATTTTGACCCCTAAAATTTCCAAAAATTAT
Found at i:32867657 original size:15 final size:15
Alignment explanation
Indices: 32867620--32867667 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
32867610 GGAAGAGAGA
*
32867620 AAAAAAAGAAACAAG
1 AAAAAAAGAAAGAAG
**
32867635 AAGGAAAGAAAGAAG
1 AAAAAAAGAAAGAAG
32867650 AAAAAAAGAAAGAA-
1 AAAAAAAGAAAGAAG
32867664 AAAA
1 AAAA
32867668 TAAAAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAGAAG
Found at i:32867676 original size:15 final size:15
Alignment explanation
Indices: 32867643--32867691 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 15
32867633 AGAAGGAAAG
*
32867643 AAAGAAGAAAA-AAAG
1 AAAGAA-AAAATAAAA
32867658 AAAGAAAAAATAAAA
1 AAAGAAAAAATAAAA
32867673 AAAGGAAAAAATAAAA
1 AAA-GAAAAAATAAAA
32867689 AAA
1 AAA
32867692 TACAGTCGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
14 4 0.13
15 12 0.39
16 15 0.48
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (15 bp):
AAAGAAAAAATAAAA
Found at i:32867691 original size:19 final size:19
Alignment explanation
Indices: 32867621--32867691 Score: 65
Period size: 19 Copynumber: 3.6 Consensus size: 19
32867611 GAAGAGAGAA
32867621 AAAAAAGAAACAAGAAGGAAAG
1 AAAAAA-AAA-AA-AAGGAAAG
*
32867643 AAAGAAGAAAAAAA-GAAAG
1 AAA-AAAAAAAAAAGGAAAG
32867662 AAAAAATAAAAAAAGGAAA-
1 AAAAAA-AAAAAAAGGAAAG
*
32867681 AAATAAAAAAA
1 AAAAAAAAAAA
32867692 TACAGTCGGG
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
18 7 0.16
19 20 0.47
20 6 0.14
21 2 0.05
22 6 0.14
23 2 0.05
ACGTcount: A:0.80, C:0.01, G:0.15, T:0.03
Consensus pattern (19 bp):
AAAAAAAAAAAAAGGAAAG
Found at i:32871595 original size:32 final size:33
Alignment explanation
Indices: 32871554--32871618 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
32871544 GCGTAAACTC
*
32871554 CGATCTATTCGTCAAAAATTTTATC-TTTCCTT
1 CGATCTATTCATCAAAAATTTTATCTTTTCCTT
*
32871586 CGATCTATTCATCGAAAATTTTATCTTTTCCTT
1 CGATCTATTCATCAAAAATTTTATCTTTTCCTT
32871619 TCTTTTTCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 23 0.77
33 7 0.23
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.48
Consensus pattern (33 bp):
CGATCTATTCATCAAAAATTTTATCTTTTCCTT
Found at i:32887109 original size:23 final size:23
Alignment explanation
Indices: 32887097--32887144 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 23
32887087 CCATTTCATT
32887097 CAATTCACAATTTCTCATATTCA
1 CAATTCACAATTTCTCATATTCA
32887120 CAATTCAAATCAATTTCTCA-ATTCA
1 CAATTC--A-CAATTTCTCATATTCA
32887145 ATATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 6 0.27
25 6 0.27
26 10 0.45
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (23 bp):
CAATTCACAATTTCTCATATTCA
Found at i:32895186 original size:12 final size:10
Alignment explanation
Indices: 32895161--32895200 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
32895151 GAACATGATG
32895161 AATTTTAATT
1 AATTTTAATT
32895171 AATTTTATAGTT
1 AATTTTA-A-TT
*
32895183 AATTTTGATT
1 AATTTTAATT
32895193 AATTTTAA
1 AATTTTAA
32895201 CTATTTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 16 0.62
11 2 0.08
12 8 0.31
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (10 bp):
AATTTTAATT
Found at i:32906185 original size:50 final size:50
Alignment explanation
Indices: 32906052--32906297 Score: 217
Period size: 50 Copynumber: 4.8 Consensus size: 50
32906042 ATTTGGGTAA
* * * *
32906052 AGAGATCCCACGTAAGACCATGTCTAGGACATGGCATTGGCATCATTGAGATT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGAGATG
* * * *
32906105 ATGGAGGTCCCACGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 A--GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * *
32906157 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGA-TG
** * * * * *
32906208 -GAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAAT-ACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* ** * *
32906256 AAACATTCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
32906298 TGTTATTATC
Statistics
Matches: 160, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
48 1 0.01
49 36 0.22
50 76 0.47
51 2 0.01
52 6 0.04
53 1 0.01
54 1 0.01
55 37 0.23
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:32906241 original size:100 final size:104
Alignment explanation
Indices: 32906063--32906248 Score: 245
Period size: 100 Copynumber: 1.8 Consensus size: 104
32906053 GAGATCCCAC
* **
32906063 GTAAGACCATGTCTAGGACATGGCATTGGCATCATTGAGATTATGGAGGTCCCACGTAAGACCAT
1 GTAAGACCATGTCTAGGACATGGCATGGGCATCA-TGAGATTATGGAACTCCCACGTAAGACCAT
* * *
32906128 GTTTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCT
65 ATCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCT
* * *
32906168 GTAAGACCATGTCTGGGACATGGCATGGGCA-C-TGATA-T-TGGAACTCCCATGTAAGACCATA
1 GTAAGACCATGTCTAGGACATGGCATGGGCATCATGAGATTATGGAACTCCCACGTAAGACCATA
*
32906229 TCTGGGATATGGCATTGGCA
66 TCTGGGACATGGCATTGGCA
32906249 ATACAAGAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
100 36 0.51
101 1 0.01
102 4 0.06
104 1 0.01
105 29 0.41
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (104 bp):
GTAAGACCATGTCTAGGACATGGCATGGGCATCATGAGATTATGGAACTCCCACGTAAGACCATA
TCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCT
Found at i:32911393 original size:24 final size:24
Alignment explanation
Indices: 32911345--32911391 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
32911335 ACTGGTCATA
*
32911345 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
32911369 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
32911392 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:32911854 original size:27 final size:27
Alignment explanation
Indices: 32911802--32911950 Score: 221
Period size: 27 Copynumber: 5.6 Consensus size: 27
32911792 TGGTCCATGT
*
32911802 ATGACCGAAATA-CCCCAAAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
32911828 ATGACCGAAATACCCCCATAGGATAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
32911855 ATGACCGAAATACCCCCATAGGATAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
32911882 ATGACCGAAATACCTCCATAGGGT-AA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
32911908 ATGGCCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
32911935 ATGACCAAAATACCCC
1 ATGACCGAAATACCCC
32911951 TAGGAGATGA
Statistics
Matches: 111, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
26 35 0.32
27 76 0.68
ACGTcount: A:0.42, C:0.26, G:0.17, T:0.15
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTAAA
Found at i:32911910 original size:53 final size:54
Alignment explanation
Indices: 32911802--32911950 Score: 221
Period size: 53 Copynumber: 2.8 Consensus size: 54
32911792 TGGTCCATGT
*
32911802 ATGACCGAAATA-CCCCAAAGGGTAAAATGACCGAAATACCCCCATAGGATAAA
1 ATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGATAAA
* * * *
32911855 ATGACCGAAATACCCCCATAGGATAGAATGACCGAAATACCTCCATAGGGT-AA
1 ATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGATAAA
* *
32911908 ATGGCCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCC
1 ATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCC
32911951 TAGGAGATGA
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 52 0.61
54 33 0.39
ACGTcount: A:0.42, C:0.26, G:0.17, T:0.15
Consensus pattern (54 bp):
ATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGATAAA
Found at i:32911935 original size:80 final size:80
Alignment explanation
Indices: 32911802--32911950 Score: 246
Period size: 80 Copynumber: 1.9 Consensus size: 80
32911792 TGGTCCATGT
*
32911802 ATGACCGAAATACCCCAAAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATGACCGAAATA
1 ATGACCGAAATACCCCAAAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATGACCAAAATA
32911867 CCCCCATAGGATAGA
66 CCCCCATAGGATAGA
* * *
32911882 ATGACCGAAATACCTCCATAGGGT-AAATGGCCGAAATACCCCCATAGGGTAAAATGACCAAAAT
1 ATGACCGAAATACC-CCAAAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATGACCAAAAT
32911946 ACCCC
65 ACCCC
32911951 TAGGAGATGA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
80 56 0.88
81 8 0.12
ACGTcount: A:0.42, C:0.26, G:0.17, T:0.15
Consensus pattern (80 bp):
ATGACCGAAATACCCCAAAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATGACCAAAATA
CCCCCATAGGATAGA
Found at i:32918376 original size:30 final size:29
Alignment explanation
Indices: 32918277--32918531 Score: 180
Period size: 28 Copynumber: 8.9 Consensus size: 29
32918267 TTCTTTTGTT
32918277 AGAGGTT-ACCACAAAGGCTTTCCTTT-C
1 AGAGGTTCACCACAAAGGCTTTCCTTTAC
* * ** * *
32918304 AAAGGTTCTCCACAAAATCTTTCATTTGC
1 AGAGGTTCACCACAAAGGCTTTCCTTTAC
* ** *
32918333 ATAGGTTTGCCACAAAGGCTTTTCCTTTAT
1 AGAGGTTCACCACAAAGGC-TTTCCTTTAC
*
32918363 AGAGGTTCACCACAAAGGTTTTTCCTTTAC
1 AGAGGTTCACCACAAAGG-CTTTCCTTTAC
* * *
32918393 AAAGGTTCGCCACAAAAGCTTTCCTTT-C
1 AGAGGTTCACCACAAAGGCTTTCCTTTAC
* **
32918421 AGAGATTCACCACAAAATCTTTCCTTT-C
1 AGAGGTTCACCACAAAGGCTTTCCTTTAC
* ** *** * *
32918449 ATAGGTTTTCCATGTAGGTTTTTCTTT-C
1 AGAGGTTCACCACAAAGGCTTTCCTTTAC
* *
32918477 ACAGGTTCACCACAAAGGCTTT-CTTTCC
1 AGAGGTTCACCACAAAGGCTTTCCTTTAC
* **
32918505 ATAGGTTTGCCACAAAGGCTTTCCTTT
1 AGAGGTTCACCACAAAGGCTTTCCTTT
32918532 TTTTGGTGTG
Statistics
Matches: 175, Mismatches: 47, Indels: 10
0.75 0.20 0.04
Matches are distributed among these distances:
27 10 0.06
28 92 0.53
29 27 0.15
30 46 0.26
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.35
Consensus pattern (29 bp):
AGAGGTTCACCACAAAGGCTTTCCTTTAC
Found at i:32918435 original size:117 final size:112
Alignment explanation
Indices: 32918285--32918531 Score: 305
Period size: 117 Copynumber: 2.2 Consensus size: 112
32918275 TTAGAGGTTA
* *
32918285 CCACAAAGGCTTTCCTTTCAAAGGTTCTCCACAAAATCTTTCATTTGCATAGGTTTGCCACAAAG
1 CCACAAAGGCTTTCCTTTCAAAGATTCACCACAAAATCTTTCATTT-CATAGGTTTGCCACAAAG
* * *
32918350 GCTTTTCCTTTATAGAGGTTCACCACAAAGGTTTTTCCTTTACAAAGGTTCG
65 G-TTTTCCTTT-CACAGGTTCACCACAAAGG-CTTT-CTTTACAAAGGTTCG
* * * * ***
32918402 CCACAAAAGCTTTCCTTTCAGAGATTCACCACAAAATCTTTCCTTTCATAGGTTTTCCATGTAGG
1 CCACAAAGGCTTTCCTTTCAAAGATTCACCACAAAATCTTTCATTTCATAGGTTTGCCACAAAGG
* * * *
32918467 TTTTTCTTTCACAGGTTCACCACAAAGGCTTTCTTTCCATAGGTTTG
66 TTTTCCTTTCACAGGTTCACCACAAAGGCTTTCTTTACAAAGGTTCG
32918514 CCACAAAGGCTTTCCTTT
1 CCACAAAGGCTTTCCTTT
32918532 TTTTGGTGTG
Statistics
Matches: 113, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
112 29 0.26
113 3 0.03
114 17 0.15
115 8 0.07
116 15 0.13
117 41 0.36
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (112 bp):
CCACAAAGGCTTTCCTTTCAAAGATTCACCACAAAATCTTTCATTTCATAGGTTTGCCACAAAGG
TTTTCCTTTCACAGGTTCACCACAAAGGCTTTCTTTACAAAGGTTCG
Found at i:32923715 original size:61 final size:60
Alignment explanation
Indices: 32923629--32923878 Score: 275
Period size: 61 Copynumber: 4.3 Consensus size: 60
32923619 AATGTGACTG
* * *
32923629 ATTATAAGGTATGACAGGTATATGTAAATGATTACATGGCATGAATATGCGAATATGAAT
1 ATTATAGGGTATGACAGGTAAATGTAAATGATTACAGGGCATGAATATGCGAATATGAAT
* * * * *
32923689 AATTATAGGGTATGAAAAGTAAATGTAAATGATTATAGGGCATAAATATGCAAATATGAATT
1 -ATTATAGGGTATGACAGGTAAATGTAAATGATTACAGGGCATGAATATGCGAATATGAA-T
* *
32923751 ATTACAGGGTATGATAGGTAAATGTAAATGATTACAGGGCATGAATAT----A-A-G---
1 ATTATAGGGTATGACAGGTAAATGTAAATGATTACAGGGCATGAATATGCGAATATGAAT
* * *
32923802 ATTATAGGGTATGACGGGTAAATGTAAATAATTACAAGGCATGAATATGCGAATATGAAT
1 ATTATAGGGTATGACAGGTAAATGTAAATGATTACAGGGCATGAATATGCGAATATGAAT
* *
32923862 GATTACATGGTATGACA
1 -ATTATAGGGTATGACA
32923879 ATGCAAATAT
Statistics
Matches: 157, Mismatches: 21, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
51 43 0.27
55 2 0.01
56 2 0.01
57 2 0.01
61 107 0.68
62 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.30
Consensus pattern (60 bp):
ATTATAGGGTATGACAGGTAAATGTAAATGATTACAGGGCATGAATATGCGAATATGAAT
Found at i:32923724 original size:30 final size:30
Alignment explanation
Indices: 32923650--32923795 Score: 105
Period size: 30 Copynumber: 4.8 Consensus size: 30
32923640 TGACAGGTAT
* * **
32923650 ATGTAAATGATTACATGGCATGAATATGCGA
1 ATGTAAATGATTACAGGGCATGAA-AAGTAA
* * * * *
32923681 ATATGAATAATTATAGGGTATGAAAAGTAA
1 ATGTAAATGATTACAGGGCATGAAAAGTAA
* *
32923711 ATGTAAATGATTATAGGGCAT-AAATATGCAA
1 ATGTAAATGATTACAGGGCATGAAA-A-GTAA
* * * * * *
32923742 ATATGAATTATTACAGGGTATGATAGGTAA
1 ATGTAAATGATTACAGGGCATGAAAAGTAA
32923772 ATGTAAATGATTACAGGGCATGAA
1 ATGTAAATGATTACAGGGCATGAA
32923796 TATAAGATTA
Statistics
Matches: 85, Mismatches: 27, Indels: 7
0.71 0.23 0.06
Matches are distributed among these distances:
29 3 0.04
30 43 0.51
31 37 0.44
32 2 0.02
ACGTcount: A:0.43, C:0.05, G:0.22, T:0.29
Consensus pattern (30 bp):
ATGTAAATGATTACAGGGCATGAAAAGTAA
Found at i:32923813 original size:51 final size:51
Alignment explanation
Indices: 32923751--32923849 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
32923741 AATATGAATT
* * *
32923751 ATTACAGGGTATGATAGGTAAATGTAAATGATTACAGGGCATGAATATAAG
1 ATTACAGGGTATGACAGGTAAATGTAAATAATTACAAGGCATGAATATAAG
* *
32923802 ATTATAGGGTATGACGGGTAAATGTAAATAATTACAAGGCATGAATAT
1 ATTACAGGGTATGACAGGTAAATGTAAATAATTACAAGGCATGAATAT
32923850 GCGAATATGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.28
Consensus pattern (51 bp):
ATTACAGGGTATGACAGGTAAATGTAAATAATTACAAGGCATGAATATAAG
Found at i:32926716 original size:16 final size:16
Alignment explanation
Indices: 32926695--32926726 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32926685 TAATATTTAA
*
32926695 AAAAAATTAAAAATTT
1 AAAAAATAAAAAATTT
32926711 AAAAAATAAAAAATTT
1 AAAAAATAAAAAATTT
32926727 TCCTATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAAATAAAAAATTT
Found at i:32926868 original size:11 final size:11
Alignment explanation
Indices: 32926852--32926876 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32926842 AATTATTAAG
32926852 AATTATAAAAA
1 AATTATAAAAA
32926863 AATTATAAAAA
1 AATTATAAAAA
32926874 AAT
1 AAT
32926877 CATTTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATTATAAAAA
Found at i:32927946 original size:20 final size:21
Alignment explanation
Indices: 32927898--32927946 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
32927888 ATAATTCTTG
*
32927898 ATAATTATTAAATAATTTTCT
1 ATAATTATTAAATAAGTTTCT
**
32927919 ATAA-TATTGTATAAGTTT-T
1 ATAATTATTAAATAAGTTTCT
32927938 ATAATTATT
1 ATAATTATT
32927947 TAACAATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 5 0.21
20 15 0.62
21 4 0.17
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (21 bp):
ATAATTATTAAATAAGTTTCT
Found at i:32928067 original size:10 final size:10
Alignment explanation
Indices: 32928046--32928091 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
32928036 CCAGACATTG
32928046 TTTTTAAT-A
1 TTTTTAATAA
32928055 TTTTTAATAA
1 TTTTTAATAA
* *
32928065 TTTTTTATAT
1 TTTTTAATAA
32928075 TTTTTAATAA
1 TTTTTAATAA
*
32928085 TTATTAA
1 TTTTTAA
32928092 AAGTTTTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
9 8 0.26
10 23 0.74
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:32928071 original size:20 final size:20
Alignment explanation
Indices: 32928046--32928086 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
32928036 CCAGACATTG
32928046 TTTTTA-ATATTTTTAATAAT
1 TTTTTATAT-TTTTTAATAAT
32928066 TTTTTATATTTTTTAATAAT
1 TTTTTATATTTTTTAATAAT
32928086 T
1 T
32928087 ATTAAAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTATATTTTTTAATAAT
Found at i:32928098 original size:20 final size:20
Alignment explanation
Indices: 32928055--32928098 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
32928045 GTTTTTAATA
* * * *
32928055 TTTTTAATAATTTTTTATAT
1 TTTTTAATAATTATTAAAAG
32928075 TTTTTAATAATTATTAAAAG
1 TTTTTAATAATTATTAAAAG
32928095 TTTT
1 TTTT
32928099 ATTTTTTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTTAATAATTATTAAAAG
Found at i:32928118 original size:13 final size:13
Alignment explanation
Indices: 32928102--32928131 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
32928092 AAGTTTTATT
32928102 TTTTATTTTTTTA
1 TTTTATTTTTTTA
32928115 TTTTATTTTTTTA
1 TTTTATTTTTTTA
32928128 TTTT
1 TTTT
32928132 TAAATATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:32928471 original size:16 final size:16
Alignment explanation
Indices: 32928444--32928482 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
32928434 GCGAGAACTC
32928444 TAAAATTTAAAGAAATT
1 TAAAA-TTAAAGAAATT
* *
32928461 TAAAATTAAAGTATTT
1 TAAAATTAAAGAAATT
32928477 TAAAAT
1 TAAAAT
32928483 ATTAGTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (16 bp):
TAAAATTAAAGAAATT
Found at i:32931408 original size:19 final size:20
Alignment explanation
Indices: 32931384--32931422 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
32931374 TAAATAATCT
*
32931384 TTATTATAAT-TATAATAAA
1 TTATTATAATATACAATAAA
32931403 TTATTATAATATACAATAAA
1 TTATTATAATATACAATAAA
32931423 ACTAATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTATAATATACAATAAA
Found at i:32932694 original size:3 final size:3
Alignment explanation
Indices: 32932686--32932718 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
32932676 CGGGTTTCTT
32932686 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32932719 GGGTTTTTTT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:32937823 original size:43 final size:44
Alignment explanation
Indices: 32937723--32937852 Score: 137
Period size: 43 Copynumber: 3.0 Consensus size: 44
32937713 AAAGCTGATA
* * *
32937723 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAC-ATAT
1 CAATGCCAACGTCCCAGAAGTGGTCTTACACGTAAACACAATAT
* *
32937766 CGATGTC-ACTGTCCCAGATAG-GGTCTTACACGTAAACACAAT-T
1 CAATGCCAAC-GTCCCAGA-AGTGGTCTTACACGTAAACACAATAT
*
32937809 CAATGCCAACGTCCCA-AACGTGGTCTTACACGAAAACAC-ATAT
1 CAATGCCAACGTCCCAGAA-GTGGTCTTACACGTAAACACAATAT
32937852 C
1 C
32937853 GGAGATCCTA
Statistics
Matches: 72, Mismatches: 8, Indels: 14
0.77 0.09 0.15
Matches are distributed among these distances:
41 1 0.01
42 6 0.08
43 60 0.83
44 5 0.07
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (44 bp):
CAATGCCAACGTCCCAGAAGTGGTCTTACACGTAAACACAATAT
Found at i:32947820 original size:20 final size:20
Alignment explanation
Indices: 32947792--32947829 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
32947782 AATATTTAAA
32947792 TTTTAAAAATTATTTTGATT
1 TTTTAAAAATTATTTTGATT
*
32947812 TTTTGAAAATTATTTTGA
1 TTTTAAAAATTATTTTGA
32947830 ATTCTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TTTTAAAAATTATTTTGATT
Found at i:32948292 original size:22 final size:23
Alignment explanation
Indices: 32948267--32948309 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
32948257 CGGCACCACC
*
32948267 ATTTTTTTAATA-ATTTTTTTTT
1 ATTTTTTTAATATATTATTTTTT
32948289 ATTTTTTTAATATATTATTTT
1 ATTTTTTTAATATATTATTTT
32948310 ATTAGTGGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (23 bp):
ATTTTTTTAATATATTATTTTTT
Found at i:32948304 original size:13 final size:13
Alignment explanation
Indices: 32948267--32948310 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 13
32948257 CGGCACCACC
32948267 ATTTTTTTAATA-
1 ATTTTTTTAATAT
32948279 ATTTTTTT--T-T
1 ATTTTTTTAATAT
32948289 ATTTTTTTAATAT
1 ATTTTTTTAATAT
*
32948302 ATTATTTTA
1 ATTTTTTTA
32948311 TTAGTGGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
10 9 0.33
12 9 0.33
13 9 0.33
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
ATTTTTTTAATAT
Found at i:32951970 original size:33 final size:33
Alignment explanation
Indices: 32951923--32952032 Score: 100
Period size: 33 Copynumber: 3.3 Consensus size: 33
32951913 AGTGCTACGA
* *
32951923 TGGATACGGACCGGGAGGAGTGAAGTACTGCAG
1 TGGATATGGGCCGGGAGGAGTGAAGTACTGCAG
* *
32951956 TGGATATGGGCCGGGAAGAGT-AGAGTACT-AAGG
1 TGGATATGGGCCGGGAGGAGTGA-AGTACTGCA-G
* * * *
32951989 TAGATATGGGCCGGGAGAAGTGGAGTACTGCGG
1 TGGATATGGGCCGGGAGGAGTGAAGTACTGCAG
32952022 TGG-TAGTGGGC
1 TGGATA-TGGGC
32952033 TGAAGATATC
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
32 4 0.07
33 57 0.93
ACGTcount: A:0.25, C:0.12, G:0.45, T:0.18
Consensus pattern (33 bp):
TGGATATGGGCCGGGAGGAGTGAAGTACTGCAG
Found at i:32954197 original size:99 final size:99
Alignment explanation
Indices: 32954052--32954236 Score: 273
Period size: 99 Copynumber: 1.9 Consensus size: 99
32954042 TACATTAATA
* * * *
32954052 AAAAATCACAAAGCACTAAACTAAACACTAACAATTTATAACCTAATCATAAATTACTAACAAAA
1 AAAAATCACAAAACACTAAACCAAACACTAACAATTTATAACCTAATAAAAAATTACTAACAAAA
32954117 TAACTATAAAATAATTTTAAATTAATCAAAAATC
66 TAACTATAAAATAATTTTAAATTAATCAAAAATC
* * * * *
32954151 AAAAATCAAGAAAACACTAAACCAAACGC-AACCATTTATAAGCTAATAAAAAATTATTAACAAA
1 AAAAATC-ACAAAACACTAAACCAAACACTAACAATTTATAACCTAATAAAAAATTACTAACAAA
32954215 ATAACTATAAAATAATTTTAAA
65 ATAACTATAAAATAATTTTAAA
32954237 AAAACAAAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
99 59 0.78
100 17 0.22
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (99 bp):
AAAAATCACAAAACACTAAACCAAACACTAACAATTTATAACCTAATAAAAAATTACTAACAAAA
TAACTATAAAATAATTTTAAATTAATCAAAAATC
Found at i:32954802 original size:12 final size:12
Alignment explanation
Indices: 32954761--32954786 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32954751 GCGGTCACGG
32954761 GTATTTTGACCC
1 GTATTTTGACCC
32954773 GTATTTTGACCC
1 GTATTTTGACCC
32954785 GT
1 GT
32954787 TGACCTGTAT
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:0.15, C:0.23, G:0.19, T:0.42
Consensus pattern (12 bp):
GTATTTTGACCC
Found at i:32959085 original size:14 final size:14
Alignment explanation
Indices: 32959066--32959104 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
32959056 TTGTTTCGCT
*
32959066 GAAAATGGCTTCTG
1 GAAAATGACTTCTG
*
32959080 GAAAATGATTTCTG
1 GAAAATGACTTCTG
32959094 GAAAATGACTT
1 GAAAATGACTT
32959105 ACTTTTCTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (14 bp):
GAAAATGACTTCTG
Found at i:32966248 original size:3 final size:3
Alignment explanation
Indices: 32966240--32966278 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
32966230 TGTTATTAAG
* *
32966240 TTA TTA TTA TTA TTG TTA TTA TTA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32966279 CTATATATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:32966435 original size:17 final size:17
Alignment explanation
Indices: 32966404--32966447 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
32966394 CATAACTTTT
*
32966404 ATATACA-TATATATAC
1 ATATACATTTTATATAC
*
32966420 ATTTACATTTTATATAC
1 ATATACATTTTATATAC
32966437 ATATACATTTT
1 ATATACATTTT
32966448 TTATTTCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:32966646 original size:30 final size:30
Alignment explanation
Indices: 32966610--32966666 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
32966600 TATTTGTTTA
*
32966610 TATATATATGTA-ATTATCTTTTTTATAATC
1 TATATATATGTATATAAT-TTTTTTATAATC
32966640 TATATATATGTATATAATTTTTTTATA
1 TATATATATGTATATAATTTTTTTATA
32966667 TATGTACATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (30 bp):
TATATATATGTATATAATTTTTTTATAATC
Found at i:32971941 original size:44 final size:44
Alignment explanation
Indices: 32971867--32972148 Score: 248
Period size: 44 Copynumber: 6.4 Consensus size: 44
32971857 AGTGAAGATA
* * * * *
32971867 GCAGATCCTATCTTCCTATATTGGTAGCGAAGTGGATCGAATAT
1 GCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAAAT
* * *
32971911 GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
1 GCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAA-AAT
* * *
32971956 GCAGATCTTGTCTTCATGTATTGGTGTG-G-AGTAGATCGAAGAT
1 GCAGATCTTGTCTTCCTATATTGGTG-GCGAAGTAGATCGAAAAT
* * * * *
32971999 AGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT
1 -GCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAAAT
* * *
32972043 ACAGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATCGAAGAAA
1 GCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAA-AAT
* * * * * *
32972088 GCAAATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
1 GCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAAAT
* *
32972131 AGTAGATCTTGCCTTCCT
1 -GCAGATCTTGTCTTCCT
32972149 GCACCGACAA
Statistics
Matches: 190, Mismatches: 41, Indels: 14
0.78 0.17 0.06
Matches are distributed among these distances:
43 26 0.14
44 119 0.63
45 44 0.23
46 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
GCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAAAT
Found at i:32972077 original size:88 final size:90
Alignment explanation
Indices: 32971860--32972148 Score: 320
Period size: 88 Copynumber: 3.3 Consensus size: 90
32971850 GCAGATCAGT
* * * * *
32971860 GAAGATAGCAGATCCTATCTTCCTATATTGGTAGCGAAGTGGATCGAATAT-GCAGATCTTGTCT
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGATAGCAGATCTTGTCT
* * *
32971924 TCCCATACTGGTGGCGAAGTAGATC
66 TCCTATATTGGTAGCGAAGTAGATC
* * * * *
32971949 GAAGAAAGCAGATCTTGTCTTCATGTATTGGTGTG-G-AGTAGATCGAAGATAGCAGGTCCTGTC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTG-GCGAAGTAGATCGAAGATAGCAGATCTTGTC
*
32972012 TTCCTATATTGGTAG-GAAGTGGATC
65 TTCCTATATTGGTAGCGAAGTAGATC
* * *
32972037 GAAGATA-CAGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATCGAAGAAAGCAAATCTTGTCT
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGATAGCAGATCTTGTCT
* * * *
32972101 TCATGTATTGG-CGTGAAGTAGATC
66 TCCTATATTGGTAGCGAAGTAGATC
* *
32972125 GAAGATAGTAGATCTTGCCTTCCT
1 GAAGATAGCAGATCTTGTCTTCCT
32972149 GCACCGACAA
Statistics
Matches: 166, Mismatches: 28, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
86 1 0.01
87 24 0.14
88 76 0.46
89 64 0.39
90 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (90 bp):
GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGATAGCAGATCTTGTCT
TCCTATATTGGTAGCGAAGTAGATC
Found at i:32972147 original size:132 final size:133
Alignment explanation
Indices: 32971860--32972148 Score: 472
Period size: 132 Copynumber: 2.2 Consensus size: 133
32971850 GCAGATCAGT
* * *
32971860 GAAGATAGCAGATCCTATCTTCCTATATTGGTAGCGAAGTGGATCGAATATGCAGATCTTGTCTT
1 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATACAGATCTTGTCTT
* * *
32971925 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGTGTGGAGTAG
66 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAG
32971990 ATC
131 ATC
*
32971993 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATACAGATCTTGTCTT
1 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATACAGATCTTGTCTT
*
32972057 CCTATACTGGTGGCGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAG
66 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAG
32972122 ATC
131 ATC
* * *
32972125 GAAGATAGTAGATCTTGCCTTCCT
1 GAAGATAGCAGATCCTGTCTTCCT
32972149 GCACCGACAA
Statistics
Matches: 144, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
132 112 0.78
133 32 0.22
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (133 bp):
GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATACAGATCTTGTCTT
CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAG
ATC
Found at i:32972370 original size:88 final size:88
Alignment explanation
Indices: 32972133--32972347 Score: 313
Period size: 88 Copynumber: 2.4 Consensus size: 88
32972123 TCGAAGATAG
* * *
32972133 TAGATCTTGCCTTCCTGCACCGACAACAAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 TAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
32972198 GCAGCAGAGCAGGCTAAAAATAG
66 GCAGCAGAGCAGGCTAAAAATAA
* * *
32972221 GAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGGCACTAGCCTTGCCTCCCTGGGTT
1 TAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* * *
32972286 GCAGCGGAGCATGTTAAAAATAA
66 GCAGCAGAGCAGGCTAAAAATAA
* * *
32972309 TAGATCTTGCCTTGCTACACCGACAGCGACGCAGATCGA
1 TAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
32972348 TGACCCCAAC
Statistics
Matches: 113, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 113 1.00
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.20
Consensus pattern (88 bp):
TAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCAGAGCAGGCTAAAAATAA
Found at i:32972565 original size:44 final size:44
Alignment explanation
Indices: 32972358--32972567 Score: 264
Period size: 44 Copynumber: 4.8 Consensus size: 44
32972348 TGACCCCAAC
*
32972358 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
32972402 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* ** *
32972446 TCTATCTCCCT-GTGCAGCAGTGGAATAAATTGAAGATTGT-AGGT
1 CCTATCTCCCTGGT-CAGCAGTGGAATAGGTTGAAGATTGTGA-AT
* *
32972490 CCTATCTCCCTGGTCAACAGTGGAATGGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * *
32972534 CATATCTCCCTGAG-CAGCTGTGGAGTAGGTTGAA
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGTTGAA
32972568 AATAGCAGAT
Statistics
Matches: 141, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
43 3 0.02
44 134 0.95
45 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:32973371 original size:12 final size:12
Alignment explanation
Indices: 32973354--32973379 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32973344 AGGATATGCA
32973354 ATCTTAGATATG
1 ATCTTAGATATG
32973366 ATCTTAGATATG
1 ATCTTAGATATG
32973378 AT
1 AT
32973380 ATATGCAATC
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:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATCTTAGATATG
Found at i:32973402 original size:19 final size:20
Alignment explanation
Indices: 32973366--32973413 Score: 80
Period size: 19 Copynumber: 2.4 Consensus size: 20
32973356 CTTAGATATG
32973366 ATCTTAGATATGATATATGCA
1 ATCTTAGATATGA-ATATGCA
32973387 ATCTTAGATATG-ATATGCA
1 ATCTTAGATATGAATATGCA
32973406 ATCTTAGA
1 ATCTTAGA
32973414 AGATATGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 15 0.56
21 12 0.44
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (20 bp):
ATCTTAGATATGAATATGCA
Found at i:32973435 original size:23 final size:22
Alignment explanation
Indices: 32973371--32973436 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 22
32973361 ATATGATCTT
32973371 AGATATGATATATGCAATCTT---
1 AGATATG--ATATGCAATCTTAGA
32973392 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
32973414 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
32973437 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 12 0.31
21 7 0.18
22 8 0.21
23 12 0.31
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:32973719 original size:7 final size:7
Alignment explanation
Indices: 32973707--32973736 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
32973697 TAGTCTTTTT
32973707 TTATTTA
1 TTATTTA
32973714 TTATTTA
1 TTATTTA
32973721 TTATTTA
1 TTATTTA
32973728 TT-TTTA
1 TTATTTA
32973734 TTA
1 TTA
32973737 AATTTGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTTA
Found at i:32973937 original size:17 final size:17
Alignment explanation
Indices: 32973915--32973949 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
32973905 TATATACATA
32973915 TATATACAT-TTACATTT
1 TATATACATATT-CATTT
32973932 TATATACATATTCATTT
1 TATATACATATTCATTT
32973949 T
1 T
32973950 TTATTTCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATACATATTCATTT
Found at i:32974148 original size:30 final size:30
Alignment explanation
Indices: 32974112--32974168 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
32974102 TATTTGTTTA
*
32974112 TATATATATGTA-ATTATCTTTTTTATAATC
1 TATATATATGTATATAAT-TTTTTTATAATC
32974142 TATATATATGTATATAATTTTTTTATA
1 TATATATATGTATATAATTTTTTTATA
32974169 TATGTACATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (30 bp):
TATATATATGTATATAATTTTTTTATAATC
Found at i:32975519 original size:16 final size:15
Alignment explanation
Indices: 32975493--32975522 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
32975483 AATTTTTTTT
32975493 AAATAATATTATTTC
1 AAATAATATTATTTC
32975508 AAATATATATTATTT
1 AAATA-ATATTATTT
32975523 ATAATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
AAATAATATTATTTC
Found at i:32976861 original size:16 final size:14
Alignment explanation
Indices: 32976831--32976866 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 14
32976821 GCATAAAATT
32976831 TTAAAAATATTAAC
1 TTAAAAATATTAAC
32976845 TTAACAAATAGTTAAC
1 TTAA-AAATA-TTAAC
32976861 TTAAAA
1 TTAAAA
32976867 GGATGTATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 9 0.45
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (14 bp):
TTAAAAATATTAAC
Found at i:32979873 original size:16 final size:16
Alignment explanation
Indices: 32979852--32979882 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
32979842 GTATTGAGGA
32979852 TTTTAATTTTATTTTT
1 TTTTAATTTTATTTTT
32979868 TTTTAATTTTATTTT
1 TTTTAATTTTATTTT
32979883 CTCTTTCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTAATTTTATTTTT
Found at i:32984333 original size:11 final size:11
Alignment explanation
Indices: 32984317--32984349 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
32984307 TTTTTAGAGT
32984317 ATAATAAAATA
1 ATAATAAAATA
32984328 ATAATAAAATA
1 ATAATAAAATA
32984339 ATTAA-AAAATA
1 A-TAATAAAATA
32984350 TTTACCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 18 0.86
12 3 0.14
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAATAAAATA
Found at i:32987984 original size:7 final size:7
Alignment explanation
Indices: 32987972--32988026 Score: 58
Period size: 7 Copynumber: 7.7 Consensus size: 7
32987962 GTGGAGGCAA
32987972 AAAAAAC
1 AAAAAAC
32987979 AAAAAA-
1 AAAAAAC
*
32987985 AAAACAAA
1 AAAA-AAC
32987993 AAAAAAC
1 AAAAAAC
*
32988000 AAAGAAC
1 AAAAAAC
*
32988007 AAAAAAT
1 AAAAAAC
32988014 AGAAAAAC
1 A-AAAAAC
32988022 AAAAA
1 AAAAA
32988027 CCTCTACCGG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
6 4 0.10
7 26 0.65
8 10 0.25
ACGTcount: A:0.85, C:0.09, G:0.04, T:0.02
Consensus pattern (7 bp):
AAAAAAC
Found at i:32987985 original size:10 final size:10
Alignment explanation
Indices: 32987970--32988026 Score: 62
Period size: 10 Copynumber: 5.4 Consensus size: 10
32987960 CAGTGGAGGC
32987970 AAAAAAAACAA
1 AAAAAAAAC-A
32987981 AAAAAAAACA
1 AAAAAAAACA
32987991 AAAAAAAACA
1 AAAAAAAACA
32988001 AAGAACAAAA-A
1 AA-AA-AAAACA
*
32988012 ATAGAAAAACA
1 A-AAAAAAACA
32988023 AAAA
1 AAAA
32988027 CCTCTACCGG
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
10 19 0.47
11 16 0.40
12 5 0.12
ACGTcount: A:0.86, C:0.09, G:0.04, T:0.02
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:32987997 original size:15 final size:15
Alignment explanation
Indices: 32987970--32988026 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
32987960 CAGTGGAGGC
*
32987970 AAAAA-AAACAAAAA
1 AAAAACAAAAAAAAA
32987984 AAAAACAAAAAAAAA
1 AAAAACAAAAAAAAA
* *
32987999 CAAAGAACAAAAAATAG
1 -AAA-AACAAAAAAAAA
32988016 AAAAACAAAAA
1 AAAAACAAAAA
32988027 CCTCTACCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
14 5 0.14
15 16 0.43
16 6 0.16
17 10 0.27
ACGTcount: A:0.86, C:0.09, G:0.04, T:0.02
Consensus pattern (15 bp):
AAAAACAAAAAAAAA
Found at i:32988007 original size:17 final size:18
Alignment explanation
Indices: 32987972--32988012 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
32987962 GTGGAGGCAA
32987972 AAAAAACAAAAAAAAAAC
1 AAAAAACAAAAAAAAAAC
* *
32987990 AAAAAA-AAACAAAGAAC
1 AAAAAACAAAAAAAAAAC
32988007 AAAAAA
1 AAAAAA
32988013 TAGAAAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (18 bp):
AAAAAACAAAAAAAAAAC
Found at i:32989737 original size:143 final size:141
Alignment explanation
Indices: 32989372--32989739 Score: 450
Period size: 143 Copynumber: 2.6 Consensus size: 141
32989362 TGAAGTCATT
* * * *
32989372 ATGGCGGATCTTATCTTTCTGAAGTTGAAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
1 ATGGCGAATCTTATC-TTCAGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT-CCTT
* * * * ** *
32989437 AAGTTGTAGCGGACCAGATTGAAGACAACGAATCTTATTTGCCTAGTGTTGCAGTGGAACAGATT
64 AAGTTGTAGCGGAGCAGACTGAAGACAACAAACCTTATTCCCCTAGCGTTGCAGTGGAACAGATT
*
32989502 AAAGCTACAAATT
129 AAAGCTACAAATC
*
32989515 ATGGC-ATATCTTATCTTCAGAAAGTTGCAGTGGAGCAGATTGATGCCACCAGCCTTATCTCCTT
1 ATGGCGA-ATCTTATCTTCAG-AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTT
* * *
32989579 AAAGTTGCAACGGAGCAGACTGAAGACAACAAACCTTATTCCCCTGGCGTTGCAGTGGAACAGAT
64 -AAGTTGTAGCGGAGCAGACTGAAGACAACAAACCTTATTCCCCTAGCGTTGCAGTGGAACAGAT
*
32989644 TAAAGCTACAACTC
128 TAAAGCTACAAATC
** * * * *
32989658 ATGGCGAATCTTATCTTCCAGAAGTTGCAGTGGAATAGACTGAAGACACAATCCTTATCTCGCTT
1 ATGGCGAATCTTATCTT-CAGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTC-CTT
*
32989723 AAGTTGTAGTGGAGCAG
64 AAGTTGTAGCGGAGCAG
32989740 GATAAAAATA
Statistics
Matches: 192, Mismatches: 27, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
142 7 0.04
143 178 0.93
144 7 0.04
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (141 bp):
ATGGCGAATCTTATCTTCAGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTTAA
GTTGTAGCGGAGCAGACTGAAGACAACAAACCTTATTCCCCTAGCGTTGCAGTGGAACAGATTAA
AGCTACAAATC
Found at i:32990082 original size:178 final size:179
Alignment explanation
Indices: 32989704--32990060 Score: 520
Period size: 179 Copynumber: 2.0 Consensus size: 179
32989694 AGACTGAAGA
* * * *
32989704 CACAATCCTTATCTCGCTTAAGTTGTAGTGGAGCAGGATAAAAATATACAAACCTTATCTCCCTG
1 CACAATCCTTATCTCCCTAAAGTTGCACTGGAGCAGGATAAAAATATACAAACCTTATCTCCCTG
** * * * *
32989769 AAGTTGTAGTGGAGCAGGTTGAAGTTACCGATTCTTATCTCCTTGAAGTTGCAGCGGAGTAGATC
66 AAGTTACAGTGAAGCAGGTTGAAATTACCAATTCTTATCTCCTTAAAGTTGCAGCGGAGTAGATC
* * * *
32989834 GAAGCTACAAATCACTTCTCTATGAAATTACATTGAAGTAGATCGTAGC
131 GAAGCTACAAATCACTTCTCCATGAAATTACATTGAAGCAGATCGAAAC
32989883 CACAATCCTTATCTCCCTAAAGTTGCACTGGAGCAGGATAAAAATATACAAACCTTATCTCCCTG
1 CACAATCCTTATCTCCCTAAAGTTGCACTGGAGCAGGATAAAAATATACAAACCTTATCTCCCTG
32989948 AAGTTACAGTGAAGCAGGTTGAAATTACCAATT-TTATCTCCTTAAAGTTGCAG-GAGAGTAGAT
66 AAGTTACAGTGAAGCAGGTTGAAATTACCAATTCTTATCTCCTTAAAGTTGCAGCG-GAGTAGAT
* * * * *
32990011 CGAAGCTACAAGTCTCTTCTCCCTGAAATTATATTGGAGCAGATCGAAAC
130 CGAAGCTACAAATCACTTCTCCATGAAATTACATTGAAGCAGATCGAAAC
32990061 ACCAATTCCT
Statistics
Matches: 158, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
177 1 0.01
178 68 0.43
179 89 0.56
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (179 bp):
CACAATCCTTATCTCCCTAAAGTTGCACTGGAGCAGGATAAAAATATACAAACCTTATCTCCCTG
AAGTTACAGTGAAGCAGGTTGAAATTACCAATTCTTATCTCCTTAAAGTTGCAGCGGAGTAGATC
GAAGCTACAAATCACTTCTCCATGAAATTACATTGAAGCAGATCGAAAC
Found at i:32991260 original size:4 final size:4
Alignment explanation
Indices: 32991251--32991329 Score: 54
Period size: 4 Copynumber: 19.8 Consensus size: 4
32991241 TCCTCGACTG
*** * * *
32991251 TTTA TTTA TTTA TTTA TTTA TTTA AAAA TGT- TTTA CTTA -ATA TTCTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA
* *
32991298 TTTA ATAA TTTA TTTA TTTA TTTA TTTGA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT-A TTT
32991330 CTTTTTAAAC
Statistics
Matches: 57, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
3 4 0.07
4 45 0.79
5 8 0.14
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (4 bp):
TTTA
Found at i:32993388 original size:21 final size:20
Alignment explanation
Indices: 32993368--32993404 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
32993358 ATATGTAGAT
32993368 ATTTGTTTTAT-GTAAAGAG
1 ATTTGTTTTATAGTAAAGAG
*
32993387 ATTTGTTTTCTAGTAAAG
1 ATTTGTTTTATAGTAAAG
32993405 TTCTTCTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.30, C:0.03, G:0.19, T:0.49
Consensus pattern (20 bp):
ATTTGTTTTATAGTAAAGAG
Found at i:32995595 original size:1 final size:1
Alignment explanation
Indices: 32995589--32995663 Score: 69
Period size: 1 Copynumber: 75.0 Consensus size: 1
32995579 CTGTGGAGGC
* * * * * * * *
32995589 AAAAAAAACAAAAAACAAAAAAAATAAAAAAATAAAAAAAAAATAAAAAAAAAACAAAAAACAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
32995654 AAAACAAAAA
1 AAAAAAAAAA
32995664 CCTCTACTAG
Statistics
Matches: 56, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.88, C:0.07, G:0.01, T:0.04
Consensus pattern (1 bp):
A
Found at i:32995612 original size:11 final size:11
Alignment explanation
Indices: 32995589--32995649 Score: 77
Period size: 11 Copynumber: 5.4 Consensus size: 11
32995579 CTGTGGAGGC
32995589 AAAAAAAACAA
1 AAAAAAAACAA
*
32995600 AAAACAAAAAAA
1 AAAA-AAAACAA
*
32995612 ATAAAAAAATAA
1 A-AAAAAAACAA
*
32995624 AAAAAAAATAA
1 AAAAAAAACAA
32995635 AAAAAAAACAA
1 AAAAAAAACAA
32995646 AAAA
1 AAAA
32995650 CAGAAAAACA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
11 28 0.62
12 14 0.31
13 3 0.07
ACGTcount: A:0.90, C:0.05, G:0.00, T:0.05
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:32996082 original size:10 final size:11
Alignment explanation
Indices: 32996067--32996091 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32996057 AAAGTGAGAG
32996067 AAAAAAAACAA
1 AAAAAAAACAA
32996078 AAAAAAAACAA
1 AAAAAAAACAA
32996089 AAA
1 AAA
32996092 TAAGAGGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:32997470 original size:143 final size:142
Alignment explanation
Indices: 32996959--32997472 Score: 618
Period size: 143 Copynumber: 3.6 Consensus size: 142
32996949 GATTGAAGTC
* * **
32996959 ATTATGGCGGATCTTATCTTTCTGAAGTTGAAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGTAGTGGAACAGATTGAAGCCACCAGCCTTATCTCC
* * * * *
32997024 CTGAAGTTGTAGCGGAGCAGACTGAAGATAGTGAATCTTATTTCCCTTGCGTTGTAGT-GAACTA
66 CTGAAGTTGAAGCGGAGCAGACTGAAGACAGCGAATCTTA-TTCCCTGGCGTTGCAGTGGAA-TA
32997088 GATTAAAGCTACAA
129 GATTAAAGCTACAA
* * * *
32997102 ATTATGACGGATCTTATCTTCCTGAAGTTGTAATGGAACAGATTGAGGCCACCAGCCTTATCTCG
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGTAGTGGAACAGATTGAAGCCACCAGCCTTATCTCC
* * *
32997167 CTGAAGTT-ACAGCGGAGCAGATTGAAGACAGCGAATCTTACTTCTCTGGCGCTGCAGTGGAATA
66 CTGAAGTTGA-AGCGGAGCAGACTGAAGACAGCGAATCTTA-TTCCCTGGCGTTGCAGTGGAATA
32997231 GATTAAAGCTACAA
129 GATTAAAGCTACAA
* * *
32997245 ATTATGGTGGATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATTTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGTAGTGGAACAGATTGAAGCCACCAGCCTTATCTCC
* * * * * * * *
32997310 TTAAAGTTGCAGCGGAGCAGACTAAAGACAACAAATCTTATTCCCCCGGTGTTGCAGTGGAATAG
66 CTGAAGTTGAAGCGGAGCAGACTGAAGACAGCGAATCTTATT-CCCTGGCGTTGCAGTGGAATAG
32997375 ATTAAAGCTACAA
130 ATTAAAGCTACAA
** * ** * * * * *
32997388 ATTATGGCAAATATTATCTTCCTGAAGTTGCGGCGGAACAGACTGAAGACACAATCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGTAGTGGAACAGATTGAAGCCACCAGCCTTATCTCC
**
32997453 CTGAAGTTGAAATGGAGCAG
66 CTGAAGTTGAAGCGGAGCAG
32997473 GAGAAAAATA
Statistics
Matches: 314, Mismatches: 53, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
142 2 0.01
143 309 0.98
144 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (142 bp):
ATTATGGCGGATCTTATCTTCCTGAAGTTGTAGTGGAACAGATTGAAGCCACCAGCCTTATCTCC
CTGAAGTTGAAGCGGAGCAGACTGAAGACAGCGAATCTTATTCCCTGGCGTTGCAGTGGAATAGA
TTAAAGCTACAA
Found at i:32997636 original size:44 final size:44
Alignment explanation
Indices: 32997401--32997968 Score: 304
Period size: 44 Copynumber: 12.7 Consensus size: 44
32997391 ATGGCAAATA
* * * *
32997401 TTATCTTCCTGAAGTTGCGGCGGAACAGA-CTGAAGAC-ACAATCC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAG-CTACAATCC
* * *** ** *
32997445 TTATCTCCCTGAAGTTGAAATGGAGCAGGAGAAAAATATACAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCA-GA-TCGAAGCTACAATCC
* * * * * * *
32997491 GTATCTCCCTGAAGTTGTAATGGAGCAGGTTGAAGTTACCAATTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTA-CAATCC
* * * *
32997536 TTATCTCCTTGAAGTAGCAGCGGAGTAGATCGAAGCTACAAGT-C
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACAA-TCC
* * * * *
32997580 TCT-TCTCACTGAAATTACATTGGAGCAGATCGAAGCCACAATCC
1 T-TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACAATCC
* * ** ** *
32997624 TTATCCCCCTGAAGTTGTAGTGGAGCAGGATAAAATTATACAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCA-GATCGAA-GCTACAATCC
* * * ** *
32997670 TTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAATTACCAATTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTA-CAATCC
* * * *
32997715 TTATCTCCTTGAAGTTGCAGAGGAGTAGATCGAAGCTACAAGCC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACAATCC
* ** * * *
32997759 TCT-TCTCCCTGAAATTATATTGGATCAGATCGAAGCCACAATCC
1 T-TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACAATCC
** ** *
32997803 TTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATATACAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCA-GAT-CGAAGCTACAATCC
* * ** *
32997849 TTATCTCCCTGAAGTTGTAGTGGAGC-GAGTTGAAATTACCAATTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCGAAGCTA-CAATCC
* *** *
32997894 TTATCTCCTTGAAGTTGCAGCAAAGTAGATCGAAGCTACAAGT-C
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACAA-TCC
* * * * *
32997938 TTTTCTCCCTGAAATTACATTGGAGCGGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATC
32997969 AAAACACCAA
Statistics
Matches: 385, Mismatches: 119, Indels: 40
0.71 0.22 0.07
Matches are distributed among these distances:
43 3 0.01
44 168 0.44
45 116 0.30
46 98 0.25
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACAATCC
Found at i:32997742 original size:179 final size:179
Alignment explanation
Indices: 32997432--32997968 Score: 853
Period size: 179 Copynumber: 3.0 Consensus size: 179
32997422 GGAACAGACT
* * * *
32997432 GAAGACACAATCCTTATCTCCCTGAAGTTGAAATGGAGCAGGAGAAAAATATACAAACCGTATCT
1 GAAGCCACAATCCTTATCTCCCTGAAGTTGAAGTGGAGCAGGATAAAAATATACAAACCTTATCT
* * * *
32997497 CCCTGAAGTTGTAATGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTAGCAGCGGAGT
66 CCCTGAAGTTGTAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGAAGTTGCAGAGGAGT
*
32997562 AGATCGAAGCTACAAGTCTCTTCTCACTGAAATTACATTGGAGCAGATC
131 AGATCGAAGCTACAAGTCTCTTCTCCCTGAAATTACATTGGAGCAGATC
* * *
32997611 GAAGCCACAATCCTTATCCCCCTGAAGTTGTAGTGGAGCAGGATAAAATTATACAAACCTTATCT
1 GAAGCCACAATCCTTATCTCCCTGAAGTTGAAGTGGAGCAGGATAAAAATATACAAACCTTATCT
* *
32997676 CCCTGAAGTTGCAGTGGAACAGGTTGAAATTACCAATTCTTATCTCCTTGAAGTTGCAGAGGAGT
66 CCCTGAAGTTGTAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGAAGTTGCAGAGGAGT
* * *
32997741 AGATCGAAGCTACAAGCCTCTTCTCCCTGAAATTATATTGGATCAGATC
131 AGATCGAAGCTACAAGTCTCTTCTCCCTGAAATTACATTGGAGCAGATC
*
32997790 GAAGCCACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATATACAAACCTTATCT
1 GAAGCCACAATCCTTATCTCCCTGAAGTTGAAGTGGAGCAGGATAAAAATATACAAACCTTATCT
*
32997855 CCCTGAAGTTGTAGTGGAGC-GAGTTGAAATTACCAATTCTTATCTCCTTGAAGTTGCAGCA-AA
66 CCCTGAAGTTGTAGTGGAGCAG-GTTGAAATTACCAATTCTTATCTCCTTGAAGTTGCAG-AGGA
* *
32997918 GTAGATCGAAGCTACAAGTCTTTTCTCCCTGAAATTACATTGGAGCGGATC
129 GTAGATCGAAGCTACAAGTCTCTTCTCCCTGAAATTACATTGGAGCAGATC
32997969 AAAACACCAA
Statistics
Matches: 328, Mismatches: 28, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
178 1 0.00
179 326 0.99
180 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (179 bp):
GAAGCCACAATCCTTATCTCCCTGAAGTTGAAGTGGAGCAGGATAAAAATATACAAACCTTATCT
CCCTGAAGTTGTAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGAAGTTGCAGAGGAGT
AGATCGAAGCTACAAGTCTCTTCTCCCTGAAATTACATTGGAGCAGATC
Found at i:32998273 original size:23 final size:23
Alignment explanation
Indices: 32998245--32998290 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
32998235 AATACAAGCC
32998245 CCCAAAA-CTAAAAACTCTAACAG
1 CCCAAAACCTAAAAACT-TAACAG
*
32998268 CCCAAAACCTAAACACTTAACAG
1 CCCAAAACCTAAAAACTTAACAG
32998291 AAACCCTAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.50, C:0.33, G:0.04, T:0.13
Consensus pattern (23 bp):
CCCAAAACCTAAAAACTTAACAG
Found at i:33001162 original size:612 final size:609
Alignment explanation
Indices: 32999949--33001175 Score: 2217
Period size: 612 Copynumber: 2.0 Consensus size: 609
32999939 AAATGGATTG
*
32999949 TATTTTAAATTTCCTTTCAAATTTTCAACTTTCGACATTAAGACATTAAGTAATCAACTAGGTAT
1 TATTTTAAATTTCCTTTCAAATTTTCAACTTTCGACATTAAGACATTAAGTAATCAACTAGGTAC
33000014 CAATTTTGGGCGCATCGAGGGTGCTAATCCTTCCTCGTGCGTAACCAACTCCCGAACCTATTTTC
66 CAATTTTGGGCGCATCGAGGGTGCTAATCCTTCCTCGTGCGTAACCAACTCCCGAACCTATTTTC
* *
33000079 TGGATTTTGTAGACAAAAAGTTATCGTTTTAGTAAATTTAAAATTTTATAAAACTGATTAAATTA
131 TGGATTTTGTAGACAAAAAATTATCGTTTTAGTAAATTTAAAATTTTATAAAAATGATTAAATTA
*
33000144 TGAGGTGATCCAATCACACCTAAATAAAAAGGATTGGGGCACTCCATTTTCGTTTTTAAATTAAA
196 TGAGATGATCCAATCACACCTAAATAAAAAGGATTGGGGCACTCCATTTTCGTTTTTAAATTAAA
33000209 AGTCGACGACATTTTTCAAAAAAATGGTTTTGATAGTAAATATATTATCCTAAGAATACAAAATG
261 AGTCGACGACATTTTTCAAAAAAATGGTTTTGATAGTAAATATATTATCCTAAGAATACAAAATG
* * *
33000274 TATTGCAATATTTTATCATGGTTTTATCATGATTTTGTATTATTGGTAAGTTCACTTGTGACACT
326 TATTGCAATATTTTATCATGGTTTTATCATGATTTTGAATTAGTGGTAAGTTCACTTGCGACACT
*
33000339 GTTTCAATTAACAACATTATCAATATATATACAATTGATATAAATGATAAAACATACATAATATA
391 GTTTCAAGTAACAACATTATCAATATATATACAATTGATATAAATGATAAAACATACATAATATA
*
33000404 ATTAAAATAAAATGTTAGTTTAGTGATAAAATTGATGTTTTATTGACGTAAATAGATTGAGTTTA
456 ATTAAAATAAAATGTTAGTTTAGTGATAAAATTGATGTTTTATTGAAGTAAATAGATTGAGTTTA
33000469 AATTCAATCACTTGAATATTTTTTTTAGTTTTTTTAAATTAAAAATATTAAAATATCTTTGAATA
521 AATTCAATCACTTGAATATTTTTTTTAGTTTTTTTAAATTAAAAATATTAAAATATCTTTGAATA
33000534 AAATAGTTTATTAAAAAATTAAAA
586 AAATAGTTTATTAAAAAATTAAAA
*
33000558 TATTTTAAATTTCCTTTCAAATTTTCAACTTTTGACATTAAGACATTAAGTAATCAACTAGGTAC
1 TATTTTAAATTTCCTTTCAAATTTTCAACTTTCGACATTAAGACATTAAGTAATCAACTAGGTAC
*
33000623 CAATTTTGGGCGCATCGAGGGTGCTAA-CCTTTCCTCGTGCGTAACCAACTCCCGAACCTGTTTT
66 CAATTTTGGGCGCATCGAGGGTGCTAATCC-TTCCTCGTGCGTAACCAACTCCCGAACCTATTTT
*
33000687 CTGGATTTTGTAGACAAAAAATTATCGTTTTAGTAAATTTAAACTTTTATAAAAATGATTAAATT
130 CTGGATTTTGTAGACAAAAAATTATCGTTTTAGTAAATTTAAAATTTTATAAAAATGATTAAATT
*
33000752 ATGAGATGATCCAATCATACCTAAATAAAAAGGATTGGTGGCGACTCCATTTTCGTTTTTAAATT
195 ATGAGATGATCCAATCACACCTAAATAAAAAGGATTGG-GGC-ACTCCATTTTCGTTTTTAAATT
*
33000817 AAAAGTCGACGAGC-TTTTTCAAAAAAAAATGGTTTTGATGGTAAATATATTATCCTAAGAATAC
258 AAAAGTCGACGA-CATTTTTC--AAAAAAATGGTTTTGATAGTAAATATATTATCCTAAGAATAC
*
33000881 AAAATGTATTGCAATATTTTATCATGGTTTTATCATGATTTTGAATT-GTGGTAAGTTCATTTGC
320 AAAATGTATTGCAATATTTTATCATGGTTTTATCATGATTTTGAATTAGTGGTAAGTTCACTTGC
* * *
33000945 GACACTGTTTCAAGTAACAATATTATCAATATATATACAATTGATATAAATGATAAAGCATATAT
385 GACACTGTTTCAAGTAACAACATTATCAATATATATACAATTGATATAAATGATAAAACATACAT
33001010 AATATAATTAAAATAAAATGTTAGTTTAGTGATAAAATTGATGTTTTATTGAAGTAAATAGATTG
450 AATATAATTAAAATAAAATGTTAGTTTAGTGATAAAATTGATGTTTTATTGAAGTAAATAGATTG
33001075 AGTTTAAATTCAATCACTTGAATATTTTTTTTAGTTTTTTTAAATTAAAAATATTAAAATATCTT
515 AGTTTAAATTCAATCACTTGAATATTTTTTTTAGTTTTTTTAAATTAAAAATATTAAAATATCTT
33001140 TGAATAAAATAGTTTATTAAAAAATTAAAA
580 TGAATAAAATAGTTTATTAAAAAATTAAAA
33001170 TATTTT
1 TATTTT
33001176 CGAATAATAT
Statistics
Matches: 594, Mismatches: 18, Indels: 9
0.96 0.03 0.01
Matches are distributed among these distances:
608 2 0.00
609 221 0.37
610 3 0.01
611 40 0.07
612 241 0.41
613 87 0.15
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (609 bp):
TATTTTAAATTTCCTTTCAAATTTTCAACTTTCGACATTAAGACATTAAGTAATCAACTAGGTAC
CAATTTTGGGCGCATCGAGGGTGCTAATCCTTCCTCGTGCGTAACCAACTCCCGAACCTATTTTC
TGGATTTTGTAGACAAAAAATTATCGTTTTAGTAAATTTAAAATTTTATAAAAATGATTAAATTA
TGAGATGATCCAATCACACCTAAATAAAAAGGATTGGGGCACTCCATTTTCGTTTTTAAATTAAA
AGTCGACGACATTTTTCAAAAAAATGGTTTTGATAGTAAATATATTATCCTAAGAATACAAAATG
TATTGCAATATTTTATCATGGTTTTATCATGATTTTGAATTAGTGGTAAGTTCACTTGCGACACT
GTTTCAAGTAACAACATTATCAATATATATACAATTGATATAAATGATAAAACATACATAATATA
ATTAAAATAAAATGTTAGTTTAGTGATAAAATTGATGTTTTATTGAAGTAAATAGATTGAGTTTA
AATTCAATCACTTGAATATTTTTTTTAGTTTTTTTAAATTAAAAATATTAAAATATCTTTGAATA
AAATAGTTTATTAAAAAATTAAAA
Found at i:33001189 original size:15 final size:15
Alignment explanation
Indices: 33001169--33001199 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33001159 AAAAATTAAA
*
33001169 ATATTTTCGAATAAT
1 ATATTTTCAAATAAT
33001184 ATATTTTCAAATAAT
1 ATATTTTCAAATAAT
33001199 A
1 A
33001200 ACAAAAGGAT
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:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (15 bp):
ATATTTTCAAATAAT
Found at i:33001304 original size:25 final size:27
Alignment explanation
Indices: 33001267--33001319 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 27
33001257 TAGTATGAAT
*
33001267 TTTTAAGCAAGTATATAATAA-AAAATA
1 TTTTAAGCAAGTACA-AATAATAAAATA
33001294 TTTTAA-C-AGTACAAATAATAAAATA
1 TTTTAAGCAAGTACAAATAATAAAATA
33001319 T
1 T
33001320 GATAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 5 0.21
25 12 0.50
26 1 0.04
27 6 0.25
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.34
Consensus pattern (27 bp):
TTTTAAGCAAGTACAAATAATAAAATA
Found at i:33004239 original size:48 final size:47
Alignment explanation
Indices: 33004183--33004329 Score: 228
Period size: 48 Copynumber: 3.1 Consensus size: 47
33004173 GCCAATAGCT
33004183 AAATCCTCAGATAAAGGATGTGTCTATGGGGTGGTTTGGATTTGGACC
1 AAATCCTCA-ATAAAGGATGTGTCTATGGGGTGGTTTGGATTTGGACC
*
33004231 AAATCCTC---AAAGGATGTGTCTATGGGGTGGTTTGAATTTGGACC
1 AAATCCTCAATAAAGGATGTGTCTATGGGGTGGTTTGGATTTGGACC
* *
33004275 AAATCCTTAAATAAAGGATGTGTCTATAGGGTGGTTTGGATTTGGACC
1 AAATCC-TCAATAAAGGATGTGTCTATGGGGTGGTTTGGATTTGGACC
33004323 AAATCCT
1 AAATCCT
33004330 AAAAGGTATT
Statistics
Matches: 91, Mismatches: 4, Indels: 9
0.88 0.04 0.09
Matches are distributed among these distances:
44 41 0.45
45 1 0.01
47 1 0.01
48 48 0.53
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (47 bp):
AAATCCTCAATAAAGGATGTGTCTATGGGGTGGTTTGGATTTGGACC
Found at i:33004247 original size:44 final size:44
Alignment explanation
Indices: 33004195--33004335 Score: 219
Period size: 44 Copynumber: 3.1 Consensus size: 44
33004185 ATCCTCAGAT
*
33004195 AAAGGATGTGTCTATGGGGTGGTTTGGATTTGGACCAAATCCTC
1 AAAGGATGTGTCTATGGGGTGGTTTGGATTTGGACCAAATCCTA
*
33004239 AAAGGATGTGTCTATGGGGTGGTTTGAATTTGGACCAAATCCTTAAA
1 AAAGGATGTGTCTATGGGGTGGTTTGGATTTGGACCAAATCC-T--A
*
33004286 TAAAGGATGTGTCTATAGGGTGGTTTGGATTTGGACCAAATCCTA
1 -AAAGGATGTGTCTATGGGGTGGTTTGGATTTGGACCAAATCCTA
33004331 AAAGG
1 AAAGG
33004336 TATTATTTGA
Statistics
Matches: 89, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
44 46 0.52
45 2 0.02
47 1 0.01
48 40 0.45
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.31
Consensus pattern (44 bp):
AAAGGATGTGTCTATGGGGTGGTTTGGATTTGGACCAAATCCTA
Found at i:33007760 original size:51 final size:51
Alignment explanation
Indices: 33007626--33007770 Score: 179
Period size: 50 Copynumber: 2.9 Consensus size: 51
33007616 AGTGAAAGTG
* *
33007626 ATGGTCACGTGTGTAGTACTATGTGCAGGCCACTACGTGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT
* *
33007677 A-GGTCGCATGTGTAGTACTATGT-CTAGGCTACTACGTGTATCGG-ATGAT
1 ATGGTCACATGTGTAGTACTATGTGC-AGGCTACTACGTGTACCGGAATGAT
* * * *
33007726 AATGGTTACATGTGTAGTACTATGTGCAGACTACTATGTGAACCG
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
33007771 AACATCATTG
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
49 6 0.08
50 38 0.47
51 35 0.44
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT
Found at i:33007886 original size:23 final size:22
Alignment explanation
Indices: 33007860--33007903 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
33007850 AATTGACTAA
33007860 GTGT-AATTGAATAATGAATATAG
1 GTGTGAATTGAAT--TGAATATAG
33007883 GTGTGGAATTGAATTGAATAT
1 GTGT-GAATTGAATTGAATAT
33007904 CGACTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (22 bp):
GTGTGAATTGAATTGAATATAG
Found at i:33009584 original size:21 final size:22
Alignment explanation
Indices: 33009550--33009594 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
33009540 GGGGGAAAGT
*
33009550 GGGAAAGAGTAAAA-GTTTTAG
1 GGGAAAGAGTAAAAGGTTTGAG
33009571 GGGAAA-AGTAAAAAGGTTTGAG
1 GGGAAAGAGT-AAAAGGTTTGAG
33009593 GG
1 GG
33009595 TTTGGGGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 10 0.48
22 8 0.38
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (22 bp):
GGGAAAGAGTAAAAGGTTTGAG
Found at i:33009585 original size:29 final size:30
Alignment explanation
Indices: 33009526--33009585 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
33009516 GAAGGGAAGG
* * **
33009526 GAGTAAAAGTTTTGGGGGGAAAGTGGGAAA
1 GAGTAAAAGTTTTAGGGGAAAAGTGAAAAA
33009556 GAGTAAAAGTTTTAGGGGAAAAGT-AAAAA
1 GAGTAAAAGTTTTAGGGGAAAAGTGAAAAA
33009585 G
1 G
33009586 GTTTGAGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (30 bp):
GAGTAAAAGTTTTAGGGGAAAAGTGAAAAA
Found at i:33015091 original size:15 final size:16
Alignment explanation
Indices: 33015062--33015091 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33015052 CAAACATGCT
33015062 TTAACACATTATCAAA
1 TTAACACATTATCAAA
33015078 TTAACACA-TATCAA
1 TTAACACATTATCAA
33015092 CAAGGTACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:33015591 original size:20 final size:20
Alignment explanation
Indices: 33015539--33015591 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
33015529 ACCCTTTCAA
33015539 ATTTTCTTACTTTCATTTGC
1 ATTTTCTTACTTTCATTTGC
33015559 A-TTTCATTACTTTCCATTT-C
1 ATTTTC-TTACTTT-CATTTGC
*
33015579 ATTTTCTTTCTTT
1 ATTTTCTTACTTT
33015592 AGCTTAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 4 0.14
20 16 0.55
21 9 0.31
ACGTcount: A:0.15, C:0.21, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTTTCTTACTTTCATTTGC
Found at i:33016262 original size:25 final size:25
Alignment explanation
Indices: 33016228--33016295 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
33016218 CTGTACCTGT
*
33016228 ATGCTCACACGAGTTGTGAATTAGA
1 ATGCTCACACGAGTTGTGAATAAGA
*
33016253 ATGCTCACACGAGCTGTGAATAAGA
1 ATGCTCACACGAGTTGTGAATAAGA
*
33016278 ATGCTCACACAAGTTGTG
1 ATGCTCACACGAGTTGTG
33016296 GGTCGGAACG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (25 bp):
ATGCTCACACGAGTTGTGAATAAGA
Found at i:33018985 original size:3 final size:3
Alignment explanation
Indices: 33018973--33019008 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
33018963 TGTTCAATAG
33018973 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
33019009 CTCTAGAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:33024708 original size:6 final size:6
Alignment explanation
Indices: 33024697--33024727 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
33024687 TTAATAAAAT
33024697 TATTAA TATTAA TATTAA TATTAA TATTAA T
1 TATTAA TATTAA TATTAA TATTAA TATTAA T
33024728 GTACATCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TATTAA
Found at i:33024709 original size:18 final size:18
Alignment explanation
Indices: 33024686--33024727 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
33024676 TATTTTTTTA
33024686 ATTAATA-AAATTATTAAT
1 ATTAATATAAA-TATTAAT
*
33024704 ATTAATATTAATATTAAT
1 ATTAATATAAATATTAAT
33024722 ATTAAT
1 ATTAAT
33024728 GTACATCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTAATATAAATATTAAT
Found at i:33035375 original size:27 final size:27
Alignment explanation
Indices: 33035324--33035407 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
33035314 AACATAAGGT
*
33035324 TATAACAGTCATTTCATCTCC--TAGGGG
1 TATAACAGTCATTTTA-C-CCTATAGGGG
33035351 TATAACAGTCATTTTACCCTATAGGGG
1 TATAACAGTCATTTTACCCTATAGGGG
** * *
33035378 TATTTCGGTCATTTTACCCTATAAGGG
1 TATAACAGTCATTTTACCCTATAGGGG
33035405 TAT
1 TAT
33035408 TTTCGTTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
25 2 0.04
26 1 0.02
27 47 0.94
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
TATAACAGTCATTTTACCCTATAGGGG
Found at i:33035408 original size:27 final size:26
Alignment explanation
Indices: 33035358--33035476 Score: 139
Period size: 27 Copynumber: 4.4 Consensus size: 26
33035348 GGGTATAACA
*
33035358 GTCATTTTACCCTATAGGGGTATTTC
1 GTCATTTTACCCTATAAGGGTATTTC
33035384 GGTCATTTTACCCTATAAGGGTATTTTC
1 -GTCATTTTACCCTATAAGGGTA-TTTC
* * *
33035412 GTTATTTTACCTTATGAGGGTATTTC
1 GTCATTTTACCCTATAAGGGTATTTC
* *
33035438 AGTTATTTTATCCTATAAGGGTATTTC
1 -GTCATTTTACCCTATAAGGGTATTTC
*
33035465 TATCATTTTACC
1 -GTCATTTTACC
33035477 TATTTTGGGG
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.05
27 71 0.90
28 4 0.05
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (26 bp):
GTCATTTTACCCTATAAGGGTATTTC
Found at i:33035473 original size:54 final size:55
Alignment explanation
Indices: 33035359--33035477 Score: 156
Period size: 54 Copynumber: 2.2 Consensus size: 55
33035349 GGTATAACAG
* *
33035359 TCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTTCGT
1 TCATTTTACCTTATAGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTTCGT
* *
33035414 T-ATTTTACCTTAT-GAGGGTATTTCAGTTATTTTATCCTATAAGGGTA-TTTC-T
1 TCATTTTACCTTATAG-GGGTATTTCAGTCATTTTACCCTATAAGGGTATTTTCGT
33035466 ATCATTTTACCT
1 -TCATTTTACCT
33035478 ATTTTGGGGT
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
52 1 0.02
53 6 0.11
54 49 0.86
55 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.15, T:0.47
Consensus pattern (55 bp):
TCATTTTACCTTATAGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTTCGT
Found at i:33039239 original size:15 final size:16
Alignment explanation
Indices: 33039212--33039241 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
33039202 GATAACGATT
33039212 AATATATATTATATAA
1 AATATATATTATATAA
33039228 AATATA-ATTATATA
1 AATATATATTATATA
33039242 TTAGTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATATTATATAA
Found at i:33057523 original size:40 final size:40
Alignment explanation
Indices: 33057493--33057717 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
33057483 GCTACTCGTT
* *
33057493 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
33057533 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33057573 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
33057613 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
33057652 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
33057693 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
33057718 CATCATTCAA
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 119 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:33057677 original size:119 final size:120
Alignment explanation
Indices: 33057493--33057717 Score: 305
Period size: 119 Copynumber: 1.9 Consensus size: 120
33057483 GCTACTCGTT
*
33057493 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
33057558 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
33057613 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
33057675 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
33057718 CATCATTCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
118 4 0.04
119 66 0.72
120 22 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:33063744 original size:23 final size:23
Alignment explanation
Indices: 33063711--33063762 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
33063701 AAGAAGGAGA
33063711 AAAATGAGAGAAAAAGATAAAAGGG
1 AAAATGAGAG-AAAA-ATAAAAGGG
* *
33063736 AAAATGAGAGGAAAATAAAGGGG
1 AAAATGAGAGAAAAATAAAAGGG
33063759 AAAA
1 AAAA
33063763 GGGAAAGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 12 0.48
24 3 0.12
25 10 0.40
ACGTcount: A:0.63, C:0.00, G:0.29, T:0.08
Consensus pattern (23 bp):
AAAATGAGAGAAAAATAAAAGGG
Found at i:33067465 original size:17 final size:17
Alignment explanation
Indices: 33067440--33067473 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33067430 AACGGTTCTT
*
33067440 TTTAATTATTTTAATTA
1 TTTAATTATTCTAATTA
*
33067457 TTTATTTATTCTAATTA
1 TTTAATTATTCTAATTA
33067474 CTCTGTCCCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTAATTATTCTAATTA
Found at i:33068582 original size:6 final size:6
Alignment explanation
Indices: 33068563--33068649 Score: 138
Period size: 6 Copynumber: 14.5 Consensus size: 6
33068553 AGCTGCTACT
* *
33068563 CCAACC CCCACC CCATCC CCAACC CCAACC CCAACC CCAACC CCAACC
1 CCAACC CCAACC CCAACC CCAACC CCAACC CCAACC CCAACC CCAACC
* *
33068611 CCAACC CCGACC CCATCC CCAACC CCAACC CCAACC CCA
1 CCAACC CCAACC CCAACC CCAACC CCAACC CCAACC CCA
33068650 TCTGCATCTC
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 73 1.00
ACGTcount: A:0.29, C:0.68, G:0.01, T:0.02
Consensus pattern (6 bp):
CCAACC
Found at i:33072585 original size:22 final size:23
Alignment explanation
Indices: 33072556--33072604 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
33072546 TCGGTATACC
*
33072556 AAAT-GTTTTTCTT-AATTATAT
1 AAATAGTTTTTATTAAATTATAT
*
33072577 TAATAGTTTTTATTAAATTATAT
1 AAATAGTTTTTATTAAATTATAT
33072600 AAATA
1 AAATA
33072605 CTAAATTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 8 0.35
23 12 0.52
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (23 bp):
AAATAGTTTTTATTAAATTATAT
Found at i:33074580 original size:23 final size:23
Alignment explanation
Indices: 33074554--33074716 Score: 173
Period size: 23 Copynumber: 7.1 Consensus size: 23
33074544 TATTGATCAA
* *
33074554 TGGTAGCTTCGGCTAAATTTCAA
1 TGGTAGCTTCGGCTACATTTCAG
* *
33074577 TGGTAGCTACGGCTACATATCAG
1 TGGTAGCTTCGGCTACATTTCAG
* *
33074600 TGGTAGCTTCAGCTACATTTTAG
1 TGGTAGCTTCGGCTACATTTCAG
** *
33074623 TGGTAGCAACGGCTACATATCAG
1 TGGTAGCTTCGGCTACATTTCAG
**
33074646 TGGTAGCTTCAACTACATTTCAG
1 TGGTAGCTTCGGCTACATTTCAG
* * * *
33074669 TGGTAGCTACGACTACGTATCAG
1 TGGTAGCTTCGGCTACATTTCAG
* *
33074692 TGGTAACTTCGGCTACATATCAG
1 TGGTAGCTTCGGCTACATTTCAG
33074715 TG
1 TG
33074717 TGGCACTTAT
Statistics
Matches: 114, Mismatches: 26, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 114 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (23 bp):
TGGTAGCTTCGGCTACATTTCAG
Done.