Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 168 of 433
Found at i:52447886 original size:27 final size:27
Alignment explanation
Indices: 52447868--52448026 Score: 203
Period size: 27 Copynumber: 5.9 Consensus size: 27
52447858 CTCAATTTGT
*
52447868 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* * * *
52447895 AGAATTATCGTTTCACCCTCGATTTAA
1 AGAATTACCATTTTACCCTCGATTTAC
*
52447922 AAAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
52447949 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
52447976 AAAATTATCATTTTACCCTC-AGTTTAC
1 AGAATTACCATTTTACCCTCGA-TTTAC
* * *
52448003 AAAATTATCGTTTTACCCTCGATT
1 AGAATTACCATTTTACCCTCGATT
52448027 GTGAAATTAC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 115 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:52447929 original size:54 final size:54
Alignment explanation
Indices: 52447870--52448026 Score: 235
Period size: 54 Copynumber: 2.9 Consensus size: 54
52447860 CAATTTGTAG
* *
52447870 AATTACCATTTTACCCTCGATTTATAGAATTATCGTTTCACCCTCGATTTAAAA
1 AATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTAAAA
* * *
52447924 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTAAAA
* *
52447978 AATTATCATTTTACCCTC-AGTTTACAAAATTATCGTTTTACCCTCGATT
1 AATTACCATTTTACCCTCGA-TTTACAGAATTATCGTTTTACCCTCGATT
52448027 GTGAAATTAC
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 1 0.01
54 92 0.99
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (54 bp):
AATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTAAAA
Found at i:52447982 original size:81 final size:81
Alignment explanation
Indices: 52447868--52448026 Score: 239
Period size: 81 Copynumber: 2.0 Consensus size: 81
52447858 CTCAATTTGT
* * *
52447868 AGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTCACCCTC-GATTTAAAAAATTACCA
1 AGAATTACCATTTTACCCTCGATTTACAAAATTATCATTTCACCCTCAG-TTTAAAAAATTACCA
52447932 TTTTACCCTCGATTTAC
65 TTTTACCCTCGATTTAC
* * * *
52447949 AGAATTACCATTTTACCCTCGATTTACAAAATTATCATTTTACCCTCAGTTTACAAAATTATCGT
1 AGAATTACCATTTTACCCTCGATTTACAAAATTATCATTTCACCCTCAGTTTAAAAAATTACCAT
52448014 TTTACCCTCGATT
66 TTTACCCTCGATT
52448027 GTGAAATTAC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
81 69 0.99
82 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (81 bp):
AGAATTACCATTTTACCCTCGATTTACAAAATTATCATTTCACCCTCAGTTTAAAAAATTACCAT
TTTACCCTCGATTTAC
Found at i:52448088 original size:27 final size:27
Alignment explanation
Indices: 52448058--52448208 Score: 189
Period size: 27 Copynumber: 5.6 Consensus size: 27
52448048 TGTAGGATAG
52448058 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
52448085 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
52448112 AATCACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
52448139 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
52448166 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAA
52448193 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
52448209 TTGACTTTTT
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.05
27 99 0.92
28 4 0.04
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.27
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:52448099 original size:54 final size:53
Alignment explanation
Indices: 52448025--52448208 Score: 181
Period size: 54 Copynumber: 3.4 Consensus size: 53
52448015 TTACCCTCGA
* ** ** *
52448025 TTGTGAAATTACTGAAATACCCCTGTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTGTTTG-TAAAATTACCAAAATACCCCTAGT
* * *
52448079 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATCACCAAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCT-GTTTGTAAAATTACCAAAATACCCCTAGT
* * ** *
52448133 TTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCAAAATACCC-CTGTTTGTAAAATTACCAAAATACCCCTAGT
**
52448187 TTACAAAATTA-CAGAAATACCC
1 TTGTAAAATTACCA-AAATACCC
52448209 TTGACTTTTT
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
53 1 0.01
54 101 0.95
55 4 0.04
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.28
Consensus pattern (53 bp):
TTGTAAAATTACCAAAATACCCCTGTTTGTAAAATTACCAAAATACCCCTAGT
Found at i:52448259 original size:27 final size:27
Alignment explanation
Indices: 52448186--52448271 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
52448176 ATACCCCTAA
* * *
52448186 TTTACAAAATTACAGAAATACCCTTGACTT
1 TTTACAAAATTACTGAAATACCATTG---G
52448216 TTTA-AAAATTA-TAGAAATACCATTGG
1 TTTACAAAATTACT-GAAATACCATTGG
*
52448242 TTTACAAAATTACTGAAATACCTTTGG
1 TTTACAAAATTACTGAAATACCATTGG
52448269 TTT
1 TTT
52448272 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
26 4 0.08
27 22 0.45
28 1 0.02
29 18 0.37
30 4 0.08
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCATTGG
Found at i:52449245 original size:26 final size:26
Alignment explanation
Indices: 52449191--52449364 Score: 210
Period size: 26 Copynumber: 6.8 Consensus size: 26
52449181 GAGGAAGTGC
* **
52449191 AAAAGGGCTTAT-CCCAAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* * *
52449216 AAAAGGGCTTATGCCCTAATTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
52449242 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
52449268 AAAAGCGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
52449294 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
52449320 AAAAGGACTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
52449345 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
52449365 ATTAAAGAGG
Statistics
Matches: 126, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
25 44 0.35
26 82 0.65
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:52449270 original size:52 final size:52
Alignment explanation
Indices: 52449191--52449364 Score: 273
Period size: 52 Copynumber: 3.4 Consensus size: 52
52449181 GAGGAAGTGC
* * *
52449191 AAAAGGGCTTAT-CCCAAGTTTATTGAAAAGGGCTTATGCCCTAATTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCTAGTTTACCG
*
52449242 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGCGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCTAGTTTACCG
* *
52449294 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGACTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCTAGTTTACCG
52449345 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
52449365 ATTAAAGAGG
Statistics
Matches: 115, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
50 10 0.09
51 36 0.31
52 69 0.60
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCTAGTTTACCG
Found at i:52449568 original size:42 final size:42
Alignment explanation
Indices: 52449509--52449600 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
52449499 TAGTCTCCCC
** *
52449509 AAATGGGCTTGCATACATCCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
52449551 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
52449593 AAATGGGC
1 AAATGGGC
52449601 CTATGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:52449659 original size:31 final size:31
Alignment explanation
Indices: 52449624--52449709 Score: 136
Period size: 31 Copynumber: 2.8 Consensus size: 31
52449614 CGTTTACAGT
* *
52449624 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATAA
*
52449655 AAAGGCTTCGTCCCAGTGATATGATTTATAA
1 AAAGGCTTCGGCCCAGTGATATGATTTATAA
*
52449686 AAAGGCTTCGGCCCACTGATATGA
1 AAAGGCTTCGGCCCAGTGATATGA
52449710 AAAGGCTTCG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATAA
Found at i:52456011 original size:61 final size:58
Alignment explanation
Indices: 52455891--52456040 Score: 144
Period size: 60 Copynumber: 2.5 Consensus size: 58
52455881 CTTTTTCAGA
* ** * *
52455891 AATCAGAGT-TAACTGGGCCTTAGCCGATATCCTTATTAATCTGGGTCGTAGCCCCTTAC
1 AATCAGAGTAT-ACTGGGCC-TAGCCCATATCAGTATCAATCTGGGTCGTAGCCCATTAC
52455950 ATTATCAGAGTATACTGGGCCTAGCCCATATCAGTATCAATCTGGG-CAGTAGCCCTATTAC
1 A--ATCAGAGTATACTGGGCCTAGCCCATATCAGTATCAATCTGGGTC-GTAGCCC-ATTAC
* *
52456011 AAGTC-GAGATATATTGGGCCTTGCCCATAT
1 AA-TCAGAG-TATACTGGGCCTAGCCCATAT
52456041 TAACACAGTT
Statistics
Matches: 77, Mismatches: 7, Indels: 13
0.79 0.07 0.13
Matches are distributed among these distances:
59 6 0.08
60 49 0.64
61 21 0.27
62 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (58 bp):
AATCAGAGTATACTGGGCCTAGCCCATATCAGTATCAATCTGGGTCGTAGCCCATTAC
Found at i:52456058 original size:20 final size:20
Alignment explanation
Indices: 52456033--52456078 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
52456023 ATTGGGCCTT
52456033 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
52456053 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
52456072 GCCCATA
1 GCCCATA
52456079 ACAAAATAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:52459974 original size:61 final size:63
Alignment explanation
Indices: 52459841--52459974 Score: 170
Period size: 60 Copynumber: 2.2 Consensus size: 63
52459831 TCTAGGCCTA
** *
52459841 AGCCCTATT-CAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCCTTATTAATCTGGGCCAT
1 AGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAGTATCAATCTGGGCCAT
* * *
52459903 AGCCC-CTTACAG-TATCAGAG-TATACTGGGCC-TAGCCCATATCAGTATCAATCTGGGCCGT
1 AGCCCTATTACAGAAATCAGAGTTA-ACTGGGCCTTAGCCCATATCAGTATCAATCTGGGCCAT
52459963 AGCCCTATTACA
1 AGCCCTATTACA
52459975 AGTCAAGATA
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
60 32 0.52
61 22 0.35
62 8 0.13
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (63 bp):
AGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAGTATCAATCTGGGCCAT
Found at i:52460002 original size:60 final size:59
Alignment explanation
Indices: 52459857--52460003 Score: 147
Period size: 60 Copynumber: 2.4 Consensus size: 59
52459847 ATTCAGAAAT
** * *
52459857 CAGAGT-TAACTGGGCCTTAGCCCATATCCTTATTAATCTGGGCCATAGCCCCTTACAGTA
1 CAGAGTAT-ACTGGGCCTT-GCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGTA
* *
52459917 TCAGAGTATACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT-
1 -CAGAGTATACTGGGCCTTGCCCATATCAGTATCAATCTGGGCCATAGCCC-ATTAC-AGTA
* *
52459978 CA-AGATATATTGGGCCTTGTCCATAT
1 CAGAG-TATACTGGGCCTTGCCCATAT
52460004 TAACACAGTT
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
59 2 0.03
60 48 0.66
61 19 0.26
62 4 0.05
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (59 bp):
CAGAGTATACTGGGCCTTGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGTA
Found at i:52464101 original size:40 final size:40
Alignment explanation
Indices: 52464042--52464193 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
52464032 AAATTGAATG
* *
52464042 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTGTGCTGGAAATT
* * * ****
52464082 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTGTGCTGGAAATT
* **
52464122 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-GTGCTG-GAAATT
* *
52464162 CTATCCGGGCTAAGACCCGAAGACATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGACAATTGTGC
52464194 ACATGCTTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 86 0.95
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTGTGCTGGAAATT
Found at i:52467068 original size:86 final size:85
Alignment explanation
Indices: 52466963--52467122 Score: 218
Period size: 86 Copynumber: 1.9 Consensus size: 85
52466953 TTATGTGTTA
* * *
52466963 TCGTGTAAGACCACGTCTGGGA-CGTTGGCATCGAT-TTGTGATTTACGTGTAAGACCATGTCTG
1 TCGTGTAAGACCACGTCTGGGATAG-TGGCATCGATATT-TGA-TTACATGTAAGACCACGTCTG
52467026 GGACATTGGCATCGTATTTGATT
63 GGACATTGGCATCGTATTTGATT
*
52467049 TCGTGTAAGACC-CTTTCTGGGATAGTGGCATCGATATTTGATTACATGTAAGACCACGTCTGGG
1 TCGTGTAAGACCAC-GTCTGGGATAGTGGCATCGATATTTGATTACATGTAAGACCACGTCTGGG
*
52467113 ACGTTGGCAT
65 ACATTGGCAT
52467123 TTTATGAGCT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
85 31 0.47
86 32 0.48
87 3 0.05
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.33
Consensus pattern (85 bp):
TCGTGTAAGACCACGTCTGGGATAGTGGCATCGATATTTGATTACATGTAAGACCACGTCTGGGA
CATTGGCATCGTATTTGATT
Found at i:52467111 original size:43 final size:42
Alignment explanation
Indices: 52466964--52467122 Score: 171
Period size: 43 Copynumber: 3.7 Consensus size: 42
52466954 TATGTGTTAT
*
52466964 CGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGTGATTTA
1 CGTGTAAGACCACGTCTGGGAAG-TGGCATCGATATT-TGA-TTA
* * *
52467008 CGTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGATTT
1 CGTGTAAGACCACGTCTGGGA-AGTGGCATCGATATTTGATTA
*
52467050 CGTGTAAGACC-CTTTCTGGGATAGTGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGA-AGTGGCATCGATATTTGATTA
* *
52467093 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGAAG-TGGCAT
52467123 TTTATGAGCT
Statistics
Matches: 97, Mismatches: 12, Indels: 13
0.80 0.10 0.11
Matches are distributed among these distances:
42 30 0.31
43 36 0.37
44 31 0.32
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGAAGTGGCATCGATATTTGATTA
Found at i:52470252 original size:46 final size:46
Alignment explanation
Indices: 52470178--52470353 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
52470168 AGATTGGGCA
* *
52470178 TCCGAACTCATTGAGTTGTGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * * * * * *
52470224 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGAAATGTA-ACTAGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACG
*
52470271 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
52470317 -CCCAAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCATTGAGTTGAGTCCGAGTTCACTTATGG
52470354 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
45 5 0.05
46 61 0.60
47 35 0.34
48 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:52470333 original size:93 final size:93
Alignment explanation
Indices: 52470174--52470346 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
52470164 GAATAGATTG
* * * *
52470174 GGCATCCGAACTCATTGAGTTGTGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAG
52470239 TTGAGTCCAAGTTCGTGAAATGTAACTA
66 TTGAGTCCAAGTTCGTGAAATGTAACTA
*
52470267 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCATTGA
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCATTGA
*
52470331 GTTGAGTCCGAGTTCG
65 GTTGAGTCCAAGTTCG
52470347 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAG
TTGAGTCCAAGTTCGTGAAATGTAACTA
Found at i:52477883 original size:16 final size:16
Alignment explanation
Indices: 52477862--52477897 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
52477852 GATAAATCTT
* *
52477862 GAAATGCTGAAAAGTC
1 GAAATGCCGAAAAGCC
52477878 GAAATGCCGAAAAGCC
1 GAAATGCCGAAAAGCC
52477894 GAAA
1 GAAA
52477898 GTCTGGCTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.17, G:0.25, T:0.11
Consensus pattern (16 bp):
GAAATGCCGAAAAGCC
Found at i:52478156 original size:29 final size:29
Alignment explanation
Indices: 52478114--52478175 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
52478104 ACATGGCTTG
*
52478114 GAAT-TGATTAGGGCC-AGATGGGCCATAT
1 GAATGTGATTAGGGCCTA-ATCGGCCATAT
*
52478142 GAATGTGATTTGGGCCTAATCGGCCATAT
1 GAATGTGATTAGGGCCTAATCGGCCATAT
52478171 GAATG
1 GAATG
52478176 AGAGTAAGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 4 0.13
29 25 0.83
30 1 0.03
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
GAATGTGATTAGGGCCTAATCGGCCATAT
Found at i:52478516 original size:33 final size:33
Alignment explanation
Indices: 52478474--52478541 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
52478464 GGGCCAAGGT
52478474 AAGTAAAAACCCGTAATAAAGGAAAATTACAGA
1 AAGTAAAAACCCGTAATAAAGGAAAATTACAGA
*
52478507 AAGTAAAAACTCGTAATAAAGGAAAATTACAGA
1 AAGTAAAAACCCGTAATAAAGGAAAATTACAGA
52478540 AA
1 AA
52478542 TACCCTTGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.59, C:0.10, G:0.15, T:0.16
Consensus pattern (33 bp):
AAGTAAAAACCCGTAATAAAGGAAAATTACAGA
Found at i:52478650 original size:28 final size:27
Alignment explanation
Indices: 52478529--52478677 Score: 140
Period size: 27 Copynumber: 5.5 Consensus size: 27
52478519 GTAATAAAGG
* * ** **
52478529 AAAATTACAGAAATACCCTTGGTTTAC
1 AAAATTACCGAAATACCCTCGACTTGT
* *
52478556 AAAATTACTG-AATACCCTAGACTTGT
1 AAAATTACCGAAATACCCTCGACTTGT
* *
52478582 AAAATTACCAAAATACCC-CGAATTTGT
1 AAAATTACCGAAATACCCTCG-ACTTGT
* * *
52478609 GAAATTACCAAAATACCCTCGACCTGT
1 AAAATTACCGAAATACCCTCGACTTGT
*
52478636 AAAAATTACCGAAATACCCTTGACTTGT
1 -AAAATTACCGAAATACCCTCGACTTGT
52478664 AAAATTACCGAAAT
1 AAAATTACCGAAAT
52478678 GCCCCTAAGG
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
26 20 0.20
27 56 0.55
28 25 0.25
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCGACTTGT
Found at i:52478669 original size:55 final size:54
Alignment explanation
Indices: 52478529--52478677 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
52478519 GTAATAAAGG
* * ** ** *
52478529 AAAATTACAGAAATACCCTTGGTTTACAAAATTA-CTGAATACCCTAGACTTGT
1 AAAATTACCGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTAGACCTGT
* * * *
52478582 AAAATTACCAAAATACCC-CGAATTTGTGAAATTACCAAAATACCCTCGACCTGT
1 AAAATTACCGAAATACCCTTG-ATTTGTAAAATTACCAAAATACCCTAGACCTGT
* *
52478636 AAAAATTACCGAAATACCCTTGACTTGTAAAATTACCGAAAT
1 -AAAATTACCGAAATACCCTTGATTTGTAAAATTACCAAAAT
52478678 GCCCCTAAGG
Statistics
Matches: 76, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
52 1 0.01
53 25 0.33
54 15 0.20
55 34 0.45
56 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (54 bp):
AAAATTACCGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTAGACCTGT
Found at i:52479058 original size:11 final size:11
Alignment explanation
Indices: 52479042--52479067 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
52479032 ATTGCATGTA
52479042 TGATATTATTG
1 TGATATTATTG
52479053 TGATATTATTG
1 TGATATTATTG
52479064 TGAT
1 TGAT
52479068 GTGGGCTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:52483526 original size:43 final size:44
Alignment explanation
Indices: 52483486--52483635 Score: 175
Period size: 43 Copynumber: 3.5 Consensus size: 44
52483476 TATGTGATAT
*
52483486 CATGTAAGACCACATCTGGGACATTGACATCGAT-TTGTGATTTA
1 CATGTAAGACCACATCTGGGACATTGGCATCGATATT-TGATTTA
* * **
52483530 CGTGTAAGACTATGTCTGGGACATTGGCATC-ATATTTGATTT-
1 CATGTAAGACCACATCTGGGACATTGGCATCGATATTTGATTTA
* * *
52483572 CGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGA-TTA
1 CATGTAAGACCAC-ATCTGGGACATTGGCATCGATATTTGATTTA
52483615 CATGTAAGACCACATCTGGGA
1 CATGTAAGACCACATCTGGGA
52483636 TGTTGTCATT
Statistics
Matches: 91, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
42 29 0.32
43 33 0.36
44 29 0.32
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (44 bp):
CATGTAAGACCACATCTGGGACATTGGCATCGATATTTGATTTA
Found at i:52484729 original size:27 final size:27
Alignment explanation
Indices: 52484699--52485058 Score: 250
Period size: 27 Copynumber: 13.3 Consensus size: 27
52484689 TTAGTTTACC
*
52484699 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* ** *
52484726 AAATTACTAAAATACCTTTTG-TTTATA
1 AAATTACCAAAATACC-CCTGATTTGTA
* *
52484753 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
52484780 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
* *
52484807 AAATTATCAAAATA-CCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
* *
52484834 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTA
* ** * **
52484861 AAGTTACTGAAATA-CCCTCAACCTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
*** *
52484888 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
* * *
52484915 AAATTACCAAATTACCCCCGATTTATA
1 AAATTACCAAAATACCCCTGATTTGTA
* *
52484942 AAATTACCCAAATA-TCCTCGATTTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
** * *
52484969 AAATTACTGAAATA-CCCTCAGTTTGCA
1 AAATTACCAAAATACCCCTGA-TTTGTA
*** *
52484996 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
* * **
52485023 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCCTGATTTGTA
52485050 AAATTACCA
1 AAATTACCA
52485059 TTTTACCCTC
Statistics
Matches: 270, Mismatches: 52, Indels: 22
0.78 0.15 0.06
Matches are distributed among these distances:
26 14 0.05
27 242 0.90
28 14 0.05
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:52484836 original size:81 final size:81
Alignment explanation
Indices: 52484699--52485039 Score: 312
Period size: 81 Copynumber: 4.2 Consensus size: 81
52484689 TTAGTTTACC
* * * *
52484699 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCTTTTGTTTATAAAATTACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAA
** *
52484764 ATACCCTTGGTTTGTA
66 ATACCCCCGATTTGTA
52484780 AAATTACCAAAATACCCCTAGTTTGTAAAATTA-TCAAAATACCCTTAGTTTGTAAAATTACCAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACT-AAAATACCCTTAGTTTGTAAAATTACCAA
** *
52484844 AATACCCCTAATTTGTG
65 AATACCCCCGATTTGTA
* ** *** * * * *
52484861 AAGTTACTGAAATA-CCCTCAACCTGTAAAATTATTGAAATACCC-TCGACTTGTAAAATTACCA
1 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACTAAAATACCCTTAG-TTTGTAAAATTACCA
* *
52484924 AATTACCCCCGATTTATA
64 AAATACCCCCGATTTGTA
* * * * * * ***
52484942 AAATTACCCAAATA-TCCTCGATTTGTAAAATTACTGAAATACCCTCAGTTTGCAAAATTATTGA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAA
* *
52485006 AATACCCTCGACTTGTA
65 AATACCCCCGATTTGTA
*
52485023 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
52485040 TTGATTTACA
Statistics
Matches: 208, Mismatches: 45, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
80 7 0.03
81 198 0.95
82 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAA
ATACCCCCGATTTGTA
Found at i:52484999 original size:108 final size:107
Alignment explanation
Indices: 52484832--52485094 Score: 330
Period size: 108 Copynumber: 2.4 Consensus size: 107
52484822 CCTTAGTTTG
* * * * * *
52484832 TAAAATTACCAAAATACCCCTAATTTGTGAAGTTACTGAAATACCCTCAACCTGTAAAATTATTG
1 TAAAATTACCCAAATACCTC-GATTTGTAAAATTACTGAAATACCCTCAACCTGCAAAATTATTG
*
52484897 AAATACCCTCGACTTGTAAAATTACCAAATTACCCCCGATTTA
65 AAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTA
***
52484940 TAAAATTACCCAAATATCCTCGATTTGTAAAATTACTGAAATACCCTCAGTTTGCAAAATTATTG
1 TAAAATTACCCAAATA-CCTCGATTTGTAAAATTACTGAAATACCCTCAACCTGCAAAATTATTG
**
52485005 AAATACCCTCGACTTGTAAAATTACCAAAGTACCCTTGATTTA
65 AAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTA
* ** **
52485048 CAAAATTA-CCATTTTACCCTCGATTTACAAAATTACTGAAATACCCT
1 TAAAATTACCCA-AATA-CCTCGATTTGTAAAATTACTGAAATACCCT
52485095 TGTAGGGTAG
Statistics
Matches: 135, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
107 3 0.02
108 129 0.96
109 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.31
Consensus pattern (107 bp):
TAAAATTACCCAAATACCTCGATTTGTAAAATTACTGAAATACCCTCAACCTGCAAAATTATTGA
AATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTA
Found at i:52485066 original size:54 final size:54
Alignment explanation
Indices: 52484751--52485096 Score: 188
Period size: 54 Copynumber: 6.4 Consensus size: 54
52484741 CTTTTGTTTA
* ** * * *
52484751 TAAAATTAC-CAAAATACCCTTGGTTTGTAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACTC-AAATACCCTTGATTTACAAAATTACCCAAATACCCTCGA-CTTG
** * * *
52484805 TAAAATTA-TCAAAATACCCTT-AGTTTGTAAAATTACCAAAATACCC-CTAATTTG
1 TAAAATTACTC-AAATACCCTTGA-TTTACAAAATTACCCAAATACCCTC-GACTTG
* * * ** ** ** ***
52484859 TGAAGTTACTGAAATACCCTCAACCTGTAAAATTATTGAAATACCCTCGACTTG
1 TAAAATTACTCAAATACCCTTGATTTACAAAATTACCCAAATACCCTCGACTTG
** * * *
52484913 TAAAATTAC-CAAATTACCCCCGATTTATAAAATTACCCAAATATCCTCGATTTG
1 TAAAATTACTCAAA-TACCCTTGATTTACAAAATTACCCAAATACCCTCGACTTG
* * * ***
52484967 TAAAATTACTGAAATACCC-TCAGTTTGCAAAATTATTGAAATACCCTCGACTTG
1 TAAAATTACTCAAATACCCTTGA-TTTACAAAATTACCCAAATACCCTCGACTTG
** * *
52485021 TAAAATTAC-CAAAGTACCCTTGATTTACAAAATTA-CCATTTTACCCTCGATTTA
1 TAAAATTACTCAAA-TACCCTTGATTTACAAAATTACCCA-AATACCCTCGACTTG
* *
52485075 CAAAATTACTGAAATACCCTTG
1 TAAAATTACTCAAATACCCTTG
52485097 TAGGGTAGAA
Statistics
Matches: 232, Mismatches: 47, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
53 8 0.03
54 212 0.91
55 12 0.05
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.32
Consensus pattern (54 bp):
TAAAATTACTCAAATACCCTTGATTTACAAAATTACCCAAATACCCTCGACTTG
Found at i:52485147 original size:81 final size:77
Alignment explanation
Indices: 52485075--52485225 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 77
52485065 CCTCGATTTA
* *
52485075 CAAAATTACTGAAATA-CCCTTGTAGGGTAGAAATACATAAATACCCCTGTAGGGTAGAATTACC
1 CAAAATTACTAAAATACCCCTT-TAGGGTAGAAATAC-TAAA-AACCCTGTAGGGTAGAATTACC
52485139 GAAATACCCCTGTAGGG
63 GAAATACCCCTGTA--G
* * * *
52485156 TAAAATTACTAAAATACCCCTTTAGGGTAGAATTACTAAAAACCCTGTAGGGTGGAATTACCGAG
1 CAAAATTACTAAAATACCCCTTTAGGGTAGAAATACTAAAAACCCTGTAGGGTAGAATTACCGAA
52485221 ATACC
66 ATACC
52485226 TTGTAGGGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
79 27 0.43
80 4 0.06
81 27 0.43
82 5 0.08
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (77 bp):
CAAAATTACTAAAATACCCCTTTAGGGTAGAAATACTAAAAACCCTGTAGGGTAGAATTACCGAA
ATACCCCTGTAG
Found at i:52485233 original size:26 final size:27
Alignment explanation
Indices: 52485078--52485243 Score: 176
Period size: 27 Copynumber: 6.3 Consensus size: 27
52485068 CGATTTACAA
* *
52485078 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
52485105 AAATACATAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
52485132 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
52485159 AATTACTAAAATACCCCTTTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
52485186 AATTA-CTAAA-AACCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
52485211 AATTACCGAGATA-CCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
52485237 AATTACC
1 AATTACC
52485244 ATTTTGCCCC
Statistics
Matches: 115, Mismatches: 22, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
25 17 0.15
26 23 0.20
27 75 0.65
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:52485703 original size:22 final size:22
Alignment explanation
Indices: 52485673--52485734 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
52485663 AAGCCTTCTG
* *
52485673 ATTATGGCTTTGTGTCAACCTA
1 ATTATGGCTCTGTGCCAACCTA
52485695 CA-TATGGCTCTGTGCCAACCTA
1 -ATTATGGCTCTGTGCCAACCTA
*
52485717 ATTATGGCTGTGTGCCAA
1 ATTATGGCTCTGTGCCAA
52485735 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (22 bp):
ATTATGGCTCTGTGCCAACCTA
Found at i:52485923 original size:27 final size:27
Alignment explanation
Indices: 52485893--52485994 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
52485883 ATTCTGTTAA
* *
52485893 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
52485920 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
* *
52485947 GTGGCTCTGCTACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
52485974 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
52485995 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 8 0.12
27 50 0.77
28 7 0.11
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:52486165 original size:6 final size:6
Alignment explanation
Indices: 52486126--52486236 Score: 77
Period size: 6 Copynumber: 17.8 Consensus size: 6
52486116 TTGCATTCAC
* *
52486126 ATTCTG ATTTTTG ATTCTG -TTACCTG ATAT-TG ATTCTG ATTTTG ATTCT-
1 ATTCTG A-TTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG ATTCTG ATTCTG
* * *
52486175 ATTACCTG ATACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
52486226 ATTCTG ATTCT
1 ATTCTG ATTCT
52486237 AGTTTTGATA
Statistics
Matches: 83, Mismatches: 10, Indels: 24
0.71 0.09 0.21
Matches are distributed among these distances:
5 7 0.08
6 59 0.71
7 12 0.14
8 4 0.05
9 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:52486172 original size:31 final size:31
Alignment explanation
Indices: 52486126--52486236 Score: 143
Period size: 31 Copynumber: 3.5 Consensus size: 31
52486116 TTGCATTCAC
*
52486126 ATTCTGATTTTTGATTCTGTTACCTGATATTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATATTG
* * *
52486158 ATTCTGATTTTGATTCTATTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATATTG
* *
52486189 ATTCTGATTCTGATTCTGTCACCTAAT-TCTG
1 ATTCTGATTCTGATTCTGTTACCTGATAT-TG
52486220 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
52486237 AGTTTTGATA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
31 64 0.90
32 7 0.10
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATATTG
Found at i:52490502 original size:110 final size:110
Alignment explanation
Indices: 52490365--52490582 Score: 391
Period size: 110 Copynumber: 2.0 Consensus size: 110
52490355 GCCATTGTAG
52490365 TTTCTCTAAACTAGCTTGGGTAAGATCTCTTTTCTCTTAAATTTCTTGATTAATCTTGTCAATTA
1 TTTCTCTAAACTAGCTTGGGTAAGATCTCTTTTCTCTTAAATTTCTTGATTAATCTTGTCAATTA
* *
52490430 AAAACCAAAATGTCCAAATCTATAGTCTTGTGGATTTTAAATGGT
66 AAAACCAAAATGTCCAAATCTAGAATCTTGTGGATTTTAAATGGT
* *
52490475 TTTCTCTGAACTAGCTTGGGTAAGATCTCTTTTCTCTTATATTTCTTGATTAATCTTGTCAATTA
1 TTTCTCTAAACTAGCTTGGGTAAGATCTCTTTTCTCTTAAATTTCTTGATTAATCTTGTCAATTA
*
52490540 AAAACCAAAATGTCCAGATCTAGAATCTTGTGGATTTTAAATG
66 AAAACCAAAATGTCCAAATCTAGAATCTTGTGGATTTTAAATG
52490583 ATTTCAAATG
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
110 103 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (110 bp):
TTTCTCTAAACTAGCTTGGGTAAGATCTCTTTTCTCTTAAATTTCTTGATTAATCTTGTCAATTA
AAAACCAAAATGTCCAAATCTAGAATCTTGTGGATTTTAAATGGT
Found at i:52496312 original size:39 final size:34
Alignment explanation
Indices: 52496240--52496303 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
52496230 GATGAACGAG
52496240 GAAAAAAATTGATTTTGTTTTACTTAGATTTTAT
1 GAAAAAAATTGATTTTGTTTTACTTAGATTTTAT
52496274 GAAAAAAATTGATTTTGTTTTACTTA-ATTT
1 GAAAAAAATTGATTTTGTTTTACTTAGATTT
52496304 GGATTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 4 0.13
34 26 0.87
ACGTcount: A:0.36, C:0.03, G:0.11, T:0.50
Consensus pattern (34 bp):
GAAAAAAATTGATTTTGTTTTACTTAGATTTTAT
Found at i:52497991 original size:33 final size:33
Alignment explanation
Indices: 52497953--52498027 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
52497943 CAAGTTGCCG
52497953 AATAAGACCATAACCGGGCTATGGCAAT-TGAAT
1 AATAAGACCATAACCGGGCTATGGC-ATGTGAAT
* *
52497986 AATAAGACCATAACTGGGTTATGGCATGTGAAT
1 AATAAGACCATAACCGGGCTATGGCATGTGAAT
*
52498019 GA-AAGACCA
1 AATAAGACCA
52498028 CGGCAGGGCC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 9 0.24
33 29 0.76
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (33 bp):
AATAAGACCATAACCGGGCTATGGCATGTGAAT
Found at i:52499851 original size:39 final size:39
Alignment explanation
Indices: 52499794--52499873 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
52499784 TGGTGGCCTT
* *
52499794 CACATAGTACCTCCCTTGTAG-CCAAAGCTATTTTATTCA
1 CACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCA
52499833 CACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCA
1 CACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCA
52499872 CA
1 CA
52499874 AAAATGGCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 1 0.03
39 37 0.97
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.33
Consensus pattern (39 bp):
CACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCA
Found at i:52499954 original size:51 final size:52
Alignment explanation
Indices: 52499833--52499973 Score: 248
Period size: 51 Copynumber: 2.7 Consensus size: 52
52499823 ATTTTATTCA
52499833 CACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAAATGGCCTT
1 CACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAAATGGCCTT
* * *
52499885 CACATAGTACCACACTTGTGTCCAAAGGTATTATATTCAC-AAAGTGGCCTT
1 CACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAAATGGCCTT
52499936 CACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 CACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
52499974 CTAAGGTTCA
Statistics
Matches: 84, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
51 46 0.55
52 38 0.45
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (52 bp):
CACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAAATGGCCTT
Found at i:52500034 original size:28 final size:27
Alignment explanation
Indices: 52499997--52500095 Score: 141
Period size: 28 Copynumber: 3.7 Consensus size: 27
52499987 GGGAAATTTC
52499997 TCACTTAGCACCATGCCATGGACTTATT
1 TCACTTAGCA-CATGCCATGGACTTATT
52500025 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
*
52500053 TCACTTAG---ATGCCATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
52500077 TCACTTAGCACAATGCCAT
1 TCACTTAGCAC-ATGCCAT
52500096 ATCCTAGATA
Statistics
Matches: 65, Mismatches: 1, Indels: 10
0.86 0.01 0.13
Matches are distributed among these distances:
24 22 0.34
25 1 0.02
27 2 0.03
28 40 0.62
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.34
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:52502186 original size:25 final size:23
Alignment explanation
Indices: 52502167--52502248 Score: 69
Period size: 23 Copynumber: 3.6 Consensus size: 23
52502157 CGAGCTGATG
52502167 AACAATAAGCTCTATTGAGCTAA
1 AACAATAAGCTCTATTGAGCTAA
* * *
52502190 AACGATAAGCTCTATCGGGCT-A
1 AACAATAAGCTCTATTGAGCTAA
* * *
52502212 AATAGTAAGCT-TCAATGAGCTGAA
1 AACAATAAGCTCT-ATTGAGCT-AA
*
52502236 AACAGTAAGCTCT
1 AACAATAAGCTCT
52502249 TACGAGCTGG
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
21 1 0.02
22 14 0.31
23 18 0.40
24 11 0.24
25 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (23 bp):
AACAATAAGCTCTATTGAGCTAA
Found at i:52506201 original size:3 final size:3
Alignment explanation
Indices: 52506195--52506250 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
52506185 TTGTGTGATG
52506195 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
52506243 ATA ATA AT
1 ATA ATA AT
52506251 GCAATGTCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:52506749 original size:48 final size:48
Alignment explanation
Indices: 52506678--52506947 Score: 362
Period size: 48 Copynumber: 5.6 Consensus size: 48
52506668 ATGAGATCTC
* * **
52506678 GTGTAAGACCATGTCTAGGACATGGCATC-AGGATTGATATGCATGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGA-CATTGATATGTGTGCCA
52506726 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCA
*
52506774 GTGTAAGACCATGTTTGGGACATGGCATCGACATTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCA
* * * * *
52506822 GTATAAGACCATATTTGGGACATGGCATTGACATTGATATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCA
* * * * * * *
52506870 GTGTAAGATCATGTCTAGGACATGGCATTGGCAATGGTATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCA
*
52506918 GTGTAAGACCATGTTTGGGACATGGCATCG
1 GTGTAAGACCATGTCTGGGACATGGCATCG
52506948 GCACCGATAT
Statistics
Matches: 200, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
48 199 1.00
49 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCA
Found at i:52506970 original size:144 final size:145
Alignment explanation
Indices: 52506710--52506984 Score: 358
Period size: 144 Copynumber: 1.9 Consensus size: 145
52506700 TGGCATCAGG
* *
52506710 ATTGATATGCATGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCAG
1 ATTGATATGCATGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACAATGATATGTGTGCCAG
** ** *
52506775 TGTAAGACCATGTTTGGGACATGGCATCGACATTGATATGTGTGCCAGTATAAGACCATAT-TTG
66 TGTAAGACCATGTTTGGGACATGGCATCGACACCGATATGACTGCCAGTATAAAACCATATCTTG
52506839 GGACATGGCATTGAC
131 GGACATGGCATTGAC
** * * * * * *
52506854 ATTGATATGTGTGCTAGTGTAAGATCATGTCTAGGACATGGCATTGGCAATGGTATGTGTGCTAG
1 ATTGATATGCATGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACAATGATATGTGTGCCAG
* *
52506919 TGTAAGACCATGTTTGGGACATGGCATCGGCACCGATATAAGACT-TC-GTATAAAACCATATCT
66 TGTAAGACCATGTTTGGGACATGGCATCGACACCGATAT--GACTGCCAGTATAAAACCATATCT
52506982 TGG
129 TGG
52506985 ATATGGCGTC
Statistics
Matches: 111, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
144 104 0.94
145 5 0.05
146 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (145 bp):
ATTGATATGCATGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACAATGATATGTGTGCCAG
TGTAAGACCATGTTTGGGACATGGCATCGACACCGATATGACTGCCAGTATAAAACCATATCTTG
GGACATGGCATTGAC
Found at i:52509002 original size:20 final size:20
Alignment explanation
Indices: 52508977--52509028 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
52508967 CTTGCTAAGG
*
52508977 ACACGGGTGTGTCCCAAGCT
1 ACACGGGCGTGTCCCAAGCT
52508997 ACACGGGCGTGTCCCAAGCT
1 ACACGGGCGTGTCCCAAGCT
52509017 ACACGGGCGTGT
1 ACACGGGCGTGT
52509029 GACTCTATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.19, C:0.31, G:0.33, T:0.17
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAGCT
Found at i:52510812 original size:31 final size:31
Alignment explanation
Indices: 52510774--52510837 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
52510764 AAGAATGTAT
52510774 GTTTTAAAAGACATTAATACGAGTCAAAGTC
1 GTTTTAAAAGACATTAATACGAGTCAAAGTC
*
52510805 GTTTTAAAAGACATTAATACGAGTCGAAGTC
1 GTTTTAAAAGACATTAATACGAGTCAAAGTC
52510836 GT
1 GT
52510838 ACTGATTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (31 bp):
GTTTTAAAAGACATTAATACGAGTCAAAGTC
Found at i:52512592 original size:47 final size:47
Alignment explanation
Indices: 52512481--52512614 Score: 175
Period size: 47 Copynumber: 2.9 Consensus size: 47
52512471 TTATTTATGT
*
52512481 GCCAGTGTAAGACATGTCTAGGACAT-GCATCAGCCA-TATTATGAGA
1 GCCAGTGTAAGACATGTCTAGGACATGGCATCAG-CATTATGATGAGA
*
52512527 GCCAGTGTAAGACAATGTCTAGGACGTGGCATCAGCATTGA-GATGAGA
1 GCCAGTGTAAGAC-ATGTCTAGGACATGGCATCAGCATT-ATGATGAGA
* * *
52512575 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTAT
1 GCCAGTGTAAGACATGTCTAGGACATGGCATCAGCATTAT
52512615 ACCCTATGTT
Statistics
Matches: 77, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
46 14 0.18
47 36 0.47
48 26 0.34
49 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTAGGACATGGCATCAGCATTATGATGAGA
Found at i:52516922 original size:116 final size:116
Alignment explanation
Indices: 52516718--52516939 Score: 408
Period size: 116 Copynumber: 1.9 Consensus size: 116
52516708 TGGCCCTTGT
52516718 GACTCACACGGCCTAAGCAATACAGGGACATGCCCGTGTCCCTCACACGTGTGGAATTAATTCTA
1 GACTCACACGGCCTAAGCAATACAGGGACATGCCCGTGTCCCTCACACGTGTGGAATTAATTCTA
*
52516783 AATTAATACCTACAGGAGTTTTCACACGGCCTAGCACACGCTTGTGTCCTG
66 AATTAACACCTACAGGAGTTTTCACACGGCCTAGCACACGCTTGTGTCCTG
*
52516834 GACTCACACGGCCTAAGTAATACAGGGACATGCCCGTGTCCCTCACACGTGTGGAATTAATTCTA
1 GACTCACACGGCCTAAGCAATACAGGGACATGCCCGTGTCCCTCACACGTGTGGAATTAATTCTA
* *
52516899 AATTAACACCTATAGGGGTTTTCACACGGCCTAGCACACGC
66 AATTAACACCTACAGGAGTTTTCACACGGCCTAGCACACGC
52516940 CCGTGTCTTG
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 102 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (116 bp):
GACTCACACGGCCTAAGCAATACAGGGACATGCCCGTGTCCCTCACACGTGTGGAATTAATTCTA
AATTAACACCTACAGGAGTTTTCACACGGCCTAGCACACGCTTGTGTCCTG
Found at i:52517001 original size:40 final size:40
Alignment explanation
Indices: 52516919--52517037 Score: 141
Period size: 40 Copynumber: 3.0 Consensus size: 40
52516909 TATAGGGGTT
* * *
52516919 TTCACACGGCC-TAGCACACGCCCGTGTCTTGGCCCGTATCC
1 TTCACACGGCCAT-G-ACACGCCCGTGTCCTGGCTCGTGTCC
* *
52516960 TTCACACGGCCATGACACGACTGTGTCCTGGCTCGTGTCC
1 TTCACACGGCCATGACACGCCCGTGTCCTGGCTCGTGTCC
* * *
52517000 TTTACACGGCCATGACACTCCCGTGTCCTAGCTCGTGT
1 TTCACACGGCCATGACACGCCCGTGTCCTGGCTCGTGT
52517038 GCAAAAACCT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
40 54 0.81
41 12 0.18
42 1 0.01
ACGTcount: A:0.15, C:0.37, G:0.23, T:0.25
Consensus pattern (40 bp):
TTCACACGGCCATGACACGCCCGTGTCCTGGCTCGTGTCC
Found at i:52519603 original size:46 final size:46
Alignment explanation
Indices: 52519536--52519711 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 46
52519526 TATTAGGGCT
* *
52519536 TCCGAACTCATTGAGTTGAGTCCGATTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
52519582 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* * *
52519627 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
52519675 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52519712 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 16, Indels: 20
0.74 0.11 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 6 0.06
46 56 0.54
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:52519695 original size:93 final size:93
Alignment explanation
Indices: 52519536--52519704 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 93
52519526 TATTAGGGCT
* * *
52519536 TCCGAACTCATTGAGTTGAGTCCGATTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCCAACTCGTTGAGTTGA
*
52519601 GTCTGAGTTCGTGAGATGTAACTAGGCA
66 GTCCGAGTTCGTGAGATGTAACTAGGCA
* * *
52519629 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG-CCCAAGCTCGTTGAGTTG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCCAA-CTCGTTGAGTTG
52519693 AGTCCGAGTTCG
65 AGTCCGAGTTCG
52519705 CTTATGGGCG
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
92 4 0.06
93 64 0.94
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (93 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCCAACTCGTTGAGTTGA
GTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:52520578 original size:28 final size:28
Alignment explanation
Indices: 52520538--52520594 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
52520528 GAAACAGGGT
52520538 AAGAGCAATTTCTGGATTCCCTATTCTG
1 AAGAGCAATTTCTGGATTCCCTATTCTG
52520566 AAGAGCAATTTCTGGATTCCCTATTCTG
1 AAGAGCAATTTCTGGATTCCCTATTCTG
52520594 A
1 A
52520595 CTTTATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (28 bp):
AAGAGCAATTTCTGGATTCCCTATTCTG
Found at i:52522732 original size:14 final size:14
Alignment explanation
Indices: 52522710--52522763 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
52522700 GTATTGTATC
52522710 TTGGATTTCTTTAT
1 TTGGATTTCTTTAT
* **
52522724 TTGGGTTTCTCAAT
1 TTGGATTTCTTTAT
52522738 CTTGGATTTCTTTAT
1 -TTGGATTTCTTTAT
* *
52522753 TCGGTTTTCTT
1 TTGGATTTCTT
52522764 GTTATCTTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
14 20 0.65
15 11 0.35
ACGTcount: A:0.11, C:0.13, G:0.17, T:0.59
Consensus pattern (14 bp):
TTGGATTTCTTTAT
Found at i:52522740 original size:29 final size:29
Alignment explanation
Indices: 52522707--52522762 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
52522697 ATAGTATTGT
*
52522707 ATCTTGGATTTCTTTATTTGGGTTTCTCA
1 ATCTTGGATTTCTTTATTCGGGTTTCTCA
*
52522736 ATCTTGGATTTCTTTATTCGGTTTTCT
1 ATCTTGGATTTCTTTATTCGGGTTTCT
52522763 TGTTATCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.12, C:0.14, G:0.16, T:0.57
Consensus pattern (29 bp):
ATCTTGGATTTCTTTATTCGGGTTTCTCA
Found at i:52525639 original size:93 final size:93
Alignment explanation
Indices: 52525479--52525651 Score: 220
Period size: 93 Copynumber: 1.9 Consensus size: 93
52525469 CGAATATTTG
* * * ** *
52525479 GGCATCCGAACTCATTGAGTTGATTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTAATTAAG
*
52525544 TTGAGTTCAAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
* * * * * *
52525572 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATATGAATGCCCGAGCTAATTAAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTAATTAAG
*
52525637 TTGAGTCCGAGTTCG
66 TTGAGTCCAAGTTCG
52525652 CTTATGGGCG
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
93 66 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTAATTAAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:52528396 original size:48 final size:48
Alignment explanation
Indices: 52528325--52528498 Score: 235
Period size: 48 Copynumber: 3.7 Consensus size: 48
52528315 ATGAGATCCT
52528325 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
**
52528373 GTGTAAGACCATGTCTGGGACATGGCATCGGTATTGATA--TGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
* * * * * **
52528419 GTGTAGGACCATGTCTGGCACATGGCATCAGTGATGATATGTGTGATA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
* *
52528467 GTGTAAGACCATGTATGGAACATGGCATCGGC
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC
52528499 ACCGATATGA
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
46 41 0.37
48 69 0.63
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
Found at i:52528490 original size:94 final size:94
Alignment explanation
Indices: 52528325--52528497 Score: 265
Period size: 94 Copynumber: 1.8 Consensus size: 94
52528315 ATGAGATCCT
* * * * *
52528325 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCAGTGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTGGCACATGGCATCAGCGATGATATGTGTGACAGTGTAAGACCATGTATG
*
52528390 GGACATGGCATCGGTATTGATATGTGCCA
66 GAACATGGCATCGGTATTGATATGTGCCA
* * *
52528419 GTGTAGGACCATGTCTGGCACATGGCATCAGTGATGATATGTGTGATAGTGTAAGACCATGTATG
1 GTGTAAGACCATGTCTGGCACATGGCATCAGCGATGATATGTGTGACAGTGTAAGACCATGTATG
52528484 GAACATGGCATCGG
66 GAACATGGCATCGG
52528498 CACCGATATG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 70 1.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (94 bp):
GTGTAAGACCATGTCTGGCACATGGCATCAGCGATGATATGTGTGACAGTGTAAGACCATGTATG
GAACATGGCATCGGTATTGATATGTGCCA
Found at i:52534709 original size:28 final size:27
Alignment explanation
Indices: 52534678--52534809 Score: 106
Period size: 28 Copynumber: 4.7 Consensus size: 27
52534668 ACATACATGC
52534678 ATATGGCCCACTAGGCCCAATCTCATTT
1 ATATGGCCCACTAGGCCCAAT-TCATTT
* *
52534706 ATATGGCCCATCCA-GCCCAATTCACGTT
1 ATATGGCCCA-CTAGGCCCAATTCA-TTT
* * *
52534734 CTACGGCTCA-TCAGGCCCAATTCAAATTT
1 ATATGGCCCACT-AGGCCCAATTC--ATTT
**
52534763 ATATGGCCCGTTAGGCCCAATCTCATTT
1 ATATGGCCCACTAGGCCCAAT-TCATTT
* *
52534791 ATATGGCCCATTCGGCCCA
1 ATATGGCCCACTAGGCCCA
52534810 TAGCACATTA
Statistics
Matches: 83, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
27 4 0.05
28 56 0.67
29 19 0.23
30 4 0.05
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (27 bp):
ATATGGCCCACTAGGCCCAATTCATTT
Found at i:52541675 original size:14 final size:14
Alignment explanation
Indices: 52541656--52541682 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52541646 GTGGACTTAT
52541656 ATGATATTAAATGG
1 ATGATATTAAATGG
52541670 ATGATATTAAATG
1 ATGATATTAAATG
52541683 ATTTATAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.37
Consensus pattern (14 bp):
ATGATATTAAATGG
Found at i:52554436 original size:27 final size:27
Alignment explanation
Indices: 52554413--52554690 Score: 199
Period size: 27 Copynumber: 10.3 Consensus size: 27
52554403 AGTATTATTG
* *
52554413 AAATACCCTCGATTAGAAAAATTACCA
1 AAATACCCTCGATTTGTAAAATTACCA
* * *
52554440 AAATACCC-CTGGTTTGTAAAATTATCG
1 AAATACCCTC-GATTTGTAAAATTACCA
**
52554467 AAATACCCTCGACCTGTAAAATTACCA
1 AAATACCCTCGATTTGTAAAATTACCA
*
52554494 AAATACCCTAGATTTGTAAAATTA-CA
1 AAATACCCTCGATTTGTAAAATTACCA
* *
52554520 AAATACCCTTGATTTGAAAAATTACCA
1 AAATACCCTCGATTTGTAAAATTACCA
* *
52554547 AAATACCCTTGATTTGGAAAATTA-CA
1 AAATACCCTCGATTTGTAAAATTACCA
* **
52554573 GAAATACCC-CTAATTTACAAAATTA-CA
1 -AAATACCCTC-GATTTGTAAAATTACCA
* * * *
52554600 GAAATACCCTTGACTTGAAAAATT-GCA
1 -AAATACCCTCGATTTGTAAAATTACCA
* * * * * *
52554627 GAAATACCATTGGTTTGCAAAATTATCG
1 -AAATACCCTCGATTTGTAAAATTACCA
* * * *
52554655 AAATACCCTTGGTTTGTAGATTTACCA
1 AAATACCCTCGATTTGTAAAATTACCA
*
52554682 AAACACCCT
1 AAATACCCT
52554691 TGTAGGGTGA
Statistics
Matches: 205, Mismatches: 38, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
26 27 0.13
27 176 0.86
28 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.28
Consensus pattern (27 bp):
AAATACCCTCGATTTGTAAAATTACCA
Found at i:52554634 original size:81 final size:83
Alignment explanation
Indices: 52554430--52554662 Score: 239
Period size: 80 Copynumber: 2.9 Consensus size: 83
52554420 CTCGATTAGA
* ** * * * ** *
52554430 AAAATTACCAAAATACCCCTGGTTTGTAAAATTATC-GAAATACCCTCGACCTGTAAAATTACCA
1 AAAATTA-CAAAATACCCTTGACTTGAAAAATTACCAGAAATACCCTTGATTTGCAAAATTACCA
**
52554494 -AAATA-CCCTAGATTTGT
65 GAAATACCCCTAGATTTAC
* *
52554511 AAAATTACAAAATACCCTTGATTTGAAAAATTACCA-AAATACCCTTGATTTGGAAAATTA-CAG
1 AAAATTACAAAATACCCTTGACTTGAAAAATTACCAGAAATACCCTTGATTTGCAAAATTACCAG
52554574 AAATACCCCTA-ATTTAC
66 AAATACCCCTAGATTTAC
* * * *
52554591 AAAATTACAGAAATACCCTTGACTTGAAAAATT-GCAGAAATACCATTGGTTTGCAAAATTATC-
1 AAAATTACA-AAATACCCTTGACTTGAAAAATTACCAGAAATACCCTTGATTTGCAAAATTACCA
52554654 GAAATACCC
65 GAAATACCC
52554663 TTGGTTTGTA
Statistics
Matches: 131, Mismatches: 15, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
79 2 0.02
80 64 0.49
81 64 0.49
82 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (83 bp):
AAAATTACAAAATACCCTTGACTTGAAAAATTACCAGAAATACCCTTGATTTGCAAAATTACCAG
AAATACCCCTAGATTTAC
Found at i:52554648 original size:54 final size:54
Alignment explanation
Indices: 52554412--52554670 Score: 263
Period size: 54 Copynumber: 4.8 Consensus size: 54
52554402 TAGTATTATT
* * * * * *
52554412 GAAATACCCTCGATTAGAAAAATTACCAAAATACCCCTGGTTTGTAAAATTATC-
1 GAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTGATTTGAAAAATTA-CA
* ** * * *
52554466 GAAATACCCTCGACCTGTAAAATTACCAAAATACCCTAGATTTGTAAAATTACA
1 GAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTGATTTGAAAAATTACA
* *
52554520 -AAATACCCTTGATTTGAAAAATTACCAAAATACCCTTGATTTGGAAAATTACA
1 GAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTGATTTGAAAAATTACA
* * * * *
52554573 GAAATACCCCTAATTTACAAAATTA-CAGAAATACCCTTGACTTGAAAAATTGCA
1 GAAATACCCTTGATTTGCAAAATTACCA-AAATACCCTTGATTTGAAAAATTACA
* * * * *
52554627 GAAATACCATTGGTTTGCAAAATTATCGAAATACCCTTGGTTTG
1 GAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTGATTTG
52554671 TAGATTTACC
Statistics
Matches: 173, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
53 50 0.29
54 122 0.71
55 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (54 bp):
GAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTGATTTGAAAAATTACA
Found at i:52554690 original size:81 final size:79
Alignment explanation
Indices: 52554412--52554692 Score: 231
Period size: 81 Copynumber: 3.5 Consensus size: 79
52554402 TAGTATTATT
* * * * ** * * * * *
52554412 GAAATACCCTCGATTAGAAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCGAAATACCCTC
1 GAAATACCCTTGATTTGTAAAATTA-CAAAATACCCTTGACTTGAAAAATTACCAAAATACCATT
** *
52554477 GACCTGTAAAATTACC
65 GATTTGCAAAATTA-C
* * * *
52554493 AAAATACCCTAGATTTGTAAAATTACAAAATACCCTTGATTTGAAAAATTACCAAAATACCCTTG
1 GAAATACCCTTGATTTGTAAAATTACAAAATACCCTTGACTTGAAAAATTACCAAAATACCATTG
*
52554558 ATTTGGAAAATTAC
66 ATTTGCAAAATTAC
* * ** *
52554572 AGAAATACCCCTAATTTACAAAATTACAGAAATACCCTTGACTTGAAAAATT-GCAGAAATACCA
1 -GAAATACCCTTGATTTGTAAAATTACA-AAATACCCTTGACTTGAAAAATTACCA-AAATACCA
*
52554636 TTGGTTTGCAAAATTATC
63 TTGATTTGCAAAATTA-C
* * * *
52554654 GAAATACCCTTGGTTTGTAGATTTACCAAAACACCCTTG
1 GAAATACCCTTGATTTGTAAAATTA-CAAAATACCCTTG
52554693 TAGGGTGAAA
Statistics
Matches: 163, Mismatches: 32, Indels: 10
0.80 0.16 0.05
Matches are distributed among these distances:
79 1 0.01
80 67 0.41
81 92 0.56
82 3 0.02
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (79 bp):
GAAATACCCTTGATTTGTAAAATTACAAAATACCCTTGACTTGAAAAATTACCAAAATACCATTG
ATTTGCAAAATTAC
Found at i:52554974 original size:40 final size:40
Alignment explanation
Indices: 52554930--52555006 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
52554920 GGAGGAAGAA
52554930 ATTGAAGATCGCATGGTTGCTTGACGACAATGGATCCCCG
1 ATTGAAGATCGCATGGTTGCTTGACGACAATGGATCCCCG
* **
52554970 ATTGAGGATCGCATGGTTGCTTGACGACTGTGGATCC
1 ATTGAAGATCGCATGGTTGCTTGACGACAATGGATCC
52555007 ACCGGTGGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (40 bp):
ATTGAAGATCGCATGGTTGCTTGACGACAATGGATCCCCG
Found at i:52555214 original size:22 final size:22
Alignment explanation
Indices: 52555152--52555216 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
52555142 GCTAATTATT
* *
52555152 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTATGTGCCAAC
* * * *
52555174 CT-ACATATGGCTCTATGCCGAC
1 CTGA-TTATGGCTATGTGCCAAC
52555196 CTGATTATGGCTATGTGCCAA
1 CTGATTATGGCTATGTGCCAA
52555217 ACGTATTTGC
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
21 1 0.03
22 30 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTATGTGCCAAC
Found at i:52557109 original size:29 final size:29
Alignment explanation
Indices: 52557070--52557149 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
52557060 CTTAATAATC
*
52557070 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
52557100 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
52557129 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
52557150 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:52557700 original size:2 final size:2
Alignment explanation
Indices: 52557693--52557718 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
52557683 ATATGCATAC
52557693 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
52557719 CAACTATACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52564966 original size:29 final size:29
Alignment explanation
Indices: 52564927--52565006 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
52564917 CTTAATAATC
*
52564927 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
52564957 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
52564986 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
52565007 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:52581044 original size:20 final size:20
Alignment explanation
Indices: 52581019--52581056 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52581009 GTAACATATA
52581019 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
52581039 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
52581057 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:52581571 original size:13 final size:13
Alignment explanation
Indices: 52581553--52581586 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
52581543 CCGTGTCCCT
52581553 CACACGGTTGAGA
1 CACACGGTTGAGA
52581566 CACACGGTTGAGA
1 CACACGGTTGAGA
52581579 CACACGGT
1 CACACGGT
52581587 CGTGTCTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.26, G:0.29, T:0.15
Consensus pattern (13 bp):
CACACGGTTGAGA
Found at i:52592308 original size:7 final size:7
Alignment explanation
Indices: 52592296--52592320 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
52592286 AATGCTACCT
52592296 CATATCA
1 CATATCA
52592303 CATATCA
1 CATATCA
52592310 CATATCA
1 CATATCA
52592317 CATA
1 CATA
52592321 CTACTCGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (7 bp):
CATATCA
Found at i:52596048 original size:44 final size:44
Alignment explanation
Indices: 52595985--52596096 Score: 215
Period size: 44 Copynumber: 2.5 Consensus size: 44
52595975 TTGCTGATGG
52595985 GATTTAGCTCAGACGAGTAATCCTATTGATCTCATTATAGAAAA
1 GATTTAGCTCAGACGAGTAATCCTATTGATCTCATTATAGAAAA
52596029 GATTTAGCTCAGACGAGTAATCCTATTGATCTCATTATAGAAAA
1 GATTTAGCTCAGACGAGTAATCCTATTGATCTCATTATAGAAAA
*
52596073 GATTTAGCTCAGACGGGTAATCCT
1 GATTTAGCTCAGACGAGTAATCCT
52596097 GATAAAATCT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 67 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (44 bp):
GATTTAGCTCAGACGAGTAATCCTATTGATCTCATTATAGAAAA
Found at i:52598533 original size:40 final size:40
Alignment explanation
Indices: 52598484--52598634 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
52598474 ATCACGATTT
*
52598484 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
52598524 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
52598564 GCATAAATGTCC-TCGGGACTTAGCCCGGAT-GTA-GCCACTA
1 GCACAAATG-CCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* *
52598604 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
52598635 TAATTTCCAG
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
39 3 0.03
40 87 0.95
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:52598572 original size:80 final size:80
Alignment explanation
Indices: 52598488--52598674 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
52598478 CGATTTGCAC
* * *
52598488 AAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTCGCACGAA-TGCCTTCGGGTCTTAGCCCG
1 AAATGCCTTCGGGACTTAGCCCGGATAGAA-GCACTAGCAC-AATTGCCTTCGGGTCTTAACCCG
*
52598551 GATATAATTACTAGCAT
64 GATATAATTACCAGCAT
*
52598568 AAATGTCC-TCGGGACTTAGCCCGGAT-GTAGCCACTAGCACAATTGCCTTCGGGTCTTAACCCG
1 AAATG-CCTTCGGGACTTAGCCCGGATAGAAG-CACTAGCACAATTGCCTTCGGGTCTTAACCCG
*
52598631 GATATAATTTCCAGCAT
64 GATATAATTACCAGCAT
* * *
52598648 TAACGTCTTCGGGACTTAGCCCGGATA
1 AAATGCCTTCGGGACTTAGCCCGGATA
52598675 TCATTCAAGT
Statistics
Matches: 92, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
78 1 0.01
79 5 0.05
80 84 0.91
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
AAATGCCTTCGGGACTTAGCCCGGATAGAAGCACTAGCACAATTGCCTTCGGGTCTTAACCCGGA
TATAATTACCAGCAT
Found at i:52602775 original size:83 final size:83
Alignment explanation
Indices: 52602652--52602821 Score: 286
Period size: 83 Copynumber: 2.0 Consensus size: 83
52602642 GTCTCTGCCC
* *
52602652 GTGTACCCAATTCTAAGCATTTTGTTTCTCAATTTTAAGATGCAAGGGACACACGACTAAACCAC
1 GTGTACCCAATTCTAAGCATTTTGTTTCTCAATTTTAAGATACAAGGGACACACGACCAAACCAC
*
52602717 ATGCCCGTGTGCCAGACT
66 ATGCCCATGTGCCAGACT
* * *
52602735 GTGTACCCAATTCTTAGCATTTTGTTTCTCAATTTTAAGATATAAGGGACACATGACCAAACCAC
1 GTGTACCCAATTCTAAGCATTTTGTTTCTCAATTTTAAGATACAAGGGACACACGACCAAACCAC
52602800 ATGCCCATGTGCCAGACT
66 ATGCCCATGTGCCAGACT
52602818 GTGT
1 GTGT
52602822 GTCACACATA
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (83 bp):
GTGTACCCAATTCTAAGCATTTTGTTTCTCAATTTTAAGATACAAGGGACACACGACCAAACCAC
ATGCCCATGTGCCAGACT
Found at i:52604896 original size:23 final size:24
Alignment explanation
Indices: 52604846--52604910 Score: 89
Period size: 23 Copynumber: 2.8 Consensus size: 24
52604836 CCGGTATATC
52604846 AGCTCATAAGAGCTTACTATTTTT
1 AGCTCATAAGAGCTTACTATTTTT
**
52604870 AGCTCATCGGAGCTTACTA-TTTT
1 AGCTCATAAGAGCTTACTATTTTT
52604893 AGCTCA-ATAGAGCTTACT
1 AGCTCATA-AGAGCTTACT
52604911 GTCCATTAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 19 0.53
24 17 0.47
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (24 bp):
AGCTCATAAGAGCTTACTATTTTT
Found at i:52604941 original size:23 final size:23
Alignment explanation
Indices: 52604878--52604941 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 23
52604868 TTAGCTCATC
*
52604878 GGAGCTTACT-ATTTTAGCTCAATA
1 GGAGCTTACTGA--TTAGCTCAAGA
52604902 -GAGCTTACTGTCCATTAGCTCAAGA
1 GGAGCTTACTG---ATTAGCTCAAGA
52604927 GGAGCTTACTGATTA
1 GGAGCTTACTGATTA
52604942 TAACTCGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
23 13 0.38
25 10 0.29
26 10 0.29
27 1 0.03
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (23 bp):
GGAGCTTACTGATTAGCTCAAGA
Found at i:52605119 original size:19 final size:18
Alignment explanation
Indices: 52605097--52605165 Score: 59
Period size: 19 Copynumber: 3.7 Consensus size: 18
52605087 ACGAATGAAT
52605097 TACTGTTATATGGATAAAG
1 TACTGTTATATGGAT-AAG
* *
52605116 TACTGTTAAATGGATGAG
1 TACTGTTATATGGATAAG
* *
52605134 TTACTGTTAT-TGAATGAAT
1 -TACTGTTATATGGAT-AAG
52605153 TACTGTTTATATG
1 TACTG-TTATATG
52605166 ATTGAGAGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
18 11 0.28
19 27 0.68
20 2 0.05
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (18 bp):
TACTGTTATATGGATAAG
Found at i:52605278 original size:38 final size:38
Alignment explanation
Indices: 52605236--52605310 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
52605226 GTATTGAGTA
52605236 TTAAATTAAGATAATGGATGATTATATGCACTTATGTT
1 TTAAATTAAGATAATGGATGATTATATGCACTTATGTT
52605274 TTAAATTAAGATAATGGATGATTATATGCACTTATGT
1 TTAAATTAAGATAATGGATGATTATATGCACTTATGT
52605311 AACTAACTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.41
Consensus pattern (38 bp):
TTAAATTAAGATAATGGATGATTATATGCACTTATGTT
Found at i:52614163 original size:19 final size:19
Alignment explanation
Indices: 52614139--52614175 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
52614129 GATTGAATTA
52614139 TATGTATTTGAGTTTATCG
1 TATGTATTTGAGTTTATCG
52614158 TATGTATTTGAGTTTATC
1 TATGTATTTGAGTTTATC
52614176 TCTAGATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.05, G:0.19, T:0.54
Consensus pattern (19 bp):
TATGTATTTGAGTTTATCG
Found at i:52614186 original size:18 final size:19
Alignment explanation
Indices: 52614139--52614187 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
52614129 GATTGAATTA
*
52614139 TATGTATTTGAGTTTATCG
1 TATGTATTTGAGTTTATCC
52614158 TATGTATTTGAGTTTATCTC
1 TATGTATTTGAGTTTATC-C
52614178 TA-G-ATTTGAG
1 TATGTATTTGAG
52614188 AATAAATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 7 0.25
19 19 0.68
20 2 0.07
ACGTcount: A:0.22, C:0.06, G:0.20, T:0.51
Consensus pattern (19 bp):
TATGTATTTGAGTTTATCC
Found at i:52620252 original size:15 final size:16
Alignment explanation
Indices: 52620234--52620268 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
52620224 ATTTTAAATA
52620234 TTTTAGTTTTTTAT-T
1 TTTTAGTTTTTTATAT
*
52620249 TTTTATTTTTTTATAT
1 TTTTAGTTTTTTATAT
52620265 TTTT
1 TTTT
52620269 TTAATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTTAGTTTTTTATAT
Found at i:52625126 original size:22 final size:22
Alignment explanation
Indices: 52625101--52625143 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
52625091 TATCCAAACA
52625101 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
52625123 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
52625144 ATAGGGAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:52634841 original size:42 final size:43
Alignment explanation
Indices: 52634737--52634875 Score: 113
Period size: 42 Copynumber: 3.2 Consensus size: 43
52634727 TGTGTTATCG
* * * * *
52634737 TGTAAGACCACGTCTGGAAC-GTTGGCATCGACT-TCTGTTTTGCG
1 TGTAAGACCATGTCTGGGACAG-TGGCATCGA-TATCTG-ATTACA
* *
52634781 TGTAAGACCATGTCTGGGACATTGGCATCG-TATCTGATTTCA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATATCTGATTACA
* * * * * *
52634823 TGTAAGACCCTGTTTGGGAGAGTGGCATTGATGTTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATATCTGATTACA
52634866 TGTAAGACCA
1 TGTAAGACCA
52634876 CATCTAGGAT
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
42 29 0.38
43 22 0.29
44 26 0.34
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGATATCTGATTACA
Found at i:52641993 original size:43 final size:42
Alignment explanation
Indices: 52641838--52641994 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 42
52641828 TGTGTTATTG
* *
52641838 TGTAAGACCACGTCTGGGACGTTGGCATCAACTTCTAT-TTTGCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCAA-TT-T-TGATTACA
* * * * * *
52641882 TGTAAGACCATGTCTGGGACATTGGCATC-GTATCTGATTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCAAT-TTTGATTACA
52641924 TGTAAGACC-CTGTCTGGGACAG-TGGCATCAATGTTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCAAT-TTTGATTACA
*
52641967 TGTAAGACCACGTCTGGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
52641995 TGTATATGCT
Statistics
Matches: 91, Mismatches: 15, Indels: 15
0.75 0.12 0.12
Matches are distributed among these distances:
41 1 0.01
42 30 0.33
43 32 0.35
44 28 0.31
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCAATTTTGATTACA
Found at i:52644157 original size:16 final size:16
Alignment explanation
Indices: 52644136--52644172 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
52644126 TCATGCGAGC
*
52644136 TTACTAAGCGTAAAGT
1 TTACTAAGCATAAAGT
52644152 TTACTAAGCATAAAGT
1 TTACTAAGCATAAAGT
52644168 TTACT
1 TTACT
52644173 CCCTCCTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (16 bp):
TTACTAAGCATAAAGT
Found at i:52658277 original size:23 final size:23
Alignment explanation
Indices: 52658246--52658379 Score: 70
Period size: 23 Copynumber: 5.3 Consensus size: 23
52658236 TTTGGGTTTT
52658246 AATTAATTTAATTAAGTTGGTAA
1 AATTAATTTAATTAAGTTGGTAA
* * * **
52658269 AATTTATTTCATTAATAATTTGGGTTTT
1 AATTAATTT-A--ATTAAGTT-GG-TAA
52658297 AATTAATTTAATTAAGTTGGTAA
1 AATTAATTTAATTAAGTTGGTAA
* * * **
52658320 AATTTATTTCATTAATAATTTGGGTTTT
1 AATTAATTT-A--ATTAAGTT-GG-TAA
*
52658348 AATTAATTTTATTAAGTTGGTAA
1 AATTAATTTAATTAAGTTGGTAA
52658371 AATTTAATT
1 AA-TTAATT
52658380 CTTTGGTCCT
Statistics
Matches: 79, Mismatches: 21, Indels: 21
0.65 0.17 0.17
Matches are distributed among these distances:
23 20 0.25
24 12 0.15
25 12 0.15
26 12 0.15
27 5 0.06
28 18 0.23
ACGTcount: A:0.37, C:0.01, G:0.11, T:0.51
Consensus pattern (23 bp):
AATTAATTTAATTAAGTTGGTAA
Found at i:52658277 original size:51 final size:51
Alignment explanation
Indices: 52658222--52658376 Score: 292
Period size: 51 Copynumber: 3.0 Consensus size: 51
52658212 CATTTTAAAA
*
52658222 TATTTCGTTAATAATTTGGGTTTTAATTAATTTAATTAAGTTGGTAAAATT
1 TATTTCATTAATAATTTGGGTTTTAATTAATTTAATTAAGTTGGTAAAATT
52658273 TATTTCATTAATAATTTGGGTTTTAATTAATTTAATTAAGTTGGTAAAATT
1 TATTTCATTAATAATTTGGGTTTTAATTAATTTAATTAAGTTGGTAAAATT
*
52658324 TATTTCATTAATAATTTGGGTTTTAATTAATTTTATTAAGTTGGTAAAATT
1 TATTTCATTAATAATTTGGGTTTTAATTAATTTAATTAAGTTGGTAAAATT
52658375 TA
1 TA
52658377 ATTCTTTGGT
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 102 1.00
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.52
Consensus pattern (51 bp):
TATTTCATTAATAATTTGGGTTTTAATTAATTTAATTAAGTTGGTAAAATT
Found at i:52658361 original size:28 final size:28
Alignment explanation
Indices: 52658229--52658362 Score: 90
Period size: 28 Copynumber: 5.1 Consensus size: 28
52658219 AAATATTTCG
52658229 TTAATAATTTGGGTTTTAATTAA-TTTA
1 TTAATAATTTGGGTTTTAATTAATTTTA
* * ** * *
52658256 --ATTAAGTT-GG-TAAAATTTATTTCA
1 TTAATAATTTGGGTTTTAATTAATTTTA
52658280 TTAATAATTTGGGTTTTAATTAA-TTTA
1 TTAATAATTTGGGTTTTAATTAATTTTA
* * ** * *
52658307 --ATTAAGTT-GG-TAAAATTTATTTCA
1 TTAATAATTTGGGTTTTAATTAATTTTA
52658331 TTAATAATTTGGGTTTTAATTAATTTTA
1 TTAATAATTTGGGTTTTAATTAATTTTA
52658359 TTAA
1 TTAA
52658363 GTTGGTAAAA
Statistics
Matches: 73, Mismatches: 24, Indels: 19
0.63 0.21 0.16
Matches are distributed among these distances:
23 12 0.16
24 10 0.14
25 12 0.16
26 12 0.16
27 7 0.10
28 20 0.27
ACGTcount: A:0.35, C:0.01, G:0.11, T:0.52
Consensus pattern (28 bp):
TTAATAATTTGGGTTTTAATTAATTTTA
Found at i:52658376 original size:28 final size:28
Alignment explanation
Indices: 52658243--52658379 Score: 82
Period size: 28 Copynumber: 5.2 Consensus size: 28
52658233 TAATTTGGGT
*
52658243 TTTAATTAATTTAATTAAGTTGGTAAAA
1 TTTAATTAATTTTATTAAGTTGGTAAAA
* * * *
52658271 TTTATTTCA--TTAATAATTTGGGT----
1 TTTAATTAATTTTATTAAGTT-GGTAAAA
*
52658294 TTTAATTAATTTAATTAAGTTGGTAAAA
1 TTTAATTAATTTTATTAAGTTGGTAAAA
* * * *
52658322 TTTATTTCA--TTAATAATTTGGGT----
1 TTTAATTAATTTTATTAAGTT-GGTAAAA
52658345 TTTAATTAATTTTATTAAGTTGGTAAAA
1 TTTAATTAATTTTATTAAGTTGGTAAAA
52658373 TTTAATT
1 TTTAATT
52658380 CTTTGGTCCT
Statistics
Matches: 76, Mismatches: 19, Indels: 28
0.62 0.15 0.23
Matches are distributed among these distances:
23 14 0.18
24 6 0.08
25 15 0.20
26 14 0.18
27 6 0.08
28 21 0.28
ACGTcount: A:0.36, C:0.01, G:0.11, T:0.52
Consensus pattern (28 bp):
TTTAATTAATTTTATTAAGTTGGTAAAA
Found at i:52658774 original size:7 final size:7
Alignment explanation
Indices: 52658762--52658786 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
52658752 ACTTTTTCAA
52658762 TCATCCC
1 TCATCCC
52658769 TCATCCC
1 TCATCCC
52658776 TCATCCC
1 TCATCCC
52658783 TCAT
1 TCAT
52658787 TCATCCCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.52, G:0.00, T:0.32
Consensus pattern (7 bp):
TCATCCC
Found at i:52664170 original size:29 final size:29
Alignment explanation
Indices: 52664128--52664185 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
52664118 AAGATTTAAT
52664128 TATGGATGGTTGTCAATGGTACATTGGTC
1 TATGGATGGTTGTCAATGGTACATTGGTC
52664157 TATGGATGGTTGTCAATGGTACATTGGTC
1 TATGGATGGTTGTCAATGGTACATTGGTC
52664186 CTGTGAATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.21, C:0.10, G:0.31, T:0.38
Consensus pattern (29 bp):
TATGGATGGTTGTCAATGGTACATTGGTC
Found at i:52668053 original size:40 final size:40
Alignment explanation
Indices: 52668009--52668136 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 40
52667999 GCTGGAAATC
* * *
52668009 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* *
52668049 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
52668089 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
52668129 ATATCCGG
1 ATATCCGG
52668137 TTATATTCCG
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 4 0.05
40 70 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:52670170 original size:41 final size:41
Alignment explanation
Indices: 52670033--52670254 Score: 308
Period size: 41 Copynumber: 5.5 Consensus size: 41
52670023 TGATTCTTAA
* * *
52670033 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGG--ATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G
* * * * *
52670072 CCACTGGCTCGAAGGCCCTTCGGAACTAAGTCCGGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
52670113 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
*
52670154 CACTGGCTCAAAAGCCCTTCGAAATTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
*
52670195 CACTGGCTCAAAAGCCCTTCGAAATTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
52670236 CACTGGCTCAAAAGCCCTT
1 CACTGGCTCAAAAGCCCTT
52670255 TGAACCCAAG
Statistics
Matches: 165, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
40 44 0.27
41 118 0.72
43 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
Found at i:52675296 original size:27 final size:27
Alignment explanation
Indices: 52675266--52675356 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
52675256 ATTACCAAAG
52675266 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
52675293 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
*
52675320 TACCCTCGA-TTGT-GAAATTA-TCGTTT
1 TACCCTCGATTTATAG-AATTACT-GTTT
52675346 TACCCTCGATT
1 TACCCTCGATT
52675357 GTGGAATTAC
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
25 2 0.04
26 20 0.36
27 34 0.61
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:52675345 original size:26 final size:26
Alignment explanation
Indices: 52675316--52675365 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
52675306 CAGAATTACT
52675316 GTTTTACCCTCGATTGTGAAATTATC
1 GTTTTACCCTCGATTGTGAAATTATC
*
52675342 GTTTTACCCTCGATTGTGGAATTA
1 GTTTTACCCTCGATTGTGAAATTA
52675366 CTGAAATACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (26 bp):
GTTTTACCCTCGATTGTGAAATTATC
Found at i:52675375 original size:26 final size:26
Alignment explanation
Indices: 52675320--52675473 Score: 62
Period size: 27 Copynumber: 5.8 Consensus size: 26
52675310 ATTACTGTTT
***
52675320 TACCCTCGATTGTGAAATTATCGTTT
1 TACCCTCGATTGTGAAATTATCGAAA
*
52675346 TACCCTCGATTGTGGAATTA-CTGAAA
1 TACCCTCGATTGTGAAATTATC-GAAA
* * * * *
52675372 TACCC-CTATAGGGTAGAATTACCAAAA
1 TACCCTCGATTGTG-A-AATTATCGAAA
* * * *
52675399 TACCCCTAGTTTGTAAAATTA-CCAAA
1 TA-CCCTCGATTGTGAAATTATCGAAA
* * *
52675425 GTACCACTGGTTTGTGAAATTACCGAAA
1 -TACC-CTCGATTGTGAAATTATCGAAA
* *
52675453 TACCCTCAATTTGTAAAATTA
1 TACCCTCGA-TTGTGAAATTA
52675474 CCAAAACACC
Statistics
Matches: 95, Mismatches: 23, Indels: 19
0.69 0.17 0.14
Matches are distributed among these distances:
25 6 0.06
26 33 0.35
27 45 0.47
28 9 0.09
29 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (26 bp):
TACCCTCGATTGTGAAATTATCGAAA
Found at i:52675418 original size:27 final size:27
Alignment explanation
Indices: 52675388--52675511 Score: 128
Period size: 27 Copynumber: 4.6 Consensus size: 27
52675378 TATAGGGTAG
52675388 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
52675415 AATTACCAAAGTACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
52675442 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* *
52675469 AATTACCAAAACACCCCT-GATTTATAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
52675496 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
52675512 TTGACTTTCT
Statistics
Matches: 78, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
26 5 0.06
27 69 0.88
28 4 0.05
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:52675499 original size:54 final size:55
Alignment explanation
Indices: 52675388--52675512 Score: 155
Period size: 54 Copynumber: 2.3 Consensus size: 55
52675378 TATAGGGTAG
* * ** * * *
52675388 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAGTACCACTGGTTTGTGA
1 AATTACCGAAATACCCTCTAATTTGTAAAATTACCAAAACACCACTGATTTATAA
*
52675442 AATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAACACCCCTGATTTATAA
1 AATTACCGAAATACCCTCTAATTTGTAAAATTACCAAAACACCACTGATTTATAA
*
52675496 AATTACAGAAATACCCT
1 AATTACCGAAATACCCT
52675513 TGACTTTCTA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 60 0.98
55 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (55 bp):
AATTACCGAAATACCCTCTAATTTGTAAAATTACCAAAACACCACTGATTTATAA
Found at i:52675573 original size:27 final size:27
Alignment explanation
Indices: 52675489--52675574 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
52675479 ACACCCCTGA
* * *
52675489 TTTATAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCCTTG-G
* *
52675517 TTT-CTAAAAATTA-TAGAAATACCATCGG
1 TTTAC--AAAATTACT-GAAATACCCTTGG
52675545 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGG
52675572 TTT
1 TTT
52675575 GTAGATTTAC
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
27 21 0.46
28 7 0.15
29 18 0.39
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGG
Found at i:52675686 original size:27 final size:27
Alignment explanation
Indices: 52675626--52675691 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
52675616 ATACCCCTAA
52675626 TAGG-TAAAA-GACCGTAAAGCCCTTG
1 TAGGTTAAAATGACCGTAAAGCCCTTG
*
52675651 TAGGTTAAAGTGACCGTAATA-CCCTTG
1 TAGGTTAAAATGACCGTAA-AGCCCTTG
52675678 TATGG-TAAAATGAC
1 TA-GGTTAAAATGAC
52675692 GAATATGCCC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 4 0.11
26 4 0.11
27 24 0.69
28 3 0.09
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.26
Consensus pattern (27 bp):
TAGGTTAAAATGACCGTAAAGCCCTTG
Found at i:52676534 original size:25 final size:25
Alignment explanation
Indices: 52676500--52676569 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
52676490 AGGAAGTGCT
*
52676500 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
52676525 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
52676550 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
52676570 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:52676582 original size:24 final size:24
Alignment explanation
Indices: 52676499--52676582 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 24
52676489 GAGGAAGTGC
*
52676499 TAAAAGGGCTTTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
52676524 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
52676548 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
52676572 TAAAAGAGGCT
1 TAAAAG-GGCT
52676583 AGGCCTCTAG
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
23 5 0.09
24 8 0.15
25 40 0.75
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:52676775 original size:42 final size:42
Alignment explanation
Indices: 52676716--52676808 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
52676706 GTAGTCTCCC
* *
52676716 CAAATAGGCTTGCATACATTCATTGACATTACATGTGATATT
1 CAAATGGGCTTGCATACATCCATTGACATTACATGTGATATT
52676758 CAAATGGGCTTGCATACATCCATTGACATTACATGTGATATT
1 CAAATGGGCTTGCATACATCCATTGACATTACATGTGATATT
*
52676800 GAAATGGGC
1 CAAATGGGC
52676809 CTAAGGGCCA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (42 bp):
CAAATGGGCTTGCATACATCCATTGACATTACATGTGATATT
Found at i:52676884 original size:31 final size:31
Alignment explanation
Indices: 52676831--52676913 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
52676821 CCGCTTACAT
*
52676831 AAAGGCTTCGG-CCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
52676861 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
52676892 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
52676914 TCAAGATTGA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 16 0.31
31 35 0.69
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:52678196 original size:25 final size:25
Alignment explanation
Indices: 52678144--52678233 Score: 68
Period size: 23 Copynumber: 3.8 Consensus size: 25
52678134 ATGCTCTTTA
* **
52678144 GAGCCATGATCAGTAAGCTTCTCCT
1 GAGCCATGAACAGTAAGCTTCTAAT
52678169 GAGCCGATGAACAGTAAGC-TCTAAT
1 GAGCC-ATGAACAGTAAGCTTCTAAT
*
52678194 GAG-C-TGAAACGGTAAGCTT-T-AT
1 GAGCCATG-AACAGTAAGCTTCTAAT
52678216 CGAG-C-TGAACAGTAAGCT
1 -GAGCCATGAACAGTAAGCT
52678234 CATACGAGCT
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
22 14 0.25
23 16 0.29
24 2 0.04
25 12 0.21
26 12 0.21
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.23
Consensus pattern (25 bp):
GAGCCATGAACAGTAAGCTTCTAAT
Found at i:52678220 original size:23 final size:24
Alignment explanation
Indices: 52678194--52678317 Score: 91
Period size: 23 Copynumber: 5.2 Consensus size: 24
52678184 AAGCTCTAAT
*
52678194 GAGCTGAAACGGTAAGCTTTAT-C
1 GAGCTGAAACGGTAAGCTTCATAC
*
52678217 GAGCTG-AACAGTAAGC-TCATAC
1 GAGCTGAAACGGTAAGCTTCATAC
*
52678239 GAGCTGAAACGGTAAGCTCCAATA-
1 GAGCTGAAACGGTAAGCTTC-ATAC
* * *
52678263 -AGCTAAAAACAGTAAGC-TCTTAC
1 GAGCT-GAAACGGTAAGCTTCATAC
*
52678286 GAGCTGATATATTGGTAAGC-TCATAC
1 GAGCTGA-A-A-CGGTAAGCTTCATAC
52678312 GAGCTG
1 GAGCTG
52678318 TGGTGAGTCC
Statistics
Matches: 79, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
21 3 0.04
22 18 0.23
23 21 0.27
24 16 0.20
25 4 0.05
26 17 0.22
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (24 bp):
GAGCTGAAACGGTAAGCTTCATAC
Found at i:52678233 original size:22 final size:23
Alignment explanation
Indices: 52678178--52678256 Score: 83
Period size: 23 Copynumber: 3.5 Consensus size: 23
52678168 TGAGCCGATG
52678178 AACAGTAAGCTCTAAT-GAGCTGA
1 AACAGTAAGCT-TAATCGAGCTGA
* *
52678201 AACGGTAAGCTTTATCGAGCTG-
1 AACAGTAAGCTTAATCGAGCTGA
*
52678223 AACAGTAAGC-TCATACGAGCTGA
1 AACAGTAAGCTTAAT-CGAGCTGA
*
52678246 AACGGTAAGCT
1 AACAGTAAGCT
52678257 CCAATAAGCT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
21 3 0.06
22 19 0.40
23 25 0.53
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (23 bp):
AACAGTAAGCTTAATCGAGCTGA
Found at i:52683569 original size:16 final size:16
Alignment explanation
Indices: 52683548--52683584 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
52683538 TCATGCGAGC
*
52683548 TTACTAAGCTTAAAGT
1 TTACTAAGCATAAAGT
52683564 TTACTAAGCATAAAGT
1 TTACTAAGCATAAAGT
52683580 TTACT
1 TTACT
52683585 CCCTCCTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (16 bp):
TTACTAAGCATAAAGT
Found at i:52700510 original size:13 final size:13
Alignment explanation
Indices: 52700492--52700516 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52700482 CTCGATAAGG
52700492 ACACGCCCGTGTA
1 ACACGCCCGTGTA
52700505 ACACGCCCGTGT
1 ACACGCCCGTGT
52700517 GCGATTACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:52711803 original size:25 final size:26
Alignment explanation
Indices: 52711756--52711807 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
52711746 CTTTAGAGCC
* **
52711756 ATGATCAGTAAGCTCTTCTTGAGCTG
1 ATGAACAGTAAGCTCTTAATGAGCTG
52711782 ATGAACAGTAAGCTC-TAATGAGCTG
1 ATGAACAGTAAGCTCTTAATGAGCTG
52711807 A
1 A
52711808 AATGATAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (26 bp):
ATGAACAGTAAGCTCTTAATGAGCTG
Found at i:52711848 original size:22 final size:21
Alignment explanation
Indices: 52711783--52711864 Score: 76
Period size: 23 Copynumber: 3.7 Consensus size: 21
52711773 CTTGAGCTGA
*
52711783 TGAACAGTAAGCTCTAATGAGC
1 TGAACAGTAAGCTCT-ACGAGC
*
52711805 TGAA-ATGATAAGCTTTATCGAGC
1 TGAACA-G-TAAGCTCTA-CGAGC
*
52711828 TGAACAGTAAGCTCATACGAGT
1 TGAACAGTAAGCTC-TACGAGC
52711850 TGAAACAGTAAGCTC
1 TG-AACAGTAAGCTC
52711865 CAATAAGCTC
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
21 1 0.02
22 18 0.36
23 30 0.60
24 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (21 bp):
TGAACAGTAAGCTCTACGAGC
Found at i:52711873 original size:10 final size:10
Alignment explanation
Indices: 52711858--52711883 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
52711848 GTTGAAACAG
52711858 TAAGCTCCAA
1 TAAGCTCCAA
52711868 TAAGCTCCAA
1 TAAGCTCCAA
52711878 TAAGCT
1 TAAGCT
52711884 AAAAACAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.27, G:0.12, T:0.23
Consensus pattern (10 bp):
TAAGCTCCAA
Found at i:52714835 original size:40 final size:40
Alignment explanation
Indices: 52714756--52714923 Score: 232
Period size: 40 Copynumber: 4.2 Consensus size: 40
52714746 TGGATGATAA
* * * *
52714756 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
52714796 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
52714836 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
52714876 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
52714916 CC-GGCTAA
1 CCGGGCTAA
52714924 ATCCTGAAGA
Statistics
Matches: 112, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 8 0.07
40 102 0.91
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:52715200 original size:22 final size:22
Alignment explanation
Indices: 52715160--52715201 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
52715150 GAATGTGCAT
*
52715160 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
52715182 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
52715202 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:52719447 original size:15 final size:15
Alignment explanation
Indices: 52719427--52719456 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
52719417 TAGAAAATAT
52719427 TTCCCAAAAAATTAC
1 TTCCCAAAAAATTAC
52719442 TTCCCAAAAAATTAC
1 TTCCCAAAAAATTAC
52719457 AATAGAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (15 bp):
TTCCCAAAAAATTAC
Found at i:52723426 original size:39 final size:39
Alignment explanation
Indices: 52723289--52723438 Score: 234
Period size: 38 Copynumber: 3.9 Consensus size: 39
52723279 GTGCTGAGAT
* * *
52723289 TGTATCCGGGTTAGAGTCCCGTAGGCTTCGTG-TGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
52723327 TGTATCCGGGCT-AAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
52723365 TGTATCC-GGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
* *
52723403 TGTGTCCGGGCTAAAGACCCGCAGGCTTCGTGCTGG
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
52723439 TGCTGGTAAT
Statistics
Matches: 104, Mismatches: 5, Indels: 5
0.91 0.04 0.04
Matches are distributed among these distances:
37 21 0.20
38 56 0.54
39 27 0.26
ACGTcount: A:0.18, C:0.25, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
Found at i:52726004 original size:25 final size:24
Alignment explanation
Indices: 52725955--52726006 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
52725945 TGTGTAACAA
*
52725955 CAAATGAATAGGGCACTATGTGTG
1 CAAATGAATAGGGCACTATGAGTG
*
52725979 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAG-GGCACT-ATGAGTG
52726004 CAA
1 CAA
52726007 GTTCTTCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.42
25 13 0.54
26 1 0.04
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (24 bp):
CAAATGAATAGGGCACTATGAGTG
Done.