Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 166 of 345
Found at i:46392818 original size:99 final size:96
Alignment explanation
Indices: 46392642--46392821 Score: 256
Period size: 96 Copynumber: 1.8 Consensus size: 96
46392632 TGTATACTGC
* * *
46392642 CGATGCCATGTCCCAGACATGGTCTTACGCTCGCTCATCCATCAAGTCGATGCCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCAATGCCATGTCCCAGAC
*
46392707 ATGGTCTTACACTGACTATCGAAATCGTGGT
66 ATGGTATTACACTGACTATCGAAATCGTGGT
*
46392738 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACAT-ATCTGTGCCAATGCCATGTCC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-CATCA--AGT--CAATGCCATGTCC
46392801 CAGACATGGTATTACACTGAC
61 CAGACATGGTATTACACTGAC
46392822 ACATCTCATA
Statistics
Matches: 74, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
95 3 0.04
96 37 0.50
97 2 0.03
99 32 0.43
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCAATGCCATGTCCCAGAC
ATGGTATTACACTGACTATCGAAATCGTGGT
Found at i:46392928 original size:46 final size:44
Alignment explanation
Indices: 46392739--46393005 Score: 159
Period size: 46 Copynumber: 5.7 Consensus size: 44
46392729 AATCGTGGTC
*
46392739 GATGCCATGTCCCAGACATGGTCTTACACTAGC-TCTCACATAT-CTGT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTTCTCTCA-ATGC--T
* * *
46392786 GCCAATGCCATGTCCCAGACATGGTATTACACT-GAC-ACATCTC-ATAGCC
1 G---ATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTC-TCTCAAT-GCT
** * * * *
46392835 GATGCATGTCTGAGACCTGTCTTACACTGGCTTACATCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTT-C-TCTCAATGCT
*
46392881 GATGTATGTCCCAGACATGTCTTACACTAGCTATCGTCTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCT-TC-TCTCAATGCT
* * *
46392927 GATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCTTAATATGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTTCTC-TCA-AT-GCT
*
46392975 GATGCATGTCCCAAACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
46393006 ACACACACAT
Statistics
Matches: 178, Mismatches: 25, Indels: 35
0.75 0.11 0.15
Matches are distributed among these distances:
44 10 0.06
45 14 0.08
46 67 0.38
47 31 0.17
48 18 0.10
49 4 0.02
50 30 0.17
51 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTCTCTCAATGCT
Found at i:46392984 original size:94 final size:94
Alignment explanation
Indices: 46392643--46393002 Score: 278
Period size: 94 Copynumber: 3.8 Consensus size: 94
46392633 GTATACTGCC
* * * * *
46392643 GATGCCATGTCCCAGACATGGTCTTACGCTCGCTCATC--CATCAAGTCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCTTAAT-AGGCCGATGCCATGTCCCAGA
** * *
46392706 CATGGTCTTACACTGACTATCGAAATCGTGGT
64 CATGGTCTTACACTGACTATCG-TCTCATGCT
* ** * *
46392738 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCCAATGCCATGTCCCA
1 -GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTTA-AT-AG-GCCGATGCCATGTCCCA
* * *
46392803 GACATGGTATTACACTGAC-A-CATCTCATAGCC
62 GACATGGTCTTACACTGACTATCGTCTCAT-GCT
** * ** * *
46392835 GATG-CATGTCTGAGACCT-GTCTTACACTGGCT-TACATCT-CGAGGCTGATG-TATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-C-T-TAATAGGCCGATGCCATGTCCCAG
46392895 ACAT-GTCTTACACT-AGCTATCGTCTCAATGCT
63 ACATGGTCTTACACTGA-CTATCGTCTC-ATGCT
*
46392927 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTTAATATGGCCGATG-CATGTCCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTTAATA-GGCCGATGCCATGTCCCAGAC
46392991 AT-GTCTTACACT
65 ATGGTCTTACACT
46393003 AGCACACACA
Statistics
Matches: 210, Mismatches: 37, Indels: 36
0.74 0.13 0.13
Matches are distributed among these distances:
89 1 0.00
90 10 0.05
91 14 0.07
92 17 0.08
93 17 0.08
94 58 0.28
95 14 0.07
96 40 0.19
97 2 0.01
98 4 0.02
99 33 0.16
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (94 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTTAATAGGCCGATGCCATGTCCCAGACA
TGGTCTTACACTGACTATCGTCTCATGCT
Found at i:46392996 original size:140 final size:140
Alignment explanation
Indices: 46392745--46393002 Score: 324
Period size: 138 Copynumber: 1.8 Consensus size: 140
46392735 GGTCGATGCC
* **
46392745 ATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCCAATGCCATGTCCCAGACATGG
1 ATGTCCCAGACATGGTCTTACACTAGCTAT-ACATATCAATGCCAATGCCATGTCCCAGACATGG
* ** * *
46392810 TATTACACTGACACATCTCATAGCCGATGCATGTCTGAGACCTGTCTTACACTGGCTTACATCTC
65 TATTACACTGACACATCTAATAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATCTC
46392875 GAGGCTGATGT
130 GAGGCTGATGT
* * **
46392886 ATGTCCCAGACAT-GTCTTACACTAGCTAT-CGTCTCAATGCTGATGCCATGTCCCAGACATGGT
1 ATGTCCCAGACATGGTCTTACACTAGCTATACATATCAATGCCAATGCCATGTCCCAGACATGGT
* * *
46392949 CTTACACTGGCTC-TCTTAATATGGCCGATGCATGTCCCAAACATGTCTTACACT
66 ATTACACTGACACATC-TAATA--GCCGATGCATGTCCCAAACATGTCTTACACT
46393003 AGCACACACA
Statistics
Matches: 99, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
137 2 0.02
138 42 0.42
140 42 0.42
141 13 0.13
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (140 bp):
ATGTCCCAGACATGGTCTTACACTAGCTATACATATCAATGCCAATGCCATGTCCCAGACATGGT
ATTACACTGACACATCTAATAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATCTCG
AGGCTGATGT
Found at i:46399287 original size:40 final size:40
Alignment explanation
Indices: 46399202--46399352 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
46399192 AATTGAATGA
* * *
46399202 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
46399242 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
46399283 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
46399322 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
46399353 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:46399366 original size:40 final size:40
Alignment explanation
Indices: 46399238--46399368 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
46399228 TATGCTGGAA
* * *
46399238 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
46399278 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
46399318 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
46399358 ATTATATCCGG
1 ATTATATCCGG
46399369 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:46408187 original size:59 final size:58
Alignment explanation
Indices: 46408114--46408245 Score: 158
Period size: 59 Copynumber: 2.3 Consensus size: 58
46408104 ATTTAAGCCC
* * * * *
46408114 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATTTTTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATA-TATTTCCAGCAT
* * **
46408173 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
46408231 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
46408246 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
58 26 0.41
59 36 0.57
60 1 0.02
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:46408203 original size:29 final size:29
Alignment explanation
Indices: 46408163--46408245 Score: 166
Period size: 29 Copynumber: 2.9 Consensus size: 29
46408153 TGCCGTATTT
46408163 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
46408192 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
46408221 TTTCCAGCATGCACACTTAGTGCCA
1 TTTCCAGCATGCACACTTAGTGCCA
46408246 ATCTCGTCAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:46423093 original size:39 final size:40
Alignment explanation
Indices: 46422919--46423095 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
46422909 TGGATGATAA
* * *
46422919 CCGGACTAAGTCCCGAAGGCATTTGTGTGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
46422959 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
46422999 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
46423040 -CGGGCT-AGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
46423078 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
46423096 TACTTGGTTT
Statistics
Matches: 124, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
38 9 0.07
39 34 0.27
40 79 0.64
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:46435749 original size:27 final size:27
Alignment explanation
Indices: 46435719--46435848 Score: 147
Period size: 27 Copynumber: 4.8 Consensus size: 27
46435709 TGGATAATTT
*
46435719 GTAGAATTACCAAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCTTGTAAG
46435746 GTAGAATTACCGAAATAACCC-TGT-AG
1 GTAGAATTACCGAAAT-ACCCTTGTAAG
*
46435772 GATAGAATTACCGAAATACCCTTGTAGG
1 G-TAGAATTACCGAAATACCCTTGTAAG
* * * * *
46435800 GTAGAAATACTGAACTACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAAG
* *
46435827 GTAGAATTAACGAGATACCCTT
1 GTAGAATTACCGAAATACCCTT
46435849 ATGGGGTAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
26 7 0.08
27 74 0.85
28 6 0.07
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAAG
Found at i:46435795 original size:54 final size:54
Alignment explanation
Indices: 46435720--46435848 Score: 177
Period size: 54 Copynumber: 2.4 Consensus size: 54
46435710 GGATAATTTG
* *
46435720 TAGAATTACCAAAATACCCTTGTAAGGTAGAATTACCGAAATAACCCTGTAGGA
1 TAGAATTACCGAAATACCCTTGTAAGGTAGAAATACCGAAATAACCCTGTAGGA
* * * * *
46435774 TAGAATTACCGAAATACCCTTGTAGGGTAGAAATACTGAACTACCCCTGTAGGG
1 TAGAATTACCGAAATACCCTTGTAAGGTAGAAATACCGAAATAACCCTGTAGGA
* *
46435828 TAGAATTAACGAGATACCCTT
1 TAGAATTACCGAAATACCCTT
46435849 ATGGGGTAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (54 bp):
TAGAATTACCGAAATACCCTTGTAAGGTAGAAATACCGAAATAACCCTGTAGGA
Found at i:46442857 original size:29 final size:28
Alignment explanation
Indices: 46442772--46442857 Score: 95
Period size: 28 Copynumber: 3.0 Consensus size: 28
46442762 AAACACCAAT
* *
46442772 AAAGAACGCTTTCGTGGAAATCTTTGAAA
1 AAAG-ACGCCTTCGTGGCAATCTTTGAAA
* *
46442801 AAGGACGCCTTCGTGGCAATCTCT-AAA
1 AAAGACGCCTTCGTGGCAATCTTTGAAA
46442828 AACAGACTGCCTT-GTGGCAATCTTTGAAA
1 AA-AGAC-GCCTTCGTGGCAATCTTTGAAA
46442857 A
1 A
46442858 TGAAGCCTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
27 5 0.10
28 31 0.65
29 12 0.25
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (28 bp):
AAAGACGCCTTCGTGGCAATCTTTGAAA
Found at i:46446817 original size:37 final size:37
Alignment explanation
Indices: 46446764--46446885 Score: 217
Period size: 37 Copynumber: 3.3 Consensus size: 37
46446754 TATAAAAGAA
*
46446764 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
46446801 GTCTTACCCGGTCATAATCTCCGCACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
46446838 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
46446875 GTCTCACCCGG
1 GTCTTACCCGG
46446886 AACATATGCC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 81 1.00
ACGTcount: A:0.20, C:0.34, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:46447042 original size:49 final size:49
Alignment explanation
Indices: 46446987--46447202 Score: 414
Period size: 49 Copynumber: 4.4 Consensus size: 49
46446977 TTTTACATTA
46446987 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
46447036 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
46447085 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
46447134 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
46447183 GCCATTAGGCCTCATCACAT
1 GCCATTAGGCCTTATCACAT
46447203 CGGCCATTAG
Statistics
Matches: 164, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 164 1.00
ACGTcount: A:0.30, C:0.33, G:0.09, T:0.28
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:46447203 original size:22 final size:22
Alignment explanation
Indices: 46447176--46447224 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
46447166 TCACATTCAC
46447176 CACATCGGCCATTAGGCCTCAT
1 CACATCGGCCATTAGGCCTCAT
46447198 CACATCGGCCATTAGGCCTCAT
1 CACATCGGCCATTAGGCCTCAT
46447220 CACAT
1 CACAT
46447225 ATACATACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.37, G:0.16, T:0.22
Consensus pattern (22 bp):
CACATCGGCCATTAGGCCTCAT
Found at i:46447206 original size:71 final size:71
Alignment explanation
Indices: 46447127--46447273 Score: 285
Period size: 71 Copynumber: 2.1 Consensus size: 71
46447117 TCACATTCAC
*
46447127 CACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGG
1 CACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGG
46447192 CCTCAT
66 CCTCAT
46447198 CACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGG
1 CACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGG
46447263 CCTCAT
66 CCTCAT
46447269 CACAT
1 CACAT
46447274 ATACATCCAC
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 75 1.00
ACGTcount: A:0.29, C:0.35, G:0.11, T:0.26
Consensus pattern (71 bp):
CACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGG
CCTCAT
Found at i:46447225 original size:120 final size:120
Alignment explanation
Indices: 46447078--46447321 Score: 425
Period size: 120 Copynumber: 2.0 Consensus size: 120
46447068 TCACATTCAC
46447078 CACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGG
1 CACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGG
*
46447143 CCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCAT
66 CCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCAT
46447198 CACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGG
1 CACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGG
* * * * * *
46447263 CCTCATCACATATACATCCACTTTCACATTCATCGCATTGGCCATTCGGCCTTAT
66 CCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCAT
46447318 CACA
1 CACA
46447322 CATATATGTA
Statistics
Matches: 117, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 117 1.00
ACGTcount: A:0.28, C:0.34, G:0.10, T:0.27
Consensus pattern (120 bp):
CACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGG
CCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCAT
Found at i:46447254 original size:49 final size:49
Alignment explanation
Indices: 46447198--46447321 Score: 194
Period size: 49 Copynumber: 2.5 Consensus size: 49
46447188 TAGGCCTCAT
46447198 CACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCAC
1 CACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCAC
* *
46447247 CACATCGGCCATTAGGCCTCATCACATATACATCCACTTTCACATTCAT
1 CACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCAC
* * * *
46447296 CGCATTGGCCATTCGGCCTTATCACA
1 CACATCGGCCATTAGGCCTCATCACA
46447322 CATATATGTA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.27, C:0.35, G:0.10, T:0.27
Consensus pattern (49 bp):
CACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCAC
Found at i:46450288 original size:20 final size:20
Alignment explanation
Indices: 46450263--46450307 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
46450253 GGGCCTAAAT
46450263 GGCCCGCAATATGGGCTATA
1 GGCCCGCAATATGGGCTATA
*
46450283 GGCCCGCAATATGGGCTTTA
1 GGCCCGCAATATGGGCTATA
46450303 GGCCC
1 GGCCC
46450308 ATAGCACTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.29, G:0.31, T:0.20
Consensus pattern (20 bp):
GGCCCGCAATATGGGCTATA
Found at i:46453466 original size:46 final size:46
Alignment explanation
Indices: 46453411--46453591 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
46453401 TAGGATGGTT
46453411 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
46453457 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
46453503 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** * *
46453550 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46453592 GCGGGTTACA
Statistics
Matches: 115, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 70 0.61
47 33 0.29
48 2 0.02
50 4 0.03
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:46453572 original size:93 final size:93
Alignment explanation
Indices: 46453413--46453584 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
46453403 GGATGGTTGA
* *
46453413 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46453478 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
46453506 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46453571 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
46453585 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:46456545 original size:15 final size:15
Alignment explanation
Indices: 46456506--46456584 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
46456496 GTATCTTGGG
*
46456506 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
46456521 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
46456536 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
46456550 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
46456565 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
46456579 TTTCTT
1 TTTCTT
46456585 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:46456569 original size:29 final size:29
Alignment explanation
Indices: 46456497--46456583 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
46456487 CATAGTATCG
* * * *
46456497 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
46456527 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
46456556 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
46456584 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:46458998 original size:46 final size:46
Alignment explanation
Indices: 46458943--46459123 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
46458933 TAGGATGGTT
46458943 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
46458989 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
46459035 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
46459082 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46459124 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:46459104 original size:93 final size:93
Alignment explanation
Indices: 46458945--46459115 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
46458935 GGATGGTTGA
* *
46458945 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46459010 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
46459038 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46459103 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
46459116 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:46460703 original size:38 final size:39
Alignment explanation
Indices: 46460637--46460797 Score: 236
Period size: 39 Copynumber: 4.2 Consensus size: 39
46460627 TGTGAATGTA
*
46460637 TGTGCGAATTGTGATATCCGGGC-CAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
46460675 TGTGCGAATTGT-ATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
46460713 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
46460752 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
46460792 TGTGCG
1 TGTGCG
46460798 GGTTACCATA
Statistics
Matches: 112, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
37 10 0.09
38 35 0.31
39 50 0.45
40 17 0.15
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:46460813 original size:40 final size:39
Alignment explanation
Indices: 46460637--46460826 Score: 222
Period size: 39 Copynumber: 4.9 Consensus size: 39
46460627 TGTGAATGTA
* * *
46460637 TGTGCGAATTGTGATATCCGGGC-CAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
46460675 TGTGCGAATTGT-ATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
46460713 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
46460752 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * **
46460792 TGTGCGGGTTACCATAACCGGGCTATTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGG
46460827 TGTTTTGAAC
Statistics
Matches: 133, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
37 10 0.08
38 35 0.26
39 58 0.44
40 30 0.23
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:46460813 original size:79 final size:77
Alignment explanation
Indices: 46460661--46460826 Score: 224
Period size: 79 Copynumber: 2.1 Consensus size: 77
46460651 TATCCGGGCC
**
46460661 AGCCCGAAGGCAATTGTGCGAATTGTATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATG
1 AGCCCGAAGGCAATTGTGCGAATTGTATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACC
*
46460726 ATATCCGGGCTA
66 ATAACCGGGCTA
* * * * *
46460738 AGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 AGCCCGAAGGCAATTGTGCGAATTGT-ATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTA
46460803 CCATAACCGGGCTA
64 CCATAACCGGGCTA
**
46460817 TTCCCGAAGG
1 AGCCCGAAGG
46460827 TGTTTTGAAC
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
77 25 0.32
78 13 0.17
79 39 0.51
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (77 bp):
AGCCCGAAGGCAATTGTGCGAATTGTATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACC
ATAACCGGGCTA
Found at i:46464995 original size:39 final size:40
Alignment explanation
Indices: 46464954--46465116 Score: 129
Period size: 40 Copynumber: 4.1 Consensus size: 40
46464944 TCGAGATTTA
* *
46464954 ACCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTA-
1 ACCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAG
* *** *
46464993 ACCCGGATTTGGTAACTTGCACAATTGCCTTC-GGTCTTAG
1 A-CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAG
* *
46465033 CCCGGAT-TAACAACTCGCACGAA-TGCCTTCGGGTCTTAG
1 ACCGGATATAACAACTAGCAC-AATTGCCTTCGGGTCTTAG
* * * * *
46465072 CCCGGACATAATC-ACTAGCATAAATGCCTTCGGGACTTAG
1 ACCGGATATAA-CAACTAGCACAATTGCCTTCGGGTCTTAG
*
46465112 CCCGG
1 ACCGG
46465117 GTATCATTCA
Statistics
Matches: 101, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
38 16 0.16
39 32 0.32
40 52 0.51
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
ACCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAG
Found at i:46466924 original size:46 final size:46
Alignment explanation
Indices: 46466869--46467049 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
46466859 TAGGATGGTT
46466869 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
46466915 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
46466961 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
46467008 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46467050 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:46467030 original size:93 final size:93
Alignment explanation
Indices: 46466871--46467041 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
46466861 GGATGGTTGA
* *
46466871 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46466936 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
46466964 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46467029 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
46467042 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:46469639 original size:12 final size:12
Alignment explanation
Indices: 46469617--46469646 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
46469607 TAATTTGGTG
46469617 TTGGATGAAAGCA
1 TTGG-TGAAAGCA
46469630 TTGGTGAAAGCA
1 TTGGTGAAAGCA
46469642 TTGGT
1 TTGGT
46469647 CTGACTGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.30, C:0.07, G:0.33, T:0.30
Consensus pattern (12 bp):
TTGGTGAAAGCA
Found at i:46469973 original size:15 final size:15
Alignment explanation
Indices: 46469934--46470012 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
46469924 GTATCTTGGG
*
46469934 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
46469949 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
46469964 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
46469978 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
46469993 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
46470007 TTTCTT
1 TTTCTT
46470013 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:46469997 original size:29 final size:29
Alignment explanation
Indices: 46469925--46470011 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
46469915 CATAGTATCG
* * * *
46469925 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
46469955 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
46469984 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
46470012 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:46472437 original size:46 final size:46
Alignment explanation
Indices: 46472382--46472562 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
46472372 TAGGATGGTT
46472382 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
46472428 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
46472474 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** * *
46472521 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46472563 GCGGGTTACA
Statistics
Matches: 115, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 70 0.61
47 33 0.29
48 2 0.02
50 4 0.03
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:46472543 original size:93 final size:93
Alignment explanation
Indices: 46472384--46472555 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
46472374 GGATGGTTGA
* *
46472384 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46472449 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
46472477 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46472542 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
46472556 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:46475695 original size:27 final size:27
Alignment explanation
Indices: 46475677--46475745 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
46475667 ATAGTGAGTC
46475677 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
* *
46475704 CGCACACTTAGTGCTATATGATAAACT
1 CGCACACTTAGTGCTATATAATCAACT
46475731 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46475746 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:46483269 original size:39 final size:38
Alignment explanation
Indices: 46483211--46483353 Score: 135
Period size: 39 Copynumber: 3.7 Consensus size: 38
46483201 CCGCACCAAG
* * *
46483211 GCCTACGGGACTTAACCCGGATATCACGA-TTGCACAAAT
1 GCCTTCGGGTCTTAACCCGGATAT-ACGACTAGCAC-AAT
* * * *
46483250 GCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAAT
1 GCCTTCGGGTCTTAACCCGGATA-TACGACTAGCAC-AAT
* * *
46483290 GCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACATT
1 GCCTTCGGGTCTTAACCCGGATATA-CGACTAGCACAAT
*
46483329 GCCTTCGGGTCTTAACCCGGTTATA
1 GCCTTCGGGTCTTAACCCGGATATA
46483354 ATTTCCAGCA
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
39 49 0.56
40 38 0.44
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (38 bp):
GCCTTCGGGTCTTAACCCGGATATACGACTAGCACAAT
Found at i:46483285 original size:79 final size:79
Alignment explanation
Indices: 46483202--46483348 Score: 181
Period size: 79 Copynumber: 1.9 Consensus size: 79
46483192 TATGGTAACC
* * *
46483202 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCAC-AATGCCTTCGGGTCTTAA
46483265 CCCGGATAGAATGACT
64 CCCGGATAGAATGACT
* * * * * *
46483281 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACATTGCCTTCGGGTCTTAACC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAATGCCTTCGGGTCTTAACC
46483346 CGG
66 CGG
46483349 TTATAATTTC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
78 1 0.02
79 51 0.89
80 5 0.09
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.22
Consensus pattern (79 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAATGCCTTCGGGTCTTAACC
CGGATAGAATGACT
Found at i:46483294 original size:40 final size:39
Alignment explanation
Indices: 46483242--46483348 Score: 133
Period size: 40 Copynumber: 2.7 Consensus size: 39
46483232 TATCACGATT
** *
46483242 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* *
46483282 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* *
46483322 GCACATTGCCTTCGGGTCTTAACCCGG
1 GCACAATGCCTTCGGGTCTTAGCCCGG
46483349 TTATAATTTC
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 21 0.36
40 38 0.64
ACGTcount: A:0.21, C:0.30, G:0.25, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:46486942 original size:28 final size:27
Alignment explanation
Indices: 46486879--46486948 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
46486869 ATAGTGAGTC
46486879 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
46486906 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
46486934 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46486949 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:46488741 original size:27 final size:27
Alignment explanation
Indices: 46488711--46488785 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
46488701 ACTTTGAATT
* *
46488711 AATCACATTTGTGGCATACTCTATATG
1 AATCGCATTTGTGGCATACTCTAAATG
* **
46488738 AATCGCCTTTGTGGTGTACTCTAAATG
1 AATCGCATTTGTGGCATACTCTAAATG
* *
46488765 GATCGCTTTTGTGGCATACTC
1 AATCGCATTTGTGGCATACTC
46488786 AGGATAGATT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (27 bp):
AATCGCATTTGTGGCATACTCTAAATG
Found at i:46490717 original size:12 final size:14
Alignment explanation
Indices: 46490700--46490731 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
46490690 TGCGAGAACA
46490700 TATGTGCA-G-TAC
1 TATGTGCAGGCTAC
46490712 TATGTGCAGGCTAC
1 TATGTGCAGGCTAC
46490726 TATGTG
1 TATGTG
46490732 TTTAAGACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 1 0.06
14 9 0.50
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (14 bp):
TATGTGCAGGCTAC
Found at i:46490808 original size:50 final size:50
Alignment explanation
Indices: 46490701--46491131 Score: 364
Period size: 50 Copynumber: 8.5 Consensus size: 50
46490691 GCGAGAACAT
* * * *
46490701 ATGTGCAGTACTATGTGCAGGCTACTATGTGTTTAAGACAG-TT-TTAGGTCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTG--T-A-CCAGATTGTTAGGTCAC
* *
46490753 ATGTGTAGTTCTAAGTGCAGGCTATTACGTGTACCAGATTGTTAGGTCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCAC
* * * * * * * * *
46490803 ATGTGTAGTATTAAATGTAGGCTACTATGCGTACCCGATAGTTTCGATCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGTCAC
* * * * * *
46490854 GTGTGTAGTACTGAGTACAGGCTACTACATGTATCAGATGGTTAGGTCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCAC
* * * * *
46490904 GTGTGTAGTACTGAGTGCAGGCTACTACGTGTACCGGATTGATAGGTCGC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCAC
* * ** * * * * *
46490954 ATGTGTAGTAATAAGTGTAGGCTACTGTGCGTACCCG-TTAACTTCGATCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--GTTAGGTCAC
* * * * *
46491005 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCAC
* ** * * *
46491055 GTGTGTAGTACTAAGTATAGGCTACTACATGTACCAGATTGATATGTCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCAC
46491105 ATGTGTAGTACTAAGTGCAGGCTACTA
1 ATGTGTAGTACTAAGTGCAGGCTACTA
46491132 TGCCTACTAG
Statistics
Matches: 299, Mismatches: 74, Indels: 14
0.77 0.19 0.04
Matches are distributed among these distances:
48 3 0.01
49 5 0.02
50 194 0.65
51 70 0.23
52 27 0.09
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCAC
Found at i:46490926 original size:101 final size:99
Alignment explanation
Indices: 46490748--46491131 Score: 338
Period size: 101 Copynumber: 3.8 Consensus size: 99
46490738 ACAGTTTTAG
* * * *
46490748 GTCACATGTGTAGTTCTAAGTGCAGGCTATTACGTGTACCAGATTGTTAGGTCACATGTGTAGTA
1 GTCACATGTGTAGTACTAAGTACAGGCTACTACATGTACCAGATTGTTAGGTCACATGTGTAGTA
* * * * * *
46490813 TTAAATGTAGGCTACTATGCGTACCCGATAGTTTC
66 CTAAGTGCAGGCTACTACGCGTACCAGATAG-TTA
* * * * *
46490848 GATCACGTGTGTAGTACTGAGTACAGGCTACTACATGTATCAGATGGTTAGGTCACGTGTGTAGT
1 G-TCACATGTGTAGTACTAAGTACAGGCTACTACATGTACCAGATTGTTAGGTCACATGTGTAGT
* * * * *
46490913 ACTGAGTGCAGGCTACTACGTGTACCGGATTGATA
65 ACTAAGTGCAGGCTACTACGCGTACCAGATAGTTA
* * ** **** * * * * *
46490948 GGTCGCATGTGTAGTAATAAGTGTAGGCTACTGTGCGTACCCG-TTAACTTCGATCACGTGTGTA
1 -GTCACATGTGTAGTACTAAGTACAGGCTACTACATGTACCAGATT--GTTAGGTCACATGTGTA
* * * *
46491012 GTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAA
63 GTACTAAGTGCAGGCTACTACGCGTACCAGATAG-TTA
* * * *
46491050 GTCACGTGTGTAGTACTAAGTATAGGCTACTACATGTACCAGATTGATATGTCACATGTGTAGTA
1 GTCACATGTGTAGTACTAAGTACAGGCTACTACATGTACCAGATTGTTAGGTCACATGTGTAGTA
46491115 CTAAGTGCAGGCTACTA
66 CTAAGTGCAGGCTACTA
46491132 TGCCTACTAG
Statistics
Matches: 222, Mismatches: 56, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
99 1 0.00
100 62 0.28
101 156 0.70
102 3 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (99 bp):
GTCACATGTGTAGTACTAAGTACAGGCTACTACATGTACCAGATTGTTAGGTCACATGTGTAGTA
CTAAGTGCAGGCTACTACGCGTACCAGATAGTTA
Found at i:46491026 original size:151 final size:151
Alignment explanation
Indices: 46490744--46491134 Score: 566
Period size: 151 Copynumber: 2.6 Consensus size: 151
46490734 TAAGACAGTT
* * * *
46490744 TTAGGTCACATGTGTAGTTCTAAGTGCAGGCTATTACGTGTACCAGATTGTTAGGTCACATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGT
* * ** *
46490809 AGTATTAAATGTAGGCTACTATGCGTACCCGATAGTTTCGATCACGTGTGTAGTACTGAGTACAG
66 AGTAATAAGTGTAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTGTAGTACTAAGTACAG
46490874 GCTACTACATGTATCAGATGG
131 GCTACTACATGTATCAGATGG
* * *
46490895 TTAGGTCACGTGTGTAGTACTGAGTGCAGGCTACTACGTGTACCGGATTGATAGGTCGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGT
* * *
46490960 AGTAATAAGTGTAGGCTACTGTGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAG
66 AGTAATAAGTGTAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTGTAGTACTAAGTACAG
*
46491025 GCTACTACGTGTATCAGATGG
131 GCTACTACATGTATCAGATGG
* * ** * *
46491046 ATAAGTCACGTGTGTAGTACTAAGTATAGGCTACTACATGTACCAGATTGATATGTCACATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGT
* *
46491111 AGTACTAAGTGCAGGCTACTATGC
66 AGTAATAAGTGTAGGCTACTATGC
46491135 CTACTAGAGA
Statistics
Matches: 212, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
151 212 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (151 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGT
AGTAATAAGTGTAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTGTAGTACTAAGTACAG
GCTACTACATGTATCAGATGG
Found at i:46495559 original size:33 final size:33
Alignment explanation
Indices: 46495522--46495590 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
46495512 ACACAAGAGG
* *
46495522 TTAAATTGCCGATGCCATATCCCAGATATGGTC
1 TTAAATTGCCAATGCCATATCCCAGATATAGTC
*
46495555 TTAAATTGCTAATGCCATATCCCAGATATAGTC
1 TTAAATTGCCAATGCCATATCCCAGATATAGTC
46495588 TTA
1 TTA
46495591 CACTGGCTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.33
Consensus pattern (33 bp):
TTAAATTGCCAATGCCATATCCCAGATATAGTC
Found at i:46495637 original size:48 final size:47
Alignment explanation
Indices: 46495566--46495981 Score: 269
Period size: 48 Copynumber: 8.7 Consensus size: 47
46495556 TAAATTGCTA
* * * * * *
46495566 ATGCCATATCCCAGATATAGTCTTACACTGGCTCACATGTCGAGGTCA
1 ATGCCATATCCCAGACATGGTCTTACACTAGCTCTCAT-TCGAGGCCG
* * *
46495614 ATGCCATATCCTAGACATGGTCTTACACTAGCTCTCATCTCAATGCCG
1 ATGCCATATCCCAGACATGGTCTTACACTAGCTCTCAT-TCGAGGCCG
* * * * *
46495662 ATGCCATGTCCCAGACATGGTCTTGCAATAGCTCTCATACTGTGGCCG
1 ATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATTC-GAGGCCG
* * * * *
46495710 ATGACATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCTG
1 ATGCCATATCCCAGACATGGTCTTACACTAGCTCTCAT--TCGAGGCCG
* * * * * *
46495758 ATGCCATTTCCCAGACATGGTCTTACACTAGCACACAAATCAACGCCG
1 ATGCCATATCCCAGACATGGTCTTACACTAGCTCTC-ATTCGAGGCCG
* * * * * *** * *
46495806 ATGCCATGTCCCAAACATGGTCTTACATTGGCTCTTATAATATGACTG
1 ATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATTCGA-GGCCG
* * * * * * **
46495854 ATGCCATGTCCTAGGCATGGTCTTACACTAGCACACATATCAACACCG
1 ATGCCATATCCCAGACATGGTCTTACACTAGCTCTCAT-TCGAGGCCG
* * * * * *
46495902 ATGCCATGTCCCAGACATGATCCTACACTGGCTCTCATAAT-GTGGCAG
1 ATGCCATATCCCAGACATGGTCTTACACTAGCTCTCAT--TCGAGGCCG
* *
46495950 ATGCCATGTCCCAAACATGGTCTTACACTAGC
1 ATGCCATATCCCAGACATGGTCTTACACTAGC
46495982 ATACATATCA
Statistics
Matches: 283, Mismatches: 77, Indels: 16
0.75 0.20 0.04
Matches are distributed among these distances:
47 4 0.01
48 275 0.97
49 4 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (47 bp):
ATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATTCGAGGCCG
Found at i:46495806 original size:96 final size:96
Alignment explanation
Indices: 46495566--46495991 Score: 455
Period size: 96 Copynumber: 4.4 Consensus size: 96
46495556 TAAATTGCTA
* * * * * * * * * * * *
46495566 ATGCCATATCCCAGATATAGTCTTACACTGGCTCACATGTCGAGGTCAATGCCATATCCTAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAGACA
* *
46495631 TGGTCTTACACTAGCTCTCATCTCAA--T-GCCG
66 TGGTCTTACACTGGCTCTCA--T-AATGTGGCTG
* * * * *** *
46495662 ATGCCATGTCCCAGACATGGTCTTGCAATAGCTCTCATA-CTGTGGCCGATGACATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC-AACGCCGATGCCATGTCCCAGAC
46495726 ATGGTCTTACACTGGCTCTCATAATGTGGCTG
65 ATGGTCTTACACTGGCTCTCATAATGTGGCTG
* * *
46495758 ATGCCATTTCCCAGACATGGTCTTACACTAGCACACAAATCAACGCCGATGCCATGTCCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAGACA
* * * *
46495823 TGGTCTTACATTGGCTCTTATAATATGACTG
66 TGGTCTTACACTGGCTCTCATAATGTGGCTG
* * *
46495854 ATGCCATGTCCTAGGCATGGTCTTACACTAGCACACATATCAACACCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAGACA
* * *
46495919 TGATCCTACACTGGCTCTCATAATGTGGCAG
66 TGGTCTTACACTGGCTCTCATAATGTGGCTG
* *
46495950 ATGCCATGTCCCAAACATGGTCTTACACTAGCATACATATCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
46495992 CCCAATTGTC
Statistics
Matches: 277, Mismatches: 48, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
93 2 0.01
94 1 0.00
95 2 0.01
96 271 0.98
97 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAGACA
TGGTCTTACACTGGCTCTCATAATGTGGCTG
Found at i:46495905 original size:144 final size:144
Alignment explanation
Indices: 46495614--46495981 Score: 380
Period size: 144 Copynumber: 2.6 Consensus size: 144
46495604 GTCGAGGTCA
* ** * *
46495614 ATGCCATATCCTAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCCAGACA
1 ATGCCATATCCCAGACATGGTCTTACACTAGCTCTCAAATCAACGCCGATGCCATGTCCCAAACA
* * * * * *
46495679 TGGTCTTGCAATAGCTCTCATACTGTGGCCGATGACATGTCCCAGACATGGTCTTACACTGGCTC
66 TGGTCTTACAATAGCTCTCATAATATGACCGATGACATGTCCCAGACATGGTCTTACACTAGCAC
* **** *
46495744 TCATAATGTGGCTG
131 ACATAATAACACCG
* * *
46495758 ATGCCATTTCCCAGACATGGTCTTACACTAGCACACAAATCAACGCCGATGCCATGTCCCAAACA
1 ATGCCATATCCCAGACATGGTCTTACACTAGCTCTCAAATCAACGCCGATGCCATGTCCCAAACA
* * * * * * *
46495823 TGGTCTTACATTGGCTCTTATAATATGACTGATGCCATGTCCTAGGCATGGTCTTACACTAGCAC
66 TGGTCTTACAATAGCTCTCATAATATGACCGATGACATGTCCCAGACATGGTCTTACACTAGCAC
46495888 ACAT-ATCAACACCG
131 ACATAAT-AACACCG
* * * * *** *
46495902 ATGCCATGTCCCAGACATGATCCTACACTGGCTCTCATAAT-GTGGCAGATGCCATGTCCCAAAC
1 ATGCCATATCCCAGACATGGTCTTACACTAGCTCTCA-AATCAACGCCGATGCCATGTCCCAAAC
*
46495966 ATGGTCTTACACTAGC
65 ATGGTCTTACAATAGC
46495982 ATACATATCA
Statistics
Matches: 183, Mismatches: 39, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
143 2 0.01
144 178 0.97
145 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (144 bp):
ATGCCATATCCCAGACATGGTCTTACACTAGCTCTCAAATCAACGCCGATGCCATGTCCCAAACA
TGGTCTTACAATAGCTCTCATAATATGACCGATGACATGTCCCAGACATGGTCTTACACTAGCAC
ACATAATAACACCG
Found at i:46501758 original size:24 final size:23
Alignment explanation
Indices: 46501700--46501760 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
46501690 TTTGTCAGGA
*
46501700 GAGGAT-TTAGGAGTTGATAAGG
1 GAGGATATTAGGAGTAGATAAGG
*
46501722 GA-TATGATTTAGGAGTAGATAAGG
1 GAGGAT-A-TTAGGAGTAGATAAGG
46501746 GAGGATATCTAGGAG
1 GAGGATAT-TAGGAG
46501761 CTGATCAAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
21 2 0.06
22 2 0.06
23 1 0.03
24 24 0.77
25 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.38, T:0.26
Consensus pattern (23 bp):
GAGGATATTAGGAGTAGATAAGG
Found at i:46503205 original size:27 final size:26
Alignment explanation
Indices: 46503165--46503275 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
46503155 AGGAAGCGTC
* *
46503165 CTGGTGGCTATGCCACAATTTTCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
46503192 CTGGTGGCTCTGCCACATATTTCTG-T
1 CTGGTGGCTCTGCCACAT-TATCTGAT
46503218 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
46503246 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
46503272 CTGG
1 CTGG
46503276 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
26 29 0.39
27 31 0.41
28 15 0.20
ACGTcount: A:0.14, C:0.24, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:46503270 original size:53 final size:54
Alignment explanation
Indices: 46503165--46503275 Score: 145
Period size: 53 Copynumber: 2.1 Consensus size: 54
46503155 AGGAAGCGTC
* * *
46503165 CTGGTGGCTATGCCACAATTTTCTGATCTGGTGGCTCTGCCACATATTTCTG-T
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
46503218 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
46503272 CTGG
1 CTGG
46503276 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 27 0.54
54 23 0.46
ACGTcount: A:0.14, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:46504351 original size:11 final size:10
Alignment explanation
Indices: 46504323--46504356 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
46504313 AGCCTCTAAG
46504323 TATTCTGAAT
1 TATTCTGAAT
*
46504333 TTTTCTGAAT
1 TATTCTGAAT
46504343 ATATTCTGAAT
1 -TATTCTGAAT
46504354 TAT
1 TAT
46504357 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:46509553 original size:23 final size:23
Alignment explanation
Indices: 46509520--46509587 Score: 100
Period size: 23 Copynumber: 2.9 Consensus size: 23
46509510 GATTTAGAAG
46509520 AGGATTTAGGAGTTGATAAGGAT
1 AGGATTTAGGAGTTGATAAGGAT
*
46509543 AGGATTCAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAA-GGAT
**
46509567 AGGATTTAGGAGCAGATAAGG
1 AGGATTTAGGAGTTGATAAGG
46509588 GAGGAAATCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 20 0.50
24 20 0.50
ACGTcount: A:0.35, C:0.03, G:0.37, T:0.25
Consensus pattern (23 bp):
AGGATTTAGGAGTTGATAAGGAT
Found at i:46509571 original size:24 final size:24
Alignment explanation
Indices: 46509520--46509589 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
46509510 GATTTAGAAG
46509520 AGGATTTAGGAGTTGATAA-GGAT
1 AGGATTTAGGAGTTGATAAGGGAT
*
46509543 AGGATTCAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
46509567 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
46509590 GGAAATCTAG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 18 0.43
24 24 0.57
ACGTcount: A:0.36, C:0.03, G:0.37, T:0.24
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:46511109 original size:27 final size:26
Alignment explanation
Indices: 46511004--46511115 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
46510994 AGGAAGCGTC
* **
46511004 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
46511031 CTAGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
46511058 CTGGTGGCTCTGGCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
46511086 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
46511112 CTGG
1 CTGG
46511116 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.10
27 48 0.67
28 17 0.24
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:46511110 original size:54 final size:54
Alignment explanation
Indices: 46511004--46511115 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
46510994 AGGAAGCGTC
* *
46511004 CTGGTGGCTATGCCACAATTATCTAATCTAGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTAATCTAGTGACTCTGCCACATATATCTGTT
* * * * * *
46511058 CTGGTGGCTCTGGCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCT-AATCTAGTGACTCTGCCACATATATCTGTT
46511112 CTGG
1 CTGG
46511116 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 32 0.65
55 17 0.35
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTAATCTAGTGACTCTGCCACATATATCTGTT
Found at i:46533355 original size:46 final size:46
Alignment explanation
Indices: 46533281--46533397 Score: 137
Period size: 46 Copynumber: 2.5 Consensus size: 46
46533271 AAGTCGATGC
* * * *
46533281 CATGTCCCAAACATGGTCTTACACTGACTATTC-TCTTATAGCCGACG
1 CATGTCCCAGACAT-GTCTTACACTGACT-TACGTCTCATAGCCAACG
* * *
46533328 CATGTCCCAGACATGTCTTACACTGACTTACGTCTCGTGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGACTTACGTCTCATAGCCAACG
*
46533374 CATATCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
46533398 AGCCCTCGTC
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
45 2 0.03
46 46 0.75
47 13 0.21
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTTACGTCTCATAGCCAACG
Found at i:46540659 original size:47 final size:47
Alignment explanation
Indices: 46540590--46540760 Score: 163
Period size: 47 Copynumber: 3.7 Consensus size: 47
46540580 GTGCCAATGC
* * * *
46540590 CATGTCCTAGACACGATCTTACACTGGCTCAT-ATCTCAAGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGCCGATG
* * **
46540636 TCATGTCCCAGACATGGTCTTACACTGACT-ATCCTCTTGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCATCATC-TCAAGCCGATG
* * * *
46540684 CATGTCCCAAACAT-GTCTTACACTAGC-CCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA-GCCGATG
46540730 CCATGTCCC-GACATGGTCTTACACTGGCTCA
1 -CATGTCCCAGACATGGTCTTACACTGGCTCA
46540761 CACATGAATG
Statistics
Matches: 99, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
45 2 0.02
46 28 0.28
47 60 0.61
48 9 0.09
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGCCGATG
Found at i:46541080 original size:13 final size:12
Alignment explanation
Indices: 46541061--46541092 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
46541051 GGTTGTTTAT
46541061 TAACTAATTAAC
1 TAACTAATTAAC
46541073 TAAACTAATTAAC
1 T-AACTAATTAAC
46541086 TAACTAA
1 TAACTAA
46541093 ACTAAAGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (12 bp):
TAACTAATTAAC
Found at i:46545510 original size:40 final size:40
Alignment explanation
Indices: 46545348--46545511 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
46545338 TGAATGATAC
* * *
46545348 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* *
46545388 CCAGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
46545428 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * * *
46545468 CCGGGTTAAGACCTGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
46545508 CCGG
1 CCGG
46545512 TTAAATCCCG
Statistics
Matches: 100, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
39 3 0.03
40 92 0.92
41 5 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:46565854 original size:43 final size:41
Alignment explanation
Indices: 46565761--46565927 Score: 154
Period size: 43 Copynumber: 3.9 Consensus size: 41
46565751 GATTACCGAG
* * *
46565761 ATGTGATTACATGTAAGTCCATGTCTAGGACACTGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACA-TGGCATCGT
*
46565803 ATTGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACA-TGGCATCG-T
* * * * *
46565847 ATATGATTTCCTGTAAGACCCTGTCTGGGATAGTGGCATCGAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACA-TGGCATCG-T
* * * * *
46565890 ATGTGATAATATGTAAGACTATATCTGGGATATGGCAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATGGCAT
46565928 TGTACGAGCT
Statistics
Matches: 103, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 7 0.07
43 94 0.91
44 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (41 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATGGCATCGT
Found at i:46569066 original size:54 final size:54
Alignment explanation
Indices: 46568984--46569096 Score: 199
Period size: 54 Copynumber: 2.1 Consensus size: 54
46568974 TGGTAGTAAA
* *
46568984 CACACAGGCAGAGACACGGCCTTGTGTCTCATCCGTGTGAAGGGCACGGTCTAG
1 CACACAGGCAGAGACACGGCCTTGTGTCTCAGCCATGTGAAGGGCACGGTCTAG
*
46569038 CACACAGGCAGAGACACGGTCTTGTGTCTCAGCCATGTGAAGGGCACGGTCTAG
1 CACACAGGCAGAGACACGGCCTTGTGTCTCAGCCATGTGAAGGGCACGGTCTAG
46569092 CACAC
1 CACAC
46569097 TGGCGTGTGC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.24, C:0.28, G:0.30, T:0.18
Consensus pattern (54 bp):
CACACAGGCAGAGACACGGCCTTGTGTCTCAGCCATGTGAAGGGCACGGTCTAG
Found at i:46569402 original size:20 final size:21
Alignment explanation
Indices: 46569363--46569402 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
46569353 GTTATAATGA
46569363 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
*
46569384 CCACACGGTCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
46569403 ATTTCAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.40, G:0.28, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:46573740 original size:51 final size:51
Alignment explanation
Indices: 46573599--46573750 Score: 250
Period size: 51 Copynumber: 3.0 Consensus size: 51
46573589 CGCTTGCCAT
** *
46573599 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTACCACTTGTCAC
1 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTATCAC
46573650 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTATCAC
1 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTATCAC
* * *
46573701 TGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTGTCACTGATCA
1 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTATCA
46573751 GAAGTACTCA
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 95 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (51 bp):
TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTATCAC
Found at i:46581423 original size:51 final size:51
Alignment explanation
Indices: 46581352--46581512 Score: 268
Period size: 51 Copynumber: 3.2 Consensus size: 51
46581342 CTGATCACAT
*
46581352 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
46581403 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* * * *
46581454 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
46581505 TTGTCACT
1 TTATCACT
46581513 GATCAGAAGT
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 105 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:46586913 original size:40 final size:40
Alignment explanation
Indices: 46586851--46587108 Score: 387
Period size: 40 Copynumber: 6.5 Consensus size: 40
46586841 AAGCCAAGTA
* * * * *
46586851 CCTTCGGGATTTA-ACCGGATATAGCT-GCTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
46586890 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
46586930 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
46586970 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
46587010 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
46587050 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
46587090 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
46587109 TTATCATCCA
Statistics
Matches: 205, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
39 13 0.06
40 192 0.94
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:46593388 original size:40 final size:40
Alignment explanation
Indices: 46593333--46593480 Score: 217
Period size: 40 Copynumber: 3.7 Consensus size: 40
46593323 TGAACGATAC
* * * * *
46593333 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
46593373 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
46593413 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
46593453 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGTTAAGACCCGAAGGCATTTGTGC
46593481 TTGTGGTTAT
Statistics
Matches: 100, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 98 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:46598361 original size:40 final size:40
Alignment explanation
Indices: 46598317--46598499 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
46598307 TGCTCGCTCG
* * * *
46598317 AATGCCGTCGGGACATAGCCCAGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
46598357 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
46598397 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * * *
46598437 AATGCCTTCGAGACTTAGCCCGGA-ACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
46598477 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
46598500 TTATCATCCA
Statistics
Matches: 133, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
39 1 0.01
40 132 0.99
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:46604688 original size:20 final size:20
Alignment explanation
Indices: 46604660--46604698 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
46604650 GTTAAAATAA
46604660 AAATAAAAATTTGACATGGC
1 AAATAAAAATTTGACATGGC
* *
46604680 AAATGAAAATTTGGCATGG
1 AAATAAAAATTTGACATGG
46604699 ATAGTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.26
Consensus pattern (20 bp):
AAATAAAAATTTGACATGGC
Found at i:46606440 original size:9 final size:9
Alignment explanation
Indices: 46606426--46606451 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
46606416 AAGTTAAACG
46606426 AAATAACAC
1 AAATAACAC
46606435 AAATAACAC
1 AAATAACAC
46606444 AAATAACA
1 AAATAACA
46606452 AACTCAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.19, G:0.00, T:0.12
Consensus pattern (9 bp):
AAATAACAC
Found at i:46612987 original size:40 final size:40
Alignment explanation
Indices: 46612908--46613065 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
46612898 TTCGAATGAT
* * * *
46612908 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
46612948 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * * *
46612988 ATCCGGACTAAGATCCGAAGGCTTTTGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
**
46613028 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
46613066 GTAACCGGGC
Statistics
Matches: 95, Mismatches: 20, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 1 0.01
40 88 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:46613051 original size:80 final size:80
Alignment explanation
Indices: 46612908--46613095 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
46612898 TTCGAATGAT
* * *
46612908 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGACTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
46612973 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
**
46612988 ATCCGGACTAAGAT-CCGAAGGCTTTTGAGC-AAGCT-ACTAAATCCGGGTTAAG-TCCCGAAGG
1 ATCCGGACTAAG-TCCCGAAGGC-TTTGAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
46613049 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
* *
46613069 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGACTAAGTCCCGAAGGC-TTTGA
46613096 ATGTGTAGCC
Statistics
Matches: 92, Mismatches: 10, Indels: 12
0.81 0.09 0.11
Matches are distributed among these distances:
79 2 0.02
80 80 0.87
81 10 0.11
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGACTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:46614666 original size:7 final size:7
Alignment explanation
Indices: 46614654--46614678 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46614644 GTTGTCTTCT
46614654 TGTTTGA
1 TGTTTGA
46614661 TGTTTGA
1 TGTTTGA
46614668 TGTTTGA
1 TGTTTGA
46614675 TGTT
1 TGTT
46614679 GTGGTGATGA
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:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:46615603 original size:26 final size:28
Alignment explanation
Indices: 46615549--46615617 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
46615539 AAATTTGTAC
46615549 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
46615577 AGCACT-AGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
46615603 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
46615618 GACTCACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 15 0.38
27 18 0.46
28 6 0.15
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:46622530 original size:7 final size:7
Alignment explanation
Indices: 46622518--46622542 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46622508 GTTGTCTTCT
46622518 TGTTTGA
1 TGTTTGA
46622525 TGTTTGA
1 TGTTTGA
46622532 TGTTTGA
1 TGTTTGA
46622539 TGTT
1 TGTT
46622543 GTGGTGATGA
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:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:46623472 original size:27 final size:28
Alignment explanation
Indices: 46623416--46623485 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
46623406 AAATTTGTAC
46623416 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
46623444 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
46623471 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
46623486 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:46630258 original size:47 final size:47
Alignment explanation
Indices: 46630187--46630977 Score: 878
Period size: 47 Copynumber: 16.3 Consensus size: 47
46630177 CCCTTCGGGA
* * * *
46630187 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
46630234 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
46630281 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
46630328 CTTATCACATATATACGCTTCCACATTCATCACATGGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
46630375 CTTATCACATATATACAGTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
46630422 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
**
46630469 CTTATCACATATATACACTTTCACACATATATACACTTTCACATTCATCACA-TCGGC
1 CTTATCACATATATACACTTT--CAC--AT-T-CA---TCACATT-GGC-CATTCGGC
* * **
46630526 CATTAGGC-C-T-TAT-CACATATATATACACTT--TCACATTCATCACA-TCGGC
1 C-TTA-TCACATATATACAC-T-T-T-CACA-TTCATCACATT-GGC-CATTCGGC
* *
46630575 CATTAGGCCTTGTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 C-TTA-------TCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
46630632 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
46630679 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
46630726 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
46630773 TTTATTACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-T-CACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
46630822 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
46630869 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
46630916 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
46630965 CTTATCACATATA
1 CTTATCACATATA
46630978 CTATCAAGTA
Statistics
Matches: 666, Mismatches: 42, Indels: 72
0.85 0.05 0.09
Matches are distributed among these distances:
47 471 0.71
48 2 0.00
49 119 0.18
51 2 0.00
52 1 0.00
53 2 0.00
55 7 0.01
56 18 0.03
57 20 0.03
58 14 0.02
59 3 0.00
60 4 0.01
61 3 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:46630497 original size:18 final size:18
Alignment explanation
Indices: 46630474--46630511 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
46630464 TAGGCCTTAT
46630474 CACATATATACACTTTCA
1 CACATATATACACTTTCA
46630492 CACATATATACACTTTCA
1 CACATATATACACTTTCA
46630510 CA
1 CA
46630512 TTCATCACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (18 bp):
CACATATATACACTTTCA
Found at i:46630507 original size:65 final size:66
Alignment explanation
Indices: 46630427--46630560 Score: 252
Period size: 65 Copynumber: 2.0 Consensus size: 66
46630417 TCGGCCTTAT
46630427 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTC
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTC
46630491 A
66 A
46630492 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTT
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTT
46630557 CA
65 CA
46630559 CA
1 CA
46630561 TTCATCACAT
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
65 50 0.75
67 17 0.25
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (66 bp):
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTC
A
Found at i:46630796 original size:143 final size:141
Alignment explanation
Indices: 46630492--46630977 Score: 819
Period size: 143 Copynumber: 3.4 Consensus size: 141
46630482 TACACTTTCA
*
46630492 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTT
1 CACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCAC--ATATATACACTTT
*
46630557 CACATTCATCACATCGGCCATTAGGCCTTGTCACATATATATACACTTTCACATTCATCACATCG
64 CACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCG
*
46630622 GCCATTAGGCCTTGT
127 GCCATTAGGCCTTAT
*
46630637 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
1 CACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCA
46630702 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
66 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
*
46630767 TTAGGCTTTATT
131 TTAGGCCTTA-T
* *
46630779 ACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 -CACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTC
46630844 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
65 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
46630909 ATTAGGCCTTAT
130 ATTAGGCCTTAT
* *
46630921 CACATATATATACACTTTCACATTCATCACATTGGCCATTCGGTCTTATCACATATA
1 CAC--ATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATA
46630978 CTATCAAGTA
Statistics
Matches: 328, Mismatches: 9, Indels: 10
0.95 0.03 0.03
Matches are distributed among these distances:
141 43 0.13
142 2 0.01
143 233 0.71
145 50 0.15
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (141 bp):
CACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCA
CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
TTAGGCCTTAT
Found at i:46635487 original size:28 final size:27
Alignment explanation
Indices: 46635447--46635510 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
46635437 CCTAAATACT
46635447 AAAAATAAGCTTAAAGAGGGATAAAA-TA
1 AAAAATAAGCTTAAA-A-GGATAAAAGTA
*
46635475 AAAAAT-AGTCTTAAAATGATAAAAGTA
1 AAAAATAAG-CTTAAAAGGATAAAAGTA
46635502 AAAACATAA
1 AAAA-ATAA
46635511 AAAATAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
26 7 0.23
27 9 0.29
28 14 0.45
29 1 0.03
ACGTcount: A:0.62, C:0.05, G:0.12, T:0.20
Consensus pattern (27 bp):
AAAAATAAGCTTAAAAGGATAAAAGTA
Found at i:46637750 original size:29 final size:29
Alignment explanation
Indices: 46637715--46637789 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
46637705 CGGTTGTGAG
* *
46637715 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
46637744 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
46637773 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
46637790 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:46645606 original size:29 final size:29
Alignment explanation
Indices: 46645571--46645644 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
46645561 GTTGTGAGAT
* *
46645571 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
46645600 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
46645629 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
46645645 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:46652917 original size:40 final size:40
Alignment explanation
Indices: 46652862--46653039 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
46652852 TGGATGATAA
* * *
46652862 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
46652902 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
46652942 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
46652982 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
46653022 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
46653040 TACGTGGCTT
Statistics
Matches: 127, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 16 0.13
40 111 0.87
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:46660976 original size:40 final size:40
Alignment explanation
Indices: 46660921--46661138 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
46660911 TGGATGATAA
* * * *
46660921 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TAT
*
46660961 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
46661001 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
46661041 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
46661081 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
46661121 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
46661139 TACTTGGCTT
Statistics
Matches: 167, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 16 0.10
40 151 0.90
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:46663424 original size:22 final size:23
Alignment explanation
Indices: 46663399--46663441 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
46663389 AAAGCTGAGG
46663399 AGCTCAGTAT-GGAG-AAAAGAAA
1 AGCTCA-TATGGGAGCAAAAGAAA
*
46663421 AGCTGATATGGGAGCAAAAGA
1 AGCTCATATGGGAGCAAAAGA
46663442 GTTTCGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 3 0.17
22 9 0.50
23 6 0.33
ACGTcount: A:0.47, C:0.09, G:0.30, T:0.14
Consensus pattern (23 bp):
AGCTCATATGGGAGCAAAAGAAA
Found at i:46669085 original size:40 final size:40
Alignment explanation
Indices: 46669030--46669247 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
46669020 TGGATGATAA
* * * *
46669030 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TAT
* *
46669070 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
46669110 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
46669150 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* * *
46669190 CCGGGCTATGTCCCTAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
46669230 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
46669248 TACGTGGCTT
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 15 0.09
40 148 0.91
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:46672848 original size:30 final size:30
Alignment explanation
Indices: 46672812--46672871 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
46672802 TTCCCGAGCC
*
46672812 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
46672842 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
46672872 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:46679722 original size:125 final size:128
Alignment explanation
Indices: 46679575--46680044 Score: 345
Period size: 129 Copynumber: 3.6 Consensus size: 128
46679565 TATTTAGTCC
* * * * * *
46679575 AACGAGAAAATCGAAACCCAGCACAGTAGGGTACGATTCCTTGAATTTCTAAACATCAAGCATTG
1 AACGAG-AAATCGCAACCCAGCACAGTAGGGCACGATTCC-CGAATTGCCAAACATCAAGCATTA
* ***
46679640 CCTT-ATTTTAAA-A-TTTAG-AGAGTATGAGTGAAATTCTAAAGGAATC-TTCGATT-ATTGAG
64 CCTTCATTTTAAAGATTTTAGAAGA-TACGAACAAAATTCTAAAGGAA-CATTCGATTCATTGAG
*
46679699 CG
127 CA
* * *
46679701 AACGAGAAATCGCAACCCAGCAC-GATAGGGCATGATTCCCGAATTGCCAAACATCGAGTATTAC
1 AACGAGAAATCGCAACCCAGCACAG-TAGGGCACGATTCCCGAATTGCCAAACATCAAGCATTAC
* * *
46679765 CTTCGTTTTAAAGAGTTTTTAGAAGATACGAACAAAATTCTAAAGGGACATTCGATTGCTTTGAG
65 CTTCATTTTAAAGA--TTTTAGAAGATACGAACAAAATTCTAAAGGAACATTCGATT-CATTGAG
46679830 CA
127 CA
* * * * **
46679832 AACGAGAAATTGCAACCCAGCACATTAGGGCACGATTCCGCGAATTGTCAAATAT--A-CATCGC
1 AACGAGAAATCGCAACCCAGCACAGTAGGGCACGATTCC-CGAATTGCCAAACATCAAGCATTAC
* * ** * * * *
46679894 CTTCATTTTAAAGGATTTTTAGAAGACATGAATGAAATTATGAAGGGATATTCGA-TCATTTTGA
65 CTTCATTTTAAA-GA-TTTTAGAAGATACGAACAAAATTCTAAAGGAACATTCGATTCA--TTGA
46679958 GCA
126 GCA
* * * * * * *
46679961 AACGGGAAATTGCAACCCA--ACATGTTAGGGCACGATTCCGGAAATTGCCAAATATCAAACCTC
1 AACGAGAAATCGCAACCCAGCACA-G-TAGGGCACGATTCCCG-AATTGCCAAACATCAAGCATT
*
46680024 GCCTTCATTTTAAAGAATTTT
63 ACCTTCATTTTAAAG-ATTTT
46680045 TAAATGAATA
Statistics
Matches: 283, Mismatches: 39, Indels: 39
0.78 0.11 0.11
Matches are distributed among these distances:
124 23 0.08
125 35 0.12
126 7 0.02
127 4 0.01
128 3 0.01
129 127 0.45
130 6 0.02
131 47 0.17
132 31 0.11
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (128 bp):
AACGAGAAATCGCAACCCAGCACAGTAGGGCACGATTCCCGAATTGCCAAACATCAAGCATTACC
TTCATTTTAAAGATTTTAGAAGATACGAACAAAATTCTAAAGGAACATTCGATTCATTGAGCA
Found at i:46679913 original size:129 final size:128
Alignment explanation
Indices: 46679670--46680046 Score: 379
Period size: 129 Copynumber: 2.9 Consensus size: 128
46679660 AGTATGAGTG
* * * *
46679670 AAATTCTAAAGGAATC-TTCGATTATTGAGCGAACGAGAAATCGCAACCCAGCACGA-TAGGGCA
1 AAATTCTAAAGGGA-CATTCGATTTTTGAGCAAACGAGAAATTGCAACCCAGCAC-ATTAGGGCA
* * ** ** * *
46679733 TGATTCC-CGAATTGCCAAACATCGAGTATTACCTTCGTTTTAAA-GAGTTTTTAGAAGATACGA
64 CGATTCCGCGAATTGCCAAATAT--AACATCGCCTTCATTTTAAAGGA-TTTTTAGAAGACACGA
46679796 ACA
126 ACA
46679799 AAATTCTAAAGGGACATTCGATTGCTTTGAGCAAACGAGAAATTGCAACCCAGCACATTAGGGCA
1 AAATTCTAAAGGGACATTCGATT--TTTGAGCAAACGAGAAATTGCAACCCAGCACATTAGGGCA
* * **
46679864 CGATTCCGCGAATTGTCAAATAT-ACATCGCCTTCATTTTAAAGGATTTTTAGAAGACATGAATG
64 CGATTCCGCGAATTGCCAAATATAACATCGCCTTCATTTTAAAGGATTTTTAGAAGACACGAACA
* * * * * **
46679928 AAATTATGAAGGGATATTCGATCATTTTGAGCAAACGGGAAATTGCAACCCAACATGTTAGGGCA
1 AAATTCTAAAGGGACATTCGAT--TTTTGAGCAAACGAGAAATTGCAACCCAGCACATTAGGGCA
* *
46679993 CGATTCCG-GAAATTGCCAAATATCAAACCTCGCCTTCATTTTAAAGAATTTTTA
64 CGATTCCGCG-AATTGCCAAATAT--AACATCGCCTTCATTTTAAAGGATTTTTA
46680047 AATGAATATT
Statistics
Matches: 210, Mismatches: 26, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
128 2 0.01
129 124 0.59
130 3 0.01
131 42 0.20
132 39 0.19
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (128 bp):
AAATTCTAAAGGGACATTCGATTTTTGAGCAAACGAGAAATTGCAACCCAGCACATTAGGGCACG
ATTCCGCGAATTGCCAAATATAACATCGCCTTCATTTTAAAGGATTTTTAGAAGACACGAACA
Found at i:46683122 original size:44 final size:44
Alignment explanation
Indices: 46683059--46683324 Score: 321
Period size: 44 Copynumber: 6.2 Consensus size: 44
46683049 CGGGAACACC
* * *
46683059 AATCTGTTATTTTTGATCTGCTCTCTGCCAATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
* *
46683103 AATCTG-TCATCTTCGATCTGCTCTCTGTCAACACAGAGATGCCA
1 AATCTGCT-ATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
* *
46683147 AATCTG----C-TCGATCTGC-CTTCTGACAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTC-TCTGCCAATACAGAGATGCCA
* * * *
46683186 AATCTGCTATCTTTGATCTGCTTTCCGCTAATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
*
46683230 AATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
* * * *
46683274 AATCTACTATCTTTGATCTGCTCTCCGCCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
46683318 AATCTGC
1 AATCTGC
46683325 AGGATTCGCC
Statistics
Matches: 190, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.01
39 33 0.17
40 1 0.01
43 2 0.01
44 153 0.81
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (44 bp):
AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
Found at i:46683266 original size:127 final size:129
Alignment explanation
Indices: 46683059--46683324 Score: 369
Period size: 127 Copynumber: 2.1 Consensus size: 129
46683049 CGGGAACACC
* * *
46683059 AATCTGTTATTTTTGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTCATCTTCGATCTGC
1 AATCTGCTATCTTTGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGTCATCTTCGATCTGC
* * *
46683124 TCTCTGTCAACACAGAGATGCCAAATCTGC-TC-GATCTGC-CTTCTGACAATACAGAGACGCCA
66 TCTCTGACAACACAGAGATGCCAAATCTACATCTGATCTGCTC-TCCGACAATACAGAGACGCCA
* *
46683186 AATCTGCTATCTTTGATCTGCTTTCCGCTAATACAGAGATGCCAAATCTG-CTATCTTCGATCTG
1 AATCTGCTATCTTTGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGTC-ATCTTCGATCTG
* *
46683250 CTCTCTGACAATACAGAGATGCCAAATCTACTATCTTTGATCTGCTCTCCGCCAATACAGAGACG
65 CTCTCTGACAACACAGAGATGCCAAATCTAC-ATC--TGATCTGCTCTCCGACAATACAGAGACG
46683315 CCA
127 CCA
46683318 AATCTGC
1 AATCTGC
46683325 AGGATTCGCC
Statistics
Matches: 122, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
126 1 0.01
127 85 0.70
129 2 0.02
132 33 0.27
133 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (129 bp):
AATCTGCTATCTTTGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGTCATCTTCGATCTGC
TCTCTGACAACACAGAGATGCCAAATCTACATCTGATCTGCTCTCCGACAATACAGAGACGCCA
Found at i:46684311 original size:2 final size:2
Alignment explanation
Indices: 46684304--46684333 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
46684294 ATGTGCAAAC
46684304 AT AT 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 AT AT
46684334 GCTAGAGCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46695826 original size:13 final size:13
Alignment explanation
Indices: 46695808--46695833 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46695798 ACACATTCGC
46695808 ACTTTTCCATCTT
1 ACTTTTCCATCTT
46695821 ACTTTTCCATCTT
1 ACTTTTCCATCTT
46695834 TCTTAGGGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.00, T:0.54
Consensus pattern (13 bp):
ACTTTTCCATCTT
Found at i:46703879 original size:132 final size:131
Alignment explanation
Indices: 46703638--46703993 Score: 410
Period size: 132 Copynumber: 2.7 Consensus size: 131
46703628 TCTTCGATTA
* * * * * * *
46703638 TTGAGCGAACGGGAAATCGCAACCCAGAACGA-TAGGGCATGATTCCTGAATTGCCAAACATCGA
1 TTGAGCAAACGAGAAATTGCAACCCAGCAC-ATTAGGGCACGATTCCCGAATTGCCAAATATCGA
* ** * * * * *
46703702 GTATTACCTTCATTTTAAA-GAGTTTTTAGAAGATACGAACGAAATTCTAAAGGGACATTCGATT
65 ATATCGCCTTCGTTTTAAAGGA-TTTTTAGAAGACACGAACAAAATTATAAAGGGACATTCGATC
*
46703766 GCT
129 ACT
*
46703769 TTGAGCAAACGAGAAATTGCAACCCAGCACATTAGGGCACGATTCCACGAATTGTCAAATATCGA
1 TTGAGCAAACGAGAAATTGCAACCCAGCACATTAGGGCACGATTCC-CGAATTGCCAAATATCGA
* * * *
46703834 ATATCGCCTTTGTTTTAAAGGATTTTTAGAAGACATGAACAAAATTATGAAGGGATATTCGATCA
65 ATATCGCCTTCGTTTTAAAGGATTTTTAGAAGACACGAACAAAATTATAAAGGGACATTCGATCA
*
46703899 TT
130 CT
* * *
46703901 TTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCAAATTGCCAAATATCAA
1 TTGAGCAAACGAGAAATTGCAACCCAGCACATTAGGGCACGATTCC-CGAATTGCCAAATATCGA
** *
46703966 ACCTCGCCTTCGTTTTAAAGAATTTTTA
65 ATATCGCCTTCGTTTTAAAGGATTTTTA
46703994 AATGAATAAT
Statistics
Matches: 191, Mismatches: 31, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
130 1 0.01
131 39 0.20
132 149 0.78
133 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (131 bp):
TTGAGCAAACGAGAAATTGCAACCCAGCACATTAGGGCACGATTCCCGAATTGCCAAATATCGAA
TATCGCCTTCGTTTTAAAGGATTTTTAGAAGACACGAACAAAATTATAAAGGGACATTCGATCAC
T
Found at i:46704977 original size:30 final size:30
Alignment explanation
Indices: 46704941--46705001 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
46704931 TTCCCGAGCG
46704941 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
46704971 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
46705001 T
1 T
46705002 GTATTAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:46705727 original size:49 final size:51
Alignment explanation
Indices: 46705647--46705879 Score: 289
Period size: 49 Copynumber: 4.7 Consensus size: 51
46705637 AGCTATTGTG
* *
46705647 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTA-CGAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGAGATAATT
* * * *
46705697 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CCAGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGAGATAA-TT
* * * **
46705747 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-AGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGAGATAATT
*
46705797 AGGTCACATGTGTAGTACTAAGTGCAGCCTACTACGTGTATCG-GATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGAGATAATT
* *
46705847 -GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
46705880 TGCGTACCAG
Statistics
Matches: 157, Mismatches: 22, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 71 0.45
50 47 0.30
51 38 0.24
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (51 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGAGATAATT
Found at i:46713132 original size:15 final size:15
Alignment explanation
Indices: 46713112--46713167 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
46713102 ATATCTTGGG
46713112 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
46713127 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
46713142 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
46713157 TTTCTTTATTC
1 TTTCTTTATTC
46713168 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:46719669 original size:17 final size:18
Alignment explanation
Indices: 46719627--46719675 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
46719617 AGTTGAAAAG
46719627 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
46719646 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
46719663 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
46719676 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:46720561 original size:40 final size:40
Alignment explanation
Indices: 46720495--46720661 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
46720485 AAATTGAATG
* * *
46720495 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
46720534 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
46720574 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
46720614 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
46720654 ATATCCGG
1 ATATCCGG
46720662 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:46727659 original size:17 final size:18
Alignment explanation
Indices: 46727617--46727665 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
46727607 AGTTGAAAAG
46727617 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
46727636 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
46727653 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
46727666 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:46728552 original size:40 final size:40
Alignment explanation
Indices: 46728486--46728652 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
46728476 AAATTGAATG
* * *
46728486 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
46728525 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
46728565 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
46728605 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
46728645 ATATCCGG
1 ATATCCGG
46728653 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:46731765 original size:40 final size:40
Alignment explanation
Indices: 46731714--46731865 Score: 166
Period size: 40 Copynumber: 3.8 Consensus size: 40
46731704 TATAACACGT
* *
46731714 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATGTCTC
** *
46731754 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCG-CTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATA-ATGTCTC
* *
46731794 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-C
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATGTCTC
* * *
46731833 AGCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
46731866 CATTCAATTT
Statistics
Matches: 94, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 2 0.02
40 89 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATGTCTC
Found at i:46731848 original size:80 final size:80
Alignment explanation
Indices: 46731714--46731865 Score: 209
Period size: 80 Copynumber: 1.9 Consensus size: 80
46731704 TATAACACGT
* *
46731714 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
46731779 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * * * *
46731794 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
46731857 CCCGGATAT
64 CCCGGATAT
46731866 CATTCAATTT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
79 3 0.05
80 60 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:46734010 original size:47 final size:47
Alignment explanation
Indices: 46733944--46734209 Score: 188
Period size: 49 Copynumber: 5.6 Consensus size: 47
46733934 AGTGCCAATA
** *
46733944 TAAGACTATGTCTAAGACATGGTATCGGCATAGAGACGAGTGCTAGTG
1 TAAGAC-ATGTCTGGGACATGGCATCGGCATAGAGACGAGTGCTAGTG
* * * * *
46733992 TAAGACATGTCTGGGACAT-ACATCGGCCTCGACGATG-GTAGCCAGTG
1 TAAGACATGTCTGGGACATGGCATCGGCATAGA-GACGAGT-GCTAGTG
* * *
46734039 TAAGACGTGTCTGGGACA-CGCATCGGC-TA-AGA-GTTGTGCTAGTG
1 TAAGACATGTCTGGGACATGGCATCGGCATAGAGACG-AGTGCTAGTG
* * * * *
46734083 TAAGACATGTCTGGGACAT-GCATCAGCACATATATACGAGAGCTAGTA
1 TAAGACATGTCTGGGACATGGCATC-G-GCATAGAGACGAGTGCTAGTG
* * * * * *
46734131 TAAGACCATGTCTAGGACGTGGCATCGGCCTCGATGATGA-TAGCCAGTG
1 TAAGA-CATGTCTGGGACATGGCATCGGCATAGA-GACGAGT-GCTAGTG
46734180 TAAGACCATGTCTGGGACATGGCATCGGCA
1 TAAGA-CATGTCTGGGACATGGCATCGGCA
46734210 ACTTATCCCA
Statistics
Matches: 171, Mismatches: 32, Indels: 29
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.01
44 30 0.18
45 4 0.02
46 13 0.08
47 46 0.27
48 23 0.13
49 49 0.29
50 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
TAAGACATGTCTGGGACATGGCATCGGCATAGAGACGAGTGCTAGTG
Found at i:46734097 original size:44 final size:46
Alignment explanation
Indices: 46733889--46734208 Score: 186
Period size: 47 Copynumber: 6.8 Consensus size: 46
46733879 GATTTCTTGT
* * * * **
46733889 GTGCCAGTGTAATACATGTCTGGGACATGCATTGGCC-ACATTATG
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGACGATG
* * * ** * * *
46733934 AGTGCCAATATAAGACTATGTCTAAGACATGGTATCGGCATAGA-GACG
1 -GTGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCTAGACGATG
* *
46733982 AGTGCTAGTGTAAGACATGTCTGGGACATACATCGGCCTCGACGATG
1 -GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGACGATG
* * * *
46734029 GTAGCCAGTGTAAGACGTGTCTGGGACACGCATCGG-CTA-A-GAGTT
1 GT-GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGACGA-TG
* *
46734074 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACATATATACGA--
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGC-C---TAGACGATG
* * * * * *
46734122 GAGCTAGTATAAGACCATGTCTAGGACGTGGCATCGGCCTCGATGATG
1 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTAGACGATG
* *
46734170 ATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GT-GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
46734209 AACTTATCCC
Statistics
Matches: 211, Mismatches: 45, Indels: 33
0.73 0.16 0.11
Matches are distributed among these distances:
44 31 0.15
45 4 0.02
46 30 0.14
47 54 0.26
48 33 0.16
49 49 0.23
50 8 0.04
51 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGACGATG
Found at i:46740418 original size:41 final size:41
Alignment explanation
Indices: 46740373--46740490 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
46740363 TGAAAGATAA
46740373 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
46740414 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
46740444 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
46740485 ATGTAG
1 ATGTAG
46740491 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:46740429 original size:71 final size:71
Alignment explanation
Indices: 46740341--46740504 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
46740331 GAGATGTATC
46740341 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
46740406 AGGACA
66 AGGACA
46740412 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
46740477 AGGACA
66 AGGACA
46740483 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
46740505 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:46751785 original size:40 final size:40
Alignment explanation
Indices: 46751740--46751923 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
46751730 ATAACCACAA
* * *
46751740 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
46751780 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
46751820 G--CAAATGCCTTC-GGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* *
46751857 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT-AGCAACTC
*
46751897 GCATAAATGCCTTCGGG-CTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
46751924 GTATCATTCA
Statistics
Matches: 130, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
37 24 0.18
38 11 0.08
39 21 0.16
40 72 0.55
41 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:46751843 original size:77 final size:76
Alignment explanation
Indices: 46751720--46751927 Score: 292
Period size: 77 Copynumber: 2.6 Consensus size: 76
46751710 TCTTCGGAAT
*
46751720 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCA-AA-TGCCTTC-GGTCTTAACCCGGGTATAGCAACTCGCAC
46751784 AAATGCCTTCGGGTC
62 AAATGCCTTCGGGTC
* *
46751799 TTAGCCCGGATATAACAACTCGCAAATGCCTTCGGTCTTAACCCGGATATAGCAACTCGCACAAA
1 TTAGCCCGGATATAAC-ACTAGCAAATGCCTTCGGTCTTAACCCGGGTATAGCAACTCGCACAAA
46751864 TGCCTTCGGGTC
65 TGCCTTCGGGTC
* *
46751876 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGCTTAGCCCGGGTAT
1 TTAGCCCGGATATAA-CACTAGC--AAATGCCTTCGGTCTTAACCCGGGTAT
46751928 CATTCAAATG
Statistics
Matches: 117, Mismatches: 7, Indels: 10
0.87 0.05 0.07
Matches are distributed among these distances:
77 63 0.54
78 8 0.07
79 31 0.26
80 15 0.13
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (76 bp):
TTAGCCCGGATATAACACTAGCAAATGCCTTCGGTCTTAACCCGGGTATAGCAACTCGCACAAAT
GCCTTCGGGTC
Found at i:46759916 original size:79 final size:80
Alignment explanation
Indices: 46759823--46760028 Score: 328
Period size: 80 Copynumber: 2.6 Consensus size: 80
46759813 TCTTCGGAAT
* *
46759823 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGG-TATAGCAACTCGCAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
46759886 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
46759901 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
46759966 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* * *
46759981 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGG-CTTAGCCCGG
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGG
46760029 GTATCATTCA
Statistics
Matches: 117, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
78 4 0.03
79 49 0.42
80 64 0.55
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:46759931 original size:40 final size:40
Alignment explanation
Indices: 46759823--46760028 Score: 285
Period size: 40 Copynumber: 5.2 Consensus size: 40
46759813 TCTTCGGAAT
* ** *
46759823 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
46759862 TTAACCCGG-TATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
46759901 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
46759941 TTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
46759981 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGG-C
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
46760020 TTAGCCCGG
1 TTAGCCCGG
46760029 GTATCATTCA
Statistics
Matches: 150, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 46 0.31
40 103 0.69
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:46762206 original size:47 final size:46
Alignment explanation
Indices: 46762084--46762302 Score: 180
Period size: 47 Copynumber: 4.7 Consensus size: 46
46762074 AGATTTCTTG
** **
46762084 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TTATG
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACAGAGACA
* * *
46762130 TGTGCCAGTATAAGACCATATCTAGGACATGGCATCGGCACAGAGACA
1 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACAGAGACA
* * * **
46762178 AGTGCCAGTGTAAGACATGTTTGGGACATGCATCAGC-C-TCGACGA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGAC-A
* * *
46762223 TGATAGCCAGTGTAAGACGTGTCTGGGACACGCATCGGCTA-AGAG--T
1 TG-T-GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACAGAGACA
* *
46762269 TGTGCTAGTGTAAGACATGTTTGGGACATGCATC
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATC
46762303 AGCATGTATA
Statistics
Matches: 137, Mismatches: 27, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
44 30 0.22
45 4 0.03
46 24 0.18
47 57 0.42
48 21 0.15
49 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (46 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGACA
Found at i:46762252 original size:94 final size:91
Alignment explanation
Indices: 46762085--46762305 Score: 241
Period size: 94 Copynumber: 2.4 Consensus size: 91
46762075 GATTTCTTGT
* * ** *
46762085 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGTGTGCCAGTATAAGACCATA
1 GTGCCAGTGTAAGACATGTTTGGGACATGCATCAGCCACACGATGTGAGCCAGTATAAGACCATA
*
46762150 TCTAGGACATGGCATCGGC-ACAGAGACAA
66 TCTAGGACA-CGCATCGGCTA-AGAG--AA
* * *
46762179 GTGCCAGTGTAAGACATGTTTGGGACATGCATCAGCCTCGACGATGAT-AGCCAGTGTAAGA-CG
1 GTGCCAGTGTAAGACATGTTTGGGACATGCATCAGCCAC-ACGATG-TGAGCCAGTATAAGACCA
* * **
46762242 TGTCTGGGACACGCATCGGCTAAGAGTT
64 TATCTAGGACACGCATCGGCTAAGAGAA
*
46762270 GTGCTAGTGTAAGACATGTTTGGGACATGCATCAGC
1 GTGCCAGTGTAAGACATGTTTGGGACATGCATCAGC
46762306 ATGTATATAC
Statistics
Matches: 110, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
91 35 0.32
93 12 0.11
94 47 0.43
95 15 0.14
96 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTTTGGGACATGCATCAGCCACACGATGTGAGCCAGTATAAGACCATA
TCTAGGACACGCATCGGCTAAGAGAA
Found at i:46765880 original size:37 final size:37
Alignment explanation
Indices: 46765830--46765900 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
46765820 CGAAGTCTTA
*
46765830 CCCGGACATAATCTCCACATGTAGTCATCGGGTCGTG
1 CCCGGACATAATCTCCACACGTAGTCATCGGGTCGTG
46765867 CCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 CCCGGACATAATCTCCACACGTAGTCATCGGGTC
46765901 ATTAGAGCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.23
Consensus pattern (37 bp):
CCCGGACATAATCTCCACACGTAGTCATCGGGTCGTG
Found at i:46766101 original size:49 final size:49
Alignment explanation
Indices: 46766021--46766231 Score: 372
Period size: 49 Copynumber: 4.3 Consensus size: 49
46766011 CCCTTCGGGA
* * *
46766021 CTTATCACAT-T-TATACACTTCCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
46766068 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
46766117 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
46766166 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
46766215 CTTATCACATATATACA
1 CTTATCACATATATACA
46766232 TCTCATACAT
Statistics
Matches: 157, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 10 0.06
48 1 0.01
49 146 0.93
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46768968 original size:21 final size:20
Alignment explanation
Indices: 46768944--46768984 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
46768934 GTATCAGGCA
* *
46768944 GCTTGTCTACATTATCTAGTG
1 GCTTGTCCACAATAT-TAGTG
46768965 GCTTGTCCACAATATTAGTG
1 GCTTGTCCACAATATTAGTG
46768985 TGTAACAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (20 bp):
GCTTGTCCACAATATTAGTG
Found at i:46770357 original size:15 final size:15
Alignment explanation
Indices: 46770337--46770368 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
46770327 TTAACAGTGT
46770337 TAATAATTAAACTTG
1 TAATAATTAAACTTG
*
46770352 TAATAATTAAATTTG
1 TAATAATTAAACTTG
46770367 TA
1 TA
46770369 TTTTAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (15 bp):
TAATAATTAAACTTG
Done.