Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 114 of 187
Found at i:33551021 original size:21 final size:17
Alignment explanation
Indices: 33550947--33551042 Score: 86
Period size: 19 Copynumber: 5.2 Consensus size: 17
33550937 ATTTACATGT
33550947 ATTTTATAA-TTTTATAA
1 ATTTTATAATTTTTAT-A
*
33550964 TATTTTAGAATTTTTATA
1 -ATTTTATAATTTTTATA
* *
33550982 AGTTTTGGTAATATTTATA
1 A-TTTT-ATAATTTTTATA
33551001 AGTTTTTAATAATCTTTTATA
1 A--TTTT-ATAAT-TTTTATA
33551022 ATTTTATAATTTTTATA
1 ATTTTATAATTTTTATA
33551039 ATTT
1 ATTT
33551043 ATGACAACTT
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
17 12 0.18
18 18 0.28
19 20 0.31
20 8 0.12
21 7 0.11
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.59
Consensus pattern (17 bp):
ATTTTATAATTTTTATA
Found at i:33553916 original size:35 final size:35
Alignment explanation
Indices: 33553824--33553933 Score: 111
Period size: 35 Copynumber: 3.2 Consensus size: 35
33553814 GACCCCCTAG
* *
33553824 TGTGAACCCTAGG-A-ATGTG-AGCCTACATGACCA
1 TGTGAACCCTAGGTACATGCGAAGCCTATATG-CCA
** * *
33553857 TGCAAACCCTAAGTACCTGC-AAGCCTATATGCCA
1 TGTGAACCCTAGGTACATGCGAAGCCTATATGCCA
* *
33553891 TGTGAACCCTAGGTACATGCGAAGCCTATAAGTCA
1 TGTGAACCCTAGGTACATGCGAAGCCTATATGCCA
33553926 TGTGAACC
1 TGTGAACC
33553934 TCTATATATT
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
33 10 0.16
34 20 0.33
35 31 0.51
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (35 bp):
TGTGAACCCTAGGTACATGCGAAGCCTATATGCCA
Found at i:33557175 original size:33 final size:33
Alignment explanation
Indices: 33557123--33557277 Score: 240
Period size: 33 Copynumber: 4.7 Consensus size: 33
33557113 TGGGCCAGAT
*
33557123 CGTGTGGG-TCACACGGGCAAGGCCAATCTGGG
1 CGTGTGGGCCCACACGGGCAAGGCCAATCTGGG
* *
33557155 CATGTGGGCCCACACAGGCAAGGCCAATCTGGG
1 CGTGTGGGCCCACACGGGCAAGGCCAATCTGGG
33557188 CGTGTGGGCCCACACGGGCAAGGCCAATCTGGG
1 CGTGTGGGCCCACACGGGCAAGGCCAATCTGGG
* * *
33557221 CTTGTGGACCCACACGGGCAAGGCCAATCTAGG
1 CGTGTGGGCCCACACGGGCAAGGCCAATCTGGG
*
33557254 CGTGTTGGCCCACACGGGCAAGGC
1 CGTGTGGGCCCACACGGGCAAGGC
33557278 ACACGTGCAT
Statistics
Matches: 111, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
32 7 0.06
33 104 0.94
ACGTcount: A:0.21, C:0.30, G:0.36, T:0.14
Consensus pattern (33 bp):
CGTGTGGGCCCACACGGGCAAGGCCAATCTGGG
Found at i:33565465 original size:40 final size:39
Alignment explanation
Indices: 33565367--33565589 Score: 225
Period size: 40 Copynumber: 5.6 Consensus size: 39
33565357 TCCTCGTTCA
* * * ** *
33565367 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
*
33565406 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
33565445 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
** *
33565485 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
* * * * *
33565525 AAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCAC
* *
33565566 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
33565590 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 20, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
39 37 0.23
40 114 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
Found at i:33565589 original size:120 final size:119
Alignment explanation
Indices: 33565367--33565589 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
33565357 TCCTCGTTCA
* * * *
33565367 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
33565432 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
33565486 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
33565550 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
33565590 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:33575071 original size:40 final size:39
Alignment explanation
Indices: 33574973--33575235 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
33574963 TCCTCGTTCA
* * * *
33574973 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
33575012 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
33575051 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
33575091 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
33575131 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
33575171 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
33575212 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
33575236 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:33575195 original size:120 final size:119
Alignment explanation
Indices: 33574973--33575235 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
33574963 TCCTCGTTCA
* * *
33574973 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
33575038 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
33575091 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
33575156 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
33575212 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
33575236 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:33575244 original size:41 final size:41
Alignment explanation
Indices: 33575167--33575244 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
33575157 TTTGTATCTC
* * *
33575167 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
33575208 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
33575245 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:33584303 original size:18 final size:18
Alignment explanation
Indices: 33584282--33584326 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
33584272 TCTTTTTCAT
* *
33584282 TTTTTTCTTTTCCTTTTC
1 TTTTTTCTTTCCCATTTC
33584300 TTTTTTCTTTCCCATTTC
1 TTTTTTCTTTCCCATTTC
33584318 TTTTTTCTT
1 TTTTTTCTT
33584327 CTTCTGCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTTCTTTCCCATTTC
Found at i:33585018 original size:63 final size:63
Alignment explanation
Indices: 33584932--33585072 Score: 194
Period size: 63 Copynumber: 2.2 Consensus size: 63
33584922 CGGGCGTGTT
* *
33584932 TCTAGGCCATGTAACTCACTGTTCATTGTCTTAGTGTCACAC-GGACCAGGACACGAGCGTATG
1 TCTAGGCCGTGTAACTCACTGTTCATTGTCTTAGTGTCACACAGG-CCAGGACACAAGCGTATG
* * * *
33584995 TCTAGGCCGTGTAACTCACTGTTCATTGTCTTTGTGTCACACAGGTCGGGACACAAGCGTGTG
1 TCTAGGCCGTGTAACTCACTGTTCATTGTCTTAGTGTCACACAGGCCAGGACACAAGCGTATG
* *
33585058 TCCAGGCAGTGTAAC
1 TCTAGGCCGTGTAAC
33585073 CCTCTGTTTG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 67 0.97
64 2 0.03
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.28
Consensus pattern (63 bp):
TCTAGGCCGTGTAACTCACTGTTCATTGTCTTAGTGTCACACAGGCCAGGACACAAGCGTATG
Found at i:33588647 original size:20 final size:20
Alignment explanation
Indices: 33588605--33588647 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
33588595 GACAACATTA
* *
33588605 TAAAAATATTTTAAAATTTT
1 TAAAAATATTTTAAAAGTAT
* *
33588625 TAAAATTATTTTTAAAGTAT
1 TAAAAATATTTTAAAAGTAT
33588645 TAA
1 TAA
33588648 TATTCATAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TAAAAATATTTTAAAAGTAT
Found at i:33590857 original size:19 final size:19
Alignment explanation
Indices: 33590833--33590907 Score: 64
Period size: 19 Copynumber: 3.9 Consensus size: 19
33590823 TTCATCCTAG
33590833 AATTATAAAAACATAAAAA
1 AATTATAAAAACATAAAAA
*
33590852 AATTATAAAAATCAT-TAAA
1 AATTATAAAAA-CATAAAAA
* * *
33590871 AATTAATTAAAA-TTATAAA
1 AATT-ATAAAAACATAAAAA
* *
33590890 ATTTATAAAAATATAAAA
1 AATTATAAAAACATAAAA
33590908 GTTAATTAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
18 7 0.16
19 29 0.64
20 9 0.20
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
AATTATAAAAACATAAAAA
Found at i:33590861 original size:9 final size:9
Alignment explanation
Indices: 33590833--33590952 Score: 82
Period size: 9 Copynumber: 13.0 Consensus size: 9
33590823 TTCATCCTAG
33590833 AATTATAAA
1 AATTATAAA
* *
33590842 AACATAAAAA
1 AA-TTATAAA
33590852 AATTATAAA
1 AATTATAAA
*
33590861 AATCATTAAA
1 AATTA-TAAA
*
33590871 AATTAATTAA
1 AATT-ATAAA
33590881 AATTATAAA
1 AATTATAAA
*
33590890 ATTTATAAA
1 AATTATAAA
33590899 AA-TATAAA
1 AATTATAAA
* *
33590907 AGTTAATTAA
1 AATT-ATAAA
* *
33590917 AGTCATAATA
1 AATTATAA-A
*
33590927 AATAAT-AA
1 AATTATAAA
33590935 AATTATAAA
1 AATTATAAA
*
33590944 AATAATAAA
1 AATTATAAA
33590953 TTATGTTTTT
Statistics
Matches: 86, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
8 13 0.15
9 39 0.45
10 33 0.38
11 1 0.01
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (9 bp):
AATTATAAA
Found at i:33590914 original size:36 final size:36
Alignment explanation
Indices: 33590849--33590946 Score: 115
Period size: 36 Copynumber: 2.6 Consensus size: 36
33590839 AAAAACATAA
*
33590849 AAAAATTATAAAAATCATTAAAAATTAATTAAAATTAT
1 AAAAATTATAAAAAT-A-TAAAAATTAATTAAAATCAT
* * *
33590887 AAAATTTATAAAAATATAAAAGTTAATTAAAGTCAT
1 AAAAATTATAAAAATATAAAAATTAATTAAAATCAT
* *
33590923 AATAAATAATAAAATTATAAAAAT
1 AA-AAATTATAAAAATATAAAAAT
33590947 AATAAATTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
36 19 0.37
37 18 0.35
38 14 0.27
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (36 bp):
AAAAATTATAAAAATATAAAAATTAATTAAAATCAT
Found at i:33590948 original size:17 final size:17
Alignment explanation
Indices: 33590867--33590956 Score: 74
Period size: 17 Copynumber: 5.1 Consensus size: 17
33590857 TAAAAATCAT
33590867 TAAAAATTAATTAAAATTA
1 TAAAAA-TAA-TAAAATTA
* * *
33590886 TAAAATTTATAAAAATA
1 TAAAAATAATAAAATTA
* * *
33590903 TAAAAGTTAATTAAAGTCA
1 TAAAA-ATAA-TAAAATTA
33590922 TAATAAATAATAAAATTA
1 TAA-AAATAATAAAATTA
33590940 TAAAAATAAT-AAATTA
1 TAAAAATAATAAAATTA
33590956 T
1 T
33590957 GTTTTTTTTC
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
16 7 0.12
17 19 0.33
18 14 0.24
19 16 0.28
20 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (17 bp):
TAAAAATAATAAAATTA
Found at i:33600270 original size:36 final size:36
Alignment explanation
Indices: 33600226--33600294 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
33600216 GGTGTGTTGG
*
33600226 AGGGATTGGCTCGTGTGAGCATCTGGTGTGTTTTAA
1 AGGGATTGGCTCGTGTGAGCATCTAGTGTGTTTTAA
*
33600262 AGGGATTGGCTCGTGTGAGCATCTATTGTGTTT
1 AGGGATTGGCTCGTGTGAGCATCTAGTGTGTTT
33600295 GGTTGGATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.16, C:0.12, G:0.35, T:0.38
Consensus pattern (36 bp):
AGGGATTGGCTCGTGTGAGCATCTAGTGTGTTTTAA
Found at i:33605694 original size:14 final size:14
Alignment explanation
Indices: 33605660--33605701 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
33605650 AATAATTTTC
33605660 TTGAAAAATTAAT-
1 TTGAAAAATTAATG
*
33605673 TTGGAAAATTAATG
1 TTGAAAAATTAATG
33605687 TTGAAAAATTAATG
1 TTGAAAAATTAATG
33605701 T
1 T
33605702 GAATTTCGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 12 0.46
14 14 0.54
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (14 bp):
TTGAAAAATTAATG
Found at i:33605704 original size:13 final size:13
Alignment explanation
Indices: 33605661--33605704 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
33605651 ATAATTTTCT
*
33605661 TGAAAAATTAATT
1 TGAAAAATTAATG
*
33605674 TGGAAAATTAATG
1 TGAAAAATTAATG
33605687 TTGAAAAATTAATG
1 -TGAAAAATTAATG
33605701 TGAA
1 TGAA
33605705 TTTCGATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (13 bp):
TGAAAAATTAATG
Found at i:33617781 original size:10 final size:11
Alignment explanation
Indices: 33617760--33617799 Score: 53
Period size: 11 Copynumber: 3.4 Consensus size: 11
33617750 AATATTTGAG
33617760 ATTCTAAAAAA
1 ATTCTAAAAAA
33617771 ATTCTAAAAAA
1 ATTCTAAAAAA
33617782 ATTCGTGGAAAAAA
1 ATTC-T--AAAAAA
33617796 ATTC
1 ATTC
33617800 ATGAGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 15 0.58
12 1 0.04
14 10 0.38
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (11 bp):
ATTCTAAAAAA
Found at i:33617821 original size:14 final size:14
Alignment explanation
Indices: 33617765--33617822 Score: 68
Period size: 14 Copynumber: 4.3 Consensus size: 14
33617755 TTGAGATTCT
33617765 AAAAAAATTC-T--
1 AAAAAAATTCATGG
*
33617776 AAAAAAATTCGTGG
1 AAAAAAATTCATGG
33617790 AAAAAAATTCATGAG
1 AAAAAAATTCATG-G
*
33617805 AAAAAAATTCAAGG
1 AAAAAAATTCATGG
33617819 AAAA
1 AAAA
33617823 TTATGTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
11 10 0.24
12 1 0.02
14 17 0.41
15 13 0.32
ACGTcount: A:0.62, C:0.07, G:0.12, T:0.19
Consensus pattern (14 bp):
AAAAAAATTCATGG
Found at i:33619935 original size:19 final size:19
Alignment explanation
Indices: 33619911--33619948 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
33619901 AACCTAAGGG
33619911 TAAAATAGTAAA-TAAATAA
1 TAAAATA-TAAATTAAATAA
33619930 TAAAATATAAATTAAATAA
1 TAAAATATAAATTAAATAA
33619949 AACTTTCGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (19 bp):
TAAAATATAAATTAAATAA
Found at i:33623190 original size:24 final size:24
Alignment explanation
Indices: 33623159--33623207 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
33623149 ATCAAAAGAG
33623159 AAAGAAAAAAATGTC-GAGAGTGAA
1 AAAGAAAAAAATGTCTGAG-GTGAA
* *
33623183 AAAGAAAAGAGTGTCTGAGGTGAA
1 AAAGAAAAAAATGTCTGAGGTGAA
33623207 A
1 A
33623208 TCGAGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.53, C:0.04, G:0.29, T:0.14
Consensus pattern (24 bp):
AAAGAAAAAAATGTCTGAGGTGAA
Found at i:33627511 original size:16 final size:17
Alignment explanation
Indices: 33627478--33627511 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
33627468 GGGCCGCTGG
*
33627478 ACGTTCTTGTCCAGCAT
1 ACGTTCTTGTCAAGCAT
33627495 ACGTTCTTG-CAAGCAT
1 ACGTTCTTGTCAAGCAT
33627511 A
1 A
33627512 AAAATGATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (17 bp):
ACGTTCTTGTCAAGCAT
Found at i:33627622 original size:3 final size:3
Alignment explanation
Indices: 33627614--33627681 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
33627604 CGAGGATCTC
*
33627614 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
33627662 GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GA
33627682 TCCCACAGAG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:33633205 original size:20 final size:20
Alignment explanation
Indices: 33633180--33633242 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
33633170 AATGACACTT
33633180 AACAGAGGCACCAAAGTGCA
1 AACAGAGGCACCAAAGTGCA
*
33633200 AACAGAGGCA-CAAATATGCA
1 AACAGAGGCACCAAA-GTGCA
* * *
33633220 ATCAGAAGCACCGAAGTGCA
1 AACAGAGGCACCAAAGTGCA
33633240 AAC
1 AAC
33633243 CTGTACAAGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 4 0.11
20 28 0.80
21 3 0.09
ACGTcount: A:0.46, C:0.24, G:0.22, T:0.08
Consensus pattern (20 bp):
AACAGAGGCACCAAAGTGCA
Found at i:33635179 original size:15 final size:14
Alignment explanation
Indices: 33635159--33635192 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
33635149 ATGTTTTTAT
*
33635159 TTTATTTTATATTTG
1 TTTATTTTAT-TTTC
33635174 TTTATTTTATTTTC
1 TTTATTTTATTTTC
33635188 TTTAT
1 TTTAT
33635193 CAACTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTATTTTATTTTC
Found at i:33635928 original size:46 final size:45
Alignment explanation
Indices: 33635859--33635950 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 45
33635849 TTGACTCTTT
*
33635859 CCCTAACATAAACATACAAAAGGCCTACATGGACCTCATTAAGTC
1 CCCTAACATAAACATACAAAAGGCCCACATGGACCTCATTAAGTC
* *
33635904 CNCCTAACATAAACATACATAAGGCCCACATGGGCCTCATTAAGTC
1 C-CCTAACATAAACATACAAAAGGCCCACATGGACCTCATTAAGTC
33635950 C
1 C
33635951 ATATTAGTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
45 1 0.02
46 42 0.98
ACGTcount: A:0.37, C:0.30, G:0.12, T:0.20
Consensus pattern (45 bp):
CCCTAACATAAACATACAAAAGGCCCACATGGACCTCATTAAGTC
Found at i:33645471 original size:14 final size:14
Alignment explanation
Indices: 33645452--33645478 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33645442 ATATAGATAT
33645452 ACTATTTTTATTAA
1 ACTATTTTTATTAA
33645466 ACTATTTTTATTA
1 ACTATTTTTATTA
33645479 TACATATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (14 bp):
ACTATTTTTATTAA
Found at i:33645666 original size:18 final size:18
Alignment explanation
Indices: 33645638--33645678 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
33645628 TGATGTGAGC
33645638 TTATTGTCTTATGTGTAT
1 TTATTGTCTTATGTGTAT
*
33645656 TGTATTG-CTTATTTGTAT
1 T-TATTGTCTTATGTGTAT
33645674 TTATT
1 TTATT
33645679 AATTATTCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 12 0.57
19 5 0.24
ACGTcount: A:0.17, C:0.05, G:0.15, T:0.63
Consensus pattern (18 bp):
TTATTGTCTTATGTGTAT
Found at i:33648545 original size:30 final size:28
Alignment explanation
Indices: 33648509--33648564 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 28
33648499 ACAGGGGTTT
33648509 TCACACGGCC-TGGCACACGCCCCGTGTCCC
1 TCACACGGCCGT-G-ACACG-CCCGTGTCCC
33648539 TCACACGGCCGTGACACGCCCGTGTC
1 TCACACGGCCGTGACACGCCCGTGTC
33648565 TAAAAACCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 8 0.32
29 5 0.20
30 11 0.44
31 1 0.04
ACGTcount: A:0.14, C:0.46, G:0.25, T:0.14
Consensus pattern (28 bp):
TCACACGGCCGTGACACGCCCGTGTCCC
Found at i:33649798 original size:49 final size:49
Alignment explanation
Indices: 33649723--33649945 Score: 183
Period size: 49 Copynumber: 4.7 Consensus size: 49
33649713 ATAAATCAAG
* *
33649723 GCCGATGCCATGTCTCAGACAAGTCTTACACTAGCTCTCACTTATTTGT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATTTGT
* * * * * * * * *
33649772 GTCGGTGCCATGTCCCAAACAGGTCTTATACTAACACAC-CTCA----A
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATTTGT
* * *
33649816 GCCGATGCCATGTCCCAGATAGATCTTACACTAGCT-TGCA--TATCTTGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCT-CACTTAT-TTG-T
* * *
33649865 GCCGATGCCATGTCCCAGACAGGTTTTACACTGGCTCTCACTTATTTTT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATTTGT
** *
33649914 TTCGATGCCGTGTCCCAGACAGGTCTTACACT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACT
33649946 GACACACACA
Statistics
Matches: 131, Mismatches: 32, Indels: 22
0.71 0.17 0.12
Matches are distributed among these distances:
43 1 0.01
44 29 0.22
48 3 0.02
49 92 0.70
50 3 0.02
51 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATTTGT
Found at i:33649874 original size:93 final size:95
Alignment explanation
Indices: 33649677--33649888 Score: 229
Period size: 93 Copynumber: 2.2 Consensus size: 95
33649667 ACATCTAAGT
* * * *
33649677 CGATGTCATGTCCCAGACAGGTCTTACATAACTCACATAAATCAAGGCCGATGCCATGTCTCAGA
1 CGATGCCATGTCCCAGACAGGTCTTA-ATAACTAACACAAATCAAGGCCGATGCCATGTCCCAGA
* *
33649742 CAAGTCTTACACTAGCTCTCACTTATTTGTGT
65 CAAGTCTTACACTAGCTCTCAC-TATTTGGGC
* * **
33649774 CGGTGCCATGTCCCAAACAGGTCTT-AT-ACTAACACACCTCAA-GCCGATGCCATGTCCCAGA-
1 CGATGCCATGTCCCAGACAGGTCTTAATAACTAACACAAATCAAGGCCGATGCCATGTCCCAGAC
*
33649835 TAGATCTTACACTAGCT-TGCA-TATCTTGAGGC
66 AAG-TCTTACACTAGCTCT-CACTAT-TTG-GGC
33649867 CGATGCCATGTCCCAGACAGGT
1 CGATGCCATGTCCCAGACAGGT
33649889 TTTACACTGG
Statistics
Matches: 98, Mismatches: 13, Indels: 12
0.80 0.11 0.10
Matches are distributed among these distances:
91 3 0.03
92 6 0.06
93 54 0.55
94 11 0.11
95 2 0.02
97 22 0.22
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (95 bp):
CGATGCCATGTCCCAGACAGGTCTTAATAACTAACACAAATCAAGGCCGATGCCATGTCCCAGAC
AAGTCTTACACTAGCTCTCACTATTTGGGC
Found at i:33651958 original size:28 final size:28
Alignment explanation
Indices: 33651895--33652132 Score: 388
Period size: 28 Copynumber: 8.5 Consensus size: 28
33651885 ATTTTAAGTC
* *
33651895 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
33651922 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
33651950 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
33651978 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
33652006 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
33652034 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
33652062 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
33652090 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
33652118 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33652133 GTACAATTTA
Statistics
Matches: 199, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
27 22 0.11
28 177 0.89
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:33661150 original size:50 final size:50
Alignment explanation
Indices: 33661073--33661198 Score: 225
Period size: 50 Copynumber: 2.5 Consensus size: 50
33661063 AGAATCCTCA
* *
33661073 GATACTCTATGCTTTATCTTAAGCTCCAAAGTTCCTATGGATATCACTCG
1 GATACTCCATGCTTTATCTTAAACTCCAAAGTTCCTATGGATATCACTCG
*
33661123 GATACTCCATGCTTTATCTTAAACTCCAAAGTTCCTATGTATATCACTCG
1 GATACTCCATGCTTTATCTTAAACTCCAAAGTTCCTATGGATATCACTCG
33661173 GATACTCCATGCTTTATCTTAAACTC
1 GATACTCCATGCTTTATCTTAAACTC
33661199 GATGGAAGAA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 73 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (50 bp):
GATACTCCATGCTTTATCTTAAACTCCAAAGTTCCTATGGATATCACTCG
Found at i:33666498 original size:48 final size:47
Alignment explanation
Indices: 33666343--33666498 Score: 111
Period size: 48 Copynumber: 3.2 Consensus size: 47
33666333 TATATACACA
* * *
33666343 TACATATTTT-TTTATA-ATTCATATACATATACATACTTATATATAT
1 TACATATTTTATTTATATTTTTATATACATATATATACTTATATAT-T
* * * * * * * *
33666389 TTCTTATTATATCTTATAATTTATATATGTACATATTCTTTATTTAT-TATA
1 TACATATTTTAT-TTAT-ATTT-T-TATATACATA-TATATACTTATATATT
* *
33666440 TATATTTTTTATTTCATATTTTTATATACATATATATACTTATATATT
1 TACATATTTTATTT-ATATTTTTATATACATATATATACTTATATATT
33666488 TACATATTTTA
1 TACATATTTTA
33666499 ATTCATATAC
Statistics
Matches: 78, Mismatches: 23, Indels: 16
0.67 0.20 0.14
Matches are distributed among these distances:
46 7 0.09
47 9 0.12
48 25 0.32
49 2 0.03
50 7 0.09
51 10 0.13
52 11 0.14
53 7 0.09
ACGTcount: A:0.35, C:0.08, G:0.01, T:0.56
Consensus pattern (47 bp):
TACATATTTTATTTATATTTTTATATACATATATATACTTATATATT
Found at i:33669989 original size:490 final size:490
Alignment explanation
Indices: 33669069--33670303 Score: 2274
Period size: 490 Copynumber: 2.5 Consensus size: 490
33669059 TGAAACTCCC
33669069 TGTGTGACAGCCCAAAATTGACCCTAGTCGGGAAGTGGTTTCGGGACCGCTAAACCGAGTCACCG
1 TGTGTGACAGCCCAAAATTGACCCTAGTCGGGAAGTGGTTTCGGGACCGCTAAACCGAGTCACCG
33669134 AAAGGTGTGAATGTGATGTTTATTGTCTAGAATATGTAATCATGAAGGTGTGAAAATTTCAAGCT
66 AAAGGTGTGAATGTGATGTTTATTGTCTAGAATATGTAATCATGAAGGTGTGAAAATTTCAAGCT
33669199 TCGATTTAGTCGATTGCATGTGAATTTAGTCAATAGGACTTATATGAGAAAATTTTAAAATGTGA
131 TCGATTTAGTCGATTGCATGTGAATTTAGTCAATAGGACTTATATGAGAAAATTTTAAAATGTGA
33669264 TAGGTCAATGCATGAGGACTTATTAGTGCATGTGGAAGAAAAAGGGGACTTGCATGTCAAAGTGC
196 TAGGTCAATGCATGAGGACTTATTAGTGCATGTGGAAGAAAAAGGGGACTTGCATGTCAAAGTGC
33669329 CCAATTCTTGATAAGTGGCCGGCCAAGCATGACTCCATTCCTCCAAGTTTATGTTGTTTATTATT
261 CCAATTCTTGATAAGTGGCCGGCCAAGCATGACTCCATTCCTCCAAGTTTATGTTGTTTATTATT
33669394 TAATATTGGTAAGTAAATTAAAATAAATTAAAGAAAGGAATTAAAAAGGGAGAGATGAATAAAAT
326 TAATATTGGTAAGTAAATTAAAATAAATTAAAGAAAGGAATTAAAAAGGGAGAGATGAATAAAAT
33669459 AAGGAGGGAAGAGGGAGTGTTCATCTTTTTTTTTCTTTGGCTATTGTCGTGAGTGAGGAGAAGGA
391 AAGGAGGGAAGAGGGAGTGTTCATCTTTTTTTTTCTTTGGCTATTGTCGTGAGTGAGGAGAAGGA
33669524 AGGGAGATTTGGTTATTGGATTTTGGCTTGGAAGA
456 AGGGAGATTTGGTTATTGGATTTTGGCTTGGAAGA
33669559 TGTGTGACAGCCCAAAATTGACCCTAGTCGGGAAGTGGTTTCGGGACCGCTAAACCGAGTCACCG
1 TGTGTGACAGCCCAAAATTGACCCTAGTCGGGAAGTGGTTTCGGGACCGCTAAACCGAGTCACCG
33669624 AAAGGTGTGAATGTGATGTTTATTGTCTAGAATATGTAATCATGAAGGTGTGAAAATTTCAAGCT
66 AAAGGTGTGAATGTGATGTTTATTGTCTAGAATATGTAATCATGAAGGTGTGAAAATTTCAAGCT
33669689 TCGATTTAGTCGATTGCATGTGAATTTAGTCAATAGGACTTATATGAGAAAATTTTAAAATGTGA
131 TCGATTTAGTCGATTGCATGTGAATTTAGTCAATAGGACTTATATGAGAAAATTTTAAAATGTGA
33669754 TAGGTCAATGCATGAGGACTTATTAGTGCATGTGGAAGAAAAAGGGGACTTGCATGTCAAAGTGC
196 TAGGTCAATGCATGAGGACTTATTAGTGCATGTGGAAGAAAAAGGGGACTTGCATGTCAAAGTGC
33669819 CCAATTCTTGATAAGTGGCCGGCCAAGCATGACTCCATTCCTCCAAGTTTATGTTGTTTATTATT
261 CCAATTCTTGATAAGTGGCCGGCCAAGCATGACTCCATTCCTCCAAGTTTATGTTGTTTATTATT
33669884 TAATATTGGTAAGTAAATTAAAATAAATTAAAGAAAGGAATTAAAAAGGGAGAGATGAATAAAAT
326 TAATATTGGTAAGTAAATTAAAATAAATTAAAGAAAGGAATTAAAAAGGGAGAGATGAATAAAAT
33669949 AAGGAGGGAAGAGGGAGTGTTCATCTTTTTTTTTCTTTGGCTATTGTCGTGAGTGAGGAGAAGGA
391 AAGGAGGGAAGAGGGAGTGTTCATCTTTTTTTTTCTTTGGCTATTGTCGTGAGTGAGGAGAAGGA
33670014 AGGGAGATTTGGTTATTGGATTTTGGCTTGGAAGA
456 AGGGAGATTTGGTTATTGGATTTTGGCTTGGAAGA
*
33670049 TGTGTGACAGCCCAAAGTTGACCCTAGTCGGGAAGTGGTTTCGGGACCGCTAAACCGAGTCACCG
1 TGTGTGACAGCCCAAAATTGACCCTAGTCGGGAAGTGGTTTCGGGACCGCTAAACCGAGTCACCG
* * ** * * *
33670114 AAATGTTTGAATGTGATACTTATTGTGTAGAATATGTAATTATGAATGTGTGAAAATTTCAAGCT
66 AAAGGTGTGAATGTGATGTTTATTGTCTAGAATATGTAATCATGAAGGTGTGAAAATTTCAAGCT
* * * * * *
33670179 TCAATTTGGTTGATTTCATGTGAATTTAGTCAATAGGACTTATGTGAGAAAATTCTAAAATGTGA
131 TCGATTTAGTCGATTGCATGTGAATTTAGTCAATAGGACTTATATGAGAAAATTTTAAAATGTGA
** * * * **
33670244 TAGGTCAATGTGTGAGGACCTACTAGTGCATGTGG-ACAAAGGGGGGACTTGCATGTCAAA
196 TAGGTCAATGCATGAGGACTTATTAGTGCATGTGGAAGAAAAAGGGGACTTGCATGTCAAA
33670304 TTCCCCCCCT
Statistics
Matches: 724, Mismatches: 21, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
489 22 0.03
490 702 0.97
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.31
Consensus pattern (490 bp):
TGTGTGACAGCCCAAAATTGACCCTAGTCGGGAAGTGGTTTCGGGACCGCTAAACCGAGTCACCG
AAAGGTGTGAATGTGATGTTTATTGTCTAGAATATGTAATCATGAAGGTGTGAAAATTTCAAGCT
TCGATTTAGTCGATTGCATGTGAATTTAGTCAATAGGACTTATATGAGAAAATTTTAAAATGTGA
TAGGTCAATGCATGAGGACTTATTAGTGCATGTGGAAGAAAAAGGGGACTTGCATGTCAAAGTGC
CCAATTCTTGATAAGTGGCCGGCCAAGCATGACTCCATTCCTCCAAGTTTATGTTGTTTATTATT
TAATATTGGTAAGTAAATTAAAATAAATTAAAGAAAGGAATTAAAAAGGGAGAGATGAATAAAAT
AAGGAGGGAAGAGGGAGTGTTCATCTTTTTTTTTCTTTGGCTATTGTCGTGAGTGAGGAGAAGGA
AGGGAGATTTGGTTATTGGATTTTGGCTTGGAAGA
Found at i:33671794 original size:39 final size:40
Alignment explanation
Indices: 33671603--33671812 Score: 269
Period size: 40 Copynumber: 5.3 Consensus size: 40
33671593 GGACTAAGAT
* * * * *
33671603 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
*
33671643 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
*
33671683 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
* * *
33671723 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
* * * * * *
33671763 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
33671802 CCGAAGGCATT
1 CCGAAGGCATT
33671813 TGAACGAGGA
Statistics
Matches: 152, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 32 0.21
40 120 0.79
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
Found at i:33671832 original size:79 final size:80
Alignment explanation
Indices: 33671603--33671847 Score: 217
Period size: 80 Copynumber: 3.1 Consensus size: 80
33671593 GGACTAAGAT
* * * * * * ** * *
33671603 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
*
33671667 AAAGCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * * ** ** *
33671683 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
33671748 AATCCGGGTTACGTC
66 AATCCGGGTTAAGTC
* * * *
33671763 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
33671827 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
33671841 CCGAAGG
1 CCGAAGG
33671848 TACGTGAATT
Statistics
Matches: 138, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
78 14 0.10
79 48 0.35
80 76 0.55
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:33674473 original size:27 final size:27
Alignment explanation
Indices: 33674442--33674619 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
33674432 TAAATTGTAC
33674442 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33674469 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33674495 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
33674523 GGCACTAAGTGTGCGAGTTCGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
33674551 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33674578 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33674605 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33674620 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33674558 original size:82 final size:81
Alignment explanation
Indices: 33674443--33674598 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
33674433 AAATTGTACA
* * *
33674443 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
33674507 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33674524 GCACTAAGTGTGCGAGTTCGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
33674589 TGCGAGTTGA
65 TGCGAATTGA
33674599 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33674610 original size:82 final size:81
Alignment explanation
Indices: 33674439--33674619 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
33674429 GATTAAATTG
* * *
33674439 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
33674504 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33674520 TGCGGCACTAAGTGTGCGAGTTCGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
33674584 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33674602 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33674620 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33677659 original size:15 final size:15
Alignment explanation
Indices: 33677639--33677672 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
33677629 TCGGGTAGTT
33677639 GTGGTGGCAAGTCTG
1 GTGGTGGCAAGTCTG
33677654 GTGGTGGCAAGTCTG
1 GTGGTGGCAAGTCTG
33677669 GTGG
1 GTGG
33677673 GTTATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.12, C:0.12, G:0.50, T:0.26
Consensus pattern (15 bp):
GTGGTGGCAAGTCTG
Found at i:33683975 original size:11 final size:12
Alignment explanation
Indices: 33683951--33683980 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
33683941 ATATTTGATT
33683951 ATAATATCAATA
1 ATAATATCAATA
33683963 ATAATAT-AATA
1 ATAATATCAATA
33683974 ATAATAT
1 ATAATAT
33683981 TATTATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (12 bp):
ATAATATCAATA
Found at i:33685034 original size:24 final size:25
Alignment explanation
Indices: 33685007--33685057 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
33684997 CTAGGGTTTG
33685007 TGTTTAGTTTTAGGCTG-TTGGGTT
1 TGTTTAGTTTTAGGCTGTTTGGGTT
* *
33685031 TGTTTAGTTTTGGGGTGTTTGGGTT
1 TGTTTAGTTTTAGGCTGTTTGGGTT
33685056 TG
1 TG
33685058 GGCCTGCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.06, C:0.02, G:0.37, T:0.55
Consensus pattern (25 bp):
TGTTTAGTTTTAGGCTGTTTGGGTT
Found at i:33685600 original size:44 final size:43
Alignment explanation
Indices: 33685529--33685735 Score: 132
Period size: 44 Copynumber: 4.8 Consensus size: 43
33685519 ACTTGATGCG
* * * *
33685529 ATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTA
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGAT-TGTGGTTTTA
* * * *
33685573 ATCTGCTCCACTACAACTGCAGGGAGATAGGATTGAT-TTCTTTC
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATTG-TGGT-TTTA
* * * * * *
33685617 GTCTACTCCACTACAACTTCAAGGAGATAAGA-T-TGGATGTG
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATTGTGGTTTTA
* * * * * * ***
33685658 ATATGCTCTACTGCAACTTCAGAGAGATAAGGTCTATTACTTTA
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGAT-TGTGGTTTTA
* *
33685702 ATCCGCTCCACTACAACTTCAGGGAGATAGGATT
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATT
33685736 ATCAGCTTCA
Statistics
Matches: 120, Mismatches: 37, Indels: 13
0.71 0.22 0.08
Matches are distributed among these distances:
41 27 0.22
43 6 0.05
44 87 0.73
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (43 bp):
ATCTGCTCCACTACAACTTCAGGGAGATAAGATTGTGGTTTTA
Found at i:33685675 original size:85 final size:85
Alignment explanation
Indices: 33685576--33685735 Score: 189
Period size: 85 Copynumber: 1.9 Consensus size: 85
33685566 GGTTTTAATC
* * ** *
33685576 TGCTCCACTACAACTGCAGGGAGAT-AGGAT-TGATTTCTTTCGTCTACTCCACTACAACTTCAA
1 TGCTCCACTACAACTGCAGAGAGATAAGG-TCT-ATTACTTTAATCCACTCCACTACAACTTCAA
33685639 GGAGATAAGATTGGATGTGATA
64 GGAGATAAGATTGGATGTGATA
* * * * *
33685661 TGCTCTACTGCAACTTCAGAGAGATAAGGTCTATTACTTTAATCCGCTCCACTACAACTTCAGGG
1 TGCTCCACTACAACTGCAGAGAGATAAGGTCTATTACTTTAATCCACTCCACTACAACTTCAAGG
*
33685726 AGATAGGATT
66 AGATAAGATT
33685736 ATCAGCTTCA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 58 0.94
86 4 0.06
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (85 bp):
TGCTCCACTACAACTGCAGAGAGATAAGGTCTATTACTTTAATCCACTCCACTACAACTTCAAGG
AGATAAGATTGGATGTGATA
Found at i:33685710 original size:129 final size:128
Alignment explanation
Indices: 33685445--33685735 Score: 386
Period size: 129 Copynumber: 2.3 Consensus size: 128
33685435 ATTGATTTTT
* ** * * ** * *
33685445 ATCCACTCCACTACAACTTTGGGGAGATAGGATTTATTTCTTTCGTCTGCTCCACTACTGTTTAG
1 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTTCGTCTACTCCACTACACTTCAA
* * * **
33685510 GGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTA
66 GGAGATAAGACTTGATGCGATATGCTCTACTGCAACTTCAGAGAGATAAGATCTATGACTTTA
* *
33685573 ATCTGCTCCACTACAACTGCAGGGAGATAGGATTGATTTCTTTCGTCTACTCCACTACAACTTCA
1 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTTCGTCTACTCCACTAC-ACTTCA
* * *
33685638 AGGAGATAAGA-TTGGATGTGATATGCTCTACTGCAACTTCAGAGAGATAAGGTCTATTACTTTA
65 AGGAGATAAGACTT-GATGCGATATGCTCTACTGCAACTTCAGAGAGATAAGATCTATGACTTTA
33685702 ATCCGCTCCACTACAACTTCAGGGAGATAGGATT
1 ATCCGCTCCACTACAACTTCAGGGAGATAGGATT
33685736 ATCAGCTTCA
Statistics
Matches: 140, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
128 53 0.38
129 87 0.62
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (128 bp):
ATCCGCTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTTCGTCTACTCCACTACACTTCAA
GGAGATAAGACTTGATGCGATATGCTCTACTGCAACTTCAGAGAGATAAGATCTATGACTTTA
Found at i:33686035 original size:142 final size:142
Alignment explanation
Indices: 33685740--33686418 Score: 1130
Period size: 142 Copynumber: 4.8 Consensus size: 142
33685730 AGGATTATCA
*
33685740 GCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
1 GCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCA
* * * * *
33685805 CTCCACTGTAACTTCAGAGAG--AGAATTACCAGCTTAAATCTACTCTGCTGTAATCTCAGGGAG
66 TTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAG
33685868 ATAAGATCTCTG
131 ATAAGATCTCTG
33685880 GCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCA
1 GCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCA
* * * *
33685945 TTCCACTATAACTTTAGAGAGATAGGATTACTAGCTTCAATCTACTCCGTTGTAATCTGAGGGAG
66 TTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAG
33686010 ATAAGATCTCTG
131 ATAAGATCTCTG
* * *
33686022 GCTTCAATTTGATGTCATCTACTCTACTGTAACTTCAGAGAGATAATATCCTTTATTTTAATCCA
1 GCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCA
* * * *
33686087 CTCCACTATAACTTCAGAGAGATAGGATTACTAGCTTCAATCCACTCCGTTGTAATCTCAGGGAG
66 TTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAG
33686152 ATAAGATCTCTG
131 ATAAGATCTCTG
33686164 GCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCA
1 GCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCA
* * *
33686229 TTCCACTGTAACTTTAGAGAGATAGGATTACTAGCTTCAATCTAATCTGCTGTAATCTCAGGGAG
66 TTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAG
*
33686294 ATAAGATCTTTG
131 ATAAGATCTCTG
33686306 GCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCA
1 GCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCA
*
33686371 CTT-CACTGTAACTTCAGAGAGATAGGATTACTAGCGTCAATCTACTCC
66 -TTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCC
33686419 CTGATACGAT
Statistics
Matches: 504, Mismatches: 32, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
140 82 0.16
142 420 0.83
143 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.34
Consensus pattern (142 bp):
GCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCA
TTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAG
ATAAGATCTCTG
Found at i:33686453 original size:105 final size:105
Alignment explanation
Indices: 33686321--33686523 Score: 336
Period size: 105 Copynumber: 1.9 Consensus size: 105
33686311 AATCTGATGT
*
33686321 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTTCACTGTAA-CTT
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTT
33686385 CAGAGAGATAGGATTACTAGCGTCAATCTACTCCCTGATAC
66 -AGAGAGATAGGATTACTAGCGTCAATCTACTCCCTGATAC
*
33686426 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTT
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTT
* * * *
33686491 AGGGAGATAGGATTACTATCTTCAATCTGCTCC
66 AGAGAGATAGGATTACTAGCGTCAATCTACTCC
33686524 GCTGTAATCT
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
105 88 0.97
106 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (105 bp):
GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTT
AGAGAGATAGGATTACTAGCGTCAATCTACTCCCTGATAC
Found at i:33686464 original size:247 final size:234
Alignment explanation
Indices: 33686179--33686652 Score: 655
Period size: 247 Copynumber: 2.0 Consensus size: 234
33686169 AATCTGATGT
*
33686179 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCATTCCACTGTAA-CTT
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATC-T
*
33686243 TAGAGAGATAGGATTACTAGCTTCAATCTAATCTGCTGTAATCTCAGGGAGATAAGATCTTTGGC
65 TAGAGAGATAGGATTACTAGCTTCAATCTAATCCGCTGTAATCTCAGGGAGATAAGA--------
**
33686308 TTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACT
122 --C---CTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACT
*
33686373 TCACTGTAA-CTTCAGAGAGATAGGATTACTAGCGTCAATCTACTCCCTGATAC
182 CCACTGTAATCTT-AGAGAGATAGGATTACTAGCGTCAATCTACTCCCTGATAC
*
33686426 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTT
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTT
* * ** *
33686491 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGACCTGATACG
66 AGAGAGATAGGATTACTAGCTTCAATCTAATCCGCTGTAATCTCAGGGAGATAAGACCTGATACG
*
33686556 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTTA
131 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTTA
* * * *
33686621 GGGAGATAGGATTACTATCTTCAATCTGCTCC
196 GAGAGATAGGATTACTAGCGTCAATCTACTCC
33686653 GCTGTAATCT
Statistics
Matches: 209, Mismatches: 16, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
234 93 0.44
235 3 0.01
237 1 0.00
247 111 0.53
248 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (234 bp):
GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTT
AGAGAGATAGGATTACTAGCTTCAATCTAATCCGCTGTAATCTCAGGGAGATAAGACCTGATACG
ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTTA
GAGAGATAGGATTACTAGCGTCAATCTACTCCCTGATAC
Found at i:33686648 original size:129 final size:129
Alignment explanation
Indices: 33686418--33688614 Score: 3820
Period size: 129 Copynumber: 17.0 Consensus size: 129
33686408 CAATCTACTC
33686418 CCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
1 CCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
* *
33686483 GTAATCTTAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGA
66 GTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
33686547 CCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
1 CCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
* *
33686612 GTAATCTTAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGA
66 GTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
** *
33686676 CCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACT
1 CCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
*
33686741 GTAA-CTTCAGGGAGATAGGATTAC-ATCTTCAATCTGCTCCGCTGTAATCTAAGGGAGATAAGA
66 GTAATC-TCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
*
33686804 CTTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
1 CCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
* *
33686869 GTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCACTGTAATCTCAAGGAGATAAGA
66 GTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
33686933 CCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
1 CCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
*
33686998 GTAATCTCACGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
66 GTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
*
33687062 CCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACT
1 CCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
*
33687127 GTAATCTCACGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
66 GTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
* *
33687191 CCTGATACGATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
1 CCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
*
33687256 GTAATCGCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
66 GTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
*
33687320 CCTGATACGATCTACTCTGCTGTAACTGT-AGAGAGATAAGA-CCTTTTATTTTAATCCGCTCCA
1 CCTGATACGATCTACTCTACTGTAACT-TCAGAGAGATAAGATCC-TTTATTTTAATCCGCTCCA
33687383 CTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAG
64 CTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAG
33687448 A
129 A
*
33687449 CCTGATACGATCTACTCTGCTGTAACTGT-AGAGAGATAAGA-CCTTTTATTTTAATCCGCTCCA
1 CCTGATACGATCTACTCTACTGTAACT-TCAGAGAGATAAGATCC-TTTATTTTAATCCGCTCCA
33687512 CTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAG
64 CTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAG
33687577 A
129 A
*
33687578 CCTGATACGATCTACTCTGCTGTAACTGT-AGAGAGATAAGA-CCTTTTATTTTAATCCGCTCCA
1 CCTGATACGATCTACTCTACTGTAACT-TCAGAGAGATAAGATCC-TTTATTTTAATCCGCTCCA
*
33687641 CTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAG
64 CTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAG
33687706 A
129 A
*
33687707 CCTGATACGATCTACTCTGCTGTAACTGT-AGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
1 CCTGATACGATCTACTCTACTGTAACT-TCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
*
33687771 TGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGA
65 TGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
* *
33687836 CCTGATACGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACT
1 CCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
* *
33687901 GTAATCTCAGAGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATGTCAGGGAGATAAGA
66 GTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
* *
33687965 TCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAATATCCTTTATTTTAA-CCTGCTCCAC
1 CCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC-GCTCCAC
*
33688029 TGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGA
65 TGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
* *
33688094 CCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAGTCCTCTCCACT
1 CCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
* *
33688159 GTAATCTTAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGAGAGATAAGA
66 GTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
*
33688223 TCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
1 CCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
* *
33688288 GTAATCTTAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGAGAGATAAGA
66 GTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
*
33688352 TCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
1 CCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
* * *
33688417 GTAATCTCGGGGATATAGGATTACTATCTTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
66 GTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
* * * *
33688481 CTTGATACGATCAACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAGTCCTCTCCACT
1 CCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
*
33688546 GTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGA
66 GTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
*
33688610 TCTGA
1 CCTGA
33688615 AATTCTTCGG
Statistics
Matches: 1998, Mismatches: 61, Indels: 18
0.96 0.03 0.01
Matches are distributed among these distances:
128 127 0.06
129 1866 0.93
130 5 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (129 bp):
CCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
GTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
Found at i:33689866 original size:7 final size:7
Alignment explanation
Indices: 33689854--33689892 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
33689844 TTAGCCTCTC
33689854 CATTTTT
1 CATTTTT
33689861 CATTTTT
1 CATTTTT
33689868 CATTTTT
1 CATTTTT
*
33689875 CA-TTCT
1 CATTTTT
33689881 CATTTTT
1 CATTTTT
33689888 CATTT
1 CATTT
33689893 ATTTTTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (7 bp):
CATTTTT
Found at i:33689883 original size:13 final size:13
Alignment explanation
Indices: 33689854--33689891 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
33689844 TTAGCCTCTC
*
33689854 CATTTTTCATTTTT
1 CATTTTTCA-TTCT
33689868 CATTTTTCATTCT
1 CATTTTTCATTCT
33689881 CATTTTTCATT
1 CATTTTTCATT
33689892 TATTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (13 bp):
CATTTTTCATTCT
Found at i:33690898 original size:22 final size:23
Alignment explanation
Indices: 33690853--33690921 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 23
33690843 ATCTTGATTT
* *
33690853 TGATTTTTCTTCTTTCTTCTTTTTG
1 TGATTTTT-TTCATT-TTCATTTTG
* * *
33690878 T-TTTTTTTTTATTTTGATTTT-
1 TGATTTTTTTCATTTTCATTTTG
33690899 TGATTTTTTTCATTTTCATTTTG
1 TGATTTTTTTCATTTTCATTTTG
33690922 ACTTTGATTT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
21 1 0.03
22 23 0.68
23 4 0.12
24 5 0.15
25 1 0.03
ACGTcount: A:0.09, C:0.09, G:0.07, T:0.75
Consensus pattern (23 bp):
TGATTTTTTTCATTTTCATTTTG
Found at i:33692750 original size:91 final size:91
Alignment explanation
Indices: 33692595--33692774 Score: 324
Period size: 91 Copynumber: 2.0 Consensus size: 91
33692585 TGGTAGTCGG
* * *
33692595 TTGAACTGGCTCATCAAGGTTCTCTGTAATTCTAGCATCTGATCTCTCATCTCTTGTTGAAATTC
1 TTGAACTGGCTCATCAAGGTTCTCTGTAATTCTAGCACCTGATCTCTCATCTCCTATTGAAATTC
*
33692660 AGTCAATTGCTCTCGCATTTGAATCT
66 AGTCAATTGCTCTCGCATCTGAATCT
33692686 TTGAACTGGCTCATCAAGGTTCTCTGTAATTCTAGCACCTGATCTCTCATCTCCTATTGAAATTC
1 TTGAACTGGCTCATCAAGGTTCTCTGTAATTCTAGCACCTGATCTCTCATCTCCTATTGAAATTC
33692751 AGTCAATTGCTCTCGCATCTGAAT
66 AGTCAATTGCTCTCGCATCTGAAT
33692775 TTGCATTCGC
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 85 1.00
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (91 bp):
TTGAACTGGCTCATCAAGGTTCTCTGTAATTCTAGCACCTGATCTCTCATCTCCTATTGAAATTC
AGTCAATTGCTCTCGCATCTGAATCT
Found at i:33694836 original size:11 final size:12
Alignment explanation
Indices: 33694812--33694841 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
33694802 ATATTTGATT
33694812 ATAATATCAATA
1 ATAATATCAATA
33694824 ATAATAT-AATA
1 ATAATATCAATA
33694835 ATAATAT
1 ATAATAT
33694842 TATTAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (12 bp):
ATAATATCAATA
Found at i:33694848 original size:23 final size:23
Alignment explanation
Indices: 33694812--33694861 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
33694802 ATATTTGATT
*
33694812 ATAATATCAATAA-TAATATAATA
1 ATAATATCAATAATTAAT-TAAAA
* *
33694835 ATAATATTATTAATTAATTAAAA
1 ATAATATCAATAATTAATTAAAA
33694858 ATAA
1 ATAA
33694862 AATAGCAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAATATCAATAATTAATTAAAA
Found at i:33695890 original size:24 final size:25
Alignment explanation
Indices: 33695863--33695913 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
33695853 CTAGGGTTTG
33695863 TGTTTAGTTTTAGGCTG-TTGGGTT
1 TGTTTAGTTTTAGGCTGTTTGGGTT
*
33695887 TGTTTAGTTTTGGGCTGTTTGGGTT
1 TGTTTAGTTTTAGGCTGTTTGGGTT
33695912 TG
1 TG
33695914 GGCCTGCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.06, C:0.04, G:0.35, T:0.55
Consensus pattern (25 bp):
TGTTTAGTTTTAGGCTGTTTGGGTT
Found at i:33696298 original size:51 final size:52
Alignment explanation
Indices: 33696229--33696380 Score: 207
Period size: 51 Copynumber: 2.9 Consensus size: 52
33696219 GTATTTGTAT
*
33696229 ATGATGCCATAGTCCCAAATTAGGTCATACACTATATGGTCTTCTTGTCCCC
1 ATGATGCCATAGTCCCAAATTAGGTCTTACACTATATGGTCTTCTTGTCCCC
* * * * *
33696281 -TGATGCCACAGTACCAAACTAGGTCTTAAACTATATGGTCTTCTTATCCCC
1 ATGATGCCATAGTCCCAAATTAGGTCTTACACTATATGGTCTTCTTGTCCCC
* *
33696332 ATATGATGCCATAGTCCCAAATTAGGTCTTACACTATATGATATTCTTG
1 --ATGATGCCATAGTCCCAAATTAGGTCTTACACTATATGGTCTTCTTG
33696381 CCATGGCCAT
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
51 45 0.54
54 39 0.46
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (52 bp):
ATGATGCCATAGTCCCAAATTAGGTCTTACACTATATGGTCTTCTTGTCCCC
Found at i:33696361 original size:54 final size:54
Alignment explanation
Indices: 33696160--33696371 Score: 234
Period size: 54 Copynumber: 4.0 Consensus size: 54
33696150 ATCATCCTTT
* * * *
33696160 GTCTTCTT-TCCCCACATGATGCCATAGTTCCAAACTAGGACTTACACTATGTG
1 GTCTTCTTATCCCCATATGATGCCATAGTCCCAAACTAGGTCTTACACTATATG
* * * **** * *
33696213 ATTTTCGTATTTGTATATGATGCCATAGTCCCAAATTAGGTCATACACTATATG
1 GTCTTCTTATCCCCATATGATGCCATAGTCCCAAACTAGGTCTTACACTATATG
* * * *
33696267 GTCTTCTTGTCCCC---TGATGCCACAGTACCAAACTAGGTCTTAAACTATATG
1 GTCTTCTTATCCCCATATGATGCCATAGTCCCAAACTAGGTCTTACACTATATG
*
33696318 GTCTTCTTATCCCCATATGATGCCATAGTCCCAAATTAGGTCTTACACTATATG
1 GTCTTCTTATCCCCATATGATGCCATAGTCCCAAACTAGGTCTTACACTATATG
33696372 ATATTCTTGC
Statistics
Matches: 124, Mismatches: 31, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
51 45 0.36
53 5 0.04
54 74 0.60
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (54 bp):
GTCTTCTTATCCCCATATGATGCCATAGTCCCAAACTAGGTCTTACACTATATG
Found at i:33700443 original size:27 final size:23
Alignment explanation
Indices: 33700389--33700433 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
33700379 TGCTAAAACA
33700389 TGTAGGTTGTGGATAAACCACCT
1 TGTAGGTTGTGGATAAACCACCT
*
33700412 TGTAGGTTGTGGCTAAACCACC
1 TGTAGGTTGTGGATAAACCACC
33700434 AAATTTGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (23 bp):
TGTAGGTTGTGGATAAACCACCT
Found at i:33701171 original size:20 final size:20
Alignment explanation
Indices: 33701146--33701185 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
33701136 CGGAAAATGA
*
33701146 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
33701166 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
33701186 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:33705141 original size:20 final size:22
Alignment explanation
Indices: 33705103--33705143 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
33705093 ATGTGAATAG
33705103 ATTTGAGAAAAAGATGTTACAA
1 ATTTGAGAAAAAGATGTTACAA
*
33705125 ATTTGA-AAAAGGA-GTTACA
1 ATTTGAGAAAAAGATGTTACA
33705144 TCCATGCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 6 0.33
22 6 0.33
ACGTcount: A:0.49, C:0.05, G:0.20, T:0.27
Consensus pattern (22 bp):
ATTTGAGAAAAAGATGTTACAA
Found at i:33706386 original size:30 final size:30
Alignment explanation
Indices: 33706347--33706454 Score: 144
Period size: 30 Copynumber: 3.6 Consensus size: 30
33706337 CACTTGCTTG
* *
33706347 ATCAATAGATAGCCACAAAGGCATCCATAC
1 ATCATTAGATAGCCACAAAGGCATCCACAC
*
33706377 ATCATTAGATAGCCATAAAGGCATCCACAC
1 ATCATTAGATAGCCACAAAGGCATCCACAC
* * * *
33706407 ATTATTAAATAGCCATAAAGGCGTCCACAC
1 ATCATTAGATAGCCACAAAGGCATCCACAC
*
33706437 ATCATTAGGTAGCCACAA
1 ATCATTAGATAGCCACAA
33706455 TAGCATCTAT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 68 1.00
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (30 bp):
ATCATTAGATAGCCACAAAGGCATCCACAC
Found at i:33706499 original size:30 final size:30
Alignment explanation
Indices: 33706465--33706537 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
33706455 TAGCATCTAT
*
33706465 CCATAAAGGCATCCACACATTATTAAATAG
1 CCATAAAGGCATCCACACATCATTAAATAG
**
33706495 CCATAAAGGCATCCACACATCATTAGGTAG
1 CCATAAAGGCATCCACACATCATTAAATAG
* *
33706525 CCACAAAAGCATC
1 CCATAAAGGCATC
33706538 TAGATTCATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.41, C:0.27, G:0.12, T:0.19
Consensus pattern (30 bp):
CCATAAAGGCATCCACACATCATTAAATAG
Found at i:33706515 original size:76 final size:76
Alignment explanation
Indices: 33706389--33706539 Score: 284
Period size: 76 Copynumber: 2.0 Consensus size: 76
33706379 CATTAGATAG
*
33706389 CCATAAAGGCATCCACACATTATTAAATAGCCATAAAGGCGTCCACACATCATTAGGTAGCCACA
1 CCATAAAGGCATCCACACATTATTAAATAGCCATAAAGGCATCCACACATCATTAGGTAGCCACA
*
33706454 ATAGCATCTAT
66 AAAGCATCTAT
33706465 CCATAAAGGCATCCACACATTATTAAATAGCCATAAAGGCATCCACACATCATTAGGTAGCCACA
1 CCATAAAGGCATCCACACATTATTAAATAGCCATAAAGGCATCCACACATCATTAGGTAGCCACA
33706530 AAAGCATCTA
66 AAAGCATCTA
33706540 GATTCATACA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.40, C:0.26, G:0.13, T:0.21
Consensus pattern (76 bp):
CCATAAAGGCATCCACACATTATTAAATAGCCATAAAGGCATCCACACATCATTAGGTAGCCACA
AAAGCATCTAT
Found at i:33706650 original size:61 final size:61
Alignment explanation
Indices: 33706558--33706701 Score: 189
Period size: 61 Copynumber: 2.4 Consensus size: 61
33706548 CAATAGACTT
* * * * * *
33706558 CACCACGAAGGCTCGCATGTATCAGAGAATAGCCACAAAGGCTTCCACATATAACAGGTTC
1 CACCACTAAGGCTCACATATAACAGAAAATAGCCACAAAGGCTTCCACATATAACAGATTC
** * *
33706619 TGCCACTAAGGCTCACATATAACAGAAAATAGCCGCAAAGGCTTCCACATATAATAGATTC
1 CACCACTAAGGCTCACATATAACAGAAAATAGCCACAAAGGCTTCCACATATAACAGATTC
*
33706680 CACCATTAAGGCTCACATATAA
1 CACCACTAAGGCTCACATATAA
33706702 TAAAGAACAA
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 70 1.00
ACGTcount: A:0.38, C:0.26, G:0.16, T:0.20
Consensus pattern (61 bp):
CACCACTAAGGCTCACATATAACAGAAAATAGCCACAAAGGCTTCCACATATAACAGATTC
Found at i:33706724 original size:61 final size:61
Alignment explanation
Indices: 33706598--33706731 Score: 153
Period size: 61 Copynumber: 2.2 Consensus size: 61
33706588 AGCCACAAAG
* ** * * ** *
33706598 GCTTCCACATATAACAGGTTCTGCCACTAAGGCTCACATATAACAGAAAATAGCCGCAAAG
1 GCTTCCACATATAACAGATTCCACCACTAAGGCTCACATATAACAGAAAACAACCAAAAAA
* * *
33706659 GCTTCCACATATAATAGATTCCACCATTAAGGCTCACATATAATA-AAGAACAACCAAAAAA
1 GCTTCCACATATAACAGATTCCACCACTAAGGCTCACATATAACAGAA-AACAACCAAAAAA
33706720 GCTTCCACATAT
1 GCTTCCACATAT
33706732 CGAAGAATAC
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 2 0.03
61 59 0.97
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.22
Consensus pattern (61 bp):
GCTTCCACATATAACAGATTCCACCACTAAGGCTCACATATAACAGAAAACAACCAAAAAA
Found at i:33708628 original size:25 final size:25
Alignment explanation
Indices: 33708560--33708616 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
33708550 CGGATACTCC
* *
33708560 ACAGCTCATGAAAGCATACTGATTT
1 ACAGCTCATGAGAGCATACTGATCT
*
33708585 ATAGCTCATGAGAGCATACTGATCT
1 ACAGCTCATGAGAGCATACTGATCT
33708610 ACAGCTC
1 ACAGCTC
33708617 GAGCGAGCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (25 bp):
ACAGCTCATGAGAGCATACTGATCT
Found at i:33718037 original size:54 final size:54
Alignment explanation
Indices: 33717955--33718058 Score: 199
Period size: 54 Copynumber: 1.9 Consensus size: 54
33717945 CATGTTCACA
*
33717955 CATATGATGCCATAGTCGCAAACTAGGTCTTACACTATATGGTCTTCTTGTCCC
1 CATATGATGCCATAGTCCCAAACTAGGTCTTACACTATATGGTCTTCTTGTCCC
33718009 CATATGATGCCATAGTCCCAAACTAGGTCTTACACTATATGGTCTTCTTG
1 CATATGATGCCATAGTCCCAAACTAGGTCTTACACTATATGGTCTTCTTG
33718059 CCATGCCCAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (54 bp):
CATATGATGCCATAGTCCCAAACTAGGTCTTACACTATATGGTCTTCTTGTCCC
Found at i:33729414 original size:17 final size:16
Alignment explanation
Indices: 33729391--33729434 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
33729381 ATTGCAACAT
33729391 CATTTTTTTTAATTCA
1 CATTTTTTTTAATTCA
*
33729407 CGATTTTTTTCAATTCA
1 C-ATTTTTTTTAATTCA
33729424 C-TTTTTTTTAA
1 CATTTTTTTTAA
33729435 ATTTCGTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 9 0.36
16 1 0.04
17 15 0.60
ACGTcount: A:0.23, C:0.14, G:0.02, T:0.61
Consensus pattern (16 bp):
CATTTTTTTTAATTCA
Found at i:33729415 original size:15 final size:16
Alignment explanation
Indices: 33729394--33729434 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
33729384 GCAACATCAT
33729394 TTTTTTTAATTCACGA
1 TTTTTTTAATTCACGA
*
33729410 TTTTTTTCAATTCAC-T
1 TTTTTTT-AATTCACGA
33729426 TTTTTTTAA
1 TTTTTTTAA
33729435 ATTTCGTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 2 0.09
16 14 0.61
17 7 0.30
ACGTcount: A:0.22, C:0.12, G:0.02, T:0.63
Consensus pattern (16 bp):
TTTTTTTAATTCACGA
Found at i:33734601 original size:29 final size:29
Alignment explanation
Indices: 33734567--33734639 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
33734557 ATGTATTAGT
* *
33734567 TTAGGACATATTTAAAACACTTGAACTAA
1 TTAGGACATATTTAAAACACCTAAACTAA
33734596 TTAGGACATATTTAAAACACCTAAACTAA
1 TTAGGACATATTTAAAACACCTAAACTAA
33734625 TTAGGACATATTTAA
1 TTAGGACATATTTAA
33734640 TAATATCTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.32
Consensus pattern (29 bp):
TTAGGACATATTTAAAACACCTAAACTAA
Found at i:33735759 original size:28 final size:28
Alignment explanation
Indices: 33735727--33735800 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 28
33735717 AGTACAATGA
*
33735727 GGGCCTTAGCCCAATTCAGTAGCAGTGC
1 GGGCCTTAGCCCAATACAGTAGCAGTGC
* *
33735755 GGGCCTTAGCCCAATACAGTATCAGTGT
1 GGGCCTTAGCCCAATACAGTAGCAGTGC
33735783 GGGCCTTAGCCCAATACA
1 GGGCCTTAGCCCAATACA
33735801 ATAACATTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.22
Consensus pattern (28 bp):
GGGCCTTAGCCCAATACAGTAGCAGTGC
Found at i:33735922 original size:26 final size:26
Alignment explanation
Indices: 33735892--33735942 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
33735882 ACACACCAAT
* *
33735892 ATCGCAGTAAAACTGCTAGTAATAGA
1 ATCGCAGCAAAACTGCCAGTAATAGA
*
33735918 ATCGCAGCAAAGCTGCCAGTAATAG
1 ATCGCAGCAAAACTGCCAGTAATAG
33735943 TAAACGTGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.20
Consensus pattern (26 bp):
ATCGCAGCAAAACTGCCAGTAATAGA
Found at i:33736135 original size:27 final size:26
Alignment explanation
Indices: 33736105--33736458 Score: 284
Period size: 27 Copynumber: 13.1 Consensus size: 26
33736095 ATAAAAATCG
*
33736105 TTTTACCCTATGGAGGTATTTCGGTCA
1 TTTTACCCT-TGGAGGTATTTCAGTCA
* *
33736132 TTTTACCCTTCGGGGGTATTT-TGATCA
1 TTTTACCCTT-GGAGGTATTTCAG-TCA
* * *
33736159 TTTTACCCTTCGGGGGTATTTCGGTCG
1 TTTTACCCTT-GGAGGTATTTCAGTCA
*
33736186 TTTTACCATTCAGG-GGTATTTCAGTCA
1 TTTTACCCTT--GGAGGTATTTCAGTCA
* * *
33736213 TTTTAGCCTTTGGGGGTATTTTAGTCA
1 TTTTA-CCCTTGGAGGTATTTCAGTCA
* *
33736240 TTTTAGCCTTTGAGGGTATTTCAGTCA
1 TTTTACCCTTGGA-GGTATTTCAGTCA
**
33736267 TTTTACCCTTCAGG-GGTATTTTGGTCA
1 TTTTACCCTT--GGAGGTATTTCAGTCA
*
33736294 TTTTACCCTTTGAGGGTATTTCAGTCA
1 TTTTACCCTTGGA-GGTATTTCAGTCA
* * *
33736321 TTTTATCCTT-CATGGGTATTTTAGTCA
1 TTTTACCCTTGGA--GGTATTTCAGTCA
* **
33736348 TTTTACCCTTCGAGGGTATTTTGGTCA
1 TTTTACCCTTGGA-GGTATTTCAGTCA
**
33736375 TTTTACCCTTCTAGGGTATTTCAGTCA
1 TTTTACCCTTGGA-GGTATTTCAGTCA
** *
33736402 TTTTACCCTTCAAGGGTATTTCGGTCA
1 TTTTACCCTTGGA-GGTATTTCAGTCA
*
33736429 TTTTACCCTTCGAGGGTATTTCAGTCA
1 TTTTACCCTTGGA-GGTATTTCAGTCA
33736456 TTT
1 TTT
33736459 GTCCATAACT
Statistics
Matches: 279, Mismatches: 35, Indels: 26
0.82 0.10 0.08
Matches are distributed among these distances:
25 1 0.00
26 9 0.03
27 260 0.93
28 8 0.03
29 1 0.00
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.44
Consensus pattern (26 bp):
TTTTACCCTTGGAGGTATTTCAGTCA
Found at i:33736163 original size:54 final size:53
Alignment explanation
Indices: 33736105--33736458 Score: 356
Period size: 54 Copynumber: 6.5 Consensus size: 53
33736095 ATAAAAATCG
* * *
33736105 TTTTACCCTATGGAGGTATTTCGGTCATTTTACCCTTCGGGGGTATTT-TGATCA
1 TTTTACCCT-TGGAGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAG-TCA
* * * *
33736159 TTTTACCCTTCGGGGGTATTTCGGTCGTTTTACCATTC-AGGGGTATTTCAGTCA
1 TTTTACCCTT-GGAGGTATTTCAGTCATTTTACCCTTCGA-GGGTATTTCAGTCA
* * * * *
33736213 TTTTAGCCTTTGGGGGTATTTTAGTCATTTTAGCCTTTGAGGGTATTTCAGTCA
1 TTTTA-CCCTTGGAGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAGTCA
** *
33736267 TTTTACCCTTCAGG-GGTATTTTGGTCATTTTACCCTTTGAGGGTATTTCAGTCA
1 TTTTACCCTT--GGAGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAGTCA
* * * **
33736321 TTTTATCCTT-CATGGGTATTTTAGTCATTTTACCCTTCGAGGGTATTTTGGTCA
1 TTTTACCCTTGGA--GGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAGTCA
** * *
33736375 TTTTACCCTTCTAGGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCGGTCA
1 TTTTACCCTTGGA-GGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAGTCA
*
33736429 TTTTACCCTTCGAGGGTATTTCAGTCATTT
1 TTTTACCCTTGGA-GGTATTTCAGTCATTT
33736459 GTCCATAACT
Statistics
Matches: 262, Mismatches: 27, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
53 5 0.02
54 248 0.95
55 9 0.03
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.44
Consensus pattern (53 bp):
TTTTACCCTTGGAGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAGTCA
Found at i:33736213 original size:81 final size:81
Alignment explanation
Indices: 33736105--33736458 Score: 419
Period size: 81 Copynumber: 4.4 Consensus size: 81
33736095 ATAAAAATCG
* * *
33736105 TTTTACCCTATGGA-GGTATTTCGGTCATTTTACCCTTCGGGGGTATTT-TGATCATTTTACCCT
1 TTTTACCCT-TCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCAG-TCATTTTACCCT
** * *
33736168 TCGGGGGTATTTCGGTCG
64 TCAAGGGTATTTCAGTCA
* * * * * * *
33736186 TTTTACCATTC-AGGGGTATTTCAGTCATTTTAGCCTTTGGGGGTATTTTAGTCATTTTAGCCTT
1 TTTTACCCTTCGA-GGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTT
**
33736250 TGAGGGTATTTCAGTCA
65 CAAGGGTATTTCAGTCA
* * *
33736267 TTTTACCCTTC-AGGGGTATTTTGGTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTATCCTT
1 TTTTACCCTTCGA-GGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTT
* *
33736331 CATGGGTATTTTAGTCA
65 CAAGGGTATTTCAGTCA
* *
33736348 TTTTACCCTTCGAGGGTATTTTGGTCATTTTACCCTTCTAGGGTATTTCAGTCATTTTACCCTTC
1 TTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTC
*
33736413 AAGGGTATTTCGGTCA
66 AAGGGTATTTCAGTCA
*
33736429 TTTTACCCTTCGAGGGTATTTCAGTCATTT
1 TTTTACCCTTCGAGGGTATTTCGGTCATTT
33736459 GTCCATAACT
Statistics
Matches: 239, Mismatches: 30, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
79 1 0.00
80 1 0.00
81 235 0.98
82 2 0.01
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.44
Consensus pattern (81 bp):
TTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTC
AAGGGTATTTCAGTCA
Found at i:33741878 original size:13 final size:13
Alignment explanation
Indices: 33741860--33741886 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33741850 TTTCCAGAAA
33741860 TTATGAATTTATT
1 TTATGAATTTATT
33741873 TTATGAATTTATT
1 TTATGAATTTATT
33741886 T
1 T
33741887 AATGTTGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:33742086 original size:49 final size:49
Alignment explanation
Indices: 33741985--33742219 Score: 245
Period size: 50 Copynumber: 4.7 Consensus size: 49
33741975 ATTTGGGCAA
* * *
33741985 AGAGGTCCCATGTAAGGCCATGTCTAGGACATGGCGTTGGCATCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCACCGAGATG
* * *
33742035 AGAGGTCCCATGTAAGACCATATCTGGGCATGACGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGACATGGCGTTGGCACCGAGATG
* * * *
33742084 AGAGGTCCCATGTAAGACCATGTTTGAGAAATGGCGTTGGTACCGAAATG
1 AGAGGTCCCATGTAAGACCATGTCTG-GACATGGCGTTGGCACCGAGATG
** * * * *
33742134 AGAGGTCCCCCGTAAGACTATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCACCGAGATG
** * *
33742184 AGAACATCACATGTAAGACCATGTCTAGGATATGGC
1 AG-AGGTCCCATGTAAGACCATGTCT-GGACATGGC
33742220 TTTCGCATGT
Statistics
Matches: 152, Mismatches: 30, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
49 44 0.29
50 82 0.54
51 26 0.17
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (49 bp):
AGAGGTCCCATGTAAGACCATGTCTGGACATGGCGTTGGCACCGAGATG
Found at i:33742118 original size:99 final size:100
Alignment explanation
Indices: 33741985--33742219 Score: 269
Period size: 99 Copynumber: 2.4 Consensus size: 100
33741975 ATTTGGGCAA
* * * *
33741985 AGAGGTCCCATGTAAGGCCATGTCTAGGACATGGCGTTGGCATC-AAGATGAGAGGTCCCATGTA
1 AGAGGTCCCATGTAAGACCATGTCTAGGAAATGGCGTTGGCACCGAA-ATGAGAGGTCCCACGTA
* *
33742049 AGACCATATCTGGG-CATGACGTTGGCACCGAGATG
65 AGACCATATCTGGGACATGACATGGGCACCGAGATG
* * *
33742084 AGAGGTCCCATGTAAGACCATGT-TTGAGAAATGGCGTTGGTACCGAAATGAGAGGTCCCCCGTA
1 AGAGGTCCCATGTAAGACCATGTCTAG-GAAATGGCGTTGGCACCGAAATGAGAGGTCCCACGTA
* * * *
33742148 AGACTATGTCTGGGACATGGCATGGGCACCGATATG
65 AGACCATATCTGGGACATGACATGGGCACCGAGATG
** * *
33742184 AGAACATCACATGTAAGACCATGTCTAGGATATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTAGGAAATGGC
33742220 TTTCGCATGT
Statistics
Matches: 113, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
98 2 0.02
99 63 0.56
100 21 0.19
101 25 0.22
102 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (100 bp):
AGAGGTCCCATGTAAGACCATGTCTAGGAAATGGCGTTGGCACCGAAATGAGAGGTCCCACGTAA
GACCATATCTGGGACATGACATGGGCACCGAGATG
Found at i:33745637 original size:19 final size:19
Alignment explanation
Indices: 33745613--33745659 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
33745603 GTTGAAGTTG
33745613 TTGTAAAAATCATTAAAAA
1 TTGTAAAAATCATTAAAAA
33745632 TTGTAAAAATCATTAAAAA
1 TTGTAAAAATCATTAAAAA
33745651 TTGTAAAAA
1 TTGTAAAAA
33745660 AATGGTTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.32
Consensus pattern (19 bp):
TTGTAAAAATCATTAAAAA
Found at i:33746923 original size:18 final size:19
Alignment explanation
Indices: 33746900--33746945 Score: 85
Period size: 18 Copynumber: 2.5 Consensus size: 19
33746890 GTTGAAGTTG
33746900 TTGTAAAAATCATT-AAAA
1 TTGTAAAAATCATTAAAAA
33746918 TTGTAAAAATCATTAAAAA
1 TTGTAAAAATCATTAAAAA
33746937 TTGTAAAAA
1 TTGTAAAAA
33746946 AAATGGTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.33
Consensus pattern (19 bp):
TTGTAAAAATCATTAAAAA
Found at i:33750652 original size:21 final size:21
Alignment explanation
Indices: 33750627--33750669 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
33750617 GTTGTTGAGA
*
33750627 AGGAAGTTGTTGCTGCAGAAG
1 AGGAAGTTGTTGCTGAAGAAG
*
33750648 AGGAAGTTGTTGTTGAAGAAG
1 AGGAAGTTGTTGCTGAAGAAG
33750669 A
1 A
33750670 ATAAGTTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.37, T:0.26
Consensus pattern (21 bp):
AGGAAGTTGTTGCTGAAGAAG
Found at i:33750665 original size:18 final size:18
Alignment explanation
Indices: 33750616--33750666 Score: 50
Period size: 21 Copynumber: 2.7 Consensus size: 18
33750606 GTAGCTATAC
33750616 TGTTGTTG-AGAAGGAAGT
1 TGTTGTTGAAG-AGGAAGT
*
33750634 TGTTGCTGCAGAAGAGGAAGT
1 TGTTG-T--TGAAGAGGAAGT
33750655 TGTTGTTGAAGA
1 TGTTGTTGAAGA
33750667 AGAATAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
18 10 0.37
19 1 0.04
20 1 0.04
21 13 0.48
22 2 0.07
ACGTcount: A:0.27, C:0.04, G:0.37, T:0.31
Consensus pattern (18 bp):
TGTTGTTGAAGAGGAAGT
Found at i:33750675 original size:21 final size:21
Alignment explanation
Indices: 33750624--33750676 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
33750614 ACTGTTGTTG
*
33750624 AGAAGGAAGTTGTTGCTGCAGA
1 AGAA-GAAGTTGTTGCTGAAGA
* *
33750646 AGAGGAAGTTGTTGTTGAAGA
1 AGAAGAAGTTGTTGCTGAAGA
*
33750667 AGAATAAGTT
1 AGAAGAAGTT
33750677 ACTGAAAATG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.36, C:0.04, G:0.34, T:0.26
Consensus pattern (21 bp):
AGAAGAAGTTGTTGCTGAAGA
Found at i:33768351 original size:12 final size:12
Alignment explanation
Indices: 33768334--33768359 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33768324 ACAGAGATCC
33768334 AATTACACATTG
1 AATTACACATTG
33768346 AATTACACATTG
1 AATTACACATTG
33768358 AA
1 AA
33768360 ATTAGATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (12 bp):
AATTACACATTG
Found at i:33772365 original size:23 final size:23
Alignment explanation
Indices: 33772339--33772391 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
33772329 ATAAGTGCCA
33772339 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
33772362 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
33772385 CACTGAT
1 CACTGAT
33772392 CAATAACACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:33775055 original size:49 final size:47
Alignment explanation
Indices: 33775000--33775125 Score: 146
Period size: 49 Copynumber: 2.6 Consensus size: 47
33774990 GTTTTCACAT
* *
33775000 TGCCATAGTCCAACTATGGTCTTACATGTAATCACATATCACATACCGA
1 TGCCATAGTCCAACTATGGTCTTACACGGAATCACATATCACA-A-CGA
* * * *
33775049 TGCCATAGCCCAGCTATGGTCTTTCACGGAATCACATATCACAATGA
1 TGCCATAGTCCAACTATGGTCTTACACGGAATCACATATCACAACGA
* *
33775096 TGCCATATTCTAGA-TATGGTCTTACACGGA
1 TGCCATAGTCCA-ACTATGGTCTTACACGGA
33775126 GATTTCATAA
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
47 26 0.40
48 1 0.02
49 38 0.58
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (47 bp):
TGCCATAGTCCAACTATGGTCTTACACGGAATCACATATCACAACGA
Found at i:33778822 original size:27 final size:27
Alignment explanation
Indices: 33778791--33778942 Score: 189
Period size: 27 Copynumber: 5.6 Consensus size: 27
33778781 TAAATTGTAC
33778791 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33778818 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33778844 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33778872 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
33778900 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
33778927 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
33778943 GTTAAATTAA
Statistics
Matches: 107, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
27 84 0.79
28 23 0.21
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33778905 original size:82 final size:81
Alignment explanation
Indices: 33778792--33778942 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
33778782 AAATTGTACA
* *
33778792 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
33778856 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33778873 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
33778938 TGCGA
65 TGCGA
33778943 GTTAAATTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.24
82 47 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33778932 original size:55 final size:54
Alignment explanation
Indices: 33778791--33778945 Score: 195
Period size: 55 Copynumber: 2.9 Consensus size: 54
33778781 TAAATTGTAC
* **
33778791 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGA-AATGAATATG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTTGAATATG
* * ** *
33778844 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG
1 A-GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTTGAATATG
* *
33778899 TAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTT
1 -AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTT
33778946 AAATTAACCA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 1 0.01
54 38 0.44
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTTGAATATG
Found at i:33780106 original size:38 final size:37
Alignment explanation
Indices: 33780025--33780106 Score: 94
Period size: 38 Copynumber: 2.2 Consensus size: 37
33780015 AATTCTACTT
* * *
33780025 TTTCATAATTTCACTTTTTCACTTTTAATCACTATTCA
1 TTTCA-AAATTCACTTTTCCACTTTTAATCAATATTCA
*
33780063 ATTCAAAATTCACTTTTCCA-TTTTCAAGTCAATATTCA
1 TTTCAAAATTCACTTTTCCACTTTT-AA-TCAATATTCA
33780101 TTTCAA
1 TTTCAA
33780107 TTCCACACAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
36 4 0.11
37 15 0.41
38 18 0.49
ACGTcount: A:0.30, C:0.21, G:0.01, T:0.48
Consensus pattern (37 bp):
TTTCAAAATTCACTTTTCCACTTTTAATCAATATTCA
Found at i:33780547 original size:99 final size:99
Alignment explanation
Indices: 33780415--33780611 Score: 367
Period size: 99 Copynumber: 2.0 Consensus size: 99
33780405 CACGCACTAT
*
33780415 TAGGTCCTTGTAGATTAGCCTATCACATTTCAAAAATGTCACATATAAGTCCTTTTGACTAAATT
1 TAGGTCCTTGTAGATTAGCCTATCACATTTCAAAAATGTCACACATAAGTCCTTTTGACTAAATT
*
33780480 CTCATGCAATTTACTAAATCGAAGCCTAAAACTG
66 CACATGCAATTTACTAAATCGAAGCCTAAAACTG
*
33780514 TAGGTCCTTGTAGATTAGCCTATCACATTTCAAAAATGTCACCCATAAGTCCTTTTGACTAAATT
1 TAGGTCCTTGTAGATTAGCCTATCACATTTCAAAAATGTCACACATAAGTCCTTTTGACTAAATT
33780579 CACATGCAATTTACTAAATCGAAGCCTAAAACT
66 CACATGCAATTTACTAAATCGAAGCCTAAAACT
33780612 TTCACACCTT
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 95 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (99 bp):
TAGGTCCTTGTAGATTAGCCTATCACATTTCAAAAATGTCACACATAAGTCCTTTTGACTAAATT
CACATGCAATTTACTAAATCGAAGCCTAAAACTG
Found at i:33782186 original size:18 final size:18
Alignment explanation
Indices: 33782162--33782204 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
33782152 AAACCTGTAA
33782162 AAAATAAATAC-ACTAAGT
1 AAAATAAA-ACTACTAAGT
*
33782180 TAAATAAAACTACTAAGT
1 AAAATAAAACTACTAAGT
33782198 AAAATAA
1 AAAATAA
33782205 TCGAACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.63, C:0.09, G:0.05, T:0.23
Consensus pattern (18 bp):
AAAATAAAACTACTAAGT
Found at i:33812030 original size:14 final size:16
Alignment explanation
Indices: 33812013--33812044 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33812003 TGCCCTTATT
33812013 TTTCTA-GA-TTGAAA
1 TTTCTATGATTTGAAA
33812027 TTTCTATGATTTGAAA
1 TTTCTATGATTTGAAA
33812043 TT
1 TT
33812045 AATTGAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 2 0.12
16 8 0.50
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.50
Consensus pattern (16 bp):
TTTCTATGATTTGAAA
Found at i:33813883 original size:15 final size:17
Alignment explanation
Indices: 33813863--33813899 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
33813853 AATTTGTCTT
33813863 ATTTTG-TTTAGTT-TA
1 ATTTTGATTTAGTTATA
*
33813878 ATTTTGATTTATTTATA
1 ATTTTGATTTAGTTATA
33813895 ATTTT
1 ATTTT
33813900 TCCATTAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 6 0.32
16 6 0.32
17 7 0.37
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (17 bp):
ATTTTGATTTAGTTATA
Found at i:33825978 original size:3 final size:3
Alignment explanation
Indices: 33825970--33826018 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
33825960 AGACTATGTA
33825970 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33826018 A
1 A
33826019 GGAAATAGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:33826838 original size:17 final size:17
Alignment explanation
Indices: 33826816--33826849 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33826806 GTAAAGGAGT
33826816 GAATTTTTCTAATGGAA
1 GAATTTTTCTAATGGAA
*
33826833 GAATTTTTGTAATGGAA
1 GAATTTTTCTAATGGAA
33826850 AAAGGTTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.21, T:0.41
Consensus pattern (17 bp):
GAATTTTTCTAATGGAA
Found at i:33830502 original size:148 final size:148
Alignment explanation
Indices: 33830325--33830643 Score: 381
Period size: 148 Copynumber: 2.2 Consensus size: 148
33830315 GTATAGCAGC
* * * * * *
33830325 ATCTTAATGGAATTCCATGTCCCTATTCATTTGCTCATACC-TCTGTTTTGCCATTTCTAACCTT
1 ATCTTAATGGAATTTCATGTCCCTATTCATCTGCCCATACCTTC-ATTTCGCCATTTCTAACATT
* * * * * * * *
33830389 GATACTCGAACACCGCAATGTCCCCTCCCTAAGGCCCAGAGCTTCACATATTATGGTTTGCACCC
65 GATACTCAAACACCACAATGACCCCTCCATAAGGCCCAGAGCTTCACACATCATGGTCTGCACAC
* *
33830454 AGCAATACCGTATGGTGGT
130 AGCAATACCGGATGGTGGA
* *
33830473 ATCTTAATGGAATTTCATGTCCCTATTCATCTGCCCATACCTTCATTTCGTCATTTCTAATATTG
1 ATCTTAATGGAATTTCATGTCCCTATTCATCTGCCCATACCTTCATTTCGCCATTTCTAACATTG
* * * *
33830538 ATGCTCAAACACCACAATGACCCCTCCATAAGGCCCGGAGCTTCGCACATCATGGTCTGCACATA
66 ATACTCAAACACCACAATGACCCCTCCATAAGGCCCAGAGCTTCACACATCATGGTCTGCACACA
*
33830603 GCAATACCGGATTGTGGA
131 GCAATACCGGATGGTGGA
* *
33830621 ATC-TAATGAAAATTTCATTTCCC
1 ATCTTAATG-GAATTTCATGTCCC
33830644 AAAGCATTCG
Statistics
Matches: 144, Mismatches: 25, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
147 5 0.03
148 137 0.95
149 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (148 bp):
ATCTTAATGGAATTTCATGTCCCTATTCATCTGCCCATACCTTCATTTCGCCATTTCTAACATTG
ATACTCAAACACCACAATGACCCCTCCATAAGGCCCAGAGCTTCACACATCATGGTCTGCACACA
GCAATACCGGATGGTGGA
Found at i:33832451 original size:60 final size:60
Alignment explanation
Indices: 33832380--33832716 Score: 329
Period size: 60 Copynumber: 5.6 Consensus size: 60
33832370 ACAAAGGTTT
** * * * * * * *
33832380 CCACAAAGGCTTAACTTTCTAGAGGTTTGCCACAAAAGCATCTTTTACATTTAGTACTCA
1 CCACAAAGGCTTTTCTGTCTAGAGTTTTGCCACAAAGGCATCATTTACATTCAATACTTA
* * * * *
33832440 CCACAAAGGCTTTTCTGTCCAGAGTTTGGCTACAAAGGCATCATTTACATTCAACACTTG
1 CCACAAAGGCTTTTCTGTCTAGAGTTTTGCCACAAAGGCATCATTTACATTCAATACTTA
* * * * * *
33832500 CCACAAAGGCTTTTCTGTCCAGTGTTTTGCCACGAAGGCATCCTTTACATTCAGTACTTG
1 CCACAAAGGCTTTTCTGTCTAGAGTTTTGCCACAAAGGCATCATTTACATTCAATACTTA
* * * * * *
33832560 CCACAAAGGCTTTCCTGTCAAGATTTTTTCCACAAAGGCATCATTTACATAC-ATCACTCA
1 CCACAAAGGCTTTTCTGTCTAGAGTTTTGCCACAAAGGCATCATTTACATTCAAT-ACTTA
* * * * * *
33832620 CCACAAAGACTTTCCTGTATAGAGTTTTGCCACAAATGTATTC-TTTACATTCAATACTTT
1 CCACAAAGGCTTTTCTGTCTAGAGTTTTGCCACAAAGGCA-TCATTTACATTCAATACTTA
*
33832680 CCACAAAGGC-TTTCTTGTCTAGAGTTTTTCCACAAAG
1 CCACAAAGGCTTTTC-TGTCTAGAGTTTTGCCACAAAG
33832717 ACTGTCCTTT
Statistics
Matches: 226, Mismatches: 47, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
59 4 0.02
60 218 0.96
61 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (60 bp):
CCACAAAGGCTTTTCTGTCTAGAGTTTTGCCACAAAGGCATCATTTACATTCAATACTTA
Found at i:33832595 original size:120 final size:120
Alignment explanation
Indices: 33832400--33832716 Score: 373
Period size: 120 Copynumber: 2.6 Consensus size: 120
33832390 TTAACTTTCT
* * * * * *
33832400 AGAGGTTTGCCACAAAAGCATCTTTTACATTTAGTACTCACCACAAAGGCTTTTCTGTCCAGAGT
1 AGAGTTTTGCCACAAAAGCATCCTTTACATTCAGTACTTACCACAAAGGCTTTCCTGTCAAGAGT
** * * ** * * *
33832465 TTGGCTACAAAGGCATCATTTACATTCAACACTTGCCACAAAGGCTTTTCTGTCC
66 TTTTCCACAAAGGCATCATTTACATACAACACTCACCACAAAGACTTTCCTGTAC
* * * * *
33832520 AGTGTTTTGCCACGAAGGCATCCTTTACATTCAGTACTTGCCACAAAGGCTTTCCTGTCAAGATT
1 AGAGTTTTGCCACAAAAGCATCCTTTACATTCAGTACTTACCACAAAGGCTTTCCTGTCAAGAGT
* *
33832585 TTTTCCACAAAGGCATCATTTACATACATCACTCACCACAAAGACTTTCCTGTAT
66 TTTTCCACAAAGGCATCATTTACATACAACACTCACCACAAAGACTTTCCTGTAC
* * * * * * *
33832640 AGAGTTTTGCCACAAATGTATTCTTTACATTCAATACTTTCCACAAAGGCTTTCTTGTCTAGAGT
1 AGAGTTTTGCCACAAAAGCATCCTTTACATTCAGTACTTACCACAAAGGCTTTCCTGTCAAGAGT
33832705 TTTTCCACAAAG
66 TTTTCCACAAAG
33832717 ACTGTCCTTT
Statistics
Matches: 165, Mismatches: 32, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
120 165 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (120 bp):
AGAGTTTTGCCACAAAAGCATCCTTTACATTCAGTACTTACCACAAAGGCTTTCCTGTCAAGAGT
TTTTCCACAAAGGCATCATTTACATACAACACTCACCACAAAGACTTTCCTGTAC
Found at i:33832919 original size:50 final size:51
Alignment explanation
Indices: 33832842--33832991 Score: 162
Period size: 50 Copynumber: 2.9 Consensus size: 51
33832832 TCAAACTTCC
* *
33832842 CCATATGATGTTAAAACCCACCAGTTATAATCTTACACGATATGGT-TT-TTT
1 CCATATGATG-TATAACCCACCAGTTATGATCTTACA-GATATGGTCTTCTTT
* *
33832893 -TATATGATGATATAACCCACCAGTTATGGTCTTACAGAATATGGTCTTCTTT
1 CCATATGATG-TATAACCCACCAGTTATGATCTTACAG-ATATGGTCTTCTTT
* * *
33832945 CCATATAATGTCATAACCCCCCAGTTACGATCTTACATGATATGGTC
1 CCATATGATGT-ATAACCCACCAGTTATGATCTTACA-GATATGGTC
33832992 CTTCAGTGCA
Statistics
Matches: 83, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
49 1 0.01
50 38 0.46
51 2 0.02
52 4 0.05
53 37 0.45
54 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.35
Consensus pattern (51 bp):
CCATATGATGTATAACCCACCAGTTATGATCTTACAGATATGGTCTTCTTT
Found at i:33835706 original size:36 final size:37
Alignment explanation
Indices: 33835661--33835734 Score: 89
Period size: 36 Copynumber: 2.0 Consensus size: 37
33835651 ATTAAATCTA
*
33835661 TTAAATTAATAGAATATTTA-TCTA-TAAAATAAATAT
1 TTAAATTAATAGAATATTAATTCTATTAAAAT-AATAT
* **
33835697 TTAATTTAATTTAATATTAATTCTATTAAAATAATAT
1 TTAAATTAATAGAATATTAATTCTATTAAAATAATAT
33835734 T
1 T
33835735 ATTCTGAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 16 0.50
37 10 0.31
38 6 0.19
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (37 bp):
TTAAATTAATAGAATATTAATTCTATTAAAATAATAT
Found at i:33838927 original size:14 final size:15
Alignment explanation
Indices: 33838908--33838936 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
33838898 GTTTCCATTT
33838908 TCTTTCT-TCTTCCC
1 TCTTTCTCTCTTCCC
33838922 TCTTTCTCTCTTCCC
1 TCTTTCTCTCTTCCC
33838937 CTCTAACTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTCTCTCTTCCC
Found at i:33839635 original size:185 final size:183
Alignment explanation
Indices: 33839250--33839856 Score: 891
Period size: 185 Copynumber: 3.3 Consensus size: 183
33839240 AACTAGATGT
* *
33839250 TGTGTTTTGAAGAAGAAAAATAGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAATGGCAGCTGAC
1 TGTGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAATGGCAGCCGAC
* * * * *
33839315 AG-CGAGGGAAAAAAACAATGGTTTTAAGTTGAAAGTGTGGTGTGGGTTTACAAAAATTGCATAA
66 AGTGGAGGG-AAAAAACAATGATTTTAAGCTGAAAGTGTGGTGT-GGTTTACAAAAATTACACAA
* ** *
33839379 AAGCATGATTACAATCATGGTGGTGGAAATTATTGTAGATGAAATGCGCCAACCA
129 AAGCATGATTATAATCATGGTAATGGAAATTATTGTAGATGAAATGAGCCAACCA
* * *
33839434 TGTGTTTTGAAGAAGAAAAATGGTGTTTGGTAAGAGAGAAAATAAAAGAGAAAAAATGGCAGCCA
1 TGTGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAAT--GAGAGAAAAAATGGCAGCCG
* *
33839499 ACAGTGGAGGGAAAAAACAATGATTTTAAGCTGAAGGTATGGTGTGCGTTTACAAAAATTACACA
64 ACAGTGGAGGGAAAAAACAATGATTTTAAGCTGAAAGTGTGGTGTG-GTTTACAAAAATTACACA
*
33839564 AAAG-ATGATTATAATCATGGTAATGGAAATTCTTGTAGATGAAATGAGCCAACCA
128 AAAGCATGATTATAATCATGGTAATGGAAATTATTGTAGATGAAATGAGCCAACCA
* * *
33839619 TATGTTTTAAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAAATGGCAACCG
1 TGTGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAG--AAAAAATGGCAGCCG
*
33839684 ACAGTGGAGGG-AAAAA-AATGATTTTAAGCTGAAAGTGTGGTGTGGATTTACAGAAATTACACA
64 ACAGTGGAGGGAAAAAACAATGATTTTAAGCTGAAAGTGTGGTGTGG-TTTACAAAAATTACACA
*
33839747 AAAGCATGATTATAATCATGGTAATGGAAATTATTGTAGATGAAATGAGCCGACCA
128 AAAGCATGATTATAATCATGGTAATGGAAATTATTGTAGATGAAATGAGCCAACCA
* *
33839803 TGTATTTTGAAGAA-AAAAGTGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAT
1 TGTGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAT
33839857 TTTGTTAAAT
Statistics
Matches: 383, Mismatches: 32, Indels: 19
0.88 0.07 0.04
Matches are distributed among these distances:
181 7 0.02
182 1 0.00
183 82 0.21
184 106 0.28
185 111 0.29
186 71 0.19
187 5 0.01
ACGTcount: A:0.42, C:0.08, G:0.26, T:0.24
Consensus pattern (183 bp):
TGTGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAATGGCAGCCGAC
AGTGGAGGGAAAAAACAATGATTTTAAGCTGAAAGTGTGGTGTGGTTTACAAAAATTACACAAAA
GCATGATTATAATCATGGTAATGGAAATTATTGTAGATGAAATGAGCCAACCA
Found at i:33843252 original size:119 final size:120
Alignment explanation
Indices: 33843003--33843260 Score: 337
Period size: 119 Copynumber: 2.2 Consensus size: 120
33842993 GCTACTCGTT
* * * *
33843003 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAACTCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* * *
33843067 GTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
65 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
*
33843123 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* * * *
33843187 A-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
66 ATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
33843243 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
33843261 GCCCGGACAT
Statistics
Matches: 122, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
118 4 0.03
119 62 0.51
120 54 0.44
121 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:33843267 original size:40 final size:40
Alignment explanation
Indices: 33842984--33843267 Score: 353
Period size: 40 Copynumber: 7.1 Consensus size: 40
33842974 CGGAATTTAA
** * *
33842984 CCGGATATAGCT-ACTCGTTCAAATGCCTTTGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
33843024 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
33843064 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33843104 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
33843144 TCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33843183 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
33843223 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
33843263 CCGGA
1 CCGGA
33843268 CATCATTCGA
Statistics
Matches: 216, Mismatches: 21, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.14
40 171 0.79
41 12 0.06
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:33852605 original size:47 final size:47
Alignment explanation
Indices: 33852434--33852832 Score: 645
Period size: 47 Copynumber: 8.4 Consensus size: 47
33852424 CAGCCAAGAC
33852434 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
33852481 AGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
33852530 AGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
33852579 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
33852626 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
33852673 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
33852720 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
33852767 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
33852814 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
33852833 TCCCGAAGGG
Statistics
Matches: 336, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 241 0.72
49 95 0.28
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:33854888 original size:21 final size:20
Alignment explanation
Indices: 33854862--33854903 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
33854852 AGTATATCGT
*
33854862 CCCTAAATAGAGCCTTTGAGG
1 CCCTAAAAAGAG-CTTTGAGG
*
33854883 CCCTAAAAATAGCTTTGAGG
1 CCCTAAAAAGAGCTTTGAGG
33854903 C
1 C
33854904 AATTCGAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (20 bp):
CCCTAAAAAGAGCTTTGAGG
Found at i:33856175 original size:74 final size:74
Alignment explanation
Indices: 33856045--33856207 Score: 254
Period size: 74 Copynumber: 2.2 Consensus size: 74
33856035 AGTACGGTAA
* * * * *
33856045 TCCATCCGAAAACACACCAAATGCTCATAAGAGCTCATCCACCCGATAACACGCCAATTTCTTCG
1 TCCAACCGAAAACACACCAAATGCTCATAAGAGCTAATCCACCCGATAACACGCCAATTGCTCCA
*
33856110 AAGAGCTAG
66 AAAAGCTAG
*
33856119 TCCAACCGAAAACACACCAAATGCTCATAAGAGCTAATCCACCCGATAACATGCCAATTGCTCCA
1 TCCAACCGAAAACACACCAAATGCTCATAAGAGCTAATCCACCCGATAACACGCCAATTGCTCCA
33856184 AAAAGCTAG
66 AAAAGCTAG
*
33856193 TCCAACCAAAAACAC
1 TCCAACCGAAAACAC
33856208 GTCAAAACAG
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 81 1.00
ACGTcount: A:0.39, C:0.33, G:0.12, T:0.17
Consensus pattern (74 bp):
TCCAACCGAAAACACACCAAATGCTCATAAGAGCTAATCCACCCGATAACACGCCAATTGCTCCA
AAAAGCTAG
Found at i:33856181 original size:37 final size:37
Alignment explanation
Indices: 33856042--33856169 Score: 150
Period size: 37 Copynumber: 3.5 Consensus size: 37
33856032 ACGAGTACGG
*
33856042 TAATCCATCCGAAAACACACCAAATGCTCATAAGAGC
1 TAATCCACCCGAAAACACACCAAATGCTCATAAGAGC
* * * * * *
33856079 TCATCCACCCGATAACACGCCAATTTCTTC-GAAGAGC
1 TAATCCACCCGAAAACACACCAAATGC-TCATAAGAGC
* *
33856116 TAGTCCAACCGAAAACACACCAAATGCTCATAAGAGC
1 TAATCCACCCGAAAACACACCAAATGCTCATAAGAGC
*
33856153 TAATCCACCCGATAACA
1 TAATCCACCCGAAAACA
33856170 TGCCAATTGC
Statistics
Matches: 71, Mismatches: 18, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
36 2 0.03
37 67 0.94
38 2 0.03
ACGTcount: A:0.39, C:0.32, G:0.12, T:0.17
Consensus pattern (37 bp):
TAATCCACCCGAAAACACACCAAATGCTCATAAGAGC
Found at i:33856191 original size:37 final size:36
Alignment explanation
Indices: 33856042--33856196 Score: 139
Period size: 37 Copynumber: 4.2 Consensus size: 36
33856032 ACGAGTACGG
* * * *
33856042 TAATCCATCCGAAAACACACCAAATGCTCATAAGAGC
1 TAATCCACCCGATAACACGCCAATTGCTCA-AAGAGC
* * *
33856079 TCATCCACCCGATAACACGCCAATTTCTTCGAAGAGC
1 TAATCCACCCGATAACACGCCAATTGC-TCAAAGAGC
* * * * *
33856116 TAGTCCAACCGAAAACACACCAAATGCTCATAAGAGC
1 TAATCCACCCGATAACACGCCAATTGCTCA-AAGAGC
* *
33856153 TAATCCACCCGATAACATGCCAATTGCTCCAAAAAGC
1 TAATCCACCCGATAACACGCCAATTGCT-CAAAGAGC
*
33856190 TAGTCCA
1 TAATCCA
33856197 ACCAAAAACA
Statistics
Matches: 92, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
36 2 0.02
37 86 0.93
38 4 0.04
ACGTcount: A:0.38, C:0.32, G:0.12, T:0.18
Consensus pattern (36 bp):
TAATCCACCCGATAACACGCCAATTGCTCAAAGAGC
Found at i:33861903 original size:24 final size:24
Alignment explanation
Indices: 33861845--33861903 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
33861835 TCTCCTAGGG
**
33861845 TTAGGGTTTTTAATATTTTTTGGT
1 TTAGGGTTTTTAATATTTTTAAGT
* *
33861869 TTAGGGGTTTTAATATTTTTAATT
1 TTAGGGTTTTTAATATTTTTAAGT
*
33861893 TTAGGATTTTT
1 TTAGGGTTTTT
33861904 GTGTTTAGGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.20, C:0.00, G:0.19, T:0.61
Consensus pattern (24 bp):
TTAGGGTTTTTAATATTTTTAAGT
Found at i:33864449 original size:30 final size:30
Alignment explanation
Indices: 33864413--33864469 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
33864403 TAATAAAGGC
*
33864413 GTAGATGA-GAAAAATGATGCGACCGAATAT
1 GTAGATGAGGAAAAA-GATACGACCGAATAT
*
33864443 GTAGATGAGGAAGAAGATACGACCGAA
1 GTAGATGAGGAAAAAGATACGACCGAA
33864470 GAAGAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.44, C:0.11, G:0.30, T:0.16
Consensus pattern (30 bp):
GTAGATGAGGAAAAAGATACGACCGAATAT
Found at i:33872930 original size:18 final size:18
Alignment explanation
Indices: 33872897--33872933 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
33872887 CTACTACTAC
**
33872897 TAATAATAATCCTAATTA
1 TAATAATAATAATAATTA
33872915 TAATAATAATAATAATTA
1 TAATAATAATAATAATTA
33872933 T
1 T
33872934 TATTATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
TAATAATAATAATAATTA
Found at i:33876498 original size:5 final size:5
Alignment explanation
Indices: 33876488--33876521 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
33876478 TAAGACATAC
*
33876488 ATATG ATATG ATATG ATATG ATATG GTATG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATATG ATAT
33876522 ACAATCAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:33878935 original size:46 final size:46
Alignment explanation
Indices: 33878799--33878956 Score: 149
Period size: 46 Copynumber: 3.4 Consensus size: 46
33878789 ATATTATGAG
* * * *
33878799 ATCTCCCTTGAAATGTTTTTAAAACCCTCTCTCAAGGGTGCTCTCAA
1 ATCTCCCTTGAAATATTTTCAAAA-CCTCTCTCAAGGATGCTTTCAA
* * * * *
33878846 ATCAT-CCTTGAGATGTTCTCAAAACCTCTCTTAAGGA-GACTTTCAT
1 ATC-TCCCTTGAAATATTTTCAAAACCTCTCTCAAGGATG-CTTTCAA
* *
33878892 ATCTCCCTTGAAATATTTTCAAAATCTCTCTCAAAGATGCTTTCAA
1 ATCTCCCTTGAAATATTTTCAAAACCTCTCTCAAGGATGCTTTCAA
* * *
33878938 ATATGCCTTGAGATATTTT
1 ATCTCCCTTGAAATATTTT
33878957 TAAATTTTTT
Statistics
Matches: 90, Mismatches: 17, Indels: 9
0.78 0.15 0.08
Matches are distributed among these distances:
45 2 0.02
46 67 0.74
47 20 0.22
48 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.37
Consensus pattern (46 bp):
ATCTCCCTTGAAATATTTTCAAAACCTCTCTCAAGGATGCTTTCAA
Found at i:33884610 original size:11 final size:11
Alignment explanation
Indices: 33884594--33884618 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33884584 AGGTCGTAAA
33884594 ATTATTTTAAT
1 ATTATTTTAAT
33884605 ATTATTTTAAT
1 ATTATTTTAAT
33884616 ATT
1 ATT
33884619 TACAACATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTATTTTAAT
Found at i:33885299 original size:30 final size:30
Alignment explanation
Indices: 33885223--33885300 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 30
33885213 TATACAATAT
* * *
33885223 CGAACTTGATTCGTGTATGGTTATATATTGC
1 CGAA-TTGATTCGTATATGGATATATATTGA
* *
33885254 CGAATTGTTTGGTATATGGATATA-AGTTGA
1 CGAATTGATTCGTATATGGATATATA-TTGA
*
33885284 CGCATTGATTCGTATAT
1 CGAATTGATTCGTATAT
33885301 AGTTTTACCT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 1 0.03
30 33 0.87
31 4 0.11
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (30 bp):
CGAATTGATTCGTATATGGATATATATTGA
Done.