Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 136 of 295
Found at i:46439006 original size:101 final size:104
Alignment explanation
Indices: 46438776--46438989 Score: 299
Period size: 105 Copynumber: 2.1 Consensus size: 104
46438766 ACTTTTTTGT
* * *
46438776 ATTTTTTAAAATTATTTTTAAGTCATTTTGTTAGTAATTTATGGTTAGGTTATAAATTGTTTGTA
1 ATTTTTT-AAATTATTTTTAAATTATTTTGTTAGTAATTTATGATTAGGTTATAAATTG-TTGTA
* * * *
46438841 TGTGTTTAGTTTTATGTTTATTGTGATTTTTTATGAATATA
64 TGTGTTTAGTTTAATGTTTATTGTGACTTGTTATAAATATA
* *
46438882 ATTTTTTAAATTATTTTAAAATTATTTTGTTAGTAATTTATGATTATGTTATAAATTG-T-T-TG
1 ATTTTTTAAATTATTTTTAAATTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTGTATG
*
46438944 TGTTTAGTTTAATGTTTATTGTGACTTGTTATAAATGTA
66 TGTTTAGTTTAATGTTTATTGTGACTTGTTATAAATATA
46438983 ATTTTTT
1 ATTTTTT
46438990 TTGTGTTTTT
Statistics
Matches: 98, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
101 43 0.44
102 1 0.01
103 1 0.01
105 46 0.47
106 7 0.07
ACGTcount: A:0.28, C:0.01, G:0.14, T:0.58
Consensus pattern (104 bp):
ATTTTTTAAATTATTTTTAAATTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTGTATG
TGTTTAGTTTAATGTTTATTGTGACTTGTTATAAATATA
Found at i:46439040 original size:33 final size:33
Alignment explanation
Indices: 46438998--46439061 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
46438988 TTTTGTGTTT
46438998 TTTAAATTAG-TT-TAAAGTTATTTTGTTAGTAA
1 TTTAAATTAGATTATAAA-TTATTTTGTTAGTAA
*
46439030 TTTATAATTAGATTATAAATTATTTTTTTAGT
1 TTTA-AATTAGATTATAAATTATTTTGTTAGT
46439062 TTAATGTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 4 0.14
33 6 0.21
34 14 0.50
35 4 0.14
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.56
Consensus pattern (33 bp):
TTTAAATTAGATTATAAATTATTTTGTTAGTAA
Found at i:46440874 original size:39 final size:39
Alignment explanation
Indices: 46440820--46440899 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
46440810 ATGTGGAACA
46440820 ATTGGTTGGGGCAGGTACCTCAGATGGATCGTGCTTTGG
1 ATTGGTTGGGGCAGGTACCTCAGATGGATCGTGCTTTGG
46440859 ATTGGTTGGGGCAGGTACCTCAGATGGATCGTGCTTTGG
1 ATTGGTTGGGGCAGGTACCTCAGATGGATCGTGCTTTGG
46440898 AT
1 AT
46440900 CTGTAACCCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.16, C:0.15, G:0.38, T:0.31
Consensus pattern (39 bp):
ATTGGTTGGGGCAGGTACCTCAGATGGATCGTGCTTTGG
Found at i:46446023 original size:18 final size:18
Alignment explanation
Indices: 46446000--46446044 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
46445990 TTTAGTATAA
46446000 TGGGCCCACATGCCCGTG
1 TGGGCCCACATGCCCGTG
* *
46446018 TGGGCCTACATGCCCTTG
1 TGGGCCCACATGCCCGTG
46446036 T-GGCCCACA
1 TGGGCCCACA
46446045 CGCCTAGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.13, C:0.38, G:0.29, T:0.20
Consensus pattern (18 bp):
TGGGCCCACATGCCCGTG
Found at i:46449278 original size:21 final size:21
Alignment explanation
Indices: 46449252--46449293 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
46449242 GGGATAATAA
46449252 CATAACTTAGGGATCTCTACG
1 CATAACTTAGGGATCTCTACG
46449273 CATAACTTAGGGATCTCTACG
1 CATAACTTAGGGATCTCTACG
46449294 GAACAAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (21 bp):
CATAACTTAGGGATCTCTACG
Found at i:46459178 original size:39 final size:39
Alignment explanation
Indices: 46459123--46459252 Score: 224
Period size: 39 Copynumber: 3.3 Consensus size: 39
46459113 ATGATATTTA
*
46459123 GAAACATATCCAGACTTGAGGTCCGCAGGCTACGTGCTG
1 GAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTG
46459162 GAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTG
1 GAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTG
* *
46459201 GAAATATATCCGGACTTGAGGTCCGCAAGCTACGTGCTG
1 GAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTG
*
46459240 GAAATATATCCGG
1 GAAACATATCCGG
46459253 GCCTAAAGAC
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (39 bp):
GAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTG
Found at i:46459278 original size:40 final size:39
Alignment explanation
Indices: 46459145--46459271 Score: 137
Period size: 39 Copynumber: 3.2 Consensus size: 39
46459135 GACTTGAGGT
* * ** **
46459145 CCGCAGGCTACGTGCTGGAAACATATCCGGACTTGAGGT
1 CCGCAAGCTACGTGCTGGAAATATATCCGGACTAAAGAC
* ** **
46459184 CCGCAGGCTACGTGCTGGAAATATATCCGGACTTGAGGT
1 CCGCAAGCTACGTGCTGGAAATATATCCGGACTAAAGAC
*
46459223 CCGCAAGCTACGTGCTGGAAATATATCCGGGCCTAAAGAC
1 CCGCAAGCTACGTGCTGGAAATATATCC-GGACTAAAGAC
46459263 CCGCAAGCT
1 CCGCAAGCT
46459272 TTGTGCTAGT
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 65 0.81
40 15 0.19
ACGTcount: A:0.25, C:0.27, G:0.28, T:0.20
Consensus pattern (39 bp):
CCGCAAGCTACGTGCTGGAAATATATCCGGACTAAAGAC
Found at i:46462377 original size:46 final size:46
Alignment explanation
Indices: 46462327--46462502 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
46462317 TGGTTGAGCA
* *
46462327 TCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
46462373 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
46462420 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
46462466 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46462503 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 62 0.57
47 30 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:46462483 original size:93 final size:93
Alignment explanation
Indices: 46462324--46462494 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
46462314 GGATGGTTGA
* *
46462324 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATCCAAACGTCCGAACTCGTTGAGT
46462389 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* * * *
46462417 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAGCG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATCCAAACGTCC-GAACTCGTTGAG
46462481 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
46462495 GCTTATGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATCCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:46476202 original size:46 final size:46
Alignment explanation
Indices: 46476150--46476251 Score: 132
Period size: 46 Copynumber: 2.2 Consensus size: 46
46476140 CTTCGACATG
** * *
46476150 GACTTACATGAATTATTCCTATCTCCAATGTCATATATCTGATATC
1 GACTTACATGAACCATTCCTATCTCCAAAGCCATATATCTGATATC
** * *
46476196 GACTTACATGGCCCATTCCTGTCTCCAAAGCCATATATCTGATATG
1 GACTTACATGAACCATTCCTATCTCCAAAGCCATATATCTGATATC
46476242 GACTTACATG
1 GACTTACATG
46476252 GCTCATTTCT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (46 bp):
GACTTACATGAACCATTCCTATCTCCAAAGCCATATATCTGATATC
Found at i:46476252 original size:46 final size:46
Alignment explanation
Indices: 46476164--46476264 Score: 148
Period size: 46 Copynumber: 2.2 Consensus size: 46
46476154 TACATGAATT
* * *
46476164 ATTCCTATCTCCAATGTCATATATCTGATATCGACTTACATGGCCC
1 ATTCCTGTCTCCAAAGCCATATATCTGATATCGACTTACATGGCCC
* *
46476210 ATTCCTGTCTCCAAAGCCATATATCTGATATGGACTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCATATATCTGATATCGACTTACATGGCCC
*
46476256 ATTTCTGTC
1 ATTCCTGTC
46476265 CTGTCCTGTC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.36
Consensus pattern (46 bp):
ATTCCTGTCTCCAAAGCCATATATCTGATATCGACTTACATGGCCC
Found at i:46482558 original size:37 final size:37
Alignment explanation
Indices: 46482507--46482673 Score: 113
Period size: 37 Copynumber: 4.5 Consensus size: 37
46482497 ATATCAAACC
* * *
46482507 AATCTTACTGTTATACTGAATGAAGCTCAATCGAGGA
1 AATCATACTGTTATACTGAATGAAGCTCAACCGAGAA
* **
46482544 AATCATA-TCGTTATACTGAAAGAATTTCAACCGAGAA
1 AATCATACT-GTTATACTGAATGAAGCTCAACCGAGAA
* * * * * *
46482581 AATCTTACTATTATACTGAATGAAGATAAACTGAGCA
1 AATCATACTGTTATACTGAATGAAGCTCAACCGAGAA
*** * * * *
46482618 AAGGTTACTATTATACTGAATGATG-TCCAATCGAGCA
1 AATCATACTGTTATACTGAATGAAGCT-CAACCGAGAA
* *
46482655 AATCCTACTATTATACTGA
1 AATCATACTGTTATACTGA
46482674 GTGTAACTTG
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
36 2 0.02
37 101 0.97
38 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (37 bp):
AATCATACTGTTATACTGAATGAAGCTCAACCGAGAA
Found at i:46488790 original size:50 final size:49
Alignment explanation
Indices: 46488672--46488950 Score: 299
Period size: 50 Copynumber: 5.6 Consensus size: 49
46488662 CTGGTACGCA
* * **
46488672 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGGTACACG
* *
46488721 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCGGTACACG
* * ** ** * *
46488771 TAGTAGCCTGCACTTAGTACTGCACACGTGATCAAAGTTATAAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-CCATCCGGTACACG
* * * *
46488822 TAATAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGGTACACG
* * * * *
46488871 TAGTAG-CTTCAACTTAGTACTACACATGTGACCTCACCATCTGATACACG
1 TAGTAGCCTGC-ACTTAGTACTACACACGTGACC-AACCATCCGGTACACG
46488921 TAGTAGCCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
46488951 TACTCCCAAT
Statistics
Matches: 189, Mismatches: 35, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
48 3 0.02
49 65 0.34
50 83 0.44
51 38 0.20
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGGTACACG
Found at i:46488935 original size:150 final size:150
Alignment explanation
Indices: 46488664--46488950 Score: 495
Period size: 150 Copynumber: 1.9 Consensus size: 150
46488654 GAAGCTATCT
* **
46488664 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAGTAGCC
*
46488729 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTGC
66 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
46488794 ACACGTGATCAAAGTTATAA
131 ACACGTGATCAAAGTTATAA
46488814 GGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAGTAG-C
1 GGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAGTAGCC
* * *
46488878 TTCAACTTAGTACTACACATGTGACCTCACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
66 TGC-ACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
46488943 CACACGTG
130 CACACGTG
46488951 TACTCCCAAT
Statistics
Matches: 129, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
149 3 0.02
150 126 0.98
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (150 bp):
GGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
ACACGTGATCAAAGTTATAA
Found at i:46488946 original size:99 final size:99
Alignment explanation
Indices: 46488672--46488948 Score: 324
Period size: 99 Copynumber: 2.8 Consensus size: 99
46488662 CTGGTACGCA
* *
46488672 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCAGGTACACGTAGTAGCCTGCACTTA
* * *
46488737 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACAATCCGATACACG
* * * * * * *
46488771 TAGTAGCCTGCACTTAGTACTGCACACGTGATCAAAGTTATAAGGTACGCATAATAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCAGGTACACGTAGTAGCCTGCACT
* *
46488836 TAGTACTACACATGCGACC-AACAATCCGGTACACG
64 TAGTACTACACACGCGACCTAACAATCCGATACACG
* * ** * *
46488871 TAGTAG-CTTCAACTTAGTACTACACATGTGACCTCACCATCTGATACACGTAGTAGCCTGCACT
1 TAGTAGCCTGC-ACTTAGTACTACACATGTGACC-AATTATCAGGTACACGTAGTAGCCTGCACT
46488935 TAGTACTACACACG
64 TAGTACTACACACG
46488949 TGTACTCCCA
Statistics
Matches: 146, Mismatches: 28, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
99 65 0.45
100 41 0.28
101 40 0.27
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCAGGTACACGTAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACAATCCGATACACG
Found at i:46489620 original size:30 final size:30
Alignment explanation
Indices: 46489586--46489645 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
46489576 CTTTAATACG
*
46489586 AACTTTGGTAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
46489616 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
46489646 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:46491720 original size:15 final size:15
Alignment explanation
Indices: 46491691--46491729 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
46491681 AACAGAGAAG
46491691 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
46491707 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
46491722 CCATGATA
1 CCAAGATA
46491730 CGAAAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:46494603 original size:50 final size:50
Alignment explanation
Indices: 46494480--46494805 Score: 406
Period size: 50 Copynumber: 6.5 Consensus size: 50
46494470 CTGGTACGCA
* * ** * *
46494480 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
*
46494529 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * ** * * * *
46494579 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTGATACACG
* * * *
46494630 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCTG-TTCACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT-CTGATACACG
*
46494679 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* *
46494729 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTGATACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
*
46494779 TAGTAGCCTGAACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
46494806 ATGTACTCAC
Statistics
Matches: 240, Mismatches: 32, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
49 70 0.29
50 133 0.55
51 37 0.15
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:46494729 original size:22 final size:22
Alignment explanation
Indices: 46494702--46494777 Score: 64
Period size: 22 Copynumber: 3.2 Consensus size: 22
46494692 TTAGTACTAC
46494702 ACACGTGACCTCACCATCTGAT
1 ACACGTGACCTCACCATCTGAT
* *
46494724 ACACGTAGTAGCCTGCACTTAGTACT-AC
1 ACACGT-G-A-CCT-CAC-CA-T-CTGAT
46494752 ACACGTGACCTCACCATCTGAT
1 ACACGTGACCTCACCATCTGAT
46494774 ACAC
1 ACAC
46494778 ATAGTAGCCT
Statistics
Matches: 42, Mismatches: 4, Indels: 16
0.68 0.06 0.26
Matches are distributed among these distances:
21 2 0.05
22 12 0.29
23 2 0.05
24 4 0.10
25 6 0.14
26 4 0.10
27 2 0.05
28 8 0.19
29 2 0.05
ACGTcount: A:0.29, C:0.34, G:0.14, T:0.22
Consensus pattern (22 bp):
ACACGTGACCTCACCATCTGAT
Found at i:46494732 original size:150 final size:150
Alignment explanation
Indices: 46494460--46494804 Score: 548
Period size: 150 Copynumber: 2.3 Consensus size: 150
46494450 ACACTTGTAG
**
46494460 CCGAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTA
1 CCGAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTA
*
46494525 CACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACATGTAGTAGCCTGC
66 CACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGC
46494590 ACTTAGTACTACACACGTGA
131 ACTTAGTACTACACACGTGA
* * * * *
46494610 TCGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCTGTT
1 CCGAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTA
*
46494675 CACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTGATACACGTAGTAGCCTGC
66 CACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGC
46494740 ACTTAGTACTACACACGTGA
131 ACTTAGTACTACACACGTGA
** * * * *
46494760 CCTCA-CCATCTGATACACATAGTAGCCTGAACTTAGTACTACACA
1 CCGAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACA
46494805 CATGTACTCA
Statistics
Matches: 177, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
149 34 0.19
150 143 0.81
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (150 bp):
CCGAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTA
CACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGC
ACTTAGTACTACACACGTGA
Found at i:46494777 original size:24 final size:24
Alignment explanation
Indices: 46494699--46494778 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
46494689 CACTTAGTAC
46494699 TACACACGTGACCTCACCATCTGA
1 TACACACGTGACCTCACCATCTGA
46494723 T--ACACGTAGTAGCCTGCA-C-T-TAGTA
1 TACACACGT-G-A-CCT-CACCATCT-G-A
46494748 CTACACACGTGACCTCACCATCTGA
1 -TACACACGTGACCTCACCATCTGA
46494773 TACACA
1 TACACA
46494779 TAGTAGCCTG
Statistics
Matches: 44, Mismatches: 0, Indels: 24
0.65 0.00 0.35
Matches are distributed among these distances:
22 6 0.14
23 2 0.05
24 12 0.27
25 10 0.23
26 6 0.14
27 2 0.05
28 6 0.14
ACGTcount: A:0.30, C:0.34, G:0.14, T:0.23
Consensus pattern (24 bp):
TACACACGTGACCTCACCATCTGA
Found at i:46495282 original size:26 final size:25
Alignment explanation
Indices: 46495239--46495345 Score: 169
Period size: 26 Copynumber: 4.2 Consensus size: 25
46495229 TGGTGCAAAT
46495239 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
*
46495264 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
*
46495290 TGATAATGGGCTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
46495316 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
46495342 TGAT
1 TGAT
46495346 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
25 11 0.15
26 62 0.83
27 2 0.03
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:46497007 original size:27 final size:26
Alignment explanation
Indices: 46496967--46497097 Score: 181
Period size: 27 Copynumber: 4.9 Consensus size: 26
46496957 AGGAAGCGTC
*
46496967 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
46496994 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
46497021 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
46497048 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
46497075 CTGGTGGCTCTGCCACAATATCT
1 CTGGTGGCTCTGCCACATTATCT
46497098 ATATCTGATG
Statistics
Matches: 94, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
26 9 0.10
27 83 0.88
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:46497049 original size:54 final size:54
Alignment explanation
Indices: 46496967--46497097 Score: 237
Period size: 54 Copynumber: 2.4 Consensus size: 54
46496957 AGGAAGCGTC
46496967 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
46497021 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
46497075 CTGGTGGCTCTGCCACAA-TATCT
1 CTGGTGGCTATGCCACAATTATCT
46497098 ATATCTGATG
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 5 0.07
54 69 0.93
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:46503528 original size:28 final size:28
Alignment explanation
Indices: 46503486--46503600 Score: 115
Period size: 29 Copynumber: 4.0 Consensus size: 28
46503476 TACCTTTATC
* * *
46503486 TGGCCCATAAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* *
46503514 TGGCCCACTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCC-AATCACAT-TCATA
* *
46503543 TGGCCCATTAGGCCTAAATCACATTTATA
1 TGGCCCATTAGGCC-CAATCACATTCATA
* *
46503572 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
46503600 T
1 T
46503601 TCATGCTCAC
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
28 25 0.35
29 45 0.63
30 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:46503835 original size:16 final size:16
Alignment explanation
Indices: 46503811--46503861 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
46503801 GTAGCCAAAC
46503811 TTTTGGCTTTTCGGCA
1 TTTTGGCTTTTCGGCA
* *
46503827 TTTTAGCTTTTCGAC-
1 TTTTGGCTTTTCGGCA
*
46503842 TTTTCGGCTTTTCAGCA
1 TTTT-GGCTTTTCGGCA
46503859 TTT
1 TTT
46503862 CGGTTTTTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 4 0.14
16 21 0.75
17 3 0.11
ACGTcount: A:0.10, C:0.20, G:0.18, T:0.53
Consensus pattern (16 bp):
TTTTGGCTTTTCGGCA
Found at i:46503869 original size:24 final size:24
Alignment explanation
Indices: 46503817--46503863 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
46503807 AAACTTTTGG
*
46503817 CTTTTCGGCATTTTAGCTTTTCGA
1 CTTTTCGGCATTTTAGCATTTCGA
46503841 CTTTTCGGC-TTTTCAGCATTTCG
1 CTTTTCGGCATTTT-AGCATTTCG
46503864 GTTTTTGCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.11, C:0.23, G:0.17, T:0.49
Consensus pattern (24 bp):
CTTTTCGGCATTTTAGCATTTCGA
Found at i:46506952 original size:22 final size:20
Alignment explanation
Indices: 46506904--46506952 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 20
46506894 TCTTAACTAC
46506904 TCAAATCCATAGCCAAAACA
1 TCAAATCCATAGCCAAAACA
*
46506924 TACCAAATCTATATGCCAAAATCA
1 T--CAAATCCATA-GCCAAAA-CA
46506948 TCAAA
1 TCAAA
46506953 CTTACATAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
22 13 0.54
23 7 0.29
24 3 0.12
ACGTcount: A:0.49, C:0.27, G:0.04, T:0.20
Consensus pattern (20 bp):
TCAAATCCATAGCCAAAACA
Found at i:46515151 original size:44 final size:42
Alignment explanation
Indices: 46515061--46515267 Score: 112
Period size: 44 Copynumber: 4.6 Consensus size: 42
46515051 GTTACCATAG
* * * *
46515061 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAAGATGGAGCTA
1 CAAATCCTATATCCCT-AAGTTGCAGTGGA-TCAGATGAAGCTA
46515105 CAAATCCTATATCCCTAAGGTTGCAGTGGATCAGATTGAAAG-TA
1 CAAATCCTATATCCCTAA-GTTGCAGTGGATCAGA-TG-AAGCTA
* * * * * *
46515149 CAATTCCTATACCCCTGAAGTTACAGTGGGTCAGGTCGAATCTA
1 CAAATCCTATATCCCT-AAGTTGCAGTGGATCAGAT-GAAGCTA
* * * *
46515193 CCATAGCGAATCTTATCTCTCTGAAGTT-CTAGTGGAGTAAGATGAAGCTA
1 -C--A---AATCCTATATCCCT-AAGTTGC-AGTGGA-TCAGATGAAGCTA
*
46515243 CAGATCCTATATCCCTAAAGTTGCA
1 CAAATCCTATATCCCT-AAGTTGCA
46515268 ATATATCGGA
Statistics
Matches: 124, Mismatches: 24, Indels: 30
0.70 0.13 0.17
Matches are distributed among these distances:
43 9 0.07
44 75 0.60
45 6 0.05
47 2 0.02
49 2 0.02
50 26 0.21
51 4 0.03
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (42 bp):
CAAATCCTATATCCCTAAGTTGCAGTGGATCAGATGAAGCTA
Found at i:46515343 original size:138 final size:138
Alignment explanation
Indices: 46515048--46515361 Score: 343
Period size: 138 Copynumber: 2.3 Consensus size: 138
46515038 CCCTGAAGTT
* * *
46515048 GAAGTTACCATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAAGATGGAGCTACAAATCCT
1 GAAGCTACAATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAAGATGAAGCTACAAATCCT
* * * * *
46515113 ATATCCCTAAGGTTGCAGTGGATCAGATTGAAAGTACAATTCCTATACCCCTGAAGTTACAGTGG
66 ATATCCCTAAAGTTGCAATAGATCAGATTGAAAGTACAATTCCTATACCCCTAAAGTTACAGTAG
46515178 GTCAGGTC
131 GTCAGGTC
* * * * * *
46515186 GAATCTACCATAGCGAATCTTATCTCTCTGAAGTT-CTAGTGGAGTAAGATGAAGCTACAGATCC
1 GAAGCTACAATAGCAAATCTTATCTCCCTAAAGTTGC-AGTGGAGTAAGATGAAGCTACAAATCC
* * * * *
46515250 TATATCCCTAAAGTTGCAATATATCGGATT-AAAGTTACAATTCCTATACCCTTAAATTTGCAGT
65 TATATCCCTAAAGTTGCAATAGATCAGATTGAAAG-TACAATTCCTATACCCCTAAAGTTACAGT
*
46515314 AGGT-TGGAAT-
129 AGGTCAGG--TC
*
46515324 GAAGCTACAACTA-CAAATCTTATAC-CCCTGAAGTTGCA
1 GAAGCTACAA-TAGCAAATCTTAT-CTCCCTAAAGTTGCA
46515362 ATGGGTCAGA
Statistics
Matches: 147, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
137 7 0.05
138 135 0.92
139 5 0.03
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (138 bp):
GAAGCTACAATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAAGATGAAGCTACAAATCCT
ATATCCCTAAAGTTGCAATAGATCAGATTGAAAGTACAATTCCTATACCCCTAAAGTTACAGTAG
GTCAGGTC
Found at i:46515394 original size:188 final size:188
Alignment explanation
Indices: 46515147--46515529 Score: 509
Period size: 188 Copynumber: 2.0 Consensus size: 188
46515137 AGATTGAAAG
* * *
46515147 TACAATTCCTATACCCCTGAAGTTACAGTGGGTCAGGTCGAATCTACCATAGCGAATCTTATCTC
1 TACAAATCCTATACCCCTGAAGTTACAATGGGTCAGATCGAATCTACCATAGCGAATCTTATCTC
* * * *
46515212 TCTGAAGTTCTAGTGGAGTAAGATGAAGCTACAGATCCTATATCCCTAAAGTTGCAATATATCGG
66 TCTAAAGTTCTAGTGGAGTAAGATGAAGCTACAAATCCGATATCCCTAAAGTTGCAATAGATCGG
* * * *
46515277 ATTAAAGTTACAATTCCTATAC-CCTTAAATTTGCAGT-AGGTTGGAATGAAGCTACAAC
131 ATTAAAGCTACAATTCCTATACACCTGAAA-TTGCAATGA-GTTGGAATGAAACTACAAC
* * * * *
46515335 TACAAATCTTATACCCCTGAAGTTGCAATGGGTCAGATTGAATCTGCCATAGTGAATCTTATCTC
1 TACAAATCCTATACCCCTGAAGTTACAATGGGTCAGATCGAATCTACCATAGCGAATCTTATCTC
* * * * * *
46515400 TCTAAAGTTGTAGTGGAGTAAGATGAAGCTACAAATTCGATATCCCTAAAGTTGTATTGGATTGG
66 TCTAAAGTTCTAGTGGAGTAAGATGAAGCTACAAATCCGATATCCCTAAAGTTGCAATAGATCGG
* *
46515465 ATTGAAGCTACAATTCCTATACACCTGAAATTGCAATGATTTGGAATGAAACTACAAC
131 ATTAAAGCTACAATTCCTATACACCTGAAATTGCAATGAGTTGGAATGAAACTACAAC
*
46515523 AACAAAT
1 TACAAAT
46515530 ATCATCTTCT
Statistics
Matches: 168, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
188 161 0.96
189 7 0.04
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (188 bp):
TACAAATCCTATACCCCTGAAGTTACAATGGGTCAGATCGAATCTACCATAGCGAATCTTATCTC
TCTAAAGTTCTAGTGGAGTAAGATGAAGCTACAAATCCGATATCCCTAAAGTTGCAATAGATCGG
ATTAAAGCTACAATTCCTATACACCTGAAATTGCAATGAGTTGGAATGAAACTACAAC
Found at i:46515597 original size:188 final size:188
Alignment explanation
Indices: 46515200--46515602 Score: 415
Period size: 188 Copynumber: 2.1 Consensus size: 188
46515190 CTACCATAGC
* ** * * *
46515200 GAATCTTATCTCTCTGAAGTTCTAGTGGAGTAAGATGAAGCTACAGATCCTATATCCCTAAAGTT
1 GAATCTTACCTCTCAAAAGTTGTAGTGGAGTAAGATGAAGCTACAAATCCGATATCCCTAAAGTT
* * * * *
46515265 GCAATATATCGGATTAAAGTTACAATTCCTATACCCTTAAATTTGCAGTAGGTTGGAATGAAGCT
66 GCAATAGATCGGATTAAAGCTACAATTCCTATACCCTGAAATTTGCAATAGGTTGGAATGAAACT
* * * * * * *
46515330 ACAACTACAAATCTTATACCCCTGAAGTTGCAATGGGTCAGATTGAATCTGCCATAGT
131 ACAACAACAAATATCATACCCCTGAAGTTGCAATGAGTCAGATTGAAGCTGCAATACT
* * *
46515388 GAATCTTATCTCTCTAAAGTTGTAGTGGAGTAAGATGAAGCTACAAATTCGATATCCCTAAAGTT
1 GAATCTTACCTCTCAAAAGTTGTAGTGGAGTAAGATGAAGCTACAAATCCGATATCCCTAAAGTT
* * * * * *
46515453 GTATTGGATTGGATTGAAGCTACAATTCCTATACACCTGAAA-TTGCAAT-GATTTGGAATGAAA
66 GCAATAGATCGGATTAAAGCTACAATTCCTATAC-CCTGAAATTTGCAATAG-GTTGGAATGAAA
* * *
46515516 CTACAACAACAAATATCAT-CTTCTTGAAGTTGCAATAGAG-CAAGA-TGAAGCTGTAATACT
129 CTACAACAACAAATATCATAC-CCCTGAAGTTGCAAT-GAGTC-AGATTGAAGCTGCAATACT
*
46515576 -AGATCTTGCCT-TCCAAAAGTTGTAGTG
1 GA-ATCTTACCTCT-CAAAAGTTGTAGTG
46515603 AAGCAAATAC
Statistics
Matches: 179, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
187 4 0.02
188 164 0.92
189 11 0.06
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (188 bp):
GAATCTTACCTCTCAAAAGTTGTAGTGGAGTAAGATGAAGCTACAAATCCGATATCCCTAAAGTT
GCAATAGATCGGATTAAAGCTACAATTCCTATACCCTGAAATTTGCAATAGGTTGGAATGAAACT
ACAACAACAAATATCATACCCCTGAAGTTGCAATGAGTCAGATTGAAGCTGCAATACT
Found at i:46517516 original size:8 final size:8
Alignment explanation
Indices: 46517503--46517527 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
46517493 TTGACTAGGT
46517503 TAGGTGGG
1 TAGGTGGG
46517511 TAGGTGGG
1 TAGGTGGG
46517519 TAGGTGGG
1 TAGGTGGG
46517527 T
1 T
46517528 TTTGGTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.60, T:0.28
Consensus pattern (8 bp):
TAGGTGGG
Found at i:46518481 original size:46 final size:47
Alignment explanation
Indices: 46518401--46518531 Score: 149
Period size: 46 Copynumber: 2.8 Consensus size: 47
46518391 TAATGGGTGA
* * *
46518401 TATGTGAGCTAGTGTAAGACATGTTTGGGGCATGCATCAGC-CACAG
1 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCGCACAG
* * * ***
46518447 TATGAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCGTTGAG
1 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCGCACAG
* *
46518494 -ACGAGAACTAGTGTAAGACATGTCTGGGACATGCATCA
1 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCA
46518532 ACCTCTCGAT
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
46 68 0.97
47 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCGCACAG
Found at i:46518666 original size:49 final size:49
Alignment explanation
Indices: 46518594--46518716 Score: 158
Period size: 49 Copynumber: 2.5 Consensus size: 49
46518584 TGTAGTGTGT
*
46518594 CAGTGTAAGACCTGTCTGGGACATAGCATCGACAC-CGATAGATGATAGC
1 CAGTGTAAGACCTGTCTGGGACATAGCATCGAC-CTCGATAGATGAAAGC
* * ** *
46518643 CAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCTCTATATGAAAGC
1 CAGTGTAAGACCTGTCTGGGACATAGCATCGACCTCGATAGATGAAAGC
*
46518692 CAGTGTAAGACCATGTATGGGACAT
1 CAGTGTAAGACC-TGTCTGGGACAT
46518717 GGCGTCGGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
48 1 0.02
49 53 0.82
50 11 0.17
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATAGCATCGACCTCGATAGATGAAAGC
Found at i:46522821 original size:18 final size:18
Alignment explanation
Indices: 46522798--46522833 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
46522788 AAGATGGTTG
46522798 GAGTTGATAAAAGACTAT
1 GAGTTGATAAAAGACTAT
*
46522816 GAGTTGATAATAGACTAT
1 GAGTTGATAAAAGACTAT
46522834 CACCTAGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.31
Consensus pattern (18 bp):
GAGTTGATAAAAGACTAT
Found at i:46525762 original size:48 final size:46
Alignment explanation
Indices: 46525633--46525806 Score: 160
Period size: 46 Copynumber: 3.7 Consensus size: 46
46525623 GGTGATATGT
* * *
46525633 GAGCTAGTGTAAGACATGTCTGAGACATGCATCAGCCATAGTATAA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATAGTATAA
* *
46525679 GAGCCAGTGTAAGACATGTCTGGGGA-ATGCGTCGGCC-TCGAGATATTTA
1 GAGCCAGTGTAAGACATGTCT-GGGACATGCATCGGCCAT--AG-TA-TAA
* **
46525728 -AGCCATTGTAAGACATGTCTGGGACATGCATCGG-CATTGAG-ACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCA-T-AGTATAA
* *
46525773 GAGCTAGTGTAAGATATGTCTGGGACATGCATCG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCG
46525807 ACCTCGCGAT
Statistics
Matches: 107, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
45 2 0.02
46 60 0.56
47 10 0.09
48 32 0.30
49 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATAGTATAA
Found at i:46525832 original size:94 final size:94
Alignment explanation
Indices: 46525634--46525857 Score: 238
Period size: 94 Copynumber: 2.4 Consensus size: 94
46525624 GTGATATGTG
*
46525634 AGCTAGTGTAAGACATGTCTGAGACATGCATCAGCCATAGTATAAGAGCCAGTGTAAGACATGTC
1 AGCTAGTGTAAGACATGTCTGAGACATGCATCAGCCATAGTACAAGAGCCAGTGTAAGACATGTC
* * ***
46525699 TGGGGAATGCGTCGGCCTCGAGATATTTA
66 TGGGGAATGCATCGACCTCGAGATACACA
* * * * * * *
46525728 AGCCATTGTAAGACATGTCTGGGACATGCATC-GGCATTGAG-ACGAGAGCTAGTGTAAGATATG
1 AGCTAGTGTAAGACATGTCTGAGACATGCATCAGCCA-T-AGTACAAGAGCCAGTGTAAGACATG
*
46525791 TCT-GGGACATGCATCGACCTCGCGATACACA
64 TCTGGGGA-ATGCATCGACCTCGAGATACACA
** *
46525822 AGCTAGTGTAAGACCCGTCTGAAACATGGCATCAGC
1 AGCTAGTGTAAGACATGTCTGAGACAT-GCATCAGC
46525858 TTATATTGTG
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
93 7 0.07
94 89 0.86
95 7 0.07
96 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (94 bp):
AGCTAGTGTAAGACATGTCTGAGACATGCATCAGCCATAGTACAAGAGCCAGTGTAAGACATGTC
TGGGGAATGCATCGACCTCGAGATACACA
Found at i:46531536 original size:26 final size:26
Alignment explanation
Indices: 46531507--46531562 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
46531497 TGATATAAAT
46531507 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
46531533 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
46531559 TGAT
1 TGAT
46531563 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:46535153 original size:27 final size:27
Alignment explanation
Indices: 46535116--46535320 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
46535106 TAAATTGTAC
46535116 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
46535143 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
46535170 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
46535196 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
46535224 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
46535252 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
46535279 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
46535306 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
46535321 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:46535255 original size:109 final size:108
Alignment explanation
Indices: 46535117--46535320 Score: 320
Period size: 109 Copynumber: 1.9 Consensus size: 108
46535107 AAATTGTACA
* *
46535117 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
46535182 GCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
*
46535225 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
46535290 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
46535321 GACTCAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
108 17 0.20
109 70 0.80
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:46537048 original size:27 final size:26
Alignment explanation
Indices: 46537008--46537148 Score: 167
Period size: 27 Copynumber: 5.2 Consensus size: 26
46536998 AGGAAGCGTC
* *
46537008 CTGGTGGCTATGCCACAATTATCTGAC
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
46537035 CTGGTGGCTCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCACAT-TATCTGA-T
* *
46537062 CTGGTGGCTATGCCACGATTATCTCAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
46537089 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
46537116 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
46537143 CTGGTG
1 CTGGTG
46537149 ACTTCGTCAC
Statistics
Matches: 100, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.11
27 86 0.86
28 3 0.03
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.34
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:46537093 original size:54 final size:53
Alignment explanation
Indices: 46537008--46537148 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 53
46536998 AGGAAGCGTC
* *
46537008 CTGGTGGCTATGCCACAATTATCTGACCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCAC-ATTATCTCATCTGGTGGCTCTGCCACATATATCTATT
*
46537062 CTGGTGGCTATGCCACGATTATCTCATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTCATCTGGTGGCTCTGCCACATATATCTATT
* * *
46537116 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCT-CATCTGGTG
46537149 ACTTCGTCAC
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 6 0.08
54 73 0.92
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.34
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTCATCTGGTGGCTCTGCCACATATATCTATT
Found at i:46537159 original size:27 final size:26
Alignment explanation
Indices: 46537008--46537166 Score: 131
Period size: 27 Copynumber: 5.9 Consensus size: 26
46536998 AGGAAGCGTC
* * **
46537008 CTGGTGGCTATGCCACAATTATCTGAC
1 CTGGTGACTCTGCCACAA-TATCTGTT
* *
46537035 CTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGACTCTGCCACA-ATATCTGTT
* * * **
46537062 CTGGTGGCTATGCCACGATTATCTCAT
1 CTGGTGACTCTGCCAC-AATATCTGTT
*
46537089 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
*
46537116 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGACTCTGCCACAATATCTGT-T
*
46537143 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGACTCT-GCCACAATATCTG
46537167 GCAGCCTCGC
Statistics
Matches: 113, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
26 10 0.09
27 101 0.89
28 2 0.02
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (26 bp):
CTGGTGACTCTGCCACAATATCTGTT
Found at i:46539478 original size:40 final size:40
Alignment explanation
Indices: 46539423--46539646 Score: 297
Period size: 40 Copynumber: 5.5 Consensus size: 40
46539413 TATTCGGATG
46539423 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
46539463 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
46539506 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
46539546 ATATCCGGGCTAAGTGCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
46539586 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
46539626 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
46539647 ATACTTGGGT
Statistics
Matches: 163, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
39 13 0.08
40 112 0.69
41 1 0.01
43 37 0.23
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:46539566 original size:83 final size:80
Alignment explanation
Indices: 46539427--46539646 Score: 293
Period size: 83 Copynumber: 2.7 Consensus size: 80
46539417 CGGATGATAT
* **
46539427 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
46539492 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
* *
46539510 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTGCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
46539575 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
46539590 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
46539647 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
79 15 0.12
80 45 0.36
81 2 0.02
83 63 0.50
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:46545850 original size:51 final size:51
Alignment explanation
Indices: 46545783--46545888 Score: 196
Period size: 51 Copynumber: 2.1 Consensus size: 51
46545773 TGATACAAAT
46545783 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAATGTTCCA
46545835 TGATAAT-GGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTCCA
46545885 TGAT
1 TGAT
46545889 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
50 22 0.41
51 25 0.46
52 7 0.13
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (51 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTCCA
Found at i:46545851 original size:25 final size:26
Alignment explanation
Indices: 46545783--46545888 Score: 198
Period size: 25 Copynumber: 4.2 Consensus size: 26
46545773 TGATACAAAT
46545783 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
46545809 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
46545835 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
46545860 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
46545885 TGAT
1 TGAT
46545889 GGGAATTTCA
Statistics
Matches: 80, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
25 47 0.59
26 33 0.41
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:46547512 original size:27 final size:26
Alignment explanation
Indices: 46547472--46547612 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 26
46547462 AGGAAGCGTC
*
46547472 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
46547499 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
46547526 CTGGTGGCTATGCCACGATTATCTCAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
46547553 CTGGTGGCTCTGTCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
46547580 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
46547607 CTGGTG
1 CTGGTG
46547613 ACTTCGTCAC
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.10
27 86 0.88
28 2 0.02
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:46547622 original size:54 final size:53
Alignment explanation
Indices: 46547472--46547630 Score: 223
Period size: 54 Copynumber: 3.0 Consensus size: 53
46547462 AGGAAGCGTC
*
46547472 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAA-TATCTGATCTGGTGGCTCTGTCACATATATCTGTT
* *
46547526 CTGGTGGCTATGCCACGATTATCTCATCTGGTGGCTCTGTCACATATATCTGTT
1 CTGGTGGCTATGCCAC-AATATCTGATCTGGTGGCTCTGTCACATATATCTGTT
* *
46547580 CTGGTGGCTCTGCCACAATATCTGTATCTGGTGACT-TCGTCACA-ATATCTG
1 CTGGTGGCTATGCCACAATATCTG-ATCTGGTGGCTCT-GTCACATATATCTG
46547631 GCAGCCTCGA
Statistics
Matches: 95, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
53 14 0.15
54 80 0.84
55 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATATCTGATCTGGTGGCTCTGTCACATATATCTGTT
Found at i:46547623 original size:27 final size:27
Alignment explanation
Indices: 46547472--46547630 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
46547462 AGGAAGCGTC
* *
46547472 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGTCACAA-TATCTGTAT
*
46547499 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGTCACA-ATATCTGTAT
* * * *
46547526 CTGGTGGCTATGCCACGATTATCT-CAT
1 CTGGTGGCTCTGTCAC-AATATCTGTAT
46547553 CTGGTGGCTCTGTCACATATATCTGT-T
1 CTGGTGGCTCTGTCACA-ATATCTGTAT
*
46547580 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGTCACAATATCTGTAT
*
46547607 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GTCACAATATCTG
46547631 GCAGCCTCGA
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.09
27 101 0.89
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGTCACAATATCTGTAT
Found at i:46565391 original size:15 final size:14
Alignment explanation
Indices: 46565367--46565408 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 14
46565357 TTATATTTGG
46565367 TTTATTATTTTATT
1 TTTATTATTTTATT
46565381 TTTAGTTA-TTTATT
1 TTTA-TTATTTTATT
46565395 TTTAATTATTTTAT
1 TTT-ATTATTTTAT
46565409 CTGACTTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (14 bp):
TTTATTATTTTATT
Found at i:46569415 original size:11 final size:11
Alignment explanation
Indices: 46569399--46569427 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
46569389 AGAAAAAATA
46569399 AAAGATTTTCC
1 AAAGATTTTCC
46569410 AAAGATTTTCC
1 AAAGATTTTCC
46569421 AAAGATT
1 AAAGATT
46569428 GTAACTCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.34
Consensus pattern (11 bp):
AAAGATTTTCC
Found at i:46583516 original size:92 final size:89
Alignment explanation
Indices: 46583322--46583529 Score: 233
Period size: 92 Copynumber: 2.3 Consensus size: 89
46583312 TTAAGGATGT
*
46583322 AAAAAGCCCTCAAACTTAAAAATAAAAAATAAAACAATTAAGCCTCTATTTTTTTTAACTCAATT
1 AAAAATCCCTCAAACTT-AAAA-AAAAAATAAAACAATTAAGCCTCTATTTTTTTTAACTCAATT
* ** *
46583387 GGGTATTTGAACTTTCAATATGTATA
64 GGATATTTGAACTGACAAAATGTATA
* * *
46583413 AAAAATGCCTCAAACTTAAAAAAAAAA-AAAGCAATTAAGTCC-CTATCTTTTTTTTTGCACTCA
1 AAAAATCCCTCAAACTTAAAAAAAAAATAAAACAATTAAG-CCTCTA---TTTTTTTT-AACTCA
46583476 ATTGGATATTTGAACTGACAAAATGTAT-
61 ATTGGATATTTGAACTGACAAAATGTATA
* *
46583504 AAAAATACCCTCAAATTTTAAAAAAA
1 AAAAAT-CCCTCAAACTTAAAAAAAA
46583530 TTTAAGCCCC
Statistics
Matches: 100, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
88 14 0.14
89 8 0.08
90 4 0.04
91 29 0.29
92 45 0.45
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.32
Consensus pattern (89 bp):
AAAAATCCCTCAAACTTAAAAAAAAAATAAAACAATTAAGCCTCTATTTTTTTTAACTCAATTGG
ATATTTGAACTGACAAAATGTATA
Found at i:46583737 original size:29 final size:30
Alignment explanation
Indices: 46583684--46583756 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
46583674 CATGTGACAA
46583684 AAAATTATAA-AAAAATAAATAAAAA-ATATT
1 AAAATT-TAATAAAAATAAATAAAAATAT-TT
*
46583714 AAAATTTAATAAAAA-ATATAAAAATATTT
1 AAAATTTAATAAAAATAAATAAAAATATTT
*
46583743 AAAATTTACTAAAA
1 AAAATTTAATAAAA
46583757 CTTAGAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
29 26 0.67
30 13 0.33
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.30
Consensus pattern (30 bp):
AAAATTTAATAAAAATAAATAAAAATATTT
Found at i:46583742 original size:22 final size:21
Alignment explanation
Indices: 46583682--46583744 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
46583672 CACATGTGAC
* *
46583682 AAAAAATTATAAAAAAATAAAT
1 AAAAAA-TATAAAAAATTTAAT
*
46583704 AAAAAATAT-TAAAATTTAAT
1 AAAAAATATAAAAAATTTAAT
46583724 AAAAAATATAAAAATATTTAA
1 AAAAAATATAAAAA-ATTTAA
46583745 AATTTACTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 17 0.49
21 6 0.17
22 12 0.34
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAAATATAAAAAATTTAAT
Found at i:46583808 original size:19 final size:19
Alignment explanation
Indices: 46583683--46583808 Score: 55
Period size: 19 Copynumber: 6.7 Consensus size: 19
46583673 ACATGTGACA
*
46583683 AAAAATTATAAAAAAATAAAT
1 AAAAATTAT--AAAAATATAT
* * *
46583704 AAAAAATATTAAAATTTAAT
1 AAAAATTATAAAAATAT-AT
* *
46583724 AAAAAATATAAAAATATTT
1 AAAAATTATAAAAATATAT
* *
46583743 AAAATTTACT-AAAA-CT-T
1 AAAAATTA-TAAAAATATAT
* *
46583760 AGAAA-TA-AAAAATACAT
1 AAAAATTATAAAAATATAT
*** *
46583777 AAATCGTAAAAAAATATAT
1 AAAAATTATAAAAATATAT
46583796 AAAAATTATAAAA
1 AAAAATTATAAAA
46583809 TGCATCAAAA
Statistics
Matches: 76, Mismatches: 22, Indels: 16
0.67 0.19 0.14
Matches are distributed among these distances:
15 4 0.05
16 2 0.03
17 7 0.09
18 3 0.04
19 34 0.45
20 18 0.24
21 8 0.11
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (19 bp):
AAAAATTATAAAAATATAT
Found at i:46584126 original size:21 final size:21
Alignment explanation
Indices: 46584100--46584140 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
46584090 TACTTTATCA
46584100 TTTTTT-TAAGATTTTTATAAT
1 TTTTTTCTAA-ATTTTTATAAT
*
46584121 TTTTTTCTAATTTTTTATAA
1 TTTTTTCTAAATTTTTATAA
46584141 AAATTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTTTTCTAAATTTTTATAAT
Found at i:46584171 original size:28 final size:27
Alignment explanation
Indices: 46584124--46584178 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
46584114 TTATAATTTT
46584124 TTTCTAATTTTTTATAAAAATTAAATA
1 TTTCTAATTTTTTATAAAAATTAAATA
* * *
46584151 TTTCTTATATTTTTATTAAAATTTAATA
1 TTTCTAAT-TTTTTATAAAAATTAAATA
46584179 ATATAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (27 bp):
TTTCTAATTTTTTATAAAAATTAAATA
Found at i:46584596 original size:29 final size:29
Alignment explanation
Indices: 46584548--46584612 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
46584538 TGCTTTAGCC
*
46584548 TTTTTATTCTTTTAAGTTGTATCA-GCTT
1 TTTTTTTTCTTTTAAGTTGTATCAGGCTT
*
46584576 TTTTTTTTC-TTTAAGCCTTGTTTCAGGCTT
1 TTTTTTTTCTTTTAAG--TTGTATCAGGCTT
46584606 TTTTTTT
1 TTTTTTT
46584613 ATCTGTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 6 0.19
28 8 0.25
29 7 0.22
30 11 0.34
ACGTcount: A:0.12, C:0.12, G:0.11, T:0.65
Consensus pattern (29 bp):
TTTTTTTTCTTTTAAGTTGTATCAGGCTT
Found at i:46588858 original size:19 final size:19
Alignment explanation
Indices: 46588834--46588871 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
46588824 AACCTAAGGG
46588834 TAAAATAGTAAA-TAAATAA
1 TAAAAT-GTAAATTAAATAA
46588853 TAAAATGTAAATTAAATAA
1 TAAAATGTAAATTAAATAA
46588872 AACTTTAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
TAAAATGTAAATTAAATAA
Found at i:46589079 original size:24 final size:24
Alignment explanation
Indices: 46589047--46589095 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
46589037 CCGAGGGTCA
46589047 ATTTGTAAAACTGTTAAATGTTAT
1 ATTTGTAAAACTGTTAAATGTTAT
46589071 ATTTGTAAAACTGTTAAATGTTAT
1 ATTTGTAAAACTGTTAAATGTTAT
46589095 A
1 A
46589096 GATTATGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (24 bp):
ATTTGTAAAACTGTTAAATGTTAT
Found at i:46593356 original size:74 final size:73
Alignment explanation
Indices: 46593246--46593393 Score: 199
Period size: 74 Copynumber: 2.0 Consensus size: 73
46593236 TTCAAAAATT
* * * * *
46593246 ATTTTTAAAATAATACAAACTAAAAAAATTTGAATCAATATTTTAAATAATTACAGAGTGATAAA
1 ATTTTTAAAAAAATACAAACTAAAAAAATTTGAATCAATAGTTTAAAAAATTACAAAGTCATAAA
46593311 TTTAGAAA
66 TTTAGAAA
*
46593319 ATTTTTAAAAAAAATGAC-AACTAAAAAATTTTGAATCAATAGTTTAAAAAATTACAAAGTCATA
1 ATTTTT-AAAAAAAT-ACAAACTAAAAAAATTTGAATCAATAGTTTAAAAAATTACAAAGTCATA
* *
46593383 CATTTTGAAA
64 AATTTAGAAA
46593393 A
1 A
46593394 AAGATTTTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
73 6 0.09
74 57 0.88
75 2 0.03
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (73 bp):
ATTTTTAAAAAAATACAAACTAAAAAAATTTGAATCAATAGTTTAAAAAATTACAAAGTCATAAA
TTTAGAAA
Found at i:46593407 original size:39 final size:39
Alignment explanation
Indices: 46593321--46593438 Score: 105
Period size: 39 Copynumber: 3.1 Consensus size: 39
46593311 TTTAGAAAAT
* * * ** *
46593321 TTTTAAAAAAAATGAC-AACTAAAAAATTTTGAATCAATA
1 TTTT-AAAAAAATTACAAACTAATAAATTTTAAAAAAAGA
* * * * *
46593360 GTTT-AAAAAATTACAAAGTCATACATTTTGAAAAAAGA
1 TTTTAAAAAAATTACAAACTAATAAATTTTAAAAAAAGA
*
46593398 TTTTAAAAAATTTACAAACTAATAAATTTTAAAAAAAGA
1 TTTTAAAAAAATTACAAACTAATAAATTTTAAAAAAAGA
46593437 TT
1 TT
46593439 AATAATAAAA
Statistics
Matches: 62, Mismatches: 15, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
37 9 0.15
38 19 0.31
39 34 0.55
ACGTcount: A:0.55, C:0.07, G:0.06, T:0.32
Consensus pattern (39 bp):
TTTTAAAAAAATTACAAACTAATAAATTTTAAAAAAAGA
Found at i:46593432 original size:38 final size:38
Alignment explanation
Indices: 46593361--46593438 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 38
46593351 GAATCAATAG
* * * *
46593361 TTTAAAAAATTACAAAGTCATACATTTTGAAAAAAGAT
1 TTTAAAAAATTACAAACTAATAAATTTTAAAAAAAGAT
46593399 TTTAAAAAATTTACAAACTAATAAATTTTAAAAAAAGAT
1 TTTAAAAAA-TTACAAACTAATAAATTTTAAAAAAAGAT
46593438 T
1 T
46593439 AATAATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
38 9 0.26
39 26 0.74
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.33
Consensus pattern (38 bp):
TTTAAAAAATTACAAACTAATAAATTTTAAAAAAAGAT
Found at i:46594575 original size:140 final size:140
Alignment explanation
Indices: 46594333--46594622 Score: 499
Period size: 140 Copynumber: 2.1 Consensus size: 140
46594323 TGACCTTGGG
* *
46594333 ACACGCCCGTGTTAGAGGCCGTGTTCGACCCTGTGCAACACTCTGACTTGCACACACAGCCAAGC
1 ACACGCCCGTGTTAGAGGCCGTGTTCGACCCCGTGCAACACTCTGACTTGCACACACAACCAAGC
* *
46594398 TACACGCCTGTGTGCTAGGCCTTCTAGTTAATTAATTCAATTCGAAATTAGGTGTAGGTTTCACA
66 TACACGCCTGTGTGCTAGGCCATCTAGTTAATTAATTCAATTCGAAATTAGGTGCAGGTTTCACA
*
46594463 TGACCAAGAC
131 CGACCAAGAC
* *
46594473 ACACGTCCGTGTTAGAGGCCGTGTTCGACCCCGTGCAACACTTTGACTTGCACACACAACCAAGC
1 ACACGCCCGTGTTAGAGGCCGTGTTCGACCCCGTGCAACACTCTGACTTGCACACACAACCAAGC
* *
46594538 TACACGCCTGTGTGCTAGGCCATCTGGTTAATTAATTCAATTTGAAATTAGGTGCAGGTTTCACA
66 TACACGCCTGTGTGCTAGGCCATCTAGTTAATTAATTCAATTCGAAATTAGGTGCAGGTTTCACA
46594603 CGACCAAGAC
131 CGACCAAGAC
46594613 ACACGCCCGT
1 ACACGCCCGT
46594623 CTGGCACACA
Statistics
Matches: 140, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (140 bp):
ACACGCCCGTGTTAGAGGCCGTGTTCGACCCCGTGCAACACTCTGACTTGCACACACAACCAAGC
TACACGCCTGTGTGCTAGGCCATCTAGTTAATTAATTCAATTCGAAATTAGGTGCAGGTTTCACA
CGACCAAGAC
Found at i:46596014 original size:12 final size:11
Alignment explanation
Indices: 46595999--46596047 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
46595989 CAAAATTTTG
46595999 AAATAAATCATA
1 AAATAAAT-ATA
46596011 AAATAAATA-A
1 AAATAAATATA
*
46596021 AAATAAAAATA
1 AAATAAATATA
46596032 AAA-AATATATA
1 AAATAA-ATATA
46596043 AAATA
1 AAATA
46596048 TAAAGTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 11 0.34
11 12 0.38
12 9 0.28
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (11 bp):
AAATAAATATA
Found at i:46596020 original size:16 final size:16
Alignment explanation
Indices: 46595999--46596047 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
46595989 CAAAATTTTG
*
46595999 AAATAAATCATAAAAT
1 AAATAAATAATAAAAT
46596015 AAATAAA-AATAAAAAT
1 AAATAAATAAT-AAAAT
46596031 AAA-AAATATATAAAAT
1 AAATAAATA-ATAAAAT
46596047 A
1 A
46596048 TAAAGTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 5 0.17
16 22 0.76
17 2 0.07
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (16 bp):
AAATAAATAATAAAAT
Found at i:46597784 original size:13 final size:13
Alignment explanation
Indices: 46597766--46597798 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
46597756 ATTTGATTTA
46597766 TTATTTTTTGGTT
1 TTATTTTTTGGTT
46597779 TTA-TTTTTGGTT
1 TTATTTTTTGGTT
46597791 TTGATTTT
1 TT-ATTTT
46597799 GGTGTAGGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 11 0.61
13 4 0.22
14 3 0.17
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (13 bp):
TTATTTTTTGGTT
Found at i:46597785 original size:12 final size:13
Alignment explanation
Indices: 46597770--46597798 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
46597760 GATTTATTAT
46597770 TTTTTGGTTTT-A
1 TTTTTGGTTTTGA
46597782 TTTTTGGTTTTGA
1 TTTTTGGTTTTGA
46597795 TTTT
1 TTTT
46597799 GGTGTAGGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.07, C:0.00, G:0.17, T:0.76
Consensus pattern (13 bp):
TTTTTGGTTTTGA
Found at i:46599189 original size:20 final size:20
Alignment explanation
Indices: 46599160--46599224 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
46599150 AGCACATATA
*
46599160 TTCATAAAATTTTAAAATTT
1 TTCATCAAATTTTAAAATTT
46599180 TTCATCAAATTTTAAAATTT
1 TTCATCAAATTTTAAAATTT
* *
46599200 TTCATCAAATTTTACAACTT
1 TTCATCAAATTTTAAAATTT
46599220 TTCAT
1 TTCAT
46599225 TTTAGTCCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.49
Consensus pattern (20 bp):
TTCATCAAATTTTAAAATTT
Found at i:46599191 original size:12 final size:12
Alignment explanation
Indices: 46599174--46599212 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
46599164 TAAAATTTTA
46599174 AAATTTTTCATC
1 AAATTTTTCATC
46599186 AAA-TTTT-A--
1 AAATTTTTCATC
46599194 AAATTTTTCATC
1 AAATTTTTCATC
46599206 AAATTTT
1 AAATTTT
46599213 ACAACTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 3 0.13
9 4 0.17
10 2 0.09
11 4 0.17
12 10 0.43
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.51
Consensus pattern (12 bp):
AAATTTTTCATC
Found at i:46605434 original size:41 final size:41
Alignment explanation
Indices: 46605373--46605458 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
46605363 GCATTTAAAG
* * *
46605373 TAGGCAAATTCATCATTTAACAAGGCATACCATTGCATGCA
1 TAGGCAAATTCACCACTTAACAAGGCATACCATTGCATACA
46605414 TAGGCAAATTCACCACTTAACAAGGCATACCATTGCATACA
1 TAGGCAAATTCACCACTTAACAAGGCATACCATTGCATACA
46605455 TAGG
1 TAGG
46605459 TGGTTATAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.24
Consensus pattern (41 bp):
TAGGCAAATTCACCACTTAACAAGGCATACCATTGCATACA
Found at i:46606888 original size:20 final size:20
Alignment explanation
Indices: 46606859--46606903 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
46606849 AGCACTTGTA
* *
46606859 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
46606879 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
46606899 TTCAT
1 TTCAT
46606904 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:46609215 original size:51 final size:52
Alignment explanation
Indices: 46609106--46609314 Score: 161
Period size: 52 Copynumber: 4.0 Consensus size: 52
46609096 CCTAAAAAAT
* * * *
46609106 ATTTTTTTTAACTAGTAAAAAGGGTGTTGGTCATCAATGTCCCAACACCTCA
1 ATTTTTTTTAATTAGAAAAAAGGGTGTCGGTCATCAATGTCCCAACACCCCA
* * * * *
46609158 ATTTTTTTTAATTTGAAAAAAGGGTGTCGGTTATTAGTGTTCCAACACCCCA
1 ATTTTTTTTAATTAGAAAAAAGGGTGTCGGTCATCAATGTCCCAACACCCCA
* * * * * *
46609210 A-TTTTTTTAATTCTAG-AAAAGGGGTATCAGCCATCACTGTCCCAGCACCCCA
1 ATTTTTTTTAA-T-TAGAAAAAAGGGTGTCGGTCATCAATGTCCCAACACCCCA
***** * * * * *
46609262 AAAAAATTTAATCAGATAAAAGGGTGTCAGCCATCAGTGTCCCAACACCCCA
1 ATTTTTTTTAATTAGAAAAAAGGGTGTCGGTCATCAATGTCCCAACACCCCA
46609314 A
1 A
46609315 AAAAACTTTT
Statistics
Matches: 124, Mismatches: 29, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
51 11 0.09
52 106 0.85
53 7 0.06
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.30
Consensus pattern (52 bp):
ATTTTTTTTAATTAGAAAAAAGGGTGTCGGTCATCAATGTCCCAACACCCCA
Found at i:46609933 original size:7 final size:7
Alignment explanation
Indices: 46609923--46609951 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
46609913 TGATAATTGA
46609923 TTGATAG
1 TTGATAG
46609930 TTGATAG
1 TTGATAG
46609937 TTGATAG
1 TTGATAG
46609944 TTGATAG
1 TTGATAG
46609951 T
1 T
46609952 GGATTTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (7 bp):
TTGATAG
Found at i:46616803 original size:23 final size:22
Alignment explanation
Indices: 46616777--46616828 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
46616767 AATATTAGAC
* **
46616777 AAAATAATTATATTTTTAAAGGA
1 AAAATAATTA-AATTTTAAAAAA
46616800 AAAATAA-TAAATTTTAAAAAA
1 AAAATAATTAAATTTTAAAAAA
46616821 AAAATAAT
1 AAAATAAT
46616829 ATGAACGGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 16 0.64
22 2 0.08
23 7 0.28
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
AAAATAATTAAATTTTAAAAAA
Found at i:46616816 original size:21 final size:21
Alignment explanation
Indices: 46616790--46616829 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46616780 ATAATTATAT
**
46616790 TTTTAAAGGAAAAATAATAAA
1 TTTTAAAAAAAAAATAATAAA
46616811 TTTTAAAAAAAAAATAATA
1 TTTTAAAAAAAAAATAATA
46616830 TGAACGGACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (21 bp):
TTTTAAAAAAAAAATAATAAA
Found at i:46619987 original size:17 final size:17
Alignment explanation
Indices: 46619962--46619994 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
46619952 TCGAGACATA
*
46619962 AAGACACATTCTCAAAT
1 AAGAAACATTCTCAAAT
46619979 AAGAAACATTCTCAAA
1 AAGAAACATTCTCAAA
46619995 ACCAATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.21, G:0.06, T:0.21
Consensus pattern (17 bp):
AAGAAACATTCTCAAAT
Found at i:46629212 original size:40 final size:40
Alignment explanation
Indices: 46629182--46629409 Score: 370
Period size: 40 Copynumber: 5.7 Consensus size: 40
46629172 GCTACTAGCT
46629182 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
46629222 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
46629262 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
46629302 CAAATTCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
46629342 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
46629381 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
46629410 CAATCCGAAT
Statistics
Matches: 176, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
38 1 0.01
39 34 0.19
40 140 0.80
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:46630612 original size:48 final size:48
Alignment explanation
Indices: 46630522--46630627 Score: 187
Period size: 48 Copynumber: 2.2 Consensus size: 48
46630512 TTTTTCCTTC
46630522 TTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTTTTT
1 TTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTTTTT
46630570 TCTTTTCTTTCTTCTATTC-GCCAAGAACAACATGAGAGCTTTTTTTTT
1 T-TTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTTTTT
*
46630618 TTTTTTTTTC
1 TTTTTCTTTC
46630628 ATCATCATTT
Statistics
Matches: 56, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
47 8 0.14
48 31 0.55
49 17 0.30
ACGTcount: A:0.19, C:0.19, G:0.10, T:0.52
Consensus pattern (48 bp):
TTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTTTTT
Found at i:46639879 original size:40 final size:40
Alignment explanation
Indices: 46639849--46640076 Score: 343
Period size: 40 Copynumber: 5.7 Consensus size: 40
46639839 GCTACTAGCT
46639849 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
46639889 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
46639929 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
46639969 CAAATTCCTTCGGGACTTATCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
46640009 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
46640048 CAAATGCCTTCGAGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
46640077 CAATCCGAAT
Statistics
Matches: 171, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 32 0.19
40 137 0.80
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:46641271 original size:41 final size:42
Alignment explanation
Indices: 46641217--46641312 Score: 176
Period size: 41 Copynumber: 2.3 Consensus size: 42
46641207 TTTTTCCTTC
46641217 TTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGC-TT
1 TTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTT
46641258 TTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTT
1 TTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGC-TTT
46641301 TTTTTCTTTCTT
1 TTTTTCTTTCTT
46641313 TTTTTTTTCA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 39 0.74
43 14 0.26
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (42 bp):
TTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTT
Found at i:46643905 original size:127 final size:127
Alignment explanation
Indices: 46643738--46643992 Score: 465
Period size: 127 Copynumber: 2.0 Consensus size: 127
46643728 CCAGAAATCG
*
46643738 AGAATATAATCCAGAAGAAAATATTAAAGATAATCCAGAAAATCCCTCAGAGAAAACCAGAAGGA
1 AGAATATAATCCAGAAGAAAATAATAAAGATAATCCAGAAAATCCCTCAGAGAAAACCAGAAGGA
**
46643803 AACTATTGTCTATACGCTCTAGAATTCCTCATAACAAAGATAACATAATTCCCGTATATATA
66 AACTATTGTCTATACGCTCTAGAATTCCTCATAACAAAGATAACATAATTCCCACATATATA
* *
46643865 AGAATATAATCTAGAAGAAAATAATAAAGATAATCTAGAAAATCCCTCAGAGAAAACCAGAAGGA
1 AGAATATAATCCAGAAGAAAATAATAAAGATAATCCAGAAAATCCCTCAGAGAAAACCAGAAGGA
46643930 AACTATTGTCTATACGCTCTAGAATTCCTCATAACAAAGATAACATAATTCCCACATATATA
66 AACTATTGTCTATACGCTCTAGAATTCCTCATAACAAAGATAACATAATTCCCACATATATA
46643992 A
1 A
46643993 ATCATAATCA
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
127 123 1.00
ACGTcount: A:0.47, C:0.18, G:0.11, T:0.24
Consensus pattern (127 bp):
AGAATATAATCCAGAAGAAAATAATAAAGATAATCCAGAAAATCCCTCAGAGAAAACCAGAAGGA
AACTATTGTCTATACGCTCTAGAATTCCTCATAACAAAGATAACATAATTCCCACATATATA
Found at i:46644121 original size:95 final size:95
Alignment explanation
Indices: 46644011--46644201 Score: 355
Period size: 95 Copynumber: 2.0 Consensus size: 95
46644001 CAATAGAACA
46644011 TCAGAATAATCTCACGTAGATTTTTACTATCAACTTCATTCCAGTATATCAGAATAGAAATCTGA
1 TCAGAATAATCTCACGTAGATTTTTACTATCAACTTCATTCCAGTATATCAGAATAGAAATCTGA
*
46644076 AGAGATGGAGTAATGTCAATCAGAACTAAC
66 AGAGATGGAGAAATGTCAATCAGAACTAAC
46644106 TCAGAATAATCTCACGTAGATTTTTACTATCAACTTCATTCCAGTATATCAGAATAGAAATCTGA
1 TCAGAATAATCTCACGTAGATTTTTACTATCAACTTCATTCCAGTATATCAGAATAGAAATCTGA
* *
46644171 AGAGATGGAGAAATGTCGATCATAACTAAC
66 AGAGATGGAGAAATGTCAATCAGAACTAAC
46644201 T
1 T
46644202 GGACCAATAG
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (95 bp):
TCAGAATAATCTCACGTAGATTTTTACTATCAACTTCATTCCAGTATATCAGAATAGAAATCTGA
AGAGATGGAGAAATGTCAATCAGAACTAAC
Found at i:46644990 original size:46 final size:46
Alignment explanation
Indices: 46644940--46645061 Score: 154
Period size: 46 Copynumber: 2.6 Consensus size: 46
46644930 TAACCATGTC
* * *
46644940 GATGCATGTCCTAGACATGTCTTACACTAGCTAACATCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCCAACATCTCAAGGCT
** * *
46644986 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCCAACATCTCAAGGCT
*
46645032 GATGCCATGTCCCAAACATGGTCTTACACT
1 GATG-CATGTCCCAGACAT-GTCTTACACT
46645062 GGCACACAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
46 43 0.65
47 13 0.20
48 10 0.15
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCCAACATCTCAAGGCT
Found at i:46646192 original size:28 final size:30
Alignment explanation
Indices: 46646110--46646178 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
46646100 TGGCGATAGA
*
46646110 CCGTGTGTCACACACGGTCTAGACACATGC
1 CCGTGTGTCACACACGGTCTAGACACACGC
46646140 CCGTGTGTCACACACGGTCTAGACACACGC
1 CCGTGTGTCACACACGGTCTAGACACACGC
46646170 CCGTGTGTC
1 CCGTGTGTC
46646179 TACCCGTGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (30 bp):
CCGTGTGTCACACACGGTCTAGACACACGC
Found at i:46648963 original size:47 final size:47
Alignment explanation
Indices: 46648909--46649411 Score: 703
Period size: 47 Copynumber: 10.6 Consensus size: 47
46648899 TATTTGAATA
*
46648909 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
46648956 AATGTGAAAGTGTGTATATATGTGATAAGG-CGTAATGGCCAATGTGATG
1 AATGTGAAA--GTGTATATATGTGATAAGGCCG-AATGGCCAATGTGATG
46649005 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
46649054 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
46649103 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
46649150 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
46649197 AATGTGAACA-TATGTATGTGTGATAAGGCCGAATGGTCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
46649244 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
46649291 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
46649338 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGCCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
46649385 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
46649412 TCCCGAAGGG
Statistics
Matches: 423, Mismatches: 25, Indels: 16
0.91 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 283 0.67
48 1 0.00
49 135 0.32
50 3 0.01
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:46649266 original size:25 final size:25
Alignment explanation
Indices: 46649190--46649267 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
46649180 GAATGGCCAA
*
46649190 TGTGATGAATGTGAACATATGTATG
1 TGTGATGAATGTGAACATGTGTATG
* * *
46649215 TGTGAT-AAGGCCG-A-ATG-GTCA-A
1 TGTGATGAATG-TGAACATGTGT-ATG
46649237 TGTGATGAATGTGAACATGTGTATG
1 TGTGATGAATGTGAACATGTGTATG
46649262 TGTGAT
1 TGTGAT
46649268 AAGGCCGAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 14
0.65 0.12 0.23
Matches are distributed among these distances:
22 9 0.23
23 7 0.18
24 8 0.21
25 15 0.38
ACGTcount: A:0.29, C:0.06, G:0.31, T:0.33
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGTGTATG
Found at i:46653158 original size:26 final size:26
Alignment explanation
Indices: 46653129--46653236 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
46653119 TGGTACAAAT
46653129 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
46653155 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
46653181 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
46653207 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
46653233 TGAT
1 TGAT
46653237 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:46660228 original size:26 final size:26
Alignment explanation
Indices: 46660199--46660306 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
46660189 TGGTACAAAT
46660199 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
46660225 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
46660251 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
46660277 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
46660303 TGAT
1 TGAT
46660307 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:46664287 original size:17 final size:17
Alignment explanation
Indices: 46664267--46664340 Score: 67
Period size: 17 Copynumber: 4.4 Consensus size: 17
46664257 AAATGGCAGC
* *
46664267 TCATGCAAAATAATAAT
1 TCATACAAAATAACAAT
** * *
46664284 TCATATGAAATATCAGT
1 TCATACAAAATAACAAT
**
46664301 TCATACCGAATAACAAT
1 TCATACAAAATAACAAT
*
46664318 TCATGCAAAATAACAAT
1 TCATACAAAATAACAAT
46664335 TCATAC
1 TCATAC
46664341 TCCATCATAA
Statistics
Matches: 42, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 42 1.00
ACGTcount: A:0.47, C:0.18, G:0.07, T:0.28
Consensus pattern (17 bp):
TCATACAAAATAACAAT
Found at i:46664322 original size:51 final size:51
Alignment explanation
Indices: 46664231--46664339 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 51
46664221 CCAAACATTT
* ** * *
46664231 ATTCATATGAAATAACAGTTCTTACCAAATGGCAGCTCATGCAAAATAATA
1 ATTCATATGAAATAACAGTTCATACCAAATAACAACTCATGCAAAATAACA
* * *
46664282 ATTCATATGAAATATCAGTTCATACCGAATAACAATTCATGCAAAATAACA
1 ATTCATATGAAATAACAGTTCATACCAAATAACAACTCATGCAAAATAACA
46664333 ATTCATA
1 ATTCATA
46664340 CTCCATCATA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.28
Consensus pattern (51 bp):
ATTCATATGAAATAACAGTTCATACCAAATAACAACTCATGCAAAATAACA
Found at i:46664989 original size:20 final size:20
Alignment explanation
Indices: 46664966--46665009 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
46664956 AAAATCTCAC
* *
46664966 AATACACAGTTCGCCATATT
1 AATACACAGATCACCATATT
46664986 AAT--ACAGATCACCATATT
1 AATACACAGATCACCATATT
46665004 AATACA
1 AATACA
46665010 TATTAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
18 16 0.80
20 4 0.20
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (20 bp):
AATACACAGATCACCATATT
Found at i:46667596 original size:34 final size:34
Alignment explanation
Indices: 46667553--46667621 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
46667543 GTAAGTTTAG
*
46667553 TTTCGTTATACGAACTAATTAAGCATGTAATGCT
1 TTTCGTTATACGAACTAACTAAGCATGTAATGCT
*
46667587 TTTCGTTATACGAACTTACTAAGCATGTAATGCT
1 TTTCGTTATACGAACTAACTAAGCATGTAATGCT
46667621 T
1 T
46667622 ACTCCGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (34 bp):
TTTCGTTATACGAACTAACTAAGCATGTAATGCT
Found at i:46676513 original size:25 final size:25
Alignment explanation
Indices: 46676484--46676531 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46676474 TTATAATATG
** *
46676484 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
46676509 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
46676532 ATTTAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:46676716 original size:50 final size:50
Alignment explanation
Indices: 46676662--46676781 Score: 145
Period size: 50 Copynumber: 2.4 Consensus size: 50
46676652 GAGGAAGTGC
* * *
46676662 AAAAGGGGTATGCCCCAGTTTACCGAAAGGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTATCA
* * *
46676712 AAAAGGGCTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCCCAG-TTAT-T
1 AAAAGGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTATCA
*
46676760 AAAAGAGGCTAGGCCTCCAGTT
1 AAAAG-GGCTATGCC-CCAGTT
46676782 ATATGATAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
48 5 0.08
49 11 0.18
50 44 0.73
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTATCA
Found at i:46676769 original size:24 final size:25
Alignment explanation
Indices: 46676662--46676756 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
46676652 GAGGAAGTGC
* * * *
46676662 AAAAGGGGTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
46676687 AAAGGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
46676712 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
46676737 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
46676757 ATTAAAAGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:46677016 original size:31 final size:31
Alignment explanation
Indices: 46676978--46677092 Score: 160
Period size: 31 Copynumber: 3.7 Consensus size: 31
46676968 CATTTGCTGT
*
46676978 AAAGGCTTCGGCGCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
46677009 AAAGGCTTCAGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* * * *
46677040 AAAGGCTTCGGCCCAATGACATGGATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
46677071 AAATGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
46677093 CTGAGATTGA
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
30 4 0.05
31 70 0.95
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:46679053 original size:14 final size:16
Alignment explanation
Indices: 46679018--46679054 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
46679008 AATTTTAATT
46679018 ATTATTATGAGATAAA
1 ATTATTATGAGATAAA
*
46679034 ATTATTATTAGA-AAA
1 ATTATTATGAGATAAA
46679049 A-TATTA
1 ATTATTA
46679055 CTGTATGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 5 0.25
15 4 0.20
16 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (16 bp):
ATTATTATGAGATAAA
Found at i:46679085 original size:12 final size:12
Alignment explanation
Indices: 46679068--46679092 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46679058 TATGTATGTT
46679068 TGAAAATTTTTA
1 TGAAAATTTTTA
46679080 TGAAAATTTTTA
1 TGAAAATTTTTA
46679092 T
1 T
46679093 TATTTGCTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAAATTTTTA
Found at i:46681157 original size:25 final size:25
Alignment explanation
Indices: 46681128--46681175 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46681118 TTATAATATG
** *
46681128 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
46681153 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
46681176 GTTTAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:46681413 original size:24 final size:25
Alignment explanation
Indices: 46681306--46681400 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
46681296 GAGGAAGTGC
* * *
46681306 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
46681331 AAAGGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
46681356 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
46681381 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
46681401 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:46681660 original size:31 final size:31
Alignment explanation
Indices: 46681622--46681705 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
46681612 CATTTGCAGT
* *
46681622 AAAGGCTTTGGCGCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* * * *
46681653 AAAGGCTTCGACCCAGTGACATGGATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
46681684 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
46681706 CTGAGATTGA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 4 0.09
31 41 0.91
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:46687714 original size:63 final size:63
Alignment explanation
Indices: 46687634--46687817 Score: 183
Period size: 64 Copynumber: 2.8 Consensus size: 63
46687624 CATAATTTTG
* * * * *
46687634 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAG-ACAGTTTATCTCGTA
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCACA-TTTAACCCGTA
* * * * *
46687697 GCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACATTTAACCCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGC-ACATTTAACCCG
46687762 TA
62 TA
* *
46687764 GCTCTCTTGTCTACAAGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGC-ACAT
46687818 CATAATGTAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.18
64 28 0.28
66 21 0.21
67 28 0.28
68 3 0.03
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (63 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCACATTTAACCCGTA
Found at i:46696008 original size:81 final size:81
Alignment explanation
Indices: 46695886--46696390 Score: 633
Period size: 81 Copynumber: 6.2 Consensus size: 81
46695876 TACTGAAATG
* ***
46695886 CCCTCGACTTGTAAAATTACCAAAGTACTCCT-GATTTACAGAATTACCATTTTACCCTCGATTT
1 CCCTCGATTTGTAAAATTACCATTTTAC-CCTCGATTTACAGAATTACCATTTTACCCTCGATTT
**
46695950 ACAGAATTATTATTTTA
65 ACAGAATTACCATTTTA
*
46695967 CCCTCGATTTTTAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
1 CCCTCGATTTGTAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
46696032 CAGAATTACCATTTTA
66 CAGAATTACCATTTTA
* * * *
46696048 CCCTCGATTTATAGAATTACCATTTTACCCTC-AGCTTACAGAATTACTATTTTACCCTCGATTT
1 CCCTCGATTTGTAAAATTACCATTTTACCCTCGA-TTTACAGAATTACCATTTTACCCTCGATTT
*
46696112 ACAGAATTACCGTTTTA
65 ACAGAATTACCATTTTA
* * * * *
46696129 CCCTCAATTTGTAAAATTATCGTTTTACCCTCGATGTACAGAATTACCGTTTTACCCTC-AGTTT
1 CCCTCGATTTGTAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGA-TTT
46696193 ACAGAATTACCATTTTA
65 ACAGAATTACCATTTTA
** * * ** * *
46696210 CCCTCGATTTACAAAATTATCATTTTACCCT-AATTTTACAGAATTACTGTTTTACCTTTGATTT
1 CCCTCGATTTGTAAAATTACCATTTTACCCTCGA-TTTACAGAATTACCATTTTACCCTCGATTT
*
46696274 ACAGAATTACCGTTTTA
65 ACAGAATTACCATTTTA
* * ***
46696291 CCCTCAATTTGTAAAATTACCATTTTACCCTCGATTTATAGAATTACTGGTTTACCCTCGATTTA
1 CCCTCGATTTGTAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
*
46696356 CAGAATTACCGTTTTA
66 CAGAATTACCATTTTA
* *
46696372 CCCTTGA-TTGTGAAATTAC
1 CCCTCGATTTGTAAAATTAC
46696391 TGAAATACCC
Statistics
Matches: 373, Mismatches: 44, Indels: 15
0.86 0.10 0.03
Matches are distributed among these distances:
80 17 0.05
81 353 0.95
82 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTGTAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
CAGAATTACCATTTTA
Found at i:46696127 original size:27 final size:27
Alignment explanation
Indices: 46695918--46696380 Score: 563
Period size: 27 Copynumber: 17.1 Consensus size: 27
46695908 AAGTACTCCT
46695918 GATTTACAGAATTACCATTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
**
46695945 GATTTACAGAATTATTATTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
** *
46695972 GATTTTTAAAATTACCATTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
46695999 GATTTACAGAATTACCATTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
46696026 GATTTACAGAATTACCATTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
*
46696053 GATTTATAGAATTACCATTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
* *
46696080 -AGCTTACAGAATTACTATTTTACCCTC
1 GA-TTTACAGAATTACCATTTTACCCTC
*
46696107 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
* ** * * *
46696134 AATTTGTAAAATTATCGTTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
* *
46696161 GATGTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
46696188 -AGTTTACAGAATTACCATTTTACCCTC
1 GA-TTTACAGAATTACCATTTTACCCTC
* *
46696215 GATTTACAAAATTATCATTTTACCCT-
1 GATTTACAGAATTACCATTTTACCCTC
* ** * *
46696241 AATTTTACAGAATTACTGTTTTACCTTT
1 GA-TTTACAGAATTACCATTTTACCCTC
*
46696269 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
* ** *
46696296 AATTTGTAAAATTACCATTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
* ***
46696323 GATTTATAGAATTACTGGTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
* *
46696350 GATTTACAGAATTACCGTTTTACCCTT
1 GATTTACAGAATTACCATTTTACCCTC
46696377 GATT
1 GATT
46696381 GTGAAATTAC
Statistics
Matches: 373, Mismatches: 57, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
26 3 0.01
27 367 0.98
28 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
GATTTACAGAATTACCATTTTACCCTC
Found at i:46696580 original size:27 final size:27
Alignment explanation
Indices: 46696385--46696580 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
46696375 TTGATTGTGA
* *
46696385 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** *
46696412 AATTTTCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * *
46696439 AATTACTAAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
46696466 AATTACCAAAATACCCATGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
46696493 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
46696520 AAATACCGAAATACCTTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
46696547 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
46696574 AATTACC
1 AATTACC
46696581 ATTTTGCCCC
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:46696819 original size:27 final size:27
Alignment explanation
Indices: 46696781--46696833 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
46696771 GAGGAAGCGT
*
46696781 TCTGGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGACTCTGCCACAATATCTGTA
*
46696808 TCTGGTGACTCTGTCACAATATCTGT
1 TCTGGTGACTCTGCCACAATATCTGT
46696834 TGACCGATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.36
Consensus pattern (27 bp):
TCTGGTGACTCTGCCACAATATCTGTA
Found at i:46697167 original size:27 final size:27
Alignment explanation
Indices: 46697137--46697213 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
46697127 TATTCTGTTA
* *
46697137 GGTGGCTTTGCCACATTATCTG-ATTCT
1 GGTGGCTCTGCCACAATATCTGTA-TCT
46697164 GGTGGCTCTGCCACAATATCTGTATCT
1 GGTGGCTCTGCCACAATATCTGTATCT
* * *
46697191 GGTGACTCTGTCACGATATCTGT
1 GGTGGCTCTGCCACAATATCTGT
46697214 TATGGCAGCC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 43 0.98
28 1 0.02
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
GGTGGCTCTGCCACAATATCTGTATCT
Found at i:46697345 original size:6 final size:6
Alignment explanation
Indices: 46697336--46697546 Score: 227
Period size: 6 Copynumber: 34.8 Consensus size: 6
46697326 TTGCATTCAC
* *
46697336 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
46697385 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
* *
46697433 ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
46697482 ATTCTG -TTACTA ATACTG ATTCTG ATTCTG ATTCTG ATTCTG -TTACTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
*
46697530 ATTCTG ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCT
46697547 CATTTTGGTT
Statistics
Matches: 173, Mismatches: 18, Indels: 28
0.79 0.08 0.13
Matches are distributed among these distances:
5 10 0.06
6 151 0.87
7 10 0.06
8 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:46697501 original size:91 final size:91
Alignment explanation
Indices: 46697336--46697535 Score: 300
Period size: 91 Copynumber: 2.2 Consensus size: 91
46697326 TTGCATTCAC
46697336 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
* *
46697401 TGATTCTGATTCTGATTCTG-TTACTG
66 TAATACTGATTCTGATTCTGATT-CTG
* *
46697427 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGATT-CTGATTCTG-TT
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTG-TTACTAATACTGATT
46697490 ACTAATACTGATTCTGATTCTGATTCTG
65 -CTAATACTGATTCTGATTCTGATTCTG
46697518 ATTCTG-TTACTGATTCTG
1 ATTCTGATT-CTGATTCTG
46697536 ATTTTGATTC
Statistics
Matches: 101, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
90 4 0.04
91 93 0.92
92 4 0.04
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.47
Consensus pattern (91 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TAATACTGATTCTGATTCTGATTCTG
Found at i:46699612 original size:25 final size:26
Alignment explanation
Indices: 46699523--46699898 Score: 247
Period size: 25 Copynumber: 14.8 Consensus size: 26
46699513 AAAGTACTCT
* **
46699523 GATTTACAAAATTACAATTTTACCCTC
1 GATTTACAGAATTACCGTTTTA-CCTC
*
46699550 GATTTACAGAATTATC-TTTTACCTCC
1 GATTTACAGAATTACCGTTTTACCT-C
** *
46699576 TTTTTA-AAAATTACCGTTTTACCTC
1 GATTTACAGAATTACCGTTTTACCTC
46699601 GA-TTACAGAATTACC-TATTTACCTC
1 GATTTACAGAATTACCGT-TTTACCTC
*
46699626 -AGTTTA-AG-ATTA-C-ATTTACCTC
1 GA-TTTACAGAATTACCGTTTTACCTC
* *
46699648 GATTTATAGAATTA-CATTTTACC-C
1 GATTTACAGAATTACCGTTTTACCTC
* *
46699672 TAATTCACAGAATTA-C-TATTTACCCTC
1 -GATTTACAGAATTACCGT-TTTA-CCTC
*
46699699 GATTTAACAGAATTATCGTTTTAACCCTC
1 GATTT-ACAGAATTACCGTTTT-A-CCTC
* ** * *
46699728 AATTTGTAAAATTATCGTTTTACCTC
1 GATTTACAGAATTACCGTTTTACCTC
46699754 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTA-CCTC
**
46699781 -AGTTTACAGAATTA-CAATTTACC-C
1 GA-TTTACAGAATTACCGTTTTACCTC
* *
46699805 TGATTTACAGAATTATC--TTTA-CTA
1 -GATTTACAGAATTACCGTTTTACCTC
* * *
46699829 GTTTTACAGAATTACTG-TTTACCTT
1 GATTTACAGAATTACCGTTTTACCTC
46699854 GATTTACAGAATTACCGTTTTA-CTC
1 GATTTACAGAATTACCGTTTTACCTC
*
46699879 GATTTATA-AATTACCGTTTT
1 GATTTACAGAATTACCGTTTT
46699899 TACCCCGCTT
Statistics
Matches: 285, Mismatches: 37, Indels: 57
0.75 0.10 0.15
Matches are distributed among these distances:
22 12 0.04
23 18 0.06
24 37 0.13
25 91 0.32
26 59 0.21
27 40 0.14
28 17 0.06
29 11 0.04
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (26 bp):
GATTTACAGAATTACCGTTTTACCTC
Found at i:46699624 original size:51 final size:53
Alignment explanation
Indices: 46699525--46699876 Score: 205
Period size: 48 Copynumber: 6.9 Consensus size: 53
46699515 AGTACTCTGA
*
46699525 TTTACAAAATTACAATTTTACCCTCGATTTACAGAATTATCTTTTACCTCCTT
1 TTTACAAAATTACAATTTTACCCTCGATTTACAGAATTACCTTTTACCTCCTT
** **
46699578 TTTA-AAAATTACCGTTTTA-CCTCGA-TTACAGAATTACCTATTTACCT-CAG
1 TTTACAAAATTACAATTTTACCCTCGATTTACAGAATTACCT-TTTACCTCCTT
* * * *
46699628 TTT--AAGATTAC-A-TTTA-CCTCGATTTATAGAATTACATTTTA-C-CCTAA
1 TTTACAAAATTACAATTTTACCCTCGATTTACAGAATTACCTTTTACCTCCT-T
* * * * *
46699675 TTCACAGAATTACTA-TTTACCCTCGATTTAACAGAATTATCGTTTTAACCCTCAATT
1 TTTACAAAATTACAATTTTACCCTCGATTT-ACAGAATTA-CCTTTT-A-CCTC-CTT
* * **
46699732 TGT--AAAATTATC-GTTTTA-CCTCGATTTACAGAATTACCGTTTTACC-CTCAG
1 TTTACAAAATTA-CAATTTTACCCTCGATTTACAGAATTACC-TTTTACCTC-CTT
* * **
46699783 TTTACAGAATTACAA-TTTACCCT-GATTTACAGAATTATC-TTTA-CT-AGT
1 TTTACAAAATTACAATTTTACCCTCGATTTACAGAATTACCTTTTACCTCCTT
* *
46699831 TTTACAGAATTAC--TGTTTA-CCTTGATTTACAGAATTACCGTTTTAC
1 TTTACAAAATTACAAT-TTTACCCTCGATTTACAGAATTACC-TTTTAC
46699877 TCGATTTATA
Statistics
Matches: 235, Mismatches: 35, Indels: 60
0.71 0.11 0.18
Matches are distributed among these distances:
46 2 0.01
47 19 0.08
48 44 0.19
49 14 0.06
50 30 0.13
51 25 0.11
52 43 0.18
53 20 0.09
54 14 0.06
55 15 0.06
56 6 0.03
57 2 0.01
58 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (53 bp):
TTTACAAAATTACAATTTTACCCTCGATTTACAGAATTACCTTTTACCTCCTT
Found at i:46700068 original size:76 final size:75
Alignment explanation
Indices: 46699986--46700134 Score: 205
Period size: 76 Copynumber: 2.0 Consensus size: 75
46699976 GAAATTACTG
*
46699986 AAATACCC-TGTAGGGTAGAATT-TCGAAATACCCTGTAGGGTAGAATTACTAAATA-CCTTATA
1 AAATACCCATGTAGGGTAGAATTATCGAAATA-CCTGTA-GGTAGAA-TACAAAATACCCTTAT-
46700048 GGATAGAATTACCA
62 GGATAGAATTACCA
* * *
46700062 AAATACCCATGTAGGGTAGAATTATCGAAATACCTTTAGGTAGAATACAAAATACCCTTGTGGGT
1 AAATACCCATGTAGGGTAGAATTATCGAAATACCTGTAGGTAGAATACAAAATACCCTTATGGAT
46700127 AGAATTAC
66 AGAATTAC
46700135 AGATACCCTT
Statistics
Matches: 66, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
75 19 0.29
76 20 0.30
77 19 0.29
78 8 0.12
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (75 bp):
AAATACCCATGTAGGGTAGAATTATCGAAATACCTGTAGGTAGAATACAAAATACCCTTATGGAT
AGAATTACCA
Found at i:46700127 original size:24 final size:26
Alignment explanation
Indices: 46699986--46700157 Score: 177
Period size: 25 Copynumber: 7.0 Consensus size: 26
46699976 GAAATTACTG
* *
46699986 AAATACCC-TGTAGGGTAGAATTTCG
1 AAATACCCTTGTAGGGTAGAATTACA
*
46700011 AAATACCC-TGTAGGGTAGAATTACT
1 AAATACCCTTGTAGGGTAGAATTACA
* *
46700036 AAATA-CCTTATAGGATAGAATTACCA
1 AAATACCCTTGTAGGGTAGAATTA-CA
* *
46700062 AAATACCCATGTAGGGTAGAATTATCG
1 AAATACCCTTGTAGGGTAGAATTA-CA
46700089 AAATA-CCTT-TA-GGTAGAA-TACA
1 AAATACCCTTGTAGGGTAGAATTACA
46700111 AAATACCCTTGT-GGGTAGAATTAC-
1 AAATACCCTTGTAGGGTAGAATTACA
*
46700135 AGATACCCTTGT-GGGTA-AATTAC
1 AAATACCCTTGTAGGGTAGAATTAC
46700158 CATTTTGCCC
Statistics
Matches: 127, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
22 6 0.05
23 12 0.09
24 33 0.26
25 46 0.36
26 9 0.07
27 21 0.17
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (26 bp):
AAATACCCTTGTAGGGTAGAATTACA
Found at i:46700395 original size:23 final size:24
Alignment explanation
Indices: 46700351--46700399 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
46700341 ACGGAGGAGC
*
46700351 GTTCTGGTGGCTTGCCACATATCT
1 GTTCTGGTGGCTTGACACATATCT
46700375 GTTCTGGT-GCTTGTACA-ATATCT
1 GTTCTGGTGGCTTG-ACACATATCT
46700398 GT
1 GT
46700400 CTTTGTGACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.14, C:0.20, G:0.24, T:0.41
Consensus pattern (24 bp):
GTTCTGGTGGCTTGACACATATCT
Found at i:46719526 original size:91 final size:93
Alignment explanation
Indices: 46719359--46719527 Score: 263
Period size: 91 Copynumber: 1.8 Consensus size: 93
46719349 CCCCCTAAGT
* * *
46719359 GAACTCGGACTCAACTCAATGAGCTCTCGGCGTTCGCATCCATAAATGAACTCGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCTCGACATTCGCATCCATAAATGAACTCGACTCAACTCAA
46719424 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
46719452 GAACTCGGACTCAACTCAACGAG-T-TCGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCTCGACATTCGCATCCATAAATGAACTC-GACTCAACTCA
46719515 ACGAGTT-GGATGC
65 ACGAGTTCGGATGC
46719528 TCAACCATCC
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
91 29 0.41
92 19 0.27
93 22 0.31
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCTCGACATTCGCATCCATAAATGAACTCGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:46719972 original size:29 final size:29
Alignment explanation
Indices: 46719939--46719996 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
46719929 ATTTAATACG
46719939 AACTTTGGAAAAATTACACTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTCCCCTA
* * *
46719968 AACTTTTGCATAATTACACTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTCCCCTA
46719997 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (29 bp):
AACTTTGGAAAAATTACACTTTTCCCCTA
Found at i:46726997 original size:93 final size:93
Alignment explanation
Indices: 46726887--46727057 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
46726877 GCCCCTAAGT
* *
46726887 GAACTCGGACTCAACTCAATGAGCTCAGG-CGTTTGCATCCATAAATGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTTGCATCCATAAATGAACTCGGACTCAACTCA
46726951 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* *
46726980 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAATGAACTCGGACTCAACTCAA
46727045 CGAGTTCGGATGC
66 CGAGTTCGGATGC
46727058 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Done.