Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 143 of 279
Found at i:46470206 original size:38 final size:36
Alignment explanation
Indices: 46470130--46470207 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 36
46470120 ATAAAAACAC
* **
46470130 TAAACCCTAAAAACAAAAACAATAAACCATAATTCT
1 TAAACCCTAAAAAAAAAAACAATAAACCATAACCCT
*
46470166 TAAACCCTAAAAATAATAAAACCATAAA-CACTAACCCT
1 TAAACCCTAAAAA-AA-AAAACAATAAACCA-TAACCCT
46470204 TAAA
1 TAAA
46470208 ATATAAACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
36 13 0.37
37 3 0.09
38 19 0.54
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (36 bp):
TAAACCCTAAAAAAAAAAACAATAAACCATAACCCT
Found at i:46470215 original size:21 final size:21
Alignment explanation
Indices: 46470201--46470258 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
46470191 AAACACTAAC
46470201 CCTTAAAATATAAACTATAAA
1 CCTTAAAATATAAACTATAAA
* * *
46470222 CCTTAAACTATAAGCAATAAA
1 CCTTAAAATATAAACTATAAA
* *
46470243 CCCTAAACATAAAAAC
1 CCTTAAA-ATATAAAC
46470259 CTAAACACCC
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 24 0.83
22 5 0.17
ACGTcount: A:0.55, C:0.21, G:0.02, T:0.22
Consensus pattern (21 bp):
CCTTAAAATATAAACTATAAA
Found at i:46470263 original size:21 final size:21
Alignment explanation
Indices: 46470239--46470376 Score: 66
Period size: 21 Copynumber: 6.2 Consensus size: 21
46470229 CTATAAGCAA
46470239 TAAACCCTAAACATAAAAACC
1 TAAACCCTAAACATAAAAACC
*
46470260 TAAACACCCTAAAAATAAAAACCC
1 T-AA-ACCCTAAACATAAAAA-CC
** * *
46470284 TAAATACTAAAAACAATAAACTC
1 TAAACCCTAAACATAA-AAAC-C
**
46470307 TACAAATACTAAAACCAT-AAAACC
1 T--AAACCCT-AAA-CATAAAAACC
*
46470331 TAAACCCTAAACA-ATAAATCC
1 TAAACCCTAAACATA-AAAACC
* *
46470352 TAAACCC-AAACTCTAAAATCC
1 TAAACCCTAAAC-ATAAAAACC
46470373 TAAA
1 TAAA
46470377 AAAAATAAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
20 6 0.06
21 26 0.28
22 19 0.20
23 22 0.23
24 5 0.05
25 11 0.12
26 4 0.04
27 1 0.01
ACGTcount: A:0.57, C:0.26, G:0.00, T:0.17
Consensus pattern (21 bp):
TAAACCCTAAACATAAAAACC
Found at i:46470271 original size:23 final size:24
Alignment explanation
Indices: 46470242--46470287 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
46470232 TAAGCAATAA
*
46470242 ACCCTAAACATAAAAA-CCTAAAC
1 ACCCTAAAAATAAAAACCCTAAAC
46470265 ACCCTAAAAATAAAAACCCTAAA
1 ACCCTAAAAATAAAAACCCTAAA
46470288 TACTAAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.59, C:0.28, G:0.00, T:0.13
Consensus pattern (24 bp):
ACCCTAAAAATAAAAACCCTAAAC
Found at i:46470296 original size:16 final size:15
Alignment explanation
Indices: 46470254--46470297 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
46470244 CCTAAACATA
*
46470254 AAAACCTAAACACCCT
1 AAAA-CTAAAAACCCT
*
46470270 AAAAATAAAAACCCT
1 AAAACTAAAAACCCT
46470285 AAATACTAAAAAC
1 AAA-ACTAAAAAC
46470298 AATAAACTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.61, C:0.25, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAACTAAAAACCCT
Found at i:46470519 original size:7 final size:7
Alignment explanation
Indices: 46470509--46470573 Score: 67
Period size: 7 Copynumber: 9.0 Consensus size: 7
46470499 CTAAATCTTA
46470509 AAACCAT
1 AAACCAT
46470516 AAACCAT
1 AAACCAT
46470523 AAACCAT
1 AAACCAT
*
46470530 AAATCAT
1 AAACCAT
46470537 AAACCAT
1 AAACCAT
***
46470544 AAGTAAT
1 AAACCAT
46470551 AAAGCCAT
1 AAA-CCAT
*
46470559 AAACCTAA
1 AAACC-AT
46470567 AAACCAT
1 AAACCAT
46470574 GATAATAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
7 35 0.76
8 11 0.24
ACGTcount: A:0.57, C:0.23, G:0.03, T:0.17
Consensus pattern (7 bp):
AAACCAT
Found at i:46470579 original size:29 final size:29
Alignment explanation
Indices: 46470493--46470599 Score: 76
Period size: 29 Copynumber: 3.7 Consensus size: 29
46470483 AAAATACTAC
* * * ***
46470493 TAAACCCTAAATCTTAAAACCATAAACCA
1 TAAACCATAAACCTAAAAACCATAAGTAA
* *
46470522 TAAACCATAAATC-ATAAACCATAAGTAA
1 TAAACCATAAACCTAAAAACCATAAGTAA
*
46470550 TAAAGCCATAAACCTAAAAACCATGA-TAA
1 TAAA-CCATAAACCTAAAAACCATAAGTAA
46470579 TAAAATCC-TAAACCCTAAAAA
1 T-AAA-CCATAAA-CCTAAAAA
46470600 TAATAAACCC
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
28 14 0.22
29 28 0.44
30 22 0.34
ACGTcount: A:0.55, C:0.22, G:0.03, T:0.20
Consensus pattern (29 bp):
TAAACCATAAACCTAAAAACCATAAGTAA
Found at i:46470606 original size:16 final size:16
Alignment explanation
Indices: 46470587--46470644 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
46470577 AATAAAATCC
46470587 TAAACCCTAAAAATAA
1 TAAACCCTAAAAATAA
* * *
46470603 TAAACCCTAAGAACAC
1 TAAACCCTAAAAATAA
* * *
46470619 TAAAACCT-TAAATTA
1 TAAACCCTAAAAATAA
46470634 TAAACCCTAAA
1 TAAACCCTAAA
46470645 CAAAAAACCT
Statistics
Matches: 30, Mismatches: 11, Indels: 2
0.70 0.26 0.05
Matches are distributed among these distances:
15 9 0.30
16 21 0.70
ACGTcount: A:0.55, C:0.22, G:0.02, T:0.21
Consensus pattern (16 bp):
TAAACCCTAAAAATAA
Found at i:46470747 original size:24 final size:23
Alignment explanation
Indices: 46470713--46470758 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
46470703 CTTAACCTCA
*
46470713 AAAACACTAAACCCTAATAACAAT
1 AAAACAATAAACCCTAA-AACAAT
46470737 AAAACAATAAACCCTAAAACAA
1 AAAACAATAAACCCTAAAACAA
46470759 CACCACCACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.63, C:0.24, G:0.00, T:0.13
Consensus pattern (23 bp):
AAAACAATAAACCCTAAAACAAT
Found at i:46470905 original size:15 final size:15
Alignment explanation
Indices: 46470780--46470906 Score: 50
Period size: 15 Copynumber: 8.5 Consensus size: 15
46470770 AAACCTTAAG
*
46470780 CCATAAATCA-TAAA
1 CCATAAAACACTAAA
* *
46470794 CCTTAAAACCCTAAA
1 CCATAAAACACTAAA
*
46470809 CC-TAAACCACTAAA
1 CCATAAAACACTAAA
* * *
46470823 CCCTAAAATTAATAAA
1 CCATAAAA-CACTAAA
46470839 -CATTAAAAC-CTTAAA
1 CCA-TAAAACAC-TAAA
*
46470854 TCATAAAAC-CATAAAAA
1 CCATAAAACAC-T--AAA
* * *
46470871 CCCTAAATC-CCAAA
1 CCATAAAACACTAAA
*
46470885 CAATAAAACACTAAA
1 CCATAAAACACTAAA
46470900 CCATAAA
1 CCATAAA
46470907 CCTTAAAATA
Statistics
Matches: 83, Mismatches: 21, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
14 28 0.34
15 33 0.40
16 12 0.14
17 10 0.12
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CCATAAAACACTAAA
Found at i:46471024 original size:23 final size:23
Alignment explanation
Indices: 46470998--46471105 Score: 128
Period size: 23 Copynumber: 4.7 Consensus size: 23
46470988 AACATAAAAC
*
46470998 CATAAACCCTAAAAACCGTAAAT
1 CATAAACCCTAAAAACCATAAAT
46471021 CATAAACCCTAAAAACCATAAAT
1 CATAAACCCTAAAAACCATAAAT
* * *
46471044 CATAAGCCCTAAAAATCATGAAT
1 CATAAACCCTAAAAACCATAAAT
* * * *
46471067 CCTAAACCCTAAAAACTAAAAAC
1 CATAAACCCTAAAAACCATAAAT
46471090 CATAAAACCC-AAAAAC
1 CAT-AAACCCTAAAAAC
46471106 ACAAAACACT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
23 66 0.92
24 6 0.08
ACGTcount: A:0.55, C:0.27, G:0.03, T:0.16
Consensus pattern (23 bp):
CATAAACCCTAAAAACCATAAAT
Found at i:46479786 original size:17 final size:17
Alignment explanation
Indices: 46479764--46479798 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
46479754 TCCTTCAATA
*
46479764 TTTGTTCCCCTATTTGG
1 TTTGTTCCCCTAATTGG
46479781 TTTGTTCCCCTAATTGG
1 TTTGTTCCCCTAATTGG
46479798 T
1 T
46479799 AACTTTGCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.09, C:0.23, G:0.17, T:0.51
Consensus pattern (17 bp):
TTTGTTCCCCTAATTGG
Found at i:46480479 original size:84 final size:84
Alignment explanation
Indices: 46480288--46480836 Score: 614
Period size: 84 Copynumber: 6.6 Consensus size: 84
46480278 AAGAAACAAG
* * *
46480288 GAAGGCGGTTGAAGAAAGAAAATGTGCTGATTTGGAGATGGCTAAAGCAAAGGAGCAGAGGAAGT
1 GAAGGCTGTTGAAGAAAGAAAATGTGCTGATTTGGAGATGGCTAAAGCACAGGAGCAGAGGAAGA
* *
46480353 TTGTC-GAA-AAATCTAAG-A
66 TTG-CAGAAGAGAT-GAAGAA
* * * *
46480371 -AA-GCTGTTGAAGATAGAAAATGTGCTGATCTGGAGATGGCTAAAGCACAGGAGGAGAGGAAGG
1 GAAGGCTGTTGAAGAAAGAAAATGTGCTGATTTGGAGATGGCTAAAGCACAGGAGCAGAGGAAGA
46480434 TTGCAGAAGAGATGAAGAA
66 TTGCAGAAGAGATGAAGAA
* *
46480453 GAAGGCTGTTGAAGAAAGAAAATGTGCTGATTTGGAGATTGCTAAAGCACAGGAGAAGAGGAAGA
1 GAAGGCTGTTGAAGAAAGAAAATGTGCTGATTTGGAGATGGCTAAAGCACAGGAGCAGAGGAAGA
*
46480518 CTGCAGAAGA-ATTGAAGAA
66 TTGCAGAAGAGA-TGAAGAA
** * * *
46480537 GAAGGCT-TCTGAAGAAAGAAAACATGCTGCTTTGGAGATGGCTAAAGCACAGGAGGAAAGGAAG
1 GAAGGCTGT-TGAAGAAAGAAAATGTGCTGATTTGGAGATGGCTAAAGCACAGGAGCAGAGGAAG
46480601 ATTGCAGAAGAG-TCGAAGAA
65 ATTGCAGAAGAGAT-GAAGAA
* *
46480621 GAAGGCTGTTGAAGAAAGAAAACATGTG--GCTTTGGAGATGGCTAAAGCACAGGAGCAGAAGAA
1 GAAGGCTGTTGAAGAAAG-AAA-ATGTGCTGATTTGGAGATGGCTAAAGCACAGGAGCAGAGGAA
*
46480684 GATTGCAGAAGAGATTAAGAA
64 GATTGCAGAAGAGATGAAGAA
* * ** ** * * * * *
46480705 GAAGGCAGTTGAAGAACGAAAACATGCTGATTTACAGATGGCTGAAGCAGAGGCGCAAAGAAAGA
1 GAAGGCTGTTGAAGAAAGAAAATGTGCTGATTTGGAGATGGCTAAAGCACAGGAGCAGAGGAAGA
* **
46480770 TTGCAGAAGAAACCAAGAA
66 TTGCAGAAGAGATGAAGAA
* * * * *
46480789 GAAGGCTGTTGAAGCAAGAAAATGGGCCGATTTTGAGATCGCTAAAGC
1 GAAGGCTGTTGAAGAAAGAAAATGTGCTGATTTGGAGATGGCTAAAGC
46480837 GGAAGCGACT
Statistics
Matches: 397, Mismatches: 54, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
80 1 0.00
81 64 0.16
82 9 0.02
83 8 0.02
84 307 0.77
85 5 0.01
86 3 0.01
ACGTcount: A:0.40, C:0.11, G:0.32, T:0.17
Consensus pattern (84 bp):
GAAGGCTGTTGAAGAAAGAAAATGTGCTGATTTGGAGATGGCTAAAGCACAGGAGCAGAGGAAGA
TTGCAGAAGAGATGAAGAA
Found at i:46488346 original size:33 final size:33
Alignment explanation
Indices: 46488292--46488356 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
46488282 AGTAGAGGGT
* *
46488292 AGGGATAGGGACAGAGGCAGAGACAGATATAGG
1 AGGGATAGCGACAGAGGCAGAGACAGAGATAGG
*
46488325 AGGGATAGCGATAG-GGTCAGAGACAGAGATAG
1 AGGGATAGCGACAGAGG-CAGAGACAGAGATAG
46488357 AGATAAAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 26 0.93
ACGTcount: A:0.38, C:0.09, G:0.42, T:0.11
Consensus pattern (33 bp):
AGGGATAGCGACAGAGGCAGAGACAGAGATAGG
Found at i:46488928 original size:28 final size:28
Alignment explanation
Indices: 46488888--46488943 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
46488878 CTTCAGGGGG
46488888 GAAAGAGGGGCCCGTGATGAGAACTGGC
1 GAAAGAGGGGCCCGTGATGAGAACTGGC
*
46488916 GAAAGAGTGGCCCGTGATGAGAACTGGC
1 GAAAGAGGGGCCCGTGATGAGAACTGGC
46488944 CTTTCAGGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.18, G:0.41, T:0.12
Consensus pattern (28 bp):
GAAAGAGGGGCCCGTGATGAGAACTGGC
Found at i:46494850 original size:48 final size:46
Alignment explanation
Indices: 46494786--46494919 Score: 164
Period size: 48 Copynumber: 2.8 Consensus size: 46
46494776 AGTGATAATT
*
46494786 TTAAATTTTCAATACTATTCGATATTTTTTTAATTTATGCAAATT-TAA
1 TTAAA-TTTCAATACTATT-GATATTTTTTTCATTTATGC-AATTATAA
*
46494834 TTAAATTTGCAATACTATTTGATATTTTATTCATTTATGCAATTATAA
1 TTAAATTT-CAATACTA-TTGATATTTTTTTCATTTATGCAATTATAA
*
46494882 TTAAAATTTCAATACTGCTTGAT-TTTTTTTCATTTATG
1 TT-AAATTTCAATACT-ATTGATATTTTTTTCATTTATG
46494920 ATGTTTGCAT
Statistics
Matches: 77, Mismatches: 4, Indels: 11
0.84 0.04 0.12
Matches are distributed among these distances:
47 21 0.27
48 48 0.62
49 8 0.10
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (46 bp):
TTAAATTTCAATACTATTGATATTTTTTTCATTTATGCAATTATAA
Found at i:46496564 original size:18 final size:18
Alignment explanation
Indices: 46496541--46496583 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
46496531 TGCTAGGTGC
*
46496541 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
46496559 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
46496577 GTTTCCT
1 GTATCCT
46496584 TTTCCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:46499425 original size:17 final size:17
Alignment explanation
Indices: 46499405--46499442 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
46499395 ATAATTAGAT
*
46499405 AAAAGGAATA-AAAAAG
1 AAAAAGAATAGAAAAAG
46499421 AAAAAGAATAGAAAAAG
1 AAAAAGAATAGAAAAAG
46499438 AAAAA
1 AAAAA
46499443 AAGGATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (17 bp):
AAAAAGAATAGAAAAAG
Found at i:46507031 original size:126 final size:126
Alignment explanation
Indices: 46506857--46507175 Score: 462
Period size: 126 Copynumber: 2.5 Consensus size: 126
46506847 TTATAGCCTC
* * *
46506857 ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCATGTGGGAGTTTTTTTCAGAAATTTTACTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCTACGTGGGAGTTTTTTTCAGAAATTTTACTG
* * * *
46506922 GCAGTGCA-TCTTACTTGAAGTG-TTTTCAACACTATTTGTTCAGACACGTCTACTCAGAATT
66 ACAATGCATTC-TACTTGAAGCGATTTT-AACACTATTTGTTCAGAAACGTCTACTCAGAATT
* *
46506983 ATTTTTCCATGAACTACTGTAGCAAAAGAGCGTCTACGTGGGAGTTTTTTTCAGAAATTTTACTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCTACGTGGGAGTTTTTTTCAGAAATTTTACTG
* * *
46507048 ACAATGCATTCTGCTTGAAGCGATTTTGACACTATTTGTTCAGAAACGTCTATTCAGAATT
66 ACAATGCATTCTACTTGAAGCGATTTTAACACTATTTGTTCAGAAACGTCTACTCAGAATT
* * *
46507109 ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCTACGTGGGAGCTTTTTTTTAGAAATTTTGCT
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCTACGTGGGAG-TTTTTTTCAGAAATTTTACT
46507174 GA
65 GA
46507176 ATATGAACTA
Statistics
Matches: 173, Mismatches: 17, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
126 147 0.85
127 26 0.15
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCTACGTGGGAGTTTTTTTCAGAAATTTTACTG
ACAATGCATTCTACTTGAAGCGATTTTAACACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:46507216 original size:61 final size:60
Alignment explanation
Indices: 46507120--46507235 Score: 178
Period size: 61 Copynumber: 1.9 Consensus size: 60
46507110 TTTTTCTACA
* * * *
46507120 AACTACTGTAGCAAAAGAGCGTCTACGTGGGAGCTTTTTTTTAGAAATTTTGCTGAATATG
1 AACTACTATAGCAAAAGAGCGTCCACGTGGGAGC-TTTTTTCAGAAATTTTACTGAATATG
*
46507181 AACTACTATAGCAAAAGAGCGTCCACGTGGTAGCTTTTTTCAGAAATTTTACTGA
1 AACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTGA
46507236 CAGTGCAACC
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
60 19 0.38
61 31 0.62
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (60 bp):
AACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTGAATATG
Found at i:46507313 original size:187 final size:186
Alignment explanation
Indices: 46506991--46507361 Score: 582
Period size: 187 Copynumber: 2.0 Consensus size: 186
46506981 TTATTTTTCC
* * *
46506991 ATGAACTACTGTAGCAAAAGAGCGTCTACGTGGGAGTTTTTTTCAGAAATTTTACTGACAATGCA
1 ATGAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTGACAATGCA
** * *
46507056 TTCTGCTTGAAGCGATTTTGACACTATTTGTTCAGAAACGTCTATTCAGAATTATTTTTCTACAA
66 ACCTGCTTGAAGCGATTTTGACACTATTTGTTCAGAAACGTATACTCAGAATTATTTTTCTACAA
* *
46507121 ACTACTGTAGCAAAAGAGCGTCTACGTGGGAGCTTTTTTTTAGAAATTTTGCTGAAT
131 ACTACTGTAGCAAAAGAGCGTCCACGTGGGAGC-TTTTTTCAGAAATTTTGCTGAAT
* *
46507178 ATGAACTACTATAGCAAAAGAGCGTCCACGTGGTAGCTTTTTTCAGAAATTTTACTGACAGTGCA
1 ATGAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTGACAATGCA
*
46507243 ACCTGCTTGAAGCG-TTTTCGACACTATTTGTTCAGAAACGTATACTCAGAATTATTTTTCTACG
66 ACCTGCTTGAAGCGATTTT-GACACTATTTGTTCAGAAACGTATACTCAGAATTATTTTTCTACA
** *
46507307 AACTACTGTAGTGAAAGAGCGTCCATGTGGGAGCTTTTTTCAGAAATTTTGCTGA
130 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGA
46507362 CAGTGCATTC
Statistics
Matches: 168, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
186 24 0.14
187 144 0.86
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (186 bp):
ATGAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTGACAATGCA
ACCTGCTTGAAGCGATTTTGACACTATTTGTTCAGAAACGTATACTCAGAATTATTTTTCTACAA
ACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGAAT
Found at i:46507405 original size:126 final size:126
Alignment explanation
Indices: 46507180--46507424 Score: 391
Period size: 126 Copynumber: 1.9 Consensus size: 126
46507170 TGCTGAATAT
*
46507180 GAACTACTATAGCAAAAGAGCGTCCACGTGGTAGCTTTTTTCAGAAATTTTACTGACAGTGCAAC
1 GAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTGACAGTGCAAC
* *
46507245 CTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTATACTCAGAATTATTTTTCTAC
66 CTACTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTATACTCAAAATTATTTTTCTAC
* ** * * **
46507306 GAACTACTGTAGTGAAAGAGCGTCCATGTGGGAGCTTTTTTCAGAAATTTTGCTGACAGTGCATT
1 GAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTGACAGTGCAAC
*
46507371 CTACTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATTATT
66 CTACTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTATACTCAAAATTATT
46507425 CTTGCAGAAA
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 108 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (126 bp):
GAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTGACAGTGCAAC
CTACTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTATACTCAAAATTATTTTTCTAC
Found at i:46507981 original size:20 final size:19
Alignment explanation
Indices: 46507956--46508006 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 19
46507946 ACGATTATGT
46507956 ATCAATTAACCCTAAATTTA
1 ATCAATTAACCCT-AATTTA
46507976 ATCAA-T--CCCTAATTTA
1 ATCAATTAACCCTAATTTA
46507992 ATCAATTAA-CCTAAT
1 ATCAATTAACCCTAAT
46508007 ACCCTAAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 11 0.39
17 5 0.18
18 6 0.21
19 1 0.04
20 5 0.18
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (19 bp):
ATCAATTAACCCTAATTTA
Found at i:46508115 original size:16 final size:15
Alignment explanation
Indices: 46508096--46508154 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 15
46508086 TTAAATTCTA
46508096 AACCCTAAAAAACTCT
1 AACCCTAAAAAA-TCT
*
46508112 AACCCTAAATCAAT-T
1 AACCCTAAA-AAATCT
* *
46508127 AAACCTTAAAAATCCT
1 AACCCTAAAAAAT-CT
46508143 AACCCTAAAAAA
1 AACCCTAAAAAA
46508155 CATAGGCAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 3 0.09
15 8 0.24
16 21 0.62
17 2 0.06
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (15 bp):
AACCCTAAAAAATCT
Found at i:46510205 original size:54 final size:54
Alignment explanation
Indices: 46510136--46510515 Score: 760
Period size: 54 Copynumber: 7.0 Consensus size: 54
46510126 TATAAAAAAT
46510136 TGCTGAAGGAACTAATATGTGTATATTGAGAAAGAAATCTGATATATTTTGTAC
1 TGCTGAAGGAACTAATATGTGTATATTGAGAAAGAAATCTGATATATTTTGTAC
46510190 TGCTGAAGGAACTAATATGTGTATATTGAGAAAGAAATCTGATATATTTTGTAC
1 TGCTGAAGGAACTAATATGTGTATATTGAGAAAGAAATCTGATATATTTTGTAC
46510244 TGCTGAAGGAACTAATATGTGTATATTGAGAAAGAAATCTGATATATTTTGTAC
1 TGCTGAAGGAACTAATATGTGTATATTGAGAAAGAAATCTGATATATTTTGTAC
46510298 TGCTGAAGGAACTAATATGTGTATATTGAGAAAGAAATCTGATATATTTTGTAC
1 TGCTGAAGGAACTAATATGTGTATATTGAGAAAGAAATCTGATATATTTTGTAC
46510352 TGCTGAAGGAACTAATATGTGTATATTGAGAAAGAAATCTGATATATTTTGTAC
1 TGCTGAAGGAACTAATATGTGTATATTGAGAAAGAAATCTGATATATTTTGTAC
46510406 TGCTGAAGGAACTAATATGTGTATATTGAGAAAGAAATCTGATATATTTTGTAC
1 TGCTGAAGGAACTAATATGTGTATATTGAGAAAGAAATCTGATATATTTTGTAC
46510460 TGCTGAAGGAACTAATATGTGTATATTGAGAAAGAAATCTGATATATTTTGTAC
1 TGCTGAAGGAACTAATATGTGTATATTGAGAAAGAAATCTGATATATTTTGTAC
46510514 TG
1 TG
46510516 TACCAAGCAT
Statistics
Matches: 326, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 326 1.00
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (54 bp):
TGCTGAAGGAACTAATATGTGTATATTGAGAAAGAAATCTGATATATTTTGTAC
Found at i:46519645 original size:46 final size:45
Alignment explanation
Indices: 46519578--46519671 Score: 170
Period size: 46 Copynumber: 2.1 Consensus size: 45
46519568 CATTATCGAC
46519578 ATTGTTATTGCAAATTTACAAAATATTGTAAACAAAAGAAAATTTT
1 ATTGTTATTGCAAATTTACAAAATATTGTAAACAAAAG-AAATTTT
*
46519624 ATTGTTATTGCAAATTTACAAAATATTGTAATCAAAAGAAATTTT
1 ATTGTTATTGCAAATTTACAAAATATTGTAAACAAAAGAAATTTT
46519669 ATT
1 ATT
46519672 CAAACATTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 10 0.21
46 37 0.79
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (45 bp):
ATTGTTATTGCAAATTTACAAAATATTGTAAACAAAAGAAATTTT
Found at i:46520926 original size:32 final size:32
Alignment explanation
Indices: 46520882--46520942 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
46520872 AGAACATAAG
*
46520882 AAGCAACTCATAAAACTTACTTT-ATCACAGAC
1 AAGCAACTCATAAAACGTA-TTTCATCACAGAC
46520914 AAGCAA-TCCATAAAACGTATTTCATCACA
1 AAGCAACT-CATAAAACGTATTTCATCACA
46520943 TACTATTAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 4 0.15
32 22 0.85
ACGTcount: A:0.44, C:0.25, G:0.07, T:0.25
Consensus pattern (32 bp):
AAGCAACTCATAAAACGTATTTCATCACAGAC
Found at i:46521021 original size:32 final size:32
Alignment explanation
Indices: 46520976--46521038 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
46520966 GCAGAATATA
*
46520976 ACAAGCAACCCATAAAACT-TATTTTATCACAG
1 ACAAGCAACCCATAAAA-TGTATTTCATCACAG
*
46521008 ACAAGCAATCCATAAAATGTATTTCATCACA
1 ACAAGCAACCCATAAAATGTATTTCATCACA
46521039 TACTATTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.44, C:0.24, G:0.06, T:0.25
Consensus pattern (32 bp):
ACAAGCAACCCATAAAATGTATTTCATCACAG
Found at i:46521035 original size:96 final size:97
Alignment explanation
Indices: 46520871--46521066 Score: 340
Period size: 96 Copynumber: 2.0 Consensus size: 97
46520861 TATCCATAAA
* *
46520871 CAGAACATAAGAAGCAACTCATAAAACTTACTTTATCACAGACAAGCAATCCATAAAACGTATTT
1 CAGAACATAACAAGCAACCCATAAAACTTACTTTATCACAGACAAGCAATCCATAAAACGTATTT
46520936 CATCACATACTA-TTAGCTTAAGAGATGTAAG
66 CATCACATACTATTTAGCTTAAGAGATGTAAG
* * *
46520967 CAGAATATAACAAGCAACCCATAAAACTTATTTTATCACAGACAAGCAATCCATAAAATGTATTT
1 CAGAACATAACAAGCAACCCATAAAACTTACTTTATCACAGACAAGCAATCCATAAAACGTATTT
46521032 CATCACATACTATTTAGCTTAAGAGATGTAAG
66 CATCACATACTATTTAGCTTAAGAGATGTAAG
46521064 CAG
1 CAG
46521067 GCAATCCACC
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
96 72 0.77
97 22 0.23
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.26
Consensus pattern (97 bp):
CAGAACATAACAAGCAACCCATAAAACTTACTTTATCACAGACAAGCAATCCATAAAACGTATTT
CATCACATACTATTTAGCTTAAGAGATGTAAG
Found at i:46537082 original size:14 final size:13
Alignment explanation
Indices: 46537064--46537088 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46537054 AGACTCAAAA
46537064 AAAAAAATGAAAT
1 AAAAAAATGAAAT
46537077 AAAAAAATGAAA
1 AAAAAAATGAAA
46537089 AAATGAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
AAAAAAATGAAAT
Found at i:46538471 original size:87 final size:87
Alignment explanation
Indices: 46538324--46538894 Score: 801
Period size: 87 Copynumber: 6.6 Consensus size: 87
46538314 AACAGATCAA
* * * * *
46538324 TGAAGACATCAGATCTTGCCTTCCTACGTTAACAGTGAAGCAGATCGAAAACAAATCCTTGCCTC
1 TGAAGACAACAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTT
*
46538389 CATCGGTTGCAGTGGAGCTGGT
66 CATTGGTTGCAGTGGAGCTGGT
* * * **
46538411 TGAAGATAGCAGATCCTT-CCTTCCTGCGTTAACAGTGAAGCAGATTAAAAACAAAGCCTTGCCT
1 TGAAGACAACAGAT-CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCT
46538475 TCATTGGTTGCAGTGGAGCTGGT
65 TCATTGGTTGCAGTGGAGCTGGT
* * *
46538498 TAAAGA-AGCAGATCTTGCCTTCCTGCGTTAAAAGCGAAGCAGATCGAAAACAAAGCCTTGCCTT
1 TGAAGACAACAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTT
46538562 CATTGGTTGCAGTGGAGCTGGT
66 CATTGGTTGCAGTGGAGCTGGT
* *
46538584 TGAAGACAAAAGATCTTGCCTTCCTGCGTTAAAAGCGAAGCAGATCGAAAACAAAGCCTTGCCTT
1 TGAAGACAACAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTT
46538649 CATTGGTTGCAGTGGAGCTGGT
66 CATTGGTTGCAGTGGAGCTGGT
* *
46538671 TGAAGACAAAAGATCTTGCCTTCCTGCGTTAAAAGCGAAGCAGATCGAAAACAAAGCCTTGCCTT
1 TGAAGACAACAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTT
46538736 CATTGGTTGCAGTGGAGCTGGT
66 CATTGGTTGCAGTGGAGCTGGT
* * * * *
46538758 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAA-CCTTACC
1 TGAAGACAACAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCC
* *
46538822 TCTC-TCGGTTG-TGATGGAGCTGGT
64 T-TCATTGGTTGCAG-TGGAGCTGGT
* * * *
46538846 TGAAGACAACAGATCTTGCCTTCTTGCATTGACAGCGAAGCAGGTCGAA
1 TGAAGACAACAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAA
46538895 GACGAACCTT
Statistics
Matches: 452, Mismatches: 25, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
85 3 0.01
86 77 0.17
87 291 0.64
88 74 0.16
89 7 0.02
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (87 bp):
TGAAGACAACAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTT
CATTGGTTGCAGTGGAGCTGGT
Found at i:46538626 original size:173 final size:174
Alignment explanation
Indices: 46538324--46538894 Score: 801
Period size: 173 Copynumber: 3.3 Consensus size: 174
46538314 AACAGATCAA
* * * * * *
46538324 TGAAGACATCAGATCTTGCCTTCCTACGTTAACAGTGAAGCAGATCGAAAACAAATCCTTGCCTC
1 TGAAGACAACAGATCTTGCCTTCCTGCGTTAAAAGCGAAGCAGATCGAAAACAAAGCCTTGCCTT
* * ** *
46538389 CATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCCTT-CCTTCCTGCGTTAACAGTGAAGCA
66 CATTGGTTGCAGTGGAGCTGGTTGAAGACAAAAGAT-CTTGCCTTCCTGCGTTAACAGCGAAGCA
*
46538453 GATTAAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGT
130 GATCAAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGT
* *
46538498 TAAAGA-AGCAGATCTTGCCTTCCTGCGTTAAAAGCGAAGCAGATCGAAAACAAAGCCTTGCCTT
1 TGAAGACAACAGATCTTGCCTTCCTGCGTTAAAAGCGAAGCAGATCGAAAACAAAGCCTTGCCTT
*
46538562 CATTGGTTGCAGTGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCGTTAAAAGCGAAGCAG
66 CATTGGTTGCAGTGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAG
*
46538627 ATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGT
131 ATCAAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGT
*
46538671 TGAAGACAAAAGATCTTGCCTTCCTGCGTTAAAAGCGAAGCAGATCGAAAACAAAGCCTTGCCTT
1 TGAAGACAACAGATCTTGCCTTCCTGCGTTAAAAGCGAAGCAGATCGAAAACAAAGCCTTGCCTT
* *
46538736 CATTGGTTGCAGTGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAG
66 CATTGGTTGCAGTGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAG
* * * * *
46538801 GTCGAAGACACAAA-CCTTACCTCTC-TCGGTTG-TGATGGAGCTGGT
131 ATC-AA-AAACAAAGCCTTGCCT-TCATTGGTTGCAG-TGGAGCTGGT
* * * * *
46538846 TGAAGACAACAGATCTTGCCTTCTTGCATTGACAGCGAAGCAGGTCGAA
1 TGAAGACAACAGATCTTGCCTTCCTGCGTTAAAAGCGAAGCAGATCGAA
46538895 GACGAACCTT
Statistics
Matches: 358, Mismatches: 33, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
172 3 0.01
173 154 0.43
174 126 0.35
175 67 0.19
176 8 0.02
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (174 bp):
TGAAGACAACAGATCTTGCCTTCCTGCGTTAAAAGCGAAGCAGATCGAAAACAAAGCCTTGCCTT
CATTGGTTGCAGTGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAG
ATCAAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGT
Found at i:46538983 original size:175 final size:175
Alignment explanation
Indices: 46538324--46538985 Score: 553
Period size: 174 Copynumber: 3.8 Consensus size: 175
46538314 AACAGATCAA
** * * * * * * *
46538324 TGAAGACATCAGATCTTGCCTTCCTACGTTAACAGTGAAGCAGATCGAAAACAAATCCTTGCCTC
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTAAAAGCGAAGCAGATCGAAAACAAAGCCTTACCTT
* * * * ** * * * *
46538389 CATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCCTT-CCTTCCTGCGTTAACAGTGAAGCA
66 CATCGGTTGCAGTGAAACTGGCTGAAGACAAAAGAT-CTTACCTCCCTGCATTGACAGCGAAGCA
* * * * *
46538453 GAT-TAA-AAACAAAGCCTTGCCT-TCATTGGTTG-CAGTGGAGCTGGT
130 GATCGAAGACACAAA-CCTTACCTCTC-TCGGTTGTGA-TGGAGCTGGT
* ** * *
46538498 TAAAGA-AGCAGATCTTGCCTTCCTGCGTTAAAAGCGAAGCAGATCGAAAACAAAGCCTTGCCTT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTAAAAGCGAAGCAGATCGAAAACAAAGCCTTACCTT
* * * * * * * * *
46538562 CATTGGTTGCAGTGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCGTTAAAAGCGAAGCAG
66 CATCGGTTGCAGTGAAACTGGCTGAAGACAAAAGATCTTACCTCCCTGCATTGACAGCGAAGCAG
* * *
46538627 ATCGAA-A-ACAAAGCCTTGCCT-TCATTGGTTG-CAGTGGAGCTGGT
131 ATCGAAGACACAAA-CCTTACCTCTC-TCGGTTGTGA-TGGAGCTGGT
* *
46538671 TGAAGACAAAAGATCTTGCCTTCCTGCGTTAAAAGCGAAGCAGATCGAAAACAAAGCCTTGCCTT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTAAAAGCGAAGCAGATCGAAAACAAAGCCTTACCTT
* * * * * *
46538736 CATTGGTTGCAGTGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAG
66 CATCGGTTGCAGTGAAACTGGCTGAAGACAAAAGATCTTACCTCCCTGCATTGACAGCGAAGCAG
*
46538801 GTCGAAGACACAAACCTTACCTCTCTCGGTTGTGATGGAGCTGGT
131 ATCGAAGACACAAACCTTACCTCTCTCGGTTGTGATGGAGCTGGT
* * * * * * *
46538846 TGAAGACAACAGATCTTGCCTTCTTGCATTGACAGCGAAGCAGGTCGAAGACGAA-CCTTACCTC
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTAAAAGCGAAGCAGATCGAAAACAAAGCCTTACCT-
* ** * *
46538910 TC-TCGGTTGTAGTGAAACTGGCTGAAGA-ATTTTAGATCTTATCTCCCTG-AGGTT-ACAGCGG
65 TCATCGGTTGCAGTGAAACTGGCTGAAGACA--AAAGATCTTACCTCCCTGCA--TTGACAGCGA
46538971 AGCAGATCGAAGACA
126 AGCAGATCGAAGACA
46538986 TAATCCTATC
Statistics
Matches: 431, Mismatches: 45, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
172 3 0.01
173 152 0.35
174 160 0.37
175 106 0.25
176 10 0.02
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (175 bp):
TGAAGACAAAAGATCTTGCCTTCCTGCATTAAAAGCGAAGCAGATCGAAAACAAAGCCTTACCTT
CATCGGTTGCAGTGAAACTGGCTGAAGACAAAAGATCTTACCTCCCTGCATTGACAGCGAAGCAG
ATCGAAGACACAAACCTTACCTCTCTCGGTTGTGATGGAGCTGGT
Found at i:46539343 original size:170 final size:171
Alignment explanation
Indices: 46538933--46539354 Score: 548
Period size: 170 Copynumber: 2.5 Consensus size: 171
46538923 GAAACTGGCT
* *
46538933 GAAGAATTTTAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTC
1 GAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACAGAATCCTATCTC
* * * *
46538998 CCTGA-AGTTACAGTGAAGCGGATTAAAATAAATGATCTTATTTCTCTGAAGTTACAGCAGAGCA
66 CCTGAGA-TTACAATGAAGCGGATT---ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAA
*
46539062 GATCGCACCAGGTCTTATCTCCCTGAGGTTACAGTAGAGTAGACC
127 GATCACACCAGGTCTTATCTCCCTGAGGTTACAGTAGAGTAGACC
* * * *
46539107 GAAGACTTTCAGATCTTATCTCCCTGA-GATATCAGCGGAGCAGATCAAAGATAGTAATCCTATC
1 GAAGAATTTCAGATCTTATCTCCCTGAGGTTA-CAGCGGAGCAGATCGAAGACAG-AATCCTATC
* * *
46539171 TCCTTGAGATTACAATGGAGCGGA-T-TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGA
64 TCCCTGAGATTACAATGAAGCGGATTATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGA
* * *
46539234 TCACATCAGGTCTTATTTCCCTGAGGTTACAGTGGAGTAGACC
129 TCACACCAGGTCTTATCTCCCTGAGGTTACAGTAGAGTAGACC
* * * *
46539277 -AGAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATC
1 GA-AGAATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACAGA-ATCCTATC
46539341 TCCCTGAGATTACA
64 TCCCTGAGATTACA
46539355 GCGGAGCAGA
Statistics
Matches: 216, Mismatches: 26, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
169 2 0.01
170 134 0.62
171 3 0.01
173 3 0.01
174 45 0.21
175 28 0.13
176 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (171 bp):
GAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACAGAATCCTATCTC
CCTGAGATTACAATGAAGCGGATTATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATC
ACACCAGGTCTTATCTCCCTGAGGTTACAGTAGAGTAGACC
Found at i:46539384 original size:87 final size:87
Alignment explanation
Indices: 46539293--46539454 Score: 227
Period size: 87 Copynumber: 1.9 Consensus size: 87
46539283 TTTCAGATCT
* * * *
46539293 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCCCTGAGATTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCCCTGAGATTACAGC
*
46539357 GGAGCAGATCGAAGACACTATCC
65 AGAGCAGATCGAAGACACTATCC
* * *
46539380 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGATTACAGCA
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
*
46539445 GAGTAGATCG
66 GAGCAGATCG
46539455 CATCAAGTCT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
87 63 0.97
88 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
GAGCAGATCGAAGACACTATCC
Found at i:46539558 original size:218 final size:214
Alignment explanation
Indices: 46539117--46539540 Score: 455
Period size: 218 Copynumber: 2.0 Consensus size: 214
46539107 GAAGACTTTC
* * *
46539117 AGATCTTATCTCCCTGAGATATCAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
1 AGATCTTATCTCCCTGAGATATCAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATT
* *
46539182 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCT
66 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAAGTCT
* * * * *** * * * *
46539247 TATTTCCCTGAGGTTACAGTGGAGTAGACCAGAGAATTTCAGATCTTATCTCCCTGAGGTTACAG
131 TATTTCCCTGAAGATACAGTGGAATAGACCAGAAAACAACAGATCATATCCCCCTAAAGTTACAG
* ** *
46539312 TGGAGCAGATTGAAGCCAG
196 CGGAGCAGACAGAAGACAG
*
46539331 AGATCTTATCTCCCTGAGAT-TACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGA-AG
1 AGATCTTATCTCCCTGAGATAT-CAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGA-
* * *
46539393 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTG-AGATTACAGCAGAGTAGATCGCA
64 TTACAATGGAGCGGA-T----TAAAGGATCTTATCTCTCTGAAG-TTACAGCAGAGAAGATCACA
* * *
46539457 TCAAGTCTTATTTCCCTGAAGATGCAGTGGAATAGA-CTGAAAACAACA-AGTCATGTCCCCCTA
123 TCAAGTCTTATTTCCCTGAAGATACAGTGGAATAGACCAGAAAACAACAGA-TCATATCCCCCTA
** *
46539520 AAGTTGTAGCGGAGCGGACAG
187 AAGTTACAGCGGAGCAGACAG
46539541 TAGATAGCAA
Statistics
Matches: 172, Mismatches: 29, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
212 1 0.01
213 29 0.17
214 41 0.24
216 1 0.01
217 32 0.19
218 68 0.40
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (214 bp):
AGATCTTATCTCCCTGAGATATCAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATT
ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAAGTCT
TATTTCCCTGAAGATACAGTGGAATAGACCAGAAAACAACAGATCATATCCCCCTAAAGTTACAG
CGGAGCAGACAGAAGACAG
Found at i:46539762 original size:86 final size:86
Alignment explanation
Indices: 46539635--46539823 Score: 315
Period size: 86 Copynumber: 2.2 Consensus size: 86
46539625 TCTCGGTTGT
* *
46539635 AGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAAACAA
1 AGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTACATTAACAGCAAAGCAGATCAAAAACAA
46539700 AGCCTTGCATCCATCGATTGC
66 AGCCTTGCATCCATCGATTGC
* *
46539721 AGTGGAGCTAGTTAAAGAAGCAGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATCAAAAACAA
1 AGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTACATTAACAGCAAAGCAGATCAAAAACAA
* *
46539786 AGCCTTGCCTCCATCGGTTGC
66 AGCCTTGCATCCATCGATTGC
*
46539807 ATTGGAGCTGGTTAAAG
1 AGTGGAGCTGGTTAAAG
46539824 GTTACAGATT
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 95 1.00
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (86 bp):
AGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTACATTAACAGCAAAGCAGATCAAAAACAA
AGCCTTGCATCCATCGATTGC
Found at i:46549918 original size:29 final size:29
Alignment explanation
Indices: 46549884--46549943 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
46549874 TAAGAAAGGG
*
46549884 CATGAAAATGATTAAAATAAAAATGTACC
1 CATGAAAATGATTAAAATAAAAATATACC
46549913 CATGAAAATGATTAAAATAAAAATATACC
1 CATGAAAATGATTAAAATAAAAATATACC
46549942 CA
1 CA
46549944 CCACCAAACC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.57, C:0.12, G:0.08, T:0.23
Consensus pattern (29 bp):
CATGAAAATGATTAAAATAAAAATATACC
Found at i:46554505 original size:35 final size:35
Alignment explanation
Indices: 46554459--46554528 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
46554449 ATTCAGGAAC
46554459 CAAATTAGCAAATAAAAGATATCTAACAAGCCAGT
1 CAAATTAGCAAATAAAAGATATCTAACAAGCCAGT
*
46554494 CAAATTAGCAAATAAAAGATATCTAGCAAGCCAGT
1 CAAATTAGCAAATAAAAGATATCTAACAAGCCAGT
46554529 AGGATCCTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.20
Consensus pattern (35 bp):
CAAATTAGCAAATAAAAGATATCTAACAAGCCAGT
Found at i:46555188 original size:55 final size:55
Alignment explanation
Indices: 46555104--46555210 Score: 196
Period size: 55 Copynumber: 1.9 Consensus size: 55
46555094 ACTGGCTGAC
*
46555104 AACATTCCAACTTGAGTTACAATCATATTACCCATAAATAAAGTTCTAAGAGGAT
1 AACATTCCAACGTGAGTTACAATCATATTACCCATAAATAAAGTTCTAAGAGGAT
*
46555159 AACATTCCAACGTGAGTTACAATCATATTACCCATAAGTAAAGTTCTAAGAG
1 AACATTCCAACGTGAGTTACAATCATATTACCCATAAATAAAGTTCTAAGAG
46555211 AAGTTATGCA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (55 bp):
AACATTCCAACGTGAGTTACAATCATATTACCCATAAATAAAGTTCTAAGAGGAT
Found at i:46559172 original size:40 final size:40
Alignment explanation
Indices: 46559117--46559196 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
46559107 GGGTGGGGTG
46559117 GGGGGGAGGGGAATTGAAACCACTAGTAAGATGGTTCATC
1 GGGGGGAGGGGAATTGAAACCACTAGTAAGATGGTTCATC
46559157 GGGGGGAGGGGAATTGAAACCACTAGTAAGATGGTTCATC
1 GGGGGGAGGGGAATTGAAACCACTAGTAAGATGGTTCATC
46559197 CAGCATCACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.12, G:0.38, T:0.20
Consensus pattern (40 bp):
GGGGGGAGGGGAATTGAAACCACTAGTAAGATGGTTCATC
Found at i:46570716 original size:8 final size:9
Alignment explanation
Indices: 46570689--46570724 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
46570679 TACAAAGAAA
*
46570689 TTTGTGTAT
1 TTTGTGAAT
46570698 TTTGTGAAT
1 TTTGTGAAT
46570707 TTTGTG-AT
1 TTTGTGAAT
46570715 TTTGTGAAT
1 TTTGTGAAT
46570724 T
1 T
46570725 AAAAACTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.17, C:0.00, G:0.22, T:0.61
Consensus pattern (9 bp):
TTTGTGAAT
Found at i:46570716 original size:17 final size:18
Alignment explanation
Indices: 46570689--46570724 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
46570679 TACAAAGAAA
46570689 TTTGTGTATTTTGTGAAT
1 TTTGTGTATTTTGTGAAT
46570707 TTTGTG-ATTTTGTGAAT
1 TTTGTGTATTTTGTGAAT
46570724 T
1 T
46570725 AAAAACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.17, C:0.00, G:0.22, T:0.61
Consensus pattern (18 bp):
TTTGTGTATTTTGTGAAT
Found at i:46571186 original size:44 final size:42
Alignment explanation
Indices: 46571136--46571290 Score: 165
Period size: 43 Copynumber: 3.6 Consensus size: 42
46571126 TATGTGTTTT
46571136 CGTGTAAGACCACGTCTGGGACATTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGA-TT-TGATTTA
* *
46571180 CGTGTAAGACCACGTTTGGGACGTTGGCATCGTATTTGATTT-
1 CGTGTAAGACCACGTCTGGGACATTGGCATCG-ATTTGATTTA
* *
46571222 CGTGTAAAAACC-CGTCTGGGACAGTGGCATCGATATTTGATTATA
1 CGTGT-AAGACCACGTCTGGGACATTGGCATCG--ATTTGATT-TA
* *
46571267 --TGTAAGACCACATCTGAGACATTG
1 CGTGTAAGACCACGTCTGGGACATTG
46571291 ACATTGTACG
Statistics
Matches: 95, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
42 27 0.28
43 34 0.36
44 33 0.35
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATTTGATTTA
Found at i:46571242 original size:42 final size:42
Alignment explanation
Indices: 46571133--46571282 Score: 164
Period size: 44 Copynumber: 3.5 Consensus size: 42
46571123 CGATATGTGT
*
46571133 TTTCGTGTAAGACCACGTCTGGGACATTGGCATCG-ACTTATGA
1 TTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGTA-TT-TGA
*
46571176 TTTACGTGTAAGACCACGTTTGGGACGTTGGCATCGTATTTGA
1 TTT-CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGA
*
46571219 TTTCGTGTAAAAACC-CGTCTGGGACAG-TGGCATCGATATTTGA
1 TTTCGTGT-AAGACCACGTCTGGGAC-GTTGGCATCG-TATTTGA
* *
46571262 TTAT-ATGTAAGACCACATCTG
1 TT-TCGTGTAAGACCACGTCTG
46571283 AGACATTGAC
Statistics
Matches: 93, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
42 27 0.29
43 32 0.34
44 33 0.35
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (42 bp):
TTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGA
Found at i:46572283 original size:13 final size:12
Alignment explanation
Indices: 46572251--46572300 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
46572241 AACCATATAT
46572251 AAATAA-TAA-A
1 AAATAATTAATA
46572261 AAATAA-TAATA
1 AAATAATTAATA
*
46572272 ATAGTAATTAATA
1 A-AATAATTAATA
46572285 GAAATAATTAATA
1 -AAATAATTAATA
46572298 AAA
1 AAA
46572301 CAACAGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.26
11 2 0.06
12 7 0.21
13 15 0.44
14 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (12 bp):
AAATAATTAATA
Found at i:46572628 original size:14 final size:14
Alignment explanation
Indices: 46572609--46572639 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
46572599 ATATATTTAC
*
46572609 ATAATAAATATATA
1 ATAATAAATAAATA
46572623 ATAATAAATAAATA
1 ATAATAAATAAATA
46572637 ATA
1 ATA
46572640 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:46572640 original size:19 final size:18
Alignment explanation
Indices: 46572611--46572647 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
46572601 ATATTTACAT
46572611 AATAAATATATAATAATA
1 AATAAATATATAATAATA
46572629 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
46572648 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:46572685 original size:67 final size:64
Alignment explanation
Indices: 46572622--46572756 Score: 163
Period size: 63 Copynumber: 2.2 Consensus size: 64
46572612 ATAAATATAT
* * * *
46572622 AATAATAAATAAA-TAATATAATAAT-ATGAAACAT-AA-CTCAAATTAATTAAATTAATAG-AA
1 AATAATAAAAAAACAAATATAAAAATAATGAAA-ATAAAGCTCAAATTAATTAAATTAACAGTAA
* *
46572682 AATAATAAAAAAACAAATATAAAAATAATGAGAATAAAGCTCAAATTAATTAATTTAACAGTAA
1 AATAATAAAAAAACAAATATAAAAATAATGAAAATAAAGCTCAAATTAATTAAATTAACAGTAA
*
46572746 AATAACAAAAA
1 AATAATAAAAA
46572757 TAAAAAAGGG
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
60 12 0.19
61 12 0.19
62 7 0.11
63 20 0.32
64 12 0.19
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.26
Consensus pattern (64 bp):
AATAATAAAAAAACAAATATAAAAATAATGAAAATAAAGCTCAAATTAATTAAATTAACAGTAA
Found at i:46572985 original size:11 final size:12
Alignment explanation
Indices: 46572960--46573009 Score: 59
Period size: 11 Copynumber: 4.2 Consensus size: 12
46572950 TACATGTATT
*
46572960 CTCTAAAAAATTC
1 CTCTCAAAAA-TC
46572973 CTC-CAAAAATC
1 CTCTCAAAAATC
46572984 CTCTC-AAAATC
1 CTCTCAAAAATC
*
46572995 CTCTCCAAAATC
1 CTCTCAAAAATC
46573007 CTC
1 CTC
46573010 CCCATACAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
11 16 0.47
12 15 0.44
13 3 0.09
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (12 bp):
CTCTCAAAAATC
Found at i:46572992 original size:23 final size:23
Alignment explanation
Indices: 46572966--46573009 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
46572956 TATTCTCTAA
46572966 AAAATTCCTC-CAAAAATCCTCTC
1 AAAA-TCCTCTCAAAAATCCTCTC
*
46572989 AAAATCCTCTCCAAAATCCTC
1 AAAATCCTCTCAAAAATCCTC
46573010 CCCATACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (23 bp):
AAAATCCTCTCAAAAATCCTCTC
Found at i:46572992 original size:24 final size:23
Alignment explanation
Indices: 46572960--46573009 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
46572950 TACATGTATT
46572960 CTCTAAAAAATTCCTC-CAAAAATC
1 CTCT-AAAAA-TCCTCTCAAAAATC
* *
46572984 CTCTCAAAATCCTCTCCAAAATC
1 CTCTAAAAATCCTCTCAAAAATC
46573007 CTC
1 CTC
46573010 CCCATACAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 5 0.22
23 14 0.61
24 4 0.17
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (23 bp):
CTCTAAAAATCCTCTCAAAAATC
Found at i:46573091 original size:18 final size:18
Alignment explanation
Indices: 46573068--46573103 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
46573058 ATAACAAGTA
46573068 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
46573086 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
46573104 ACGGTTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.61, T:0.22
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:46573119 original size:29 final size:29
Alignment explanation
Indices: 46573086--46573185 Score: 85
Period size: 29 Copynumber: 3.2 Consensus size: 29
46573076 GAGGTAGTGG
46573086 GGGTGATGGAGGTAGTGGACGGTTTAGTA
1 GGGTGATGGAGGTAGTGGACGGTTTAGTA
*
46573115 GGGTGTGGAGGTGATGGAGGTAGTGGATGGTTTAGTA
1 -------G-GGTGATGGAGGTAGTGGACGGTTTAGTA
* *
46573152 GGGTGATGGAGTTAGT-GATCGGTTTAGTG
1 GGGTGATGGAGGTAGTGGA-CGGTTTAGTA
46573181 GGGTG
1 GGGTG
46573186 TTTAATTTGG
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
28 2 0.03
29 27 0.47
30 1 0.02
36 1 0.02
37 27 0.47
ACGTcount: A:0.18, C:0.02, G:0.50, T:0.30
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGACGGTTTAGTA
Found at i:46573137 original size:37 final size:37
Alignment explanation
Indices: 46573082--46573162 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
46573072 GATGGAGGTA
*
46573082 GTGGGGGTGATGGAGGTAGTGGACGGTTTAGTAGGGT
1 GTGGAGGTGATGGAGGTAGTGGACGGTTTAGTAGGGT
*
46573119 GTGGAGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGAGGTGATGGAGGTAGTGGACGGTTTAGTAGGGT
46573156 GATGGAG
1 G-TGGAG
46573163 TTAGTGATCG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 36 0.88
38 5 0.12
ACGTcount: A:0.19, C:0.01, G:0.53, T:0.27
Consensus pattern (37 bp):
GTGGAGGTGATGGAGGTAGTGGACGGTTTAGTAGGGT
Found at i:46573732 original size:45 final size:45
Alignment explanation
Indices: 46573675--46573882 Score: 151
Period size: 45 Copynumber: 4.6 Consensus size: 45
46573665 AAATTTGATT
* *
46573675 TGCTTCACTCCTGCTCAATGAAGATAAGATCTGGTATGTTTAGCC
1 TGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCC
* * ***
46573720 TGCTCCACTCCTGCTCAGTGAAGATAA-AGCT-G-ATGATTGGAATA
1 TGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATG-TT-TAGCC
* * * ***
46573764 TGCTCCATTGCC-GATACA-TGGAGATAAGATTCATCAAAT-TTT-GACC
1 TGCTCCACT-CCTGCT-CAGTGAAGATAAGA-TC-TGGTATGTTTAG-CC
* * **
46573810 TGCTTCACTCCTGCTCAGCGAAGATAAGGCCTGGTATGTTTAGCC
1 TGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCC
46573855 TGCTCCACTCCTGCTCAGTGAAGATAAG
1 TGCTCCACTCCTGCTCAGTGAAGATAAG
46573883 GCTGGTGGCT
Statistics
Matches: 121, Mismatches: 28, Indels: 28
0.68 0.16 0.16
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 25 0.21
45 66 0.55
46 19 0.16
47 3 0.02
49 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (45 bp):
TGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCC
Found at i:46573790 original size:135 final size:135
Alignment explanation
Indices: 46573398--46574374 Score: 1347
Period size: 135 Copynumber: 7.3 Consensus size: 135
46573388 GATCTACTGT
* * * *
46573398 AATTTGATCTGTTTTACTCCTGCTCAGTAAAGAAAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
* *
46573463 TACTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCAATGCCGATACATGGAGATAAGATTC
66 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
46573528 ATCAA
131 ATCAA
* * * * * *
46573533 AATTTGACCTGCTTCACTCCTACTCAGCGAAGATAAGGTCTAGTA--TATAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
* * * ** * * *
46573596 TGCTTAGTGAAAATAAGGCTGGTGGCTGAAATCTACTCCATTTCCGATACATGGAGATAAGACTT
66 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGA-TT
*
46573661 -GTCAA
130 CATCAA
* *
46573666 AATTTGATTTGCTTCACTCCTGCTCAATGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
* *
46573731 TGCTCAGTGAAGATAAAGCTGATGATTGGAATATGCTCCATTGCCGATACATGGAGATAAGATTC
66 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
46573796 ATCAA
131 ATCAA
* * * **
46573801 ATTTTGACCTGCTTCACTCCTGCTCAGCGAAGATAAGGCCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
* ** * * *
46573866 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATATGCTCCATTGCCGATACATGGAGATAATATTC
66 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
46573931 ATCAA
131 ATCAA
* * * * * * * *
46573936 AAATTGATCTGCTCCGCTCCTGCTCAGCGAATATAAGATATAGTA--TTTAGCCTGCTCCACTTC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
** * * *
46573999 TGCTCAGTGAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCTGATACATGGAGGTAAGATTC
66 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
**
46574064 GCCAA
131 ATCAA
46574069 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
*
46574134 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCAATTGCCGATACATGGAGATAAGATTC
66 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
*
46574199 TTCAA
131 ATCAA
* *
46574204 AATTTGATTTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGTTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
*
46574269 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCTGATACATGGAGATAAGATTC
66 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
*
46574334 ACCAA
131 ATCAA
* *
46574339 AATTTGATCT-ATTC-CGTTCCTGCTCAGCGAAGATAA
1 AATTTGATCTGCTTCAC--TCCTGCTCAGTGAAGATAA
46574375 TCTGTCGAAA
Statistics
Matches: 738, Mismatches: 96, Indels: 16
0.87 0.11 0.02
Matches are distributed among these distances:
133 230 0.31
134 7 0.01
135 501 0.68
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (135 bp):
AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
ATCAA
Found at i:46573987 original size:268 final size:268
Alignment explanation
Indices: 46573398--46574374 Score: 1372
Period size: 268 Copynumber: 3.6 Consensus size: 268
46573388 GATCTACTGT
* * * * *
46573398 AATTTGATCTGTTTTACTCCTGCTCAGTAAAGAAAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATTTGCTTCACTCCTGCTCAGTGAAGATAAGATCT-GTA-GTTTAGCCTGCTCCACTCC
* *
46573463 TACTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCAATGCCGATACATGGAGATAAGATTC
64 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
* * * *
46573528 ATCAAAATTTGACCTGCTTCACTCCTACTCAGCGAAGATAAGGTCTAGTA--TATAGCCTGCTCC
129 ACCAAAATTTGACCTGCTTCACTCCTGCTCAGCGAAGATAAGGTCTGGTATGTTTAGCCTGCTCC
* * * *
46573591 ACTCCTGCTTAGTGAAAATAAGGCTGGTGGCTGAAATCTACTCCATTTCCGATACATGGAGATAA
194 ACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAA
*
46573656 GACTT-GTCAA
259 GA-TTCATCAA
*
46573666 AATTTGATTTGCTTCACTCCTGCTCAATGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATTTGCTTCACTCCTGCTCAGTGAAGATAAGATCT-GTA-GTTTAGCCTGCTCCACTCC
* *
46573731 TGCTCAGTGAAGATAAAGCTGATGATTGGAATATGCTCCATTGCCGATACATGGAGATAAGATTC
64 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
* * *
46573796 ATCAAATTTTGACCTGCTTCACTCCTGCTCAGCGAAGATAAGGCCTGGTATGTTTAGCCTGCTCC
129 ACCAAAATTTGACCTGCTTCACTCCTGCTCAGCGAAGATAAGGTCTGGTATGTTTAGCCTGCTCC
*
46573861 ACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATATGCTCCATTGCCGATACATGGAGATAA
194 ACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAA
*
46573926 TATTCATCAA
259 GATTCATCAA
* * * * * * * *
46573936 AAATTGATCTGCTCCGCTCCTGCTCAGCGAATATAAGATATAGTA-TTTAGCCTGCTCCACTTCT
1 AATTTGATTTGCTTCACTCCTGCTCAGTGAAGATAAGATCT-GTAGTTTAGCCTGCTCCACTCCT
** * * * *
46574000 GCTCAGTGAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCTGATACATGGAGGTAAGATTCG
65 GCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTCA
* * *
46574065 CCAAAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCA
130 CCAAAATTTGACCTGCTTCACTCCTGCTCAGCGAAGATAAGGTCTGGTATGTTTAGCCTGCTCCA
* ** * *
46574130 CTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCAATTGCCGATACATGGAGATAAG
195 CTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAG
*
46574195 ATTCTTCAA
260 ATTCATCAA
46574204 AATTTGATTTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGTTATGTTTAGCCTGCTCCACTCC
1 AATTTGATTTGCTTCACTCCTGCTCAGTGAAGATAAGATCTG-TA-GTTTAGCCTGCTCCACTCC
*
46574269 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCTGATACATGGAGATAAGATTC
64 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
* *
46574334 ACCAAAATTTGATCT-ATTC-CGTTCCTGCTCAGCGAAGATAA
129 ACCAAAATTTGACCTGCTTCAC--TCCTGCTCAGCGAAGATAA
46574375 TCTGTCGAAA
Statistics
Matches: 632, Mismatches: 69, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
267 1 0.00
268 403 0.64
269 5 0.01
270 223 0.35
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (268 bp):
AATTTGATTTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGTAGTTTAGCCTGCTCCACTCCTG
CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
CAAAATTTGACCTGCTTCACTCCTGCTCAGCGAAGATAAGGTCTGGTATGTTTAGCCTGCTCCAC
TCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGA
TTCATCAA
Found at i:46574107 original size:403 final size:403
Alignment explanation
Indices: 46573398--46574374 Score: 1497
Period size: 403 Copynumber: 2.4 Consensus size: 403
46573388 GATCTACTGT
* * * * *
46573398 AATTTGATCTGTTTTACTCCTGCTCAGTAAAGAAAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGACCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
* *
46573463 TACTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCAATGCCGATACATGGAGATAAGATTC
66 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
* * * * * *
46573528 ATCAAAATTTGACCTGCTTCACTCCTACTCAGCGAAGATAAGGTCTAGTATATAGCCTGCTCCAC
131 ATCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATATAGTATATAGCCTGCTCCAC
* * *
46573593 TCCTGCTTAGTGAAAATAAGGCTGGTGGCTGAAATCTACTCCATTTCCGATACATGGAGATAAGA
196 TCCTGCTCAGTGAAAATAAGGCTGATGGCTGAAATCTACTCCATTGCCGATACATGGAGATAAGA
* *
46573658 CTTGTCAAAATTTGATTTGCTTCACTCCTGCTCAATGAAGATAAGATCTGGTATGTTTAGCCTGC
261 CTTGCCAAAATTTGATCTGCTTCACTCCTGCTCAATGAAGATAAGATCTGGTATGTTTAGCCTGC
*
46573723 TCCACTCCTGCTCAGTGAAGATAAAGCTGATGATTGGAATATGCTCCATTGCCGATACATGGAGA
326 TCCACTCCTGCTCAGTGAAGATAAAGCTGATGATTGGAATATGCTCAATTGCCGATACATGGAGA
46573788 TAAGATTCATCAA
391 TAAGATTCATCAA
* * **
46573801 ATTTTGACCTGCTTCACTCCTGCTCAGCGAAGATAAGGCCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGACCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
* ** * * *
46573866 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATATGCTCCATTGCCGATACATGGAGATAATATTC
66 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
* * *
46573931 ATCAAAAATTGATCTGCTCCGCTCCTGCTCAGCGAATATAAGATATAGTATTTAGCCTGCTCCAC
131 ATCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATATAGTATATAGCCTGCTCCAC
* * * * *
46573996 TTCTGCTCAGTGAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCTGATACATGGAGGTAAGA
196 TCCTGCTCAGTGAAAATAAGGCTGATGGCTGAAATCTACTCCATTGCCGATACATGGAGATAAGA
*
46574061 -TTCGCCAAAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTG
261 CTT-GCCAAAATTTGATCTGCTTCACTCCTGCTCAATGAAGATAAGATCTGGTATGTTTAGCCTG
* *
46574125 CTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCAATTGCCGATACATGGAG
325 CTCCACTCCTGCTCAGTGAAGATAAAGCTGATGATTGGAATATGCTCAATTGCCGATACATGGAG
*
46574190 ATAAGATTCTTCAA
390 ATAAGATTCATCAA
** *
46574204 AATTTGATTTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGTTATGTTTAGCCTGCTCCACTCC
1 AATTTGACCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
*
46574269 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCTGATACATGGAGATAAGATTC
66 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
* ** *
46574334 ACCAAAATTTGATCTATTCCGTTCCTGCTCAGCGAAGATAA
131 ATCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAA
46574375 TCTGTCGAAA
Statistics
Matches: 512, Mismatches: 61, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
402 2 0.00
403 510 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (403 bp):
AATTTGACCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
ATCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATATAGTATATAGCCTGCTCCAC
TCCTGCTCAGTGAAAATAAGGCTGATGGCTGAAATCTACTCCATTGCCGATACATGGAGATAAGA
CTTGCCAAAATTTGATCTGCTTCACTCCTGCTCAATGAAGATAAGATCTGGTATGTTTAGCCTGC
TCCACTCCTGCTCAGTGAAGATAAAGCTGATGATTGGAATATGCTCAATTGCCGATACATGGAGA
TAAGATTCATCAA
Found at i:46574132 original size:45 final size:45
Alignment explanation
Indices: 46574077--46574285 Score: 160
Period size: 45 Copynumber: 4.6 Consensus size: 45
46574067 AAAATTTGAT
*
46574077 CTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGC
* * **
46574122 CTGCTCCACTCCTGCTCAGTGAAGATAAG-GCT-G-ATGATTGGAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATG-TT-TAGC
* * * * *** ** *
46574166 CTGCTCAATTGCC-GATACA-TGGAGATAAGATTCTTCAAAATTT-GAT
1 CTGCTCCACT-CCTGCT-CAGTGAAGATAAGA-TCTGGTATGTTTAG-C
* * *
46574212 TTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGTTATGTTTAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGC
46574257 CTGCTCCACTCCTGCTCAGTGAAGATAAG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAG
46574286 GCTGATGATT
Statistics
Matches: 123, Mismatches: 29, Indels: 24
0.70 0.16 0.14
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 22 0.18
45 70 0.57
46 22 0.18
47 2 0.02
48 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (45 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGC
Found at i:46575732 original size:5 final size:5
Alignment explanation
Indices: 46575722--46575802 Score: 53
Period size: 5 Copynumber: 16.0 Consensus size: 5
46575712 CTCTCATTTG
*
46575722 CTTTT CTTTT CTTTCT CTTTT -TTGT -TTTT CTTTT CTTTTT CCTTTT
1 CTTTT CTTTT CTTT-T CTTTT CTTTT CTTTT CTTTT C-TTTT -CTTTT
* * *
46575768 CCTTTT -TTCT CTTTC CTTTTT CTCTT CTTTT -TTTT
1 -CTTTT CTTTT CTTTT C-TTTT CTTTT CTTTT CTTTT
46575803 TTAAAGTGAA
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
4 13 0.21
5 25 0.40
6 23 0.37
7 1 0.02
ACGTcount: A:0.00, C:0.22, G:0.01, T:0.77
Consensus pattern (5 bp):
CTTTT
Found at i:46575739 original size:24 final size:24
Alignment explanation
Indices: 46575712--46575759 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
46575702 TCGCCTTGGC
46575712 CTCTCATTTGCTTTTCTTTTCTTT
1 CTCTCATTTGCTTTTCTTTTCTTT
** *
46575736 CTCTTTTTTGTTTTTCTTTTCTTT
1 CTCTCATTTGCTTTTCTTTTCTTT
46575760 TTCCTTTTCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.02, C:0.21, G:0.04, T:0.73
Consensus pattern (24 bp):
CTCTCATTTGCTTTTCTTTTCTTT
Found at i:46575749 original size:6 final size:6
Alignment explanation
Indices: 46575723--46575804 Score: 55
Period size: 6 Copynumber: 13.7 Consensus size: 6
46575713 TCTCATTTGC
* * *
46575723 TTTTC- TTTTCT TTCTCTT TTTTGT TTTTC- TTTTCT TTTTCCT TTTCCTT
1 TTTTCT TTTTCT TTTTC-T TTTTCT TTTTCT TTTTCT TTTT-CT TTTTC-T
* *
46575772 TTTTCT CTTTCCT TTTTC- TCTTCT TTTT-T TTTT
1 TTTTCT -TTTTCT TTTTCT TTTTCT TTTTCT TTTT
46575805 AAAGTGAAGT
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
5 19 0.32
6 22 0.37
7 19 0.32
ACGTcount: A:0.00, C:0.21, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTCT
Found at i:46575749 original size:18 final size:18
Alignment explanation
Indices: 46575723--46575804 Score: 71
Period size: 18 Copynumber: 4.5 Consensus size: 18
46575713 TCTCATTTGC
46575723 TTTTC-TTTTCTTTCTCTT
1 TTTTCTTTTTCTTT-TCTT
*
46575741 TTTTGTTTTTCTTTTCTT
1 TTTTCTTTTTCTTTTCTT
* *
46575759 TTTCCTTTTCCTTTT-TT
1 TTTTCTTTTTCTTTTCTT
*
46575776 CTCTTTCCTTTTTCTCTTCTT
1 -T-TTT-CTTTTTCTTTTCTT
46575797 TTTT-TTTT
1 TTTTCTTTT
46575805 AAAGTGAAGT
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
17 6 0.12
18 21 0.40
19 13 0.25
20 10 0.19
21 2 0.04
ACGTcount: A:0.00, C:0.21, G:0.01, T:0.78
Consensus pattern (18 bp):
TTTTCTTTTTCTTTTCTT
Found at i:46575776 original size:14 final size:13
Alignment explanation
Indices: 46575746--46575804 Score: 63
Period size: 12 Copynumber: 4.8 Consensus size: 13
46575736 CTCTTTTTTG
46575746 TTTTTCTTTT-CT
1 TTTTTCTTTTCCT
*
46575758 TTTTCCTTTTCCT
1 TTTTTCTTTTCCT
46575771 TTTTTCTCTTTCC-
1 TTTTTCT-TTTCCT
*
46575784 TTTTTCTCTT-CT
1 TTTTTCTTTTCCT
46575796 TTTTT-TTTT
1 TTTTTCTTTT
46575805 AAAGTGAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 4 0.10
12 16 0.40
13 15 0.38
14 5 0.12
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTCTTTTCCT
Found at i:46575790 original size:13 final size:13
Alignment explanation
Indices: 46575746--46575793 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
46575736 CTCTTTTTTG
46575746 TTTTTCT-TTT-C
1 TTTTTCTCTTTCC
46575757 TTTTTC-CTTTTCC
1 TTTTTCTC-TTTCC
46575770 TTTTTTCTCTTTCC
1 -TTTTTCTCTTTCC
46575784 TTTTTCTCTT
1 TTTTTCTCTT
46575794 CTTTTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 6 0.19
12 3 0.09
13 11 0.34
14 11 0.34
15 1 0.03
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTCTCTTTCC
Found at i:46575800 original size:13 final size:12
Alignment explanation
Indices: 46575728--46575801 Score: 51
Period size: 13 Copynumber: 5.7 Consensus size: 12
46575718 TTTGCTTTTC
*
46575728 TTTTCTTTCTCT
1 TTTTTTTTCTCT
*
46575740 TTTTTGTTTTTCT
1 TTTTT-TTTCTCT
46575753 TTTCTTTTTC-CTT
1 TTT-TTTTTCTC-T
46575766 TTCCTTTTTTCTCT
1 TT--TTTTTTCTCT
*
46575780 TTCCTTTTTCTCT
1 TT-TTTTTTCTCT
46575793 TCTTTTTTT
1 T-TTTTTTT
46575802 TTTAAAGTGA
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
12 5 0.10
13 31 0.62
14 12 0.24
15 2 0.04
ACGTcount: A:0.00, C:0.22, G:0.01, T:0.77
Consensus pattern (12 bp):
TTTTTTTTCTCT
Found at i:46585630 original size:19 final size:20
Alignment explanation
Indices: 46585606--46585652 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
46585596 TTTTTTGAAT
* *
46585606 TAATGCACATG-ATGTGATG
1 TAATGCAAATGCATGGGATG
46585625 TAATGCAAATGCATGGGATG
1 TAATGCAAATGCATGGGATG
46585645 -AATGCAAA
1 TAATGCAAA
46585653 AGAAGACGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGGGATG
Found at i:46586042 original size:18 final size:18
Alignment explanation
Indices: 46586019--46586053 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
46586009 TAGAACACCT
46586019 ATTTGG-GTAACCACTAAG
1 ATTTGGCGTAACC-CTAAG
46586037 ATTTGGCGTAACCCTAA
1 ATTTGGCGTAACCCTAA
46586054 CTAGGGTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (18 bp):
ATTTGGCGTAACCCTAAG
Found at i:46587135 original size:126 final size:126
Alignment explanation
Indices: 46586975--46587218 Score: 452
Period size: 126 Copynumber: 1.9 Consensus size: 126
46586965 GTTTGTACCT
46586975 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
46587040 CTTCGAATTCTTTAAATACCGAACATTACCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATTACCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
*
46587101 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
* *
46587166 CTTCGAATTCTTTATATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 CTTCGAATTCTTTAAATACCGAACATTACCTTTATTTTGAAAAATTTTGAGAG
46587219 AAGATCAATG
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 114 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (126 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAATTCTTTAAATACCGAACATTACCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
Found at i:46587351 original size:13 final size:12
Alignment explanation
Indices: 46587319--46587368 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
46587309 AACCATATAT
46587319 AAATAA-TAA-A
1 AAATAATTAATA
46587329 AAATAA-TAATA
1 AAATAATTAATA
*
46587340 ATAGTAATTAATA
1 A-AATAATTAATA
46587353 GAAATAATTAATA
1 -AAATAATTAATA
46587366 AAA
1 AAA
46587369 CAACAGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.26
11 2 0.06
12 7 0.21
13 15 0.44
14 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (12 bp):
AAATAATTAATA
Found at i:46587698 original size:14 final size:14
Alignment explanation
Indices: 46587679--46587709 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
46587669 ATATATTTAC
*
46587679 ATAATAAATATATA
1 ATAATAAATAAATA
46587693 ATAATAAATAAATA
1 ATAATAAATAAATA
46587707 ATA
1 ATA
46587710 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:46587710 original size:19 final size:18
Alignment explanation
Indices: 46587681--46587717 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
46587671 ATATTTACAT
46587681 AATAAATATATAATAATA
1 AATAAATATATAATAATA
46587699 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
46587718 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:46587760 original size:56 final size:58
Alignment explanation
Indices: 46587699--46587831 Score: 132
Period size: 61 Copynumber: 2.3 Consensus size: 58
46587689 TATAATAATA
* *
46587699 AATAAATAATATAATAAT-ATGAAACAT-AA-CTCAAATTAATTAAATTAATAG-AAAAT
1 AATAAA-AATATAAAAATAATGAAA-ATAAAGCTCAAATTAATTAAATTAACAGTAAAAT
* *
46587755 AATAAAAACAAATATAAAAATAATGAGAATAAAGCTCAAATTAATTAATTTAACAGTAAAAT
1 AAT---AA-AAATATAAAAATAATGAAAATAAAGCTCAAATTAATTAAATTAACAGTAAAAT
*
46587817 AACAAAAATA-AAAAA
1 AATAAAAATATAAAAA
46587832 GGGGTTAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
56 3 0.05
57 5 0.08
58 5 0.08
59 16 0.25
60 8 0.12
61 20 0.31
62 7 0.11
ACGTcount: A:0.64, C:0.06, G:0.05, T:0.26
Consensus pattern (58 bp):
AATAAAAATATAAAAATAATGAAAATAAAGCTCAAATTAATTAAATTAACAGTAAAAT
Found at i:46588061 original size:11 final size:12
Alignment explanation
Indices: 46588047--46588077 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
46588037 AATTCTTCCA
46588047 AAAATCCTCT-C
1 AAAATCCTCTCC
46588058 AAAATCCTCTCC
1 AAAATCCTCTCC
46588070 AAAATCCT
1 AAAATCCT
46588078 TCCCATACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.39, C:0.35, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAATCCTCTCC
Found at i:46588061 original size:24 final size:23
Alignment explanation
Indices: 46588029--46588077 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
46588019 TATGTGTATT
*
46588029 CTCTAAAAAATTCT-TCCAAAAATC
1 CTCT-AAAAATCCTCTCC-AAAATC
*
46588053 CTCTCAAAATCCTCTCCAAAATC
1 CTCTAAAAATCCTCTCCAAAATC
46588076 CT
1 CT
46588078 TCCCATACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.29
Consensus pattern (23 bp):
CTCTAAAAATCCTCTCCAAAATC
Found at i:46588160 original size:18 final size:18
Alignment explanation
Indices: 46588137--46588172 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
46588127 ATAACAAGTA
*
46588137 GGGTGATGGAGTTAGTGG
1 GGGTGATGGAGGTAGTGG
46588155 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
46588173 ATGGTTTAGT
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:0.17, C:0.00, G:0.58, T:0.25
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:46588188 original size:29 final size:29
Alignment explanation
Indices: 46588155--46588217 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
46588145 GAGTTAGTGG
46588155 GGGTGATGGAGGTAGTGGAT-GGTTTAGTA
1 GGGTGATGGAGGTAGT-GATCGGTTTAGTA
*
46588184 GGGTGATGGAGTTAGTGATCGGTTTAGTA
1 GGGTGATGGAGGTAGTGATCGGTTTAGTA
46588213 GGGTG
1 GGGTG
46588218 TTTAATTTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.19, C:0.02, G:0.48, T:0.32
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGATCGGTTTAGTA
Found at i:46589892 original size:20 final size:20
Alignment explanation
Indices: 46589867--46589907 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
46589857 AATCCAATTG
46589867 TCAACGTACATAATATTCTA
1 TCAACGTACATAATATTCTA
46589887 TCAACGTACATAATATTCTA
1 TCAACGTACATAATATTCTA
46589907 T
1 T
46589908 TAATGTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.37
Consensus pattern (20 bp):
TCAACGTACATAATATTCTA
Found at i:46595314 original size:30 final size:30
Alignment explanation
Indices: 46595264--46595320 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
46595254 ATGATGCATG
46595264 AATTTTAATTTATGTAA-TTTTATAAATTA
1 AATTTTAATTTATGTAATTTTTATAAATTA
* *
46595293 AATTTTGATTTGATTTAATTTTTATAAA
1 AATTTTAATTT-ATGTAATTTTTATAAA
46595321 AAACTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.42
30 5 0.21
31 9 0.38
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (30 bp):
AATTTTAATTTATGTAATTTTTATAAATTA
Found at i:46595624 original size:16 final size:17
Alignment explanation
Indices: 46595592--46595624 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
46595582 ATTTCTAAAC
46595592 CAATCTAAAATATACAA
1 CAATCTAAAATATACAA
*
46595609 CAATTTAAAA-ATACAA
1 CAATCTAAAATATACAA
46595625 TTAAAAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.15, G:0.00, T:0.24
Consensus pattern (17 bp):
CAATCTAAAATATACAA
Found at i:46601068 original size:143 final size:144
Alignment explanation
Indices: 46600803--46601092 Score: 528
Period size: 143 Copynumber: 2.0 Consensus size: 144
46600793 CTGCATATAC
46600803 ATAGTAGCATATTTCTTGCTTTTACTGAGACCTTATAACTCATGAATTTTGTTTTTCTAAAAGAA
1 ATAGTAGCATATTTCTTGCTTTTACTGAGACCTTATAACTCATGAATTTTG-TTTTCTAAAAGAA
*
46600868 AGGCACCTTTCTGTTAAACAGAGTTAGTAGTCTGAATGGTATTGATTGTTTCACATTTTCTTTTG
65 AGGAACCTTTCTGTTAAACAGAGTTAGTAGTCTGAATGGTATTGATTGTTTCACATTTTCTTTTG
46600933 AAAGATGAAATGTCT
130 AAAGATGAAATGTCT
* *
46600948 ATAGTAGCATATTTCTTGCTTTTACTGAGACCTTTTAACTCATGAATTTTG-TTTGTAAAAGAAA
1 ATAGTAGCATATTTCTTGCTTTTACTGAGACCTTATAACTCATGAATTTTGTTTTCTAAAAGAAA
*
46601012 GGAACCTTTCTGTTAAACAGAGTTAGTAGTCTGAATGGTATTGATTGTTTCTCATTTTCTTTTGA
66 GGAACCTTTCTGTTAAACAGAGTTAGTAGTCTGAATGGTATTGATTGTTTCACATTTTCTTTTGA
46601077 AAGATGAAATGTCT
131 AAGATGAAATGTCT
46601091 AT
1 AT
46601093 GGTGCAGGGG
Statistics
Matches: 141, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
143 91 0.65
145 50 0.35
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (144 bp):
ATAGTAGCATATTTCTTGCTTTTACTGAGACCTTATAACTCATGAATTTTGTTTTCTAAAAGAAA
GGAACCTTTCTGTTAAACAGAGTTAGTAGTCTGAATGGTATTGATTGTTTCACATTTTCTTTTGA
AAGATGAAATGTCT
Found at i:46609842 original size:22 final size:22
Alignment explanation
Indices: 46609817--46609861 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
46609807 ACACAAATAA
46609817 ATGAATATATAAATATATATTT
1 ATGAATATATAAATATATATTT
46609839 ATGAATATATAAATATATATTT
1 ATGAATATATAAATATATATTT
46609861 A
1 A
46609862 AACAGCTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (22 bp):
ATGAATATATAAATATATATTT
Found at i:46617097 original size:19 final size:19
Alignment explanation
Indices: 46617073--46617110 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
46617063 CAAATGCATA
*
46617073 ATTTTCTCAATTATGAACC
1 ATTTTCTCAATCATGAACC
*
46617092 ATTTTCTTAATCATGAACC
1 ATTTTCTCAATCATGAACC
46617111 GTATGAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.42
Consensus pattern (19 bp):
ATTTTCTCAATCATGAACC
Found at i:46623266 original size:16 final size:16
Alignment explanation
Indices: 46623223--46623275 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
46623213 GTATTTTAAG
46623223 TTTTG-AATTTTAAATA
1 TTTTGTAATTTTAAA-A
* *
46623239 TTTTTTATTTTTAAAA
1 TTTTGTAATTTTAAAA
46623255 TTTTGTAATTTTTAAAA
1 TTTTGTAA-TTTTAAAA
46623272 TTTT
1 TTTT
46623276 AAGTTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 11 0.35
17 20 0.65
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (16 bp):
TTTTGTAATTTTAAAA
Found at i:46623284 original size:17 final size:16
Alignment explanation
Indices: 46623230--46623275 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
46623220 AAGTTTTGAA
*
46623230 TTTTAAATATTTTTTAT
1 TTTTAAA-ATTTTGTAT
46623247 TTTTAAAATTTTGTAAT
1 TTTTAAAATTTTGT-AT
46623264 TTTTAAAATTTT
1 TTTTAAAATTTT
46623276 AAGTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 6 0.22
17 21 0.78
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
TTTTAAAATTTTGTAT
Found at i:46633195 original size:28 final size:28
Alignment explanation
Indices: 46633159--46633214 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
46633149 TCAACTCTAG
*
46633159 CCTTGAAACCCTAAA-AGAAAAAATAAAA
1 CCTTAAAACCC-AAATAGAAAAAATAAAA
* *
46633187 CCTTAAAACCCAAATATAAACAATAAAA
1 CCTTAAAACCCAAATAGAAAAAATAAAA
46633215 TTATAAACTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.61, C:0.20, G:0.04, T:0.16
Consensus pattern (28 bp):
CCTTAAAACCCAAATAGAAAAAATAAAA
Found at i:46633597 original size:235 final size:224
Alignment explanation
Indices: 46633165--46633633 Score: 636
Period size: 235 Copynumber: 2.0 Consensus size: 224
46633155 CTAGCCTTGA
*
46633165 AACCCTAAAAGAAAAAATAAAACCTTAAAACCCAAATATAAACAATAAAATTATAAACTGTAAAT
1 AACCCTAAAAGAAAAAATAAAACCTTAAAACACAAATATAAACAATAAAATTATAAACTGTAAAT
* *
46633230 CTTAAACCATAAAACAAATTTCATAAGCACTAATCTTACCTCTTAAACCCTAAAAATCATAAAAC
66 CTTAAACCATAAAACAAAATTCATAAGCACTAACCTTACCTCTTAAACCCTAAAAATCATAAAAC
*** **
46633295 TGCAAAATAAAAGCATTGGGTACCAAGATTGTAAACCCCAAAAGAAAATCTTAAAATGTGAACAC
131 TG-AAAATAAAAGCATTGGGTACCAAGACCATAAACCCCAAAAGAAAATCTTAAAACATGAACAC
46633360 TAAACCTTGAAAATTAAAACACTAAAACATT
195 TAAACCTTGAAAATTAAAA-ACTAAAACATT
46633391 AACCCTAAAAGAAAAAAGATAAAACCTTAAAACACAAATATAAACAATAAAATTATAAACCT-TA
1 AACCCTAAAAG-AAAAA-ATAAAACCTTAAAACACAAATATAAACAATAAAATTATAAA-CTGT-
* * *
46633455 AAATCCTAAATCCTAAACCATAAAACAAAATTCATAAGCCCTAGCCTTACCTTTTAAACCCTAAA
62 AAAT-C----T--TAAACCATAAAACAAAATTCATAAGCACTAACCTTACCTCTTAAACCCTAAA
* * **
46633520 AATCATAAAAGGTG-AAATAAAAGCATTGGGTACCAAGACCATAAACCCTAAAAGAAAATCTTGG
120 AATCATAAAA-CTGAAAATAAAAGCATTGGGTACCAAGACCATAAACCCCAAAAGAAAATCTTAA
* *
46633584 AACATGAACACTAAACCTTGAAAGTTGAAAACTAAAACATT
184 AACATGAACACTAAACCTTGAAAATTAAAAACTAAAACATT
*
46633625 AGCCCTAAA
1 AACCCTAAA
46633634 TATTAATCAT
Statistics
Matches: 213, Mismatches: 18, Indels: 16
0.86 0.07 0.06
Matches are distributed among these distances:
226 11 0.05
227 5 0.02
228 41 0.19
229 6 0.03
230 1 0.00
234 20 0.09
235 70 0.33
236 57 0.27
237 2 0.01
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (224 bp):
AACCCTAAAAGAAAAAATAAAACCTTAAAACACAAATATAAACAATAAAATTATAAACTGTAAAT
CTTAAACCATAAAACAAAATTCATAAGCACTAACCTTACCTCTTAAACCCTAAAAATCATAAAAC
TGAAAATAAAAGCATTGGGTACCAAGACCATAAACCCCAAAAGAAAATCTTAAAACATGAACACT
AAACCTTGAAAATTAAAAACTAAAACATT
Found at i:46644854 original size:31 final size:31
Alignment explanation
Indices: 46644777--46644854 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
46644767 AGTTAGATTT
* *
46644777 TAAAAAAAAGTT-AATAATTTAGTGACTTCAA
1 TAAAAAAAA-TTGAATAATTCAGTGACTTAAA
** *
46644808 T-AAAAACTTTCGAATAATTCAGTGATTTAAA
1 TAAAAAAAATT-GAATAATTCAGTGACTTAAA
46644839 TAAAAAAAATTGAATA
1 TAAAAAAAATTGAATA
46644855 GTCCAATAAC
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
29 2 0.05
30 5 0.14
31 23 0.62
32 7 0.19
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (31 bp):
TAAAAAAAATTGAATAATTCAGTGACTTAAA
Found at i:46651098 original size:18 final size:17
Alignment explanation
Indices: 46651077--46651110 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
46651067 TTCGGATCCC
*
46651077 AAAAATTTTCGTGTTTTA
1 AAAAATTCTCGT-TTTTA
46651095 AAAAATTCTCGTTTTT
1 AAAAATTCTCGTTTTT
46651111 CAATCGGATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (17 bp):
AAAAATTCTCGTTTTTA
Found at i:46656966 original size:13 final size:13
Alignment explanation
Indices: 46656948--46656975 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
46656938 CCTCTTTTTA
46656948 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
46656961 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
46656974 TT
1 TT
46656976 TATATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (13 bp):
TTCTTTTGTTTCT
Found at i:46659309 original size:13 final size:14
Alignment explanation
Indices: 46659293--46659328 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
46659283 CAATCTCATA
46659293 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
46659306 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
46659319 TCTC-ATTTCA
1 TCTCAATTTCA
46659329 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:46659318 original size:18 final size:19
Alignment explanation
Indices: 46659280--46659320 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
46659270 TGGTTCATGT
46659280 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
46659299 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
46659317 TTTC
1 TTTC
46659321 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:46659846 original size:15 final size:15
Alignment explanation
Indices: 46659826--46659872 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
46659816 TATATTATAT
46659826 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
46659841 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
46659856 TTCAATCAATATAAA
1 TTCAATCAATATAAA
46659871 TT
1 TT
46659873 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:46660403 original size:31 final size:32
Alignment explanation
Indices: 46660345--46660408 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
46660335 CATACATTTG
*
46660345 TCATAATTTAATATATTTATTACATAAAAATC
1 TCATAATATAATATATTTATTACATAAAAATC
*
46660377 TCATAATATAAT-TATTTAATTA-ATAAATATC
1 TCATAATATAATATATTT-ATTACATAAAAATC
46660408 T
1 T
46660409 TATTTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (32 bp):
TCATAATATAATATATTTATTACATAAAAATC
Found at i:46660940 original size:13 final size:14
Alignment explanation
Indices: 46660922--46660950 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
46660912 GATTAACTTC
46660922 ATAAATATTTT-TA
1 ATAAATATTTTCTA
46660935 ATAAATATTTTCTA
1 ATAAATATTTTCTA
46660949 AT
1 AT
46660951 CCATTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAATATTTTCTA
Found at i:46661004 original size:72 final size:72
Alignment explanation
Indices: 46660913--46661052 Score: 262
Period size: 72 Copynumber: 1.9 Consensus size: 72
46660903 TAACCACTCG
* *
46660913 ATTAACTTCATAAATATTTTTAATAAATATTTTCTAATCCATTTTTCAGAAACAGTGATCCGAAA
1 ATTAAATTCATAAATATTTTTAATAAATATTTTCTAATCCATTTTTCAAAAACAGTGATCCGAAA
46660978 ATACACT
66 ATACACT
46660985 ATTAAATTCATAAATATTTTTAATAAATATTTTCTAATCCATTTTTCAAAAACAGTGATCCGAAA
1 ATTAAATTCATAAATATTTTTAATAAATATTTTCTAATCCATTTTTCAAAAACAGTGATCCGAAA
46661050 ATA
66 ATA
46661053 TACCTTTCTA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.39
Consensus pattern (72 bp):
ATTAAATTCATAAATATTTTTAATAAATATTTTCTAATCCATTTTTCAAAAACAGTGATCCGAAA
ATACACT
Found at i:46661012 original size:13 final size:14
Alignment explanation
Indices: 46660994--46661022 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
46660984 TATTAAATTC
46660994 ATAAATATTTT-TA
1 ATAAATATTTTCTA
46661007 ATAAATATTTTCTA
1 ATAAATATTTTCTA
46661021 AT
1 AT
46661023 CCATTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAATATTTTCTA
Found at i:46669824 original size:3 final size:3
Alignment explanation
Indices: 46669816--46669869 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
46669806 AACCTTCACA
* * * *
46669816 TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TTT TAC TAT CTAA TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
46669861 TAT TAT TAT
1 TAT TAT TAT
46669870 ACTTATTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.90
4 2 0.05
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:46669974 original size:18 final size:17
Alignment explanation
Indices: 46669927--46669980 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
46669917 TTATTGTACG
*
46669927 TATATA-TATACTTTTA
1 TATATAGTATATTTTTA
46669943 TATATAGTATTATTTTTA
1 TATATAGTA-TATTTTTA
*
46669961 TATATCATTATATTTATTA
1 TATAT-AGTATATTT-TTA
46669980 T
1 T
46669981 TATGCTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 17 0.53
19 7 0.22
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (17 bp):
TATATAGTATATTTTTA
Found at i:46670591 original size:18 final size:18
Alignment explanation
Indices: 46670570--46670624 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 18
46670560 AATTTGATCC
46670570 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTGTTTT
*
46670588 C-AAAATTTTAGTGTTTT
1 CAAAAATTTTCGTGTTTT
* *
46670605 AAAAAATTCTCGT-TTTT
1 CAAAAATTTTCGTGTTTT
46670622 CAA
1 CAA
46670625 TCGGATCACG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 21 0.68
18 10 0.32
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (18 bp):
CAAAAATTTTCGTGTTTT
Found at i:46671383 original size:36 final size:36
Alignment explanation
Indices: 46671336--46671411 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
46671326 GTCCGAACAC
*
46671336 ATAACAAGATGACTAATGAAAGGGGGCTGCAAATAA
1 ATAACAAGATGACTAATGAAAGGGGCCTGCAAATAA
46671372 ATAACAAGATGACTAATGAAAGGGGCCTGCAAATAA
1 ATAACAAGATGACTAATGAAAGGGGCCTGCAAATAA
46671408 ATAA
1 ATAA
46671412 AGCTATTACA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.49, C:0.12, G:0.22, T:0.17
Consensus pattern (36 bp):
ATAACAAGATGACTAATGAAAGGGGCCTGCAAATAA
Found at i:46673600 original size:65 final size:65
Alignment explanation
Indices: 46673459--46673581 Score: 174
Period size: 65 Copynumber: 1.9 Consensus size: 65
46673449 TAAAAAATCG
* * * *
46673459 GATCTTCCCAATCTCCTGAACGAGATATTAAGTCTTCTCAATCTCAAGCTCCTAAATGCAATATC
1 GATCTTCCCAAACTTCTGAACGAGATATCAAGTCTTCTCAATCTCAAGATCCTAAATGCAATATC
* * * *
46673524 GATCTTCCCAAACTTCTGAATGAGATATCAGGTCTTCTCAATTTCAAGATCCTGAATG
1 GATCTTCCCAAACTTCTGAACGAGATATCAAGTCTTCTCAATCTCAAGATCCTAAATG
46673582 AGATATTGAG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 50 1.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (65 bp):
GATCTTCCCAAACTTCTGAACGAGATATCAAGTCTTCTCAATCTCAAGATCCTAAATGCAATATC
Found at i:46675674 original size:21 final size:20
Alignment explanation
Indices: 46675650--46675692 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
46675640 GTTTATTTTT
*
46675650 ATAAAATAATTAATTGATAAA
1 ATAAAAT-ATTAAATGATAAA
*
46675671 ATAAAATTTTAAATGATAAA
1 ATAAAATATTAAATGATAAA
46675691 AT
1 AT
46675693 TTGAATCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
ATAAAATATTAAATGATAAA
Found at i:46676635 original size:6 final size:6
Alignment explanation
Indices: 46676619--46676657 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
46676609 ATTAACAAAC
*
46676619 TATAAA AATAAA TATAAA TATAAA TATAAA TATAAA TAT
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TAT
46676658 GAGATAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TATAAA
Found at i:46680063 original size:13 final size:13
Alignment explanation
Indices: 46680045--46680070 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46680035 AAAAAGTAAA
46680045 AAGTAATATTAAT
1 AAGTAATATTAAT
46680058 AAGTAATATTAAT
1 AAGTAATATTAAT
46680071 TTCATATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
AAGTAATATTAAT
Found at i:46701165 original size:16 final size:15
Alignment explanation
Indices: 46701106--46701172 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 15
46701096 CTTTATTTCT
*
46701106 TTTAAATTTTTATAA
1 TTTAAATTTTTTTAA
46701121 TTTTAAATATTTTTTTAA
1 -TTT-AA-ATTTTTTTAA
* *
46701139 TTT-TACTTTTTTAGA
1 TTTAAATTTTTTTA-A
46701154 TTTAAATTTTTTTACA
1 TTTAAATTTTTTTA-A
46701170 TTT
1 TTT
46701173 TTTTGATATT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
14 8 0.20
15 4 0.10
16 15 0.37
17 5 0.12
18 9 0.22
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (15 bp):
TTTAAATTTTTTTAA
Found at i:46704410 original size:19 final size:19
Alignment explanation
Indices: 46704364--46704411 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
46704354 GTATATATTT
46704364 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
46704382 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
46704401 TAAGTTTTATT
1 TAAATTTTATT
46704412 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:46704473 original size:43 final size:42
Alignment explanation
Indices: 46704425--46704517 Score: 141
Period size: 43 Copynumber: 2.2 Consensus size: 42
46704415 ATTCTAGAAA
46704425 TATTTTTATTTTATCTTTTAGTAGTTTACTAGAACAAGGGAAC
1 TATTTTT-TTTTATCTTTTAGTAGTTTACTAGAACAAGGGAAC
* * *
46704468 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTT-TTTTTATCTTTTAGTAGTTTACTAGAACAAGGGAAC
46704511 TATTTTT
1 TATTTTT
46704518 CCAATTAGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 1 0.02
43 44 0.96
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (42 bp):
TATTTTTTTTTATCTTTTAGTAGTTTACTAGAACAAGGGAAC
Found at i:46709149 original size:19 final size:19
Alignment explanation
Indices: 46709103--46709150 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
46709093 GTATATATTT
46709103 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
46709121 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
46709140 TAAGTTTTATT
1 TAAATTTTATT
46709151 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:46709211 original size:43 final size:43
Alignment explanation
Indices: 46709164--46709257 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
46709154 ATTCTAGAAA
*
46709164 TATTTTTTATTTTATCTTTTA-TAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
46709207 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
46709250 TATTTTCT
1 TATTTTCT
46709258 CAATTAGGAT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 11 0.23
43 36 0.77
ACGTcount: A:0.28, C:0.06, G:0.13, T:0.53
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:46718604 original size:16 final size:15
Alignment explanation
Indices: 46718573--46718601 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
46718563 GTATATAGTA
46718573 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
46718588 AAATATTTAAAAAA
1 AAATATTTAAAAAA
46718602 ATACATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:46720213 original size:18 final size:18
Alignment explanation
Indices: 46720192--46720227 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
46720182 ACTTAGTAGT
46720192 TTCCTAAAACATAGTTGC
1 TTCCTAAAACATAGTTGC
*
46720210 TTCCTAATACATAGTTGC
1 TTCCTAAAACATAGTTGC
46720228 ATGCAATATA
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:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (18 bp):
TTCCTAAAACATAGTTGC
Found at i:46728558 original size:368 final size:366
Alignment explanation
Indices: 46725985--46729642 Score: 5068
Period size: 368 Copynumber: 10.0 Consensus size: 366
46725975 TTTTGTAACA
* * * * *
46725985 TTTTGCGAAATTCATTAATTACGAACTTTTTGTAGATGTCATCAGTCACTGACGCAATACTTAAT
1 TTTTGCGGATTTCATTAATTACGAACTTTTTGTAGATGTCATCAGTCACTGATGCAACACCTAAT
* * * * * *
46726050 GGAGTTTGGAGAATCTAGTAAGATATCTTTTATTTATTCTCATACG-CTCTGCACACAAAACACA
66 GGAGTTTGGCGAATCTAGTAAGATGTCTTTTATTTGTTCTCATA-GTCTCTGCACACGAAGCACG
* * * * *
46726114 TGAGATATTCTTACGTTGGAAAAAAAAAGCTTACATGATTTTAGTTGGGCATTACGCTATTATTA
130 TGAGATATTCTTACGTTGG-AAAAAAAAGCTTACGTGATTCTAGTTGGGCGTTACGCAATTATTG
* ** * * *
46726179 AAACCTCATTGCAAAGAGGTGGTGCCATTTGTCGATAATCATTCTTTCTTCTTTAAATTTATATA
194 AAACCTCTTTGGTAAGAGGTGGTGCCATTTGTTGATAATCATTTTTTCTTCCTTAAATTTATATA
* * * * * *
46726244 TATTTTTTTAGTTTC-ACTAATAATGCAGGCTGTCATAGTTTGAAATTTGTGTATTCTGTACGAA
259 TATTTTTTTAGTTCCAAC-AATAATGCAGGTTGTTACAG-TTGGAATTTTTGTATTCTGTACGAA
* * *
46726308 TAAGAGATAAT-AAAGTTCAAAGCAAAACATGCATAAATACAACC
322 CAAAAGATAATAAAAGTCCAAAGCAAAACATGCATAAATACAACC
* * ** **
46726352 TTTTGCGGATATCATTAATTACAAACTTTTTGTAGATGTCATCAACCACTGATGCAACACGGAAT
1 TTTTGCGGATTTCATTAATTACGAACTTTTTGTAGATGTCATCAGTCACTGATGCAACACCTAAT
* * * * * * *
46726417 GGAGTTTGGTGAATCTAATAAGATGTCCTTTATTTGTTCTTATAGTCTGTGCATACGAAGCACTT
66 GGAGTTTGGCGAATCTAGTAAGATGTCTTTTATTTGTTCTCATAGTCTCTGCACACGAAGCACGT
* *
46726482 GAGATATTCTTACATTGGAAAAAAAAGCTTACGTGATTCTAGTTGGGTGTTACGCAATTATTGAA
131 GAGATATTCTTACGTTGGAAAAAAAAGCTTACGTGATTCTAGTTGGGCGTTACGCAATTATTGAA
* * *
46726547 ACCTCTTTGGTAAGAGGTGGTGCTATTTGTTAATAATCATTTTTTCTTCCTTCAATTTATATATC
196 ACCTCTTTGGTAAGAGGTGGTGCCATTTGTTGATAATCATTTTTTCTTCCTTAAATTTATATA--
* * * * * * *
46726612 TTTTTTTTTGGTTCCAACAACAATGCTGGTTGTTATAGTTTGAACTTTTGTATTCTGTACGAAAA
259 TATTTTTTTAGTTCCAACAATAATGCAGGTTGTTACAGTTGGAATTTTTGTATTCTGTACG--AA
* *
46726677 AAAAATATAATAAAAGTCCAAAGCAAAACATGCATAAATACAACC
322 CAAAAGATAATAAAAGTCCAAAGCAAAACATGCATAAATACAACC
* * * *
46726722 TTTTACGGATTTCATTAATTGCGAACTTTTTGTAGATGTCATCAGTAACTAATGCAACACCTAAT
1 TTTTGCGGATTTCATTAATTACGAACTTTTTGTAGATGTCATCAGTCACTGATGCAACACCTAAT
* * * *
46726787 GGAGTTTGGTGAATCTAGTAAGATGTCTTTTATTTGTTCTCGTAGTCTCTGCACACAAAACACGT
66 GGAGTTTGGCGAATCTAGTAAGATGTCTTTTATTTGTTCTCATAGTCTCTGCACACGAAGCACGT
* * *
46726852 GAGATATTCTTACGTTGG--AAAAAAGCTTTCGTGATTCTAGTTGGGCATTACGCTATTATTGAA
131 GAGATATTCTTACGTTGGAAAAAAAAGCTTACGTGATTCTAGTTGGGCGTTACGCAATTATTGAA
* * *
46726915 ACCTTTTTGGAAAAAGGTGGTGCCATTTGTTGATAATCATTTTTTCTTCCTTAAATTTATATATA
196 ACCTCTTTGGTAAGAGGTGGTGCCATTTGTTGATAATCATTTTTTCTTCCTTAAATTTATATATA
* *
46726980 -TTTTTTAGTTCCAACAATAATGCAGGTTGTTACAGTTGAAATTTTTGTATTCCGTACGAACAAA
261 TTTTTTTAGTTCCAACAATAATGCAGGTTGTTACAGTTGGAATTTTTGTATTCTGTACGAACAAA
*
46727044 AGATAATAAAATTCCAAAGCAAAACATGCATAAATACAACC
326 AGATAATAAAAGTCCAAAGCAAAACATGCATAAATACAACC
* *
46727085 TTTTGCGGATTTCATTAATTACGAACTTTTTGTAGATGTCATCAGTCACAGATGCAACACCCAAT
1 TTTTGCGGATTTCATTAATTACGAACTTTTTGTAGATGTCATCAGTCACTGATGCAACACCTAAT
* * *
46727150 GGAGTTTGGCGAATCTAGTAAGATGTCCTTTATTTGTTCTCATAGTCTATGCACACGAAGTACGT
66 GGAGTTTGGCGAATCTAGTAAGATGTCTTTTATTTGTTCTCATAGTCTCTGCACACGAAGCACGT
* * *
46727215 GAGATATTCTAACGTTGG-AAAAAAA-CTTTCGTGATTCTAGTTGGGTGTTACGCAATTATTGAA
131 GAGATATTCTTACGTTGGAAAAAAAAGCTTACGTGATTCTAGTTGGGCGTTACGCAATTATTGAA
* *
46727278 ACCTCTTTGGCAAAAGGTGGTGCCATTTGTTGATAATCATTTTTTCTTCCTTAAATTTATATACC
196 ACCTCTTTGGTAAGAGGTGGTGCCATTTGTTGATAATCATTTTTTCTTCCTTAAATTTATATA--
* * * *
46727343 T-TTTTTTTAGTTCCAAAAATAAAGCAAGTTGTTACAGTTGGAATTTTTGTATTCTGTATGAA-A
259 TATTTTTTTAGTTCCAACAATAATGCAGGTTGTTACAGTTGGAATTTTTGTATTCTGTACGAACA
*
46727406 AATA-ATACTAAAAGTCCAAAGCAAAACATGCATAAATACAACC
324 AA-AGATAATAAAAGTCCAAAGCAAAACATGCATAAATACAACC
* * * *
46727449 TTTTACAGATTTCATTAATTACGAACTTTTTGTAGCTGTCATCAATCACTGATGCAACACCTAAT
1 TTTTGCGGATTTCATTAATTACGAACTTTTTGTAGATGTCATCAGTCACTGATGCAACACCTAAT
* * * * *
46727514 GGCGTTTGGCGAATCTAGTAAGGTGTCCTTTATTTGTTCTCATAGTCTCTGTACATGAAGCACGT
66 GGAGTTTGGCGAATCTAGTAAGATGTCTTTTATTTGTTCTCATAGTCTCTGCACACGAAGCACGT
** * * * **
46727579 GAGATATTCTTACACTGGAAAAAAAAGCTTACGCGATTCTAGTTGGGCATTATGTTATTATTGAA
131 GAGATATTCTTACGTTGGAAAAAAAAGCTTACGTGATTCTAGTTGGGCGTTACGCAATTATTGAA
*
46727644 ACCTATTTGGTAAGAGGTGGTGCCATTTGTTGATAATCATTTTTTCTTCCTTAAATTTATATATA
196 ACCTCTTTGGTAAGAGGTGGTGCCATTTGTTGATAATCATTTTTTCTTCCTTAAATTTATATATA
*
46727709 -TTTTTTAGTTCCAACAATAATACAGGTTGTTACAGTTGGAATTTTTGTATTCTGTACGAACAAA
261 TTTTTTTAGTTCCAACAATAATGCAGGTTGTTACAGTTGGAATTTTTGTATTCTGTACGAACAAA
46727773 AGATAATAAAAGTCCAAAGCAAAACATGCATAAATACAACC
326 AGATAATAAAAGTCCAAAGCAAAACATGCATAAATACAACC
* *
46727814 TTTTGCGGATTTCATTAATTACGAACATTTT-TAGATGTCATCAGTCACTGATGCAACACCCAAT
1 TTTTGCGGATTTCATTAATTACGAACTTTTTGTAGATGTCATCAGTCACTGATGCAACACCTAAT
* * * *
46727878 GGAGTTTGGCGAATCTAGTAAGATGTCATTTATTTGTTCTCATAGTCTATACACACGAAGTACGT
66 GGAGTTTGGCGAATCTAGTAAGATGTCTTTTATTTGTTCTCATAGTCTCTGCACACGAAGCACGT
*
46727943 GAGATATTCTTACGTTGGAAAAAAAAGCTTACGTGATTCTAGTTGGGTGTTACGCAATTATTGAA
131 GAGATATTCTTACGTTGGAAAAAAAAGCTTACGTGATTCTAGTTGGGCGTTACGCAATTATTGAA
* * *
46728008 ACCTCTTTGGTAAAAGGTGGTGCTATTTGTTAATAATCATTTTTTCTTCCTTAAA-TT-TATATA
196 ACCTCTTTGGTAAGAGGTGGTGCCATTTGTTGATAATCATTTTTTCTTCCTTAAATTTATATATA
* * *
46728071 TTTTTTTAGTTCCAACAATAAAGCAGGTTGTTACAGTTGGAATTTTTGTATTCTGTACCAAAAAA
261 TTTTTTTAGTTCCAACAATAATGCAGGTTGTTACAGTTGGAATTTTTGTATTCTGTACGAACAAA
46728136 AGATAATAAAAGTCCAAAGCAAAACATGCATAAATACAACC
326 AGATAATAAAAGTCCAAAGCAAAACATGCATAAATACAACC
* * *
46728177 TTTTACGGATTTCATTAATTACGAACTTTTTATAAATGTCATCAGTCACTGATGCAACACCTAAT
1 TTTTGCGGATTTCATTAATTACGAACTTTTTGTAGATGTCATCAGTCACTGATGCAACACCTAAT
*
46728242 GGAGTTTGGCGAATCTAGTAAGATGTCTTTTATTTGTTCTCATAGTCTTTGCACA-GAAGCACGT
66 GGAGTTTGGCGAATCTAGTAAGATGTCTTTTATTTGTTCTCATAGTCTCTGCACACGAAGCACGT
* * * *
46728306 GAGATATTCTTACGTTGGAAAAAAAAAAGCTTACATGATTCTAGTTAGGCATTACGCTATTATTG
131 GAGATATTCTTACGTTGG--AAAAAAAAGCTTACGTGATTCTAGTTGGGCGTTACGCAATTATTG
*
46728371 AAACCTTTTTGGTAAGAGGTGGTGCCATTTGTTGATAATCATTTTTTCTTCCTTAAATTTATATA
194 AAACCTCTTTGGTAAGAGGTGGTGCCATTTGTTGATAATCATTTTTTCTTCCTTAAATTTATATA
* * * * *
46728436 TATATTTTTTAGTTCCAACAATAAAGTAGGTTGTTACAGTAGGAATTTTTATATTCCGTACGAAC
259 TAT-TTTTTTAGTTCCAACAATAATGCAGGTTGTTACAGTTGGAATTTTTGTATTCTGTACGAAC
* *
46728501 AAAAGATAATAAAAGTCCAAATCAAAACATGCATAAATACAATC
323 AAAAGATAATAAAAGTCCAAAGCAAAACATGCATAAATACAACC
* * * * *
46728545 TTTTGCGGATTTCATTAATTACAAATTTTTTGTAGGTGTCACCAATCACTGATGCAACATCC-AA
1 TTTTGCGGATTTCATTAATTACGAACTTTTTGTAGATGTCATCAGTCACTGATGCAACA-CCTAA
* * * * *
46728609 TGGAGTTTCGCGAATCTAGTAAGATGTCTTTTATTTATTCTCATAGTCTTTGCACACGAAGTATG
65 TGGAGTTTGGCGAATCTAGTAAGATGTCTTTTATTTGTTCTCATAGTCTCTGCACACGAAGCACG
*
46728674 TGAGATATTCTTACGTTGGAAAAAAAAGCTTACGTGATTCTAGTTGGGTGTTACGCAATTATTGA
130 TGAGATATTCTTACGTTGGAAAAAAAAGCTTACGTGATTCTAGTTGGGCGTTACGCAATTATTGA
* * * *
46728739 AACCTCTTTGGTAAGAAGTGGTGCCATTTCTTTATAGTCATTTTTTCTTCCTTAAATTTATATAT
195 AACCTCTTTGGTAAGAGGTGGTGCCATTTGTTGATAATCATTTTTTCTTCCTTAAATTTATATAT
* * * *
46728804 CTTTTTTTTAGTTCCAACAATAATGCTGGTTGTTATAGTTGGAATTTTTGTATTATGTACGAACA
260 -ATTTTTTTAGTTCCAACAATAATGCAGGTTGTTACAGTTGGAATTTTTGTATTCTGTACGAACA
* * *
46728869 AAAGACAATAAAATTCCAAAGCAAAACATGCATAAATACAACA
324 AAAGATAATAAAAGTCCAAAGCAAAACATGCATAAATACAACC
* * * *
46728912 TTTTACGGATTTCATTAATTACGAACTTTTTATAGACGTCATCAGTCACTGATGCAACA-CTCAT
1 TTTTGCGGATTTCATTAATTACGAACTTTTTGTAGATGTCATCAGTCACTGATGCAACACCT-AA
* * * * * * * *
46728976 TGGATTTTGGTGAATCTAGTAAGGTGTCATTTATTTATTCTCAGAGTCTCTGTACACGAAGCACA
65 TGGAGTTTGGCGAATCTAGTAAGATGTCTTTTATTTGTTCTCATAGTCTCTGCACACGAAGCACG
* *
46729041 TGAGACATTCTTATGTTGGAAAAAAAAAAGCTTACGTGATTCTAGTTGGGCGTTACGCAATTATT
130 TGAGATATTCTTACGTTGG--AAAAAAAAGCTTACGTGATTCTAGTTGGGCGTTACGCAATTATT
* * * *
46729106 GAAACCTCTTTGGTAAGAGGTGGTGCCATATATCGATAATCATTTTTTCTTTCTTAAATTTATAT
193 GAAACCTCTTTGGTAAGAGGTGGTGCCATTTGTTGATAATCATTTTTTCTTCCTTAAATTTATAT
* * * * *
46729171 ATCTTTTTTTAGTTCCAATAATAATGCAGGTTGTTGCAGTTGGAATTTTTGTATTATGTATGAAC
258 ATATTTTTTTAGTTCCAACAATAATGCAGGTTGTTACAGTTGGAATTTTTGTATTCTGTACGAAC
**
46729236 AAAAGATAATAAAAGTCCAAAGCAAAACATGCATAAATACAATA
323 AAAAGATAATAAAAGTCCAAAGCAAAACATGCATAAATACAACC
* * * * *
46729280 TTTTGCGGATTTCATTAATTATGAACTTTTTGTAAATGTCATCAGTCATTGATGCACCACCCAAT
1 TTTTGCGGATTTCATTAATTACGAACTTTTTGTAGATGTCATCAGTCACTGATGCAACACCTAAT
* * * *
46729345 GGAGTTTGGCGAATCTAGTAAGATATCTTTTATTTGTTCTCATAATCTTTGCACATGAAGCACGT
66 GGAGTTTGGCGAATCTAGTAAGATGTCTTTTATTTGTTCTCATAGTCTCTGCACACGAAGCACGT
* * * * * *
46729410 GAGATATTCTTACGTTGGAAAAAAAAAGCTTACGTGATTCTAGTT-GGCTTTAGGCTATTCTCGT
131 GAGATATTCTTACGTTGG-AAAAAAAAGCTTACGTGATTCTAGTTGGGCGTTACGCAATTATTGA
* * * * *
46729474 AACCTCTTTAGTAAGAGGTGGTGCCATTTATCGATAATCATTTTTTCTTTCTAAAATTTATATAT
195 AACCTCTTTGGTAAGAGGTGGTGCCATTTGTTGATAATCATTTTTTCTTCCTTAAATTTATATAT
* * * ** *
46729539 CTTTTTTTAGTTCCAGCAATAATGCAGATTGTTACAGTTGGAATTGGTGTATTCTGTACGATCAA
260 ATTTTTTTAGTTCCAACAATAATGCAGGTTGTTACAGTTGGAATTTTTGTATTCTGTACGAACAA
* * ***
46729604 GAGATAATAAAAATCCAAAATGAAACATGCATAAATACA
325 AAGATAATAAAAGTCCAAAGCAAAACATGCATAAATACA
46729643 TAGAATAATC
Statistics
Matches: 2931, Mismatches: 328, Indels: 65
0.88 0.10 0.02
Matches are distributed among these distances:
362 6 0.00
363 432 0.15
364 514 0.18
365 276 0.09
366 355 0.12
367 493 0.17
368 552 0.19
369 143 0.05
370 160 0.05
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (366 bp):
TTTTGCGGATTTCATTAATTACGAACTTTTTGTAGATGTCATCAGTCACTGATGCAACACCTAAT
GGAGTTTGGCGAATCTAGTAAGATGTCTTTTATTTGTTCTCATAGTCTCTGCACACGAAGCACGT
GAGATATTCTTACGTTGGAAAAAAAAGCTTACGTGATTCTAGTTGGGCGTTACGCAATTATTGAA
ACCTCTTTGGTAAGAGGTGGTGCCATTTGTTGATAATCATTTTTTCTTCCTTAAATTTATATATA
TTTTTTTAGTTCCAACAATAATGCAGGTTGTTACAGTTGGAATTTTTGTATTCTGTACGAACAAA
AGATAATAAAAGTCCAAAGCAAAACATGCATAAATACAACC
Found at i:46732956 original size:366 final size:367
Alignment explanation
Indices: 46732179--46733625 Score: 2013
Period size: 366 Copynumber: 3.9 Consensus size: 367
46732169 ATTATCAATG
* * *
46732179 ACGATCTTTTTGTAGATGTTATCAGTCACTGATGCAACACCCAATGGAGATTGGTGAATCTAGTA
1 ACGAACTTTTTGTAGATGTCATCAGTCACTGATGCAACACCCAATGGAGTTTGGTGAATCTAGTA
* *
46732244 AGATATCATTTATTTGTTCTCATAGTCTCTGCACACGAAGCACGTGAGATATTCTTACATTGGAA
66 AGATGTCATTTATTTGTTCTCATAGTCTCTGCACACGAAGCACGTGAGATATTCTTACGTT-GAA
* * * *
46732309 AAAAAAAAGCTTATGTGATTCTAGTTGGGCATTACGCTATGATTGGAACCTCTTTGGGAAG-GTG
130 AAAAAAAAGCTTACGTGATTCTAGTTGGGCATTACGCTATTATTGAAACCTCTTTGGTAAGAG-G
* * * *
46732373 TGGCGCCATTTATCGATAATCATTTTTTCTTCCTTAAATTTATATATATATTTTTTTAGTTCTAG
194 TGGTGCCATTTGTCGATAATCATTTTTTCTTCCTTAAA-TT-TATATATCTTTTTTTAGTTCCAG
* * *
46732438 CAACAATGCACGTTGTTACAGTTGGAATTTGTGTATTCTATACGAACAAGAGATAATAAAAAGTC
257 CAATAATGCAGGTTGTTACAGTTGGAATTTGTGTATTCTGTACGAACAAGAGATAAT-AAAAGTC
46732503 CAAAGCAAAACATGCATAAATACAACCTTTTGCGGATTTCATTAATT
321 CAAAGCAAAACATGCATAAATACAACCTTTTGCGGATTTCATTAATT
* * *
46732550 ACGAACTTTTTGTAGATGTCATCAGTCACTGATGCAACACCTAATGGAGTTTGGTAAATTTAGTA
1 ACGAACTTTTTGTAGATGTCATCAGTCACTGATGCAACACCCAATGGAGTTTGGTGAATCTAGTA
* * *
46732615 AGATGTCATTTATTTGTTCTCATAGCCTCTGCACACGAAGCACGTGAGATATTTTTACGTT-TAA
66 AGATGTCATTTATTTGTTCTCATAGTCTCTGCACACGAAGCACGTGAGATATTCTTACGTTGAAA
* * * *
46732679 AAAAAATGCTTACGTGATTCTAGTT-GGCTTTACGCTATTATTGAAACCTCTTTGGTAAAATGTG
131 AAAAAAAGCTTACGTGATTCTAGTTGGGCATTACGCTATTATTGAAACCTCTTTGGTAAGAGGTG
* * **
46732743 GTACCATTTGTCGATAATCATTTTTTCTTCCTTGAATTTATATATCTTTTTTTTAGTTTTAGCAA
196 GTGCCATTTGTCGATAATCATTTTTTCTTCCTTAAATTTATATATC-TTTTTTTAGTTCCAGCAA
* * * * *
46732808 TAATGTAGGTTGTTATAGTTGGAATTTGTATATTCTGTACAAACAAGATATAATAAAAGTCCAAA
260 TAATGCAGGTTGTTACAGTTGGAATTTGTGTATTCTGTACGAACAAGAGATAATAAAAGTCCAAA
* * *
46732873 GTAAAACATGAATAAATACAACCTTTTGCGGATTTTATTAATT
325 GCAAAACATGCATAAATACAACCTTTTGCGGATTTCATTAATT
* * * ** *
46732916 ACGAACTTTTTATAGATGCCGTCAGTCACCAATTCAACACCCAATGGAGTTTGGTGAATCTAGTA
1 ACGAACTTTTTGTAGATGTCATCAGTCACTGATGCAACACCCAATGGAGTTTGGTGAATCTAGTA
* * * * * * *
46732981 ATATGTCCTTTATCTGTTCTCATAATCTTTGCACACGAAGCACGTGAGATATTCTTATGTTG-GA
66 AGATGTCATTTATTTGTTCTCATAGTCTCTGCACACGAAGCACGTGAGATATTCTTACGTTGAAA
* * * *
46733045 AAAAAAACCTTATGTGATTCTAGTTGGGCATTACGCAATTATTGAAACCTCATTGGTAAGAGGTG
131 AAAAAAAGCTTACGTGATTCTAGTTGGGCATTACGCTATTATTGAAACCTCTTTGGTAAGAGGTG
* ** * *
46733110 GTGCCATATGTCGATAATCATTTTTTCTTTATTAAATTTATATATCTCTTTTTAGTTCCAACAAT
196 GTGCCATTTGTCGATAATCATTTTTTCTTCCTTAAATTTATATATCTTTTTTTAGTTCCAGCAAT
* * * * * * * *
46733175 AATGCAGGTTATTATAGTTGGCATTTTTGTATTATGTATGAACAAAATATAATAAAAGTCCAAAG
261 AATGCAGGTTGTTACAGTTGGAATTTGTGTATTCTGTACGAACAAGAGATAATAAAAGTCCAAAG
46733240 CAAAACATGCATAAATACAACCTTTTGCGGATTTCATTAATT
326 CAAAACATGCATAAATACAACCTTTTGCGGATTTCATTAATT
* * *
46733282 ACGAACTTTTTGTAAATGTCATTAGTCACTGATGCACCACCCAATGGAGTTTGGTGAATCTAGTA
1 ACGAACTTTTTGTAGATGTCATCAGTCACTGATGCAACACCCAATGGAGTTTGGTGAATCTAGTA
* * * *
46733347 AGAAGTCCTTTATTTATTCTCATAGTCTCTGCACACGAAGCACGTGAGATATACTTACGTTGGAA
66 AGATGTCATTTATTTGTTCTCATAGTCTCTGCACACGAAGCACGTGAGATATTCTTACGTT-GAA
* * * * * *
46733412 AAAAAAAAGCTTACGTGGTTCTAGTT-GGCTTTACACTATAATTGTAACCTATTTGGTAAGAGGT
130 AAAAAAAAGCTTACGTGATTCTAGTTGGGCATTACGCTATTATTGAAACCTCTTTGGTAAGAGGT
* *
46733476 GGTGCCATTTGTCGATAATCATTTTTTCTTCCTAAAATTTGTATATCTTTTTTTAGTTCCAGCAA
195 GGTGCCATTTGTCGATAATCATTTTTTCTTCCTTAAATTTATATATCTTTTTTTAGTTCCAGCAA
*
46733541 TAATGCAGGTTGTTACAGTTGGAATTTGTGTATTCTGTACGAACAAGAGATAATAAAAATCCAAA
260 TAATGCAGGTTGTTACAGTTGGAATTTGTGTATTCTGTACGAACAAGAGATAATAAAAGTCCAAA
* * *
46733606 ACGAAACTTGCATAAATACA
325 GCAAAACATGCATAAATACA
46733626 TAGAATAATC
Statistics
Matches: 940, Mismatches: 130, Indels: 16
0.87 0.12 0.01
Matches are distributed among these distances:
366 409 0.44
367 303 0.32
368 87 0.09
369 25 0.03
371 116 0.12
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (367 bp):
ACGAACTTTTTGTAGATGTCATCAGTCACTGATGCAACACCCAATGGAGTTTGGTGAATCTAGTA
AGATGTCATTTATTTGTTCTCATAGTCTCTGCACACGAAGCACGTGAGATATTCTTACGTTGAAA
AAAAAAAGCTTACGTGATTCTAGTTGGGCATTACGCTATTATTGAAACCTCTTTGGTAAGAGGTG
GTGCCATTTGTCGATAATCATTTTTTCTTCCTTAAATTTATATATCTTTTTTTAGTTCCAGCAAT
AATGCAGGTTGTTACAGTTGGAATTTGTGTATTCTGTACGAACAAGAGATAATAAAAGTCCAAAG
CAAAACATGCATAAATACAACCTTTTGCGGATTTCATTAATT
Found at i:46736111 original size:40 final size:40
Alignment explanation
Indices: 46736059--46736138 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
46736049 AATCAACTTT
*
46736059 AAGAAAGAATATGCACATATGTAGCAACTTAAATAAAAGA
1 AAGAAAGAATATGCACATAGGTAGCAACTTAAATAAAAGA
* * **
46736099 AAGAAAGTATATGTAGGTAGGTAGCAACTTAAATAAAAGA
1 AAGAAAGAATATGCACATAGGTAGCAACTTAAATAAAAGA
46736139 GTGAAAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.53, C:0.07, G:0.19, T:0.21
Consensus pattern (40 bp):
AAGAAAGAATATGCACATAGGTAGCAACTTAAATAAAAGA
Found at i:46736178 original size:72 final size:71
Alignment explanation
Indices: 46736099--46736304 Score: 286
Period size: 72 Copynumber: 2.8 Consensus size: 71
46736089 AAATAAAAGA
* * *
46736099 AAGAAAGTATATGTAGGTAGGTAGCAACTTAAATAAAAGAGTGAAAATAATCTCGTGTGAAAAAT
1 AAGAAAGTATATGCACGTGGGTAGCAACTTAAATAAAAGAGTGAAAATAATCTCGTGTG-AAAAT
46736164 CAACTTG
65 CAACTTG
* *
46736171 AAGAAAGTATATACACGTGGGTAGCAACTTAAATAAAAGAGTGAAAATAATCTCGTGTGATAATC
1 AAGAAAGTATATGCACGTGGGTAGCAACTTAAATAAAAGAGTGAAAATAATCTCGTGTGAAAATC
46736236 AACTTG
66 AACTTG
* * * *
46736242 AAGAATTAAAGTATATGCATGTGGGCAACAACTTAAATAAAAGAGTGAAAATAATCTTGTGTG
1 AAG----AAAGTATATGCACGTGGGTAGCAACTTAAATAAAAGAGTGAAAATAATCTCGTGTG
46736305 TTAGTCTAAT
Statistics
Matches: 120, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
71 14 0.12
72 55 0.46
75 51 0.43
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.26
Consensus pattern (71 bp):
AAGAAAGTATATGCACGTGGGTAGCAACTTAAATAAAAGAGTGAAAATAATCTCGTGTGAAAATC
AACTTG
Found at i:46736297 original size:75 final size:72
Alignment explanation
Indices: 46736123--46736304 Score: 267
Period size: 75 Copynumber: 2.5 Consensus size: 72
46736113 AGGTAGGTAG
46736123 CAACTTAAATAAAAGAGTGAAAATAATCTCGTGTGAAAAATCAACTTGAAGAAAGTATATACACG
1 CAACTTAAATAAAAGAGTGAAAATAATCTCGTGTGAAAAATCAACTTGAAGAAAGTATATACACG
* *
46736188 TGGGTAG
66 TGGGCAA
* *
46736195 CAACTTAAATAAAAGAGTGAAAATAATCTCGTGTG-ATAATCAACTTGAAGAATTAAAGTATATG
1 CAACTTAAATAAAAGAGTGAAAATAATCTCGTGTGAAAAATCAACTTGAAG----AAAGTATATA
*
46736259 CATGTGGGCAA
62 CACGTGGGCAA
*
46736270 CAACTTAAATAAAAGAGTGAAAATAATCTTGTGTG
1 CAACTTAAATAAAAGAGTGAAAATAATCTCGTGTG
46736305 TTAGTCTAAT
Statistics
Matches: 100, Mismatches: 6, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
71 14 0.14
72 35 0.35
75 51 0.51
ACGTcount: A:0.45, C:0.10, G:0.19, T:0.26
Consensus pattern (72 bp):
CAACTTAAATAAAAGAGTGAAAATAATCTCGTGTGAAAAATCAACTTGAAGAAAGTATATACACG
TGGGCAA
Found at i:46736462 original size:29 final size:29
Alignment explanation
Indices: 46736430--46736487 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
46736420 AAAAGAAAAA
46736430 GATTAAAAATGAAAATAATGAATTGAATT
1 GATTAAAAATGAAAATAATGAATTGAATT
46736459 GATTAAAAATGAAAATAATGAATTGAATT
1 GATTAAAAATGAAAATAATGAATTGAATT
46736488 AAGATACAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (29 bp):
GATTAAAAATGAAAATAATGAATTGAATT
Found at i:46737416 original size:8 final size:8
Alignment explanation
Indices: 46737407--46737445 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
46737397 TATATATTTT
*
46737407 TTAAAATT
1 TTAAAATA
46737415 TTAAAATA
1 TTAAAATA
*
46737423 ATAAAATA
1 TTAAAATA
*
46737431 TTATAATA
1 TTAAAATA
46737439 TTAAAAT
1 TTAAAAT
46737446 GTCACACCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TTAAAATA
Done.