Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167917.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_181, whole genome shotgun sequence
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: 56758
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.35
Found at i:8175 original size:50 final size:49
Alignment explanation
Indices: 8005--9052 Score: 1121
Period size: 50 Copynumber: 21.6 Consensus size: 49
7995 TTTAAAGAAT
** **
8005 AGATGAGA-TTTTAAAGTCATTGAGCCTCTATTGAGAGGAGCCTTTTTC-
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCA
*
8053 --A--AGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
8097 A-ATG-GAATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTT-CA
* *
8145 AGATGAGATTTTTAAAGTTGTTAAGTCTCTGCTGAGAGGAGCTTTTTCCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTT-CA
8195 AGATGAGA-TTTTAAAGTTG-TGCAGCCTCTGCTGAGAGGAGCTTTTTCA
1 AGATGAGATTTTTAAAGTTGTTG-AGCCTCTGCTGAGAGGAGCTTTTTCA
* ** *
8243 AGATGAGA-TTTTAAAATTGTTGAGCCTCTATTGAGATGAGCCCTTTTT-A
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG--CTTTTTCA
* * *
8292 AGATTAGATTTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTCCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
8341 A-ATGAGATTTTTAAAGTTGTTGAGCATCTTCTGAGAGGAGCTTTTTCCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTT-CA
* *
8390 AGATGAGATTTTTAAAGTTGTTGAGACTCTGCTGAGAAGAGCTTTTTCCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTT-CA
* * * *
8440 AAATGAGA-TTTTAAAGTCGTTGAACCTCTGTTGAGAGGAGCTTTTTTC-
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTTCA
* * * *
8488 --A--AGA-TTTTAAAGTTGTTGAGCCTATACTGATAGGA-CTTTTCCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * *
8531 A-ATGAGATTTTTAAAATTGTTGAGCCTTTGCTGAGATGAGCTTTTTTCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTTCA
* * *
8580 AGATGAGATTTTTAAAGTTGTTGAGCCTTTGCTAAGAGAAGCTTTTTCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * *
8629 AGATGAGA-TTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAACCCTTTTCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGG-AGCTTTTTCA
* * ** *
8678 AGATAAGATTTTTAAAGTTGTTGAGCCTCTGTTGAGATAAGCATTTTCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
8727 A-ATGAGATTTTTAAAGTTGTTGAGCTTCTGCTGAGAAGAGCTTTTTCCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTT-CA
* *
8776 AGATGAGATTTTAAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTTCCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTT-CA
* * * * *
8826 AAATGAGA-TTTTAAATTTGTTGAACCTCTGATGAGATGAGCCTTTTTCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCA
* * *
8875 AGATGA-ATTTTTTTTTAAAGTTGTTGAGCCTCTACTGAAAGAAGCCTTTTTCA
1 AGATGAGA----TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCA
* * *
8928 AGAT--GATTTTTAAAGTTGTTGAGCCTTTACTGAGATGAGCCCTTTTTCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG--CTTTTTCA
* * * * *
8977 AGAAGAGA-TTTTAAAGTTATAGAGCCTCCGTTGAGAGGAGCTTTTTCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
**
9025 AGATGATTTTTTTAAAGTTGTTGAGCCT
1 AGATGAGATTTTTAAAGTTGTTGAGCCT
9053 TTATTGAGAA
Statistics
Matches: 849, Mismatches: 111, Indels: 79
0.82 0.11 0.08
Matches are distributed among these distances:
42 5 0.01
43 7 0.01
44 60 0.07
45 1 0.00
46 7 0.01
47 62 0.07
48 193 0.23
49 192 0.23
50 281 0.33
51 2 0.00
52 1 0.00
53 38 0.04
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (49 bp):
AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
Found at i:8319 original size:98 final size:98
Alignment explanation
Indices: 8005--9052 Score: 1117
Period size: 98 Copynumber: 10.8 Consensus size: 98
7995 TTTAAAGAAT
** **
8005 AGATGAGA-TTTTAAAGTCATTGAGCCTCTATTGAGAGGAGCCTTTTTC---A--AGATTTTAAA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGATGAGATTTTAAA
*
8064 GTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTCCA
65 GTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCA
* *
8097 A-ATG-GAATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCCAAGATGAGATTTTTAA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTT-CAAGATGAGA-TTTTAA
* *
8160 AGTTGTTAAGTCTCTGCTGAGAGGAG-CTTTTTCCA
64 AGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTT-CA
8195 AGATGAGA-TTTTAAAGTTG-TGCAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGATTTTAAA
1 AGATGAGATTTTTAAAGTTGTTG-AGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGATTTTAAA
* ** *
8258 ATTGTTGAGCCTCTATTGAGATGAGCCCTTTTT-A
65 GTTGTTGAGCCTCTGCTGAGAGGAG-CCTTTTTCA
* * *
8292 AGATTAGATTTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTCCAA-ATGAGATTTTTAAA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGA-TTTTAAA
* *
8356 GTTGTTGAGCATCTTCTGAGAGGAG-CTTTTTCCA
65 GTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTT-CA
* * *
8390 AGATGAGATTTTTAAAGTTGTTGAGACTCTGCTGAGAAGAGCTTTTTCCAAAATGAGATTTTAAA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTT-CAAGATGAGATTTTAAA
* * * *
8455 GTCGTTGAACCTCTGTTGAGAGGAGCTTTTTTC-
65 GTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCA
* * * *
8488 --A--AGA-TTTTAAAGTTGTTGAGCCTATACTGATAGGA-CTTTTCCAA-ATGAGATTTTTAAA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGA-TTTTAAA
* * * *
8546 ATTGTTGAGCCTTTGCTGAGATGAGCTTTTTTCA
65 GTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCA
* * *
8580 AGATGAGATTTTTAAAGTTGTTGAGCCTTTGCTAAGAGAAGCTTTTTCAAGATGAGATTTTAAAG
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGATTTTAAAG
* * *
8645 TTGTTAAGCCTCTGCTGAGAGGAACCCTTTTCA
66 TTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCA
* * ** *
8678 AGATAAGATTTTTAAAGTTGTTGAGCCTCTGTTGAGATAAGCATTTTCAA-ATGAGATTTTTAAA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGA-TTTTAAA
* *
8742 GTTGTTGAGCTTCTGCTGAGAAGAG-CTTTTTCCA
65 GTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTT-CA
* * *
8776 AGATGAGATTTTAAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTTCCAAAATGAGATTTTAAA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTT-CAAGATGAGATTTTAAA
* * * *
8841 TTTGTTGAACCTCTGATGAGATGAGCCTTTTTCA
65 GTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCA
* * * *
8875 AGATGA-ATTTTTTTTTAAAGTTGTTGAGCCTCTACTGAAAGAAGCCTTTTTCAAGATGA-TTTT
1 AGATGAGA----TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGATGAGATTT
* * *
8938 TAAAGTTGTTGAGCCTTTACTGAGATGAGCCCTTTTTCA
61 TAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CCTTTTTCA
* * * * * **
8977 AGAAGAGA-TTTTAAAGTTATAGAGCCTCCGTTGAGAGGAGCTTTTTCAAGATGATTTTTTTAAA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGA-GATTTTAAA
9041 GTTGTTGAGCCT
65 GTTGTTGAGCCT
9053 TTATTGAGAA
Statistics
Matches: 811, Mismatches: 100, Indels: 83
0.82 0.10 0.08
Matches are distributed among these distances:
90 14 0.02
91 70 0.09
92 6 0.01
93 26 0.03
94 5 0.01
96 13 0.02
97 126 0.16
98 304 0.37
99 139 0.17
100 25 0.03
101 27 0.03
102 49 0.06
103 7 0.01
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (98 bp):
AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGATTTTAAAG
TTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCA
Found at i:8731 original size:386 final size:387
Alignment explanation
Indices: 8054--9061 Score: 1310
Period size: 386 Copynumber: 2.6 Consensus size: 387
8044 GCCTTTTTCA
* * *
8054 AGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAATGGAATTTTAAAGTTGTTGA
1 AGATTTTAAAGTTGTTGAACCTCTGATGAGAGGAGCTTTTTCAAAT-GAATTTTAAAGTTGTTGA
** * * * * *
8119 GCCTCTGTTGAGAGGAGCTTTTTCCAAGATGAGATTTTTAAAGTTGTTAAGTCTCTGCTGAGAGG
65 GCCTCTACTGAAAGGA-C-TTTTCCAA-ATGAGATTTTTAAAGTTGTTGAGCCTTTGCTGAGATG
*
8184 AGCTTTTTCCAAGATGAGATTTTAAAGTTG-TGCAGCCTCTGCTGAGAGGAGCTTTTTCAAGATG
127 AGCTTTTTTCAAGATGAGATTTTAAAGTTGTTG-AGCCTCTGCTGAGAGGAGCTTTTTCAAGATG
* * * * * *
8248 AGATTTTAAAATTGTTGAGCCTCTATTGAGATGAGCCCTTTTTAAGATTAGATTTTTAAAGTTGT
191 AGATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAACCCTTTTCAAGATAAGATTTTTAAAGTTGT
* * *
8313 TAAGCCTCTGCTGAGAGGAGCTTTTCCAAATGAGATTTTTAAAGTTGTTGAGCATCTTCTGAGAG
256 TAAGCCTCTGCTGAGAGAAGCTTTTCCAAATGAGATTTTTAAAGTTGTTGAGCATCTGCTGAGAA
* *
8378 GAGCTTTTTCCAAGATGAGATTTTTAAAGTTGTTGAGACTCTGCTGAGAAGAGCTTTTTCCAAAA
321 GAGCTTTTTCCAAGATGAGATTTTAAAAGTTGTTAAGACTCTGCTGAGAAGAGCTTTTTCCAAAA
8443 TG
386 TG
* *
8445 AGATTTTAAAGTCGTTGAACCTCTGTTGAGAGGAGCTTTTTTC-AA-G-ATTTTAAAGTTGTTGA
1 AGATTTTAAAGTTGTTGAACCTCTGATGAGAGGAGC-TTTTTCAAATGAATTTTAAAGTTGTTGA
* * *
8507 GCCTATACTGATAGGACTTTTCCAAATGAGATTTTTAAAATTGTTGAGCCTTTGCTGAGATGAGC
65 GCCTCTACTGAAAGGACTTTTCCAAATGAGATTTTTAAAGTTGTTGAGCCTTTGCTGAGATGAGC
* * *
8572 TTTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTTTGCTAAGAGAAGCTTTTTCAAGATGAGA
130 TTTTTTCAAGATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGA
* * *
8637 TTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAACCCTTTTCAAGATAAGATTTTTAAAGTTGTTGA
194 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAACCCTTTTCAAGATAAGATTTTTAAAGTTGTTAA
* * *
8702 GCCTCTGTTGAGATAAGCATTTT-CAAATGAGATTTTTAAAGTTGTTGAGCTTCTGCTGAGAAGA
259 GCCTCTGCTGAGAGAAGC-TTTTCCAAATGAGATTTTTAAAGTTGTTGAGCATCTGCTGAGAAGA
* *
8766 GCTTTTTCCAAGATGAGATTTTAAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTTCCAAAATG
323 GCTTTTTCCAAGATGAGATTTTAAAAGTTGTTAAGACTCTGCTGAGAAGAGCTTTTTCCAAAATG
* *
8831 AGATTTTAAATTTGTTGAACCTCTGATGAGATGAGCCTTTTTCAAGATGAATTTTTTTTTAAAGT
1 AGATTTTAAAGTTGTTGAACCTCTGATGAGAGGAG-CTTTTTCAA-ATGAA-----TTTTAAAGT
* * *
8896 TGTTGAGCCTCTACTGAAAGAAGCCTTTTTC-AA-GATGATTTTTAAAGTTGTTGAGCCTTTACT
59 TGTTGAGCCTCTACTGAAAG--GACTTTTCCAAATGA-GATTTTTAAAGTTGTTGAGCCTTTGCT
* * * * * *
8959 GAGATGAGCCCTTTTTCAAGAAGAGATTTTAAAGTTATAGAGCCTCCGTTGAGAGGAGCTTTTTC
121 GAGATGAG-CTTTTTTCAAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
** * *
9024 AAGATGATTTTTTTAAAGTTGTTGAGCCTTTATTGAGA
185 AAGATGA-GATTTTAAAGTTGTTGAGCCTCTACTGAGA
9062 AGAGTCTTTT
Statistics
Matches: 537, Mismatches: 61, Indels: 32
0.85 0.10 0.05
Matches are distributed among these distances:
385 50 0.09
386 257 0.48
387 9 0.02
388 29 0.05
389 2 0.00
390 1 0.00
391 35 0.07
392 5 0.01
395 29 0.05
396 74 0.14
397 46 0.09
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (387 bp):
AGATTTTAAAGTTGTTGAACCTCTGATGAGAGGAGCTTTTTCAAATGAATTTTAAAGTTGTTGAG
CCTCTACTGAAAGGACTTTTCCAAATGAGATTTTTAAAGTTGTTGAGCCTTTGCTGAGATGAGCT
TTTTTCAAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGATT
TTAAAGTTGTTGAGCCTCTACTGAGAGGAACCCTTTTCAAGATAAGATTTTTAAAGTTGTTAAGC
CTCTGCTGAGAGAAGCTTTTCCAAATGAGATTTTTAAAGTTGTTGAGCATCTGCTGAGAAGAGCT
TTTTCCAAGATGAGATTTTAAAAGTTGTTAAGACTCTGCTGAGAAGAGCTTTTTCCAAAATG
Found at i:9338 original size:14 final size:12
Alignment explanation
Indices: 9300--9329 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9290 TAAAAATAAT
9300 ACAAAATACAAA
1 ACAAAATACAAA
*
9312 ACAAAATATAAA
1 ACAAAATACAAA
9324 ACAAAA
1 ACAAAA
9330 AATACAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.77, C:0.13, G:0.00, T:0.10
Consensus pattern (12 bp):
ACAAAATACAAA
Found at i:9339 original size:22 final size:22
Alignment explanation
Indices: 9321--9363 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9311 AACAAAATAT
9321 AAAACAAAAAATACAAAAAAAG
1 AAAACAAAAAATACAAAAAAAG
* *
9343 AGAACAAAAAATAGAAAAAAA
1 AAAACAAAAAATACAAAAAAA
9364 ATAGAGGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.81, C:0.07, G:0.07, T:0.05
Consensus pattern (22 bp):
AAAACAAAAAATACAAAAAAAG
Found at i:9353 original size:58 final size:57
Alignment explanation
Indices: 9240--9355 Score: 135
Period size: 58 Copynumber: 2.0 Consensus size: 57
9230 TTTGTCCAGA
* * ** * * *
9240 AATACGAAATACAAAAAAAATACAAAATATGAAATATAATAAAAGAATACTAAAAAT
1 AATACAAAATACAAAAAAAATACAAAACAAAAAATACAAAAAAAGAATACAAAAAAT
*
9297 AATACAAAATACAAAACAAAATATAAAACAAAAAATACAAAAAAAGAGA-ACAAAAAAT
1 AATACAAAATACAAAA-AAAATACAAAACAAAAAATACAAAAAAAGA-ATACAAAAAAT
9355 A
1 A
9356 GAAAAAAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
57 15 0.31
58 33 0.67
59 1 0.02
ACGTcount: A:0.72, C:0.09, G:0.04, T:0.15
Consensus pattern (57 bp):
AATACAAAATACAAAAAAAATACAAAACAAAAAATACAAAAAAAGAATACAAAAAAT
Found at i:10316 original size:10 final size:10
Alignment explanation
Indices: 10301--10325 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
10291 AAAAAATTTT
10301 TTTTTTTGAA
1 TTTTTTTGAA
10311 TTTTTTTGAA
1 TTTTTTTGAA
10321 TTTTT
1 TTTTT
10326 ATATATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:14069 original size:117 final size:118
Alignment explanation
Indices: 13937--14177 Score: 414
Period size: 119 Copynumber: 2.0 Consensus size: 118
13927 ATAGATCATA
13937 TTATTATGTAAAAGTAACGATTATAAAG-AAAAAATAATATAAAA-TAGAAGAATATAGATTAAA
1 TTATTATGTAAAAGTAACGATTATAAAGAAAAAAATAATATAAAAGTAGAAGAATATAGATTAAA
*
14000 TTTTAATTGGAAAAAATGAATTTGTTAAGATTAATTCATTAATTAGTTTAATCT
66 TTTTAACT-GAAAAAATGAATTTGTTAAGATTAATTCATTAATTAGTTTAATCT
* *
14054 TTATTGTGTAAAAGTAGCGATTATAAAGAAAAAAAATAATATAAAAGTAGAAGAATATAGATTAA
1 TTATTATGTAAAAGTAACGATTATAAAG-AAAAAAATAATATAAAAGTAGAAGAATATAGATTAA
*
14119 CTTTTAACTGAAAAAATGAATTTGTTAAGATTAATTCATTAATTAGTTTAATCT
65 ATTTTAACTGAAAAAATGAATTTGTTAAGATTAATTCATTAATTAGTTTAATCT
14173 TTATT
1 TTATT
14178 CTTCATACTT
Statistics
Matches: 117, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
117 26 0.22
119 66 0.56
120 25 0.21
ACGTcount: A:0.48, C:0.03, G:0.12, T:0.37
Consensus pattern (118 bp):
TTATTATGTAAAAGTAACGATTATAAAGAAAAAAATAATATAAAAGTAGAAGAATATAGATTAAA
TTTTAACTGAAAAAATGAATTTGTTAAGATTAATTCATTAATTAGTTTAATCT
Found at i:14903 original size:7 final size:7
Alignment explanation
Indices: 14893--14969 Score: 57
Period size: 7 Copynumber: 10.3 Consensus size: 7
14883 CATTTTGTAT
14893 TTTTTTA
1 TTTTTTA
14900 TTTTTTA
1 TTTTTTA
14907 TATTTTATA
1 T-TTTT-TA
14916 TTTTTTA
1 TTTTTTA
14923 TTTTATT-
1 TTTT-TTA
*
14930 TTACTTTA
1 TT-TTTTA
*
14938 TTTTGTA
1 TTTTTTA
14945 TTTTATGTA
1 TTTT-T-TA
*
14954 TTTATTA
1 TTTTTTA
*
14961 TTTATTA
1 TTTTTTA
14968 TT
1 TT
14970 ACTATTTATT
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
7 36 0.62
8 14 0.24
9 8 0.14
ACGTcount: A:0.21, C:0.01, G:0.03, T:0.75
Consensus pattern (7 bp):
TTTTTTA
Found at i:14938 original size:38 final size:38
Alignment explanation
Indices: 14896--14972 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 38
14886 TTTGTATTTT
* *
14896 TTTATTTTTTATATTT-TATATTTTTTATTTTATT-TTAC
1 TTTATTTTGTAT-TTTATATATTTATTA-TTTATTATTAC
*
14934 TTTATTTTGTATTTTATGTATTTATTATTTATTATTAC
1 TTTATTTTGTATTTTATATATTTATTATTTATTATTAC
14972 T
1 T
14973 ATTTATTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 9 0.26
38 25 0.74
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.73
Consensus pattern (38 bp):
TTTATTTTGTATTTTATATATTTATTATTTATTATTAC
Found at i:14966 original size:20 final size:19
Alignment explanation
Indices: 14890--15167 Score: 111
Period size: 20 Copynumber: 14.5 Consensus size: 19
14880 CTTCATTTTG
* *
14890 TATTTTTTTATTT-TT-TA
1 TATTTTATTATTTATTATT
*
14907 TATTTTA-TATTTTTTATTT
1 TATTTTATTATTTATTA-TT
*
14926 TATTTTA--CTTTATT-TT
1 TATTTTATTATTTATTATT
14942 GTATTTTATGTATTTATTATT
1 -TATTTTAT-TATTTATTATT
*
14963 TATTATTACTATTTATTAATAT
1 TATT-TTATTATTTATT-AT-T
14985 ATATTTTATTTTATTT-TTA-T
1 -TATTTTA--TTATTTATTATT
*
15005 TATTTTTATTATTTATCTGTT
1 TA-TTTTATTATTTAT-TATT
* * *
15026 GA-TATATATATGTATTA-T
1 TATTTTAT-TATTTATTATT
*
15044 TA-TTTATCTATTTATATATA
1 TATTTTAT-TATTTAT-TATT
*
15064 TATATTATTATTTATCTA-T
1 TATTTTATTATTTAT-TATT
15083 TA--TTATTA-TTATTATT
1 TATTTTATTATTTATTATT
* * *
15099 TA-TCTATTAATTAATATAT
1 TATTTTATTATTTATTAT-T
* * *
15118 TATCCTTATTATTATCTTTTT
1 TAT-TTTATTATT-TATTATT
*
15139 TATTTTGTTATTTTATTATT
1 TATTTTATTA-TTTATTATT
15159 TATTTTATT
1 TATTTTATT
15168 TTTTCTTTTC
Statistics
Matches: 198, Mismatches: 33, Indels: 57
0.69 0.11 0.20
Matches are distributed among these distances:
15 2 0.01
16 14 0.07
17 26 0.13
18 29 0.15
19 23 0.12
20 60 0.30
21 25 0.13
22 8 0.04
23 6 0.03
24 5 0.03
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (19 bp):
TATTTTATTATTTATTATT
Found at i:14968 original size:3 final size:3
Alignment explanation
Indices: 14955--15167 Score: 91
Period size: 3 Copynumber: 66.7 Consensus size: 3
14945 TTTTATGTAT
* * *
14955 TTA TTA TTTA TTA TTA CTA TTTA TTA ATA TATA TT- TTA TT- TTA TTT
1 TTA TTA -TTA TTA TTA TTA -TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* *
15001 TTA TTA TTT TTA TTA TTTA TCTG TTGA TATA TATA TGTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA -TTA T-TA TT-A T-TA T-TA T-TA TTA TTA -TTA
15050 TCTA TT- TATA TATA TATA TTA TTA TTTA TCTA TTA TTA TTA TTA TTA
1 T-TA TTA T-TA T-TA T-TA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA
* ** *
15097 TTTA TCTA TTAA TTA ATA -TA TTA TCC TTA TTA TTA TCT- TTT TTA TT-
1 -TTA T-TA TT-A TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
*
15143 TTG TTA TT- TTA TTA TTTA TT- TTA TT
1 TTA TTA TTA TTA TTA -TTA TTA TTA TT
15168 TTTTCTTTTC
Statistics
Matches: 167, Mismatches: 18, Indels: 50
0.71 0.08 0.21
Matches are distributed among these distances:
2 14 0.08
3 95 0.57
4 57 0.34
5 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:14976 original size:36 final size:35
Alignment explanation
Indices: 14895--15014 Score: 87
Period size: 33 Copynumber: 3.5 Consensus size: 35
14885 TTTTGTATTT
*
14895 TTTTA-TT-TTTTATATTTTATATTTTTTATTTTA
1 TTTTACTTATTTTATATTTTATATTTATTATTTTA
*
14928 TTTTACTTTATTTTGTATTTTATGTATTTATTA-TTTA
1 TTTTAC-TTATTTTATATTTTA--TATTTATTATTTTA
**
14965 TTATTAC-TA-TTTAT-TAATATATATT-TTATTTTA
1 TT-TTACTTATTTTATATTTTATAT-TTATTATTTTA
14998 TTTTTA-TTATTTT-TATT
1 -TTTTACTTATTTTATATT
15015 ATTTATCTGT
Statistics
Matches: 69, Mismatches: 6, Indels: 23
0.70 0.06 0.23
Matches are distributed among these distances:
32 6 0.09
33 17 0.25
34 9 0.13
35 6 0.09
36 13 0.19
37 6 0.09
38 12 0.17
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (35 bp):
TTTTACTTATTTTATATTTTATATTTATTATTTTA
Found at i:15033 original size:48 final size:48
Alignment explanation
Indices: 14943--15162 Score: 127
Period size: 46 Copynumber: 4.5 Consensus size: 48
14933 CTTTATTTTG
*
14943 TATTTTATGTATTTATTATTTATTATTACTATTTATTAATATATATTT
1 TATTTTATGTATTTATTATTTATTATTACTATCTATTAATATATATTT
* * * *
14991 TATTTTAT-T-TTTATTATTT-TTATTATTTATCTGTTGATATATATATG
1 TATTTTATGTATTTATTATTTATTATTA-CTATCTATTAATATATAT-TT
* *
15038 TA--TTAT-TATTTATCTATTTATATATATA-TAT-TATTATTTATCTATTAT
1 TATTTTATGTATTTAT-TATTTAT-TAT-TACTATCTATTA-ATATATATT-T
* * * * *
15086 TATTATTAT-TATTTATCTATTAATTAATATATTATCCTTATTATTATCTTTTT
1 TATT-TTATGTATTTAT-TATTTATT-AT-TACTAT-C-TATTAATATATATTT
*
15139 TATTTTGT-TATTTTATTATTTATT
1 TATTTTATGTA-TTTATTATTTATT
15163 TTATTTTTTC
Statistics
Matches: 140, Mismatches: 14, Indels: 32
0.75 0.08 0.17
Matches are distributed among these distances:
45 11 0.08
46 29 0.21
47 13 0.09
48 20 0.14
49 3 0.02
50 3 0.02
51 23 0.16
52 15 0.11
53 10 0.07
54 8 0.06
55 5 0.04
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (48 bp):
TATTTTATGTATTTATTATTTATTATTACTATCTATTAATATATATTT
Found at i:15046 original size:30 final size:28
Alignment explanation
Indices: 14962--15120 Score: 136
Period size: 28 Copynumber: 6.1 Consensus size: 28
14952 TATTTATTAT
14962 TTATTA-TTA-CTATTTAT-TAATATATA
1 TTATTATTTATCTATTTATAT-ATATATA
14988 TT-TTATTTTAT-T-TTTAT-TAT-T-T-
1 TTATTA-TTTATCTATTTATATATATATA
* *
15010 TTATTATTTATCTGTTGATATATATATGTA
1 TTATTATTTATCTATT--TATATATATATA
15040 TTATTATTTATCTATTTATATATATATA
1 TTATTATTTATCTATTTATATATATATA
15068 TTATTATTTATCTA--T-TAT-TAT-TA
1 TTATTATTTATCTATTTATATATATATA
*
15091 TTATTATTTATCTATTAAT-TA-ATATA
1 TTATTATTTATCTATTTATATATATATA
15117 TTAT
1 TTAT
15121 CCTTATTATT
Statistics
Matches: 113, Mismatches: 3, Indels: 34
0.75 0.02 0.23
Matches are distributed among these distances:
22 7 0.06
23 21 0.19
24 6 0.05
25 11 0.10
26 19 0.17
27 7 0.06
28 26 0.23
29 1 0.01
30 15 0.13
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (28 bp):
TTATTATTTATCTATTTATATATATATA
Found at i:15116 original size:81 final size:78
Alignment explanation
Indices: 14962--15117 Score: 201
Period size: 81 Copynumber: 2.0 Consensus size: 78
14952 TATTTATTAT
* * * *
14962 TTATTATTACTATTTATTAATATATATTTTATTTTATTTTTATTATTTTTATTATTTATCTGTTG
1 TTATTATTACTATTTATTAATATATATTTTATTTTATTATTATTATTATTATTATTTATCTATTA
15027 ATATATATATGTA
66 ATATATATATGTA
15040 TTATTATTTATCTATTTA-TATATATATATTATTA-TTTATCTATTATTATTATTATTATTTATC
1 TTATTA-TTA-CTATTTATTA-ATATATATT-TTATTTTAT-TATTATTATTATTATTATTTATC
15103 TATTAAT-TAATATAT
61 TATTAATAT-ATATAT
15118 TATCCTTATT
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
78 6 0.09
79 5 0.07
80 22 0.32
81 35 0.51
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (78 bp):
TTATTATTACTATTTATTAATATATATTTTATTTTATTATTATTATTATTATTATTTATCTATTA
ATATATATATGTA
Found at i:15118 original size:23 final size:24
Alignment explanation
Indices: 15038--15120 Score: 107
Period size: 23 Copynumber: 3.4 Consensus size: 24
15028 TATATATATG
15038 TATTATTATTTATCTATTTATATATATA
1 TATTATTATTTATCTA-TTA-AT-TA-A
*
15066 TATTATTATTTATCTATT-ATTAT
1 TATTATTATTTATCTATTAATTAA
15089 TATTATTATTTATCTATTAATTAA
1 TATTATTATTTATCTATTAATTAA
15113 TA-TATTAT
1 TATTATTAT
15121 CCTTATTATT
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
23 24 0.46
24 8 0.15
25 2 0.04
27 2 0.04
28 16 0.31
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (24 bp):
TATTATTATTTATCTATTAATTAA
Found at i:15176 original size:12 final size:12
Alignment explanation
Indices: 15136--15176 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
15126 TTATTATCTT
15136 TTTTATTTTGTTA
1 TTTTATTTT-TTA
*
15149 TTTTATTATTTA
1 TTTTATTTTTTA
*
15161 TTTTATTTTTTC
1 TTTTATTTTTTA
15173 TTTT
1 TTTT
15177 CTTCTTTCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 17 0.68
13 8 0.32
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:16255 original size:68 final size:68
Alignment explanation
Indices: 16128--16255 Score: 161
Period size: 68 Copynumber: 1.9 Consensus size: 68
16118 TCAAAAAAAA
** * **
16128 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTTTCAAAATAAGCTTTATTAATATATATA
1 ATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTTTCTTCAAAATAAGCTTTAAAAATATATATA
16193 TAT
66 TAT
* *
16196 ATATTTTTGAAAAAAAGTTGAAAGTATTAA-TTTTTCTT-AAAAGTAAGTTTTTAAAAATAT
1 ATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTTTCTTCAAAA-TAAG-CTTTAAAAATAT
16256 TTTGAAGAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
66 4 0.08
67 11 0.22
68 36 0.71
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (68 bp):
ATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTTTCTTCAAAATAAGCTTTAAAAATATATATA
TAT
Found at i:16261 original size:55 final size:57
Alignment explanation
Indices: 16198--16345 Score: 178
Period size: 55 Copynumber: 2.6 Consensus size: 57
16188 ATATATATAT
* * * * *
16198 ATTTTTGAAAAAAAGTTGAAAGTATTAATTTTTCTTA-AAAGTAAGTTTTTAAAAAT-
1 ATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAGAAA-CAAGTTTTCAAAAATA
*
16254 A-TTTTGAAGAAAAGTTGAAA-TGATCAATTTTCCTTAGAAACAAGTTTTCAAAAGTGA
1 ATTTTTGAAGAAAAGTTGAAAGT-ATCAATTTTCCTTAGAAACAAGTTTTCAAAAAT-A
*
16311 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 ATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCT
16346 CAAAATTAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
54 1 0.01
55 42 0.53
56 4 0.05
57 1 0.01
58 30 0.38
59 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.39
Consensus pattern (57 bp):
ATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAGAAACAAGTTTTCAAAAATA
Found at i:16361 original size:58 final size:53
Alignment explanation
Indices: 16198--16362 Score: 161
Period size: 58 Copynumber: 2.9 Consensus size: 53
16188 ATATATATAT
* * * **
16198 ATTTTTGAAAAAAAGTTGAAAGTATTAATTTTTCTTAAAAGTAAGTTTTTAAAA
1 ATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAA-TAAGTTTCAAAAA
*
16252 ATATTTTGAAGAAAAGTTGAAA-TGATCAATTTTCCTTAGAAACAAGTTTTCAAAAGTGA
1 AT-TTTTGAAGAAAAGTTGAAAGT-ATCAATTTTCCTTA-AAATAAG-TTTCAAAA---A
* *
16311 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTCAA
1 ATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAA-T-AAGTTTCAA
16363 TTTTCCCTAT
Statistics
Matches: 92, Mismatches: 9, Indels: 16
0.79 0.08 0.14
Matches are distributed among these distances:
54 3 0.03
55 33 0.36
56 9 0.10
57 3 0.03
58 37 0.40
59 7 0.08
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (53 bp):
ATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAGTTTCAAAAA
Found at i:17014 original size:13 final size:13
Alignment explanation
Indices: 16996--17027 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16986 GCATAACATT
16996 AGCTCTATACCCG
1 AGCTCTATACCCG
*
17009 AGCTCTATACCTG
1 AGCTCTATACCCG
17022 AGCTCT
1 AGCTCT
17028 GTCCCTCTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.22, C:0.34, G:0.16, T:0.28
Consensus pattern (13 bp):
AGCTCTATACCCG
Found at i:20335 original size:20 final size:20
Alignment explanation
Indices: 20312--20370 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
20302 ATCAACAATG
20312 GATGAAAAAAGAAAAAAAAA
1 GATGAAAAAAGAAAAAAAAA
* *
20332 GATGATGAAAA-AAAAAGAAA
1 GATGA-AAAAAGAAAAAAAAA
*
20352 GAAGAAAAAATGAAAAAAA
1 GATGAAAAAA-GAAAAAAA
20371 GATATTCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 4 0.13
20 17 0.55
21 10 0.32
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (20 bp):
GATGAAAAAAGAAAAAAAAA
Found at i:22169 original size:42 final size:41
Alignment explanation
Indices: 22007--22334 Score: 380
Period size: 42 Copynumber: 8.0 Consensus size: 41
21997 GTCAAGGAGA
* * * *
22007 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
* * * * * *
22048 ATTTATTTTTCAAAGTTGTGGTGCCTCT-ATTTAGAAGAGCA
1 ATTTACTTTTCAAAGTCGTTGAGCCTCTGA-TTAGAGGAGCC
* * * *
22089 ATTTACTTTCCAAA--AGTTAAACCTCTGATTA-AGAGAGCC
1 ATTTACTTTTCAAAGTCGTTGAGCCTCTGATTAGAG-GAGCC
*
22128 ATTTACTTTTCAAAGGTCGTTGAGCCTTTGATTAGAGGAGCC
1 ATTTACTTTTCAAA-GTCGTTGAGCCTCTGATTAGAGGAGCC
*
22170 ATTTATTTTTCCAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
1 ATTTACTTTT-CAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
*
22212 ATTTATTTTTCCAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
1 ATTTACTTTT-CAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
22254 ATTTACTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAG-C
1 ATTTACTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
*
22294 -TTTATTCATTTTCAAAGTCGTTGAGCCTCTGCTTAGAGGAG
1 ATTTA--C-TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAG
22335 TTTTGATCAA
Statistics
Matches: 254, Mismatches: 22, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
38 1 0.00
39 31 0.12
40 2 0.01
41 78 0.31
42 136 0.54
43 6 0.02
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (41 bp):
ATTTACTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
Found at i:22611 original size:14 final size:14
Alignment explanation
Indices: 22592--22752 Score: 68
Period size: 14 Copynumber: 11.4 Consensus size: 14
22582 TTTTATGTAT
*
22592 TTATTATTTATTTG
1 TTATTATTTATTTA
*
22606 TTATTA-CTATTTA
1 TTATTATTTATTTA
* *
22619 TTAATATATATTTA
1 TTATTATTTATTTA
22633 TT-TTATTTTATTT-
1 TTATTA-TTTATTTA
22646 TTATTA-TT-TTTA
1 TTATTATTTATTTA
* * *
22658 TTATTTATCTGTTGA
1 TTA-TTATTTATTTA
*
22673 TATATATATGTA-TTA
1 T-TAT-TATTTATTTA
* *
22688 TTATTTATCTATTAA
1 TTA-TTATTTATTTA
*
22703 TTAATATATTATCCTTA
1 TTATTAT-TTAT--TTA
*
22720 TTATTATCTTTTTTA
1 TTATTAT-TTATTTA
22735 TT-TTA-TTATTTTA
1 TTATTATTTA-TTTA
22748 TTATT
1 TTATT
22753 TTTTTTCTTC
Statistics
Matches: 111, Mismatches: 20, Indels: 32
0.68 0.12 0.20
Matches are distributed among these distances:
11 3 0.03
12 7 0.06
13 23 0.21
14 39 0.35
15 22 0.20
16 6 0.05
17 11 0.10
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (14 bp):
TTATTATTTATTTA
Found at i:22650 original size:16 final size:16
Alignment explanation
Indices: 22591--22665 Score: 59
Period size: 16 Copynumber: 4.8 Consensus size: 16
22581 ATTTTATGTA
22591 TTTATTATTTATT-TGT
1 TTTATTATTTATTAT-T
* *
22607 TATTACTATTTATTA-A
1 T-TTATTATTTATTATT
* *
22623 TATA-TATTTATTTTAT
1 TTTATTATTTATTAT-T
22639 TTTATT-TTTATTATT
1 TTTATTATTTATTATT
22654 TTTATTATTTAT
1 TTTATTATTTAT
22666 CTGTTGATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
14 8 0.17
15 9 0.20
16 17 0.37
17 12 0.26
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (16 bp):
TTTATTATTTATTATT
Found at i:22661 original size:3 final size:3
Alignment explanation
Indices: 22592--22752 Score: 55
Period size: 3 Copynumber: 50.7 Consensus size: 3
22582 TTTTATGTAT
* * *
22592 TTA TTA TTTA TTTG TTA TTA CTA TTTA TTA ATA TATA TTTA TT- TTA
1 TTA TTA -TTA -TTA TTA TTA TTA -TTA TTA TTA T-TA -TTA TTA TTA
* * *
22638 TT- TTA TTT TTA TTA TTT TTA TTA TTTA TCTG TTGA TATA TATA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA T-TA TT-A T-TA T-TA T-TA
* ** *
22685 TTA TTA TTTA TCTA TTAA TTA ATA -TA TTA TCC TTA TTA TTA TCT- TTT
1 TTA TTA -TTA T-TA TT-A TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
22732 TTA TT- TTA TTA TT- TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
22753 TTTTTTCTTC
Statistics
Matches: 121, Mismatches: 19, Indels: 36
0.69 0.11 0.20
Matches are distributed among these distances:
2 11 0.09
3 71 0.59
4 37 0.31
5 2 0.02
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:22710 original size:30 final size:30
Alignment explanation
Indices: 22655--22711 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
22645 TTTATTATTT
* *
22655 TTATTATTTATCTGTTGATATATATATGTA
1 TTATTATTTATCTATTAATATATATATGTA
22685 TTATTATTTATCTATTAAT-TAATATAT
1 TTATTATTTATCTATTAATAT-ATATAT
22712 TATCCTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (30 bp):
TTATTATTTATCTATTAATATATATATGTA
Found at i:22745 original size:8 final size:8
Alignment explanation
Indices: 22720--22754 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
22710 ATTATCCTTA
22720 TTATTATCT
1 TTATTAT-T
*
22729 TTTTTATT
1 TTATTATT
22737 TTATTATT
1 TTATTATT
22745 TTATTATT
1 TTATTATT
22753 TT
1 TT
22755 TTTTCTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 18 0.75
9 6 0.25
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATTATT
Found at i:22758 original size:20 final size:20
Alignment explanation
Indices: 22717--22758 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
22707 TATATTATCC
*
22717 TTATTATTATCTTTTTTATT
1 TTATTATTATATTTTTTATT
*
22737 TTATTATTTTATTATTTT-TT
1 TTATTATTATATT-TTTTATT
22757 TT
1 TT
22759 CTTCTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (20 bp):
TTATTATTATATTTTTTATT
Found at i:23315 original size:20 final size:20
Alignment explanation
Indices: 23290--23329 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
23280 GTTTTAGAGA
23290 GAAGAGAGAGA-AGAGGAAGG
1 GAAGAGAGAGAGAG-GGAAGG
23310 GAAGAGAGAGAGAGGGAAGG
1 GAAGAGAGAGAGAGGGAAGG
23330 AGGGTTCTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (20 bp):
GAAGAGAGAGAGAGGGAAGG
Found at i:23661 original size:5 final size:5
Alignment explanation
Indices: 23646--23696 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
23636 TTTAATATTT
* *
23646 TTTTA TGTTA TTTTA TTTT- TCTTTA TTTTTA TTTTTA TTTTA TTTCA
1 TTTTA TTTTA TTTTA TTTTA T-TTTA -TTTTA -TTTTA TTTTA TTTTA
23693 TTTT
1 TTTT
23697 CTTTAAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 1 0.03
5 27 0.69
6 10 0.26
7 1 0.03
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:23695 original size:16 final size:16
Alignment explanation
Indices: 23645--23696 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
23635 GTTTAATATT
*
23645 TTTTTATGTTATTTTA
1 TTTTTATTTTATTTTA
*
23661 TTTTT-CTTTATTTTTA
1 TTTTTATTTTA-TTTTA
*
23677 TTTTTATTTTATTTCA
1 TTTTTATTTTATTTTA
23693 TTTT
1 TTTT
23697 CTTTAAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
15 3 0.10
16 23 0.77
17 4 0.13
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTTATTTTATTTTA
Found at i:23781 original size:59 final size:58
Alignment explanation
Indices: 23718--23829 Score: 172
Period size: 59 Copynumber: 1.9 Consensus size: 58
23708 ATTCAAAAAA
* *
23718 AAATATT-TTTGAGGAAAAGTTGAAAGTATCAATTTGTCTCGAAATTAAAAGTTTTAAAG
1 AAATATTCTTAGA-GAAAAGTTGAAAGTATCAATTTGTCTCAAAATT-AAAGTTTTAAAG
*
23777 AAATATTCTTAGAGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTT
1 AAATATTCTTAGAGAAAAGTTGAAAGTATCAATTTGTCTCAAAATTAAAGTTT
23830 CAATTTTCCC
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
58 7 0.14
59 38 0.78
60 4 0.08
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (58 bp):
AAATATTCTTAGAGAAAAGTTGAAAGTATCAATTTGTCTCAAAATTAAAGTTTTAAAG
Found at i:25840 original size:48 final size:48
Alignment explanation
Indices: 25788--25880 Score: 143
Period size: 48 Copynumber: 1.9 Consensus size: 48
25778 TCTAAATAGG
*
25788 CCCAAATGGTAAAAAATTTAGAAATTCCAA-AAAAAAAAAATAAATTAA
1 CCCAAATGATAAAAAATTTAGAAA-TCCAACAAAAAAAAAATAAATTAA
* *
25836 CCCAAATGATGAAAAATTTAGAAATCCAACAAAAAATAAATAAAT
1 CCCAAATGATAAAAAATTTAGAAATCCAACAAAAAAAAAATAAAT
25881 AAAGAGAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 5 0.12
48 36 0.88
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.20
Consensus pattern (48 bp):
CCCAAATGATAAAAAATTTAGAAATCCAACAAAAAAAAAATAAATTAA
Found at i:29911 original size:8 final size:8
Alignment explanation
Indices: 29849--29971 Score: 65
Period size: 8 Copynumber: 15.2 Consensus size: 8
29839 TAATGGATGG
29849 AAAAAATGA
1 AAAAAAT-A
29858 AAAAAA-A
1 AAAAAATA
*
29865 GAAAAAATC
1 -AAAAAATA
* *
29874 AACAAAGA
1 AAAAAATA
*
29882 GAAAAATTA
1 -AAAAAATA
*
29891 AAAAAGAGA
1 AAAAA-ATA
29900 AAAAAATTA
1 AAAAAA-TA
29909 AAAAAAT-
1 AAAAAATA
**
29916 AAAGGA-A
1 AAAAAATA
*
29923 AAAAAAGA
1 AAAAAATA
*
29931 GAAAAA-A
1 AAAAAATA
*
29938 AAAAAAGA
1 AAAAAATA
*
29946 AAAAAAGA
1 AAAAAATA
29954 AAAAAATA
1 AAAAAATA
*
29962 ATAAAATA
1 AAAAAATA
29970 AA
1 AA
29972 GACTCAAATT
Statistics
Matches: 87, Mismatches: 19, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
7 15 0.17
8 48 0.55
9 24 0.28
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.08
Consensus pattern (8 bp):
AAAAAATA
Found at i:29926 original size:13 final size:11
Alignment explanation
Indices: 29890--29959 Score: 70
Period size: 11 Copynumber: 6.3 Consensus size: 11
29880 GAGAAAAATT
*
29890 AAAAAAGAGAA
1 AAAAAAGAAAA
**
29901 AAAAATTAAAA
1 AAAAAAGAAAA
29912 AAATAAAGGAAAA
1 AAA-AAA-GAAAA
*
29925 AAAAGAGAAAA
1 AAAAAAGAAAA
*
29936 AAAAAA-AAGA
1 AAAAAAGAAAA
29946 AAAAAAGAAAA
1 AAAAAAGAAAA
29957 AAA
1 AAA
29960 TAATAAAATA
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
10 9 0.19
11 27 0.57
12 4 0.09
13 7 0.15
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.04
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:29927 original size:33 final size:32
Alignment explanation
Indices: 29848--29959 Score: 104
Period size: 32 Copynumber: 3.5 Consensus size: 32
29838 CTAATGGATG
* * *
29848 GAAAAAATGAAAAAAAAGA-AAAAATCAACAAA
1 GAAAAAAAGAAAAAAAAGAGAAAAA-AAAAAAA
* **
29880 GAGAAAAA-TTAAAAAAGAGAAAAAAATTAAAAA
1 GAAAAAAAGAAAAAAAAGAGAAAAAAA--AAAAA
* *
29913 -AATAAAGGAAAAAAAAGAGAAAAAAAAAAAA
1 GAAAAAAAGAAAAAAAAGAGAAAAAAAAAAAA
29944 GAAAAAAAGAAAAAAA
1 GAAAAAAAGAAAAAAA
29960 TAATAAAATA
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
31 14 0.23
32 28 0.45
33 20 0.32
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.06
Consensus pattern (32 bp):
GAAAAAAAGAAAAAAAAGAGAAAAAAAAAAAA
Found at i:29928 original size:24 final size:24
Alignment explanation
Indices: 29877--29959 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
29867 AAAAATCAAC
*
29877 AAAGAGAAAAATTAAAAAAGAGAAAA
1 AAAGAGAAAAA-AAAAAAAGA-AAAA
** * *
29903 AAA-TTAAAAAAATAAAGGAAAAA
1 AAAGAGAAAAAAAAAAAAGAAAAA
29926 AAAGAGAAAAAAAAAAAAG-AAAA
1 AAAGAGAAAAAAAAAAAAGAAAAA
29949 AAAGA-AAAAAA
1 AAAGAGAAAAAA
29960 TAATAAAATA
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
22 6 0.13
23 16 0.34
24 17 0.36
25 5 0.11
26 3 0.06
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (24 bp):
AAAGAGAAAAAAAAAAAAGAAAAA
Found at i:30521 original size:12 final size:12
Alignment explanation
Indices: 30504--30533 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
30494 TTGAAAGGAT
30504 ATATGGTGATGA
1 ATATGGTGATGA
30516 ATATGGTGATGA
1 ATATGGTGATGA
30528 AT-TGGT
1 ATATGGT
30534 CAACATAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.37
Consensus pattern (12 bp):
ATATGGTGATGA
Found at i:30689 original size:79 final size:78
Alignment explanation
Indices: 30542--30738 Score: 229
Period size: 79 Copynumber: 2.5 Consensus size: 78
30532 GTCAACATAA
* * * * *
30542 CTTGTGAATTGTGATCGAATGATGAAAATAATATGGATTA-ATGGACATAATTTATTCTTAAATG
1 CTTGTGAATGGTGATCGAATGATGAAAATAATGTGGATCAGATGGACATAATTTATTCATAAATA
*
30606 GTTAGTGTTGAAAAG
66 GTTA--GCTGAAAAG
* *
30621 CTTGTGAATGGTGATTGAATGATGAAAATAATGTGGATCAGA-GGACATAATTTATT-ATAGATC
1 CTTGTGAATGGTGATCGAATGATGAAAATAATGTGGATCAGATGGACATAATTTATTCATAAAT-
*
30684 AGTTAGCTGAGAAG
65 AGTTAGCTGAAAAG
* * * *
30698 CCTATGAATGGTGATCAAATAATGAAAATAATGTGGATCAG
1 CTTGTGAATGGTGATCGAATGATGAAAATAATGTGGATCAG
30739 GGGATAGCAT
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
77 43 0.42
78 4 0.04
79 54 0.53
80 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (78 bp):
CTTGTGAATGGTGATCGAATGATGAAAATAATGTGGATCAGATGGACATAATTTATTCATAAATA
GTTAGCTGAAAAG
Found at i:31284 original size:21 final size:21
Alignment explanation
Indices: 31260--31644 Score: 242
Period size: 21 Copynumber: 17.6 Consensus size: 21
31250 ATGAATTCTT
* *
31260 AAATAAGAATATTTCAGTTTC
1 AAATAAGAATCTTTGAGTTTC
*
31281 AAATAAGAATCTTTGGGTTTC
1 AAATAAGAATCTTTGAGTTTC
* *
31302 AAATGAGAATCTTTGGGTTTC
1 AAATAAGAATCTTTGAGTTTC
*
31323 AAATGAA-AATATTTGAGTTTC
1 AAAT-AAGAATCTTTGAGTTTC
* * *
31344 AAATGAGAATCTTTAAGTTTA
1 AAATAAGAATCTTTGAGTTTC
*
31365 AAATGAGAATCTTT-AGGTTTC
1 AAATAAGAATCTTTGA-GTTTC
31386 AAATAAGAATCTTTGAGTCTTC
1 AAATAAGAATCTTTGAGT-TTC
* * *
31408 AAATGAGAATTTTTTAGTTTC
1 AAATAAGAATCTTTGAGTTTC
*
31429 AAATAAGAATCTTTGAGATTC
1 AAATAAGAATCTTTGAGTTTC
* *
31450 AAATGAGAATCTTTAAGACATTTTC
1 AAATAAGAATCTTT--G--AGTTTC
* ** * * *
31475 ACACGAGAACCTGTGAGTTTT
1 AAATAAGAATCTTTGAGTTTC
* *
31496 AAATGAGAATCTTTAAGACATTTTC
1 AAATAAGAATCTTT--G--AGTTTC
*
31521 AAATGAGAA-CTTTGAGTATT-
1 AAATAAGAATCTTTGAGT-TTC
*
31541 AAATGAG-ATCTTTACATGATGTTTTC
1 AAATAAGAATC-TT---TGA-G-TTTC
*
31567 AAATAAGAACCCTTTGAGTTTC
1 AAATAAGAA-TCTTTGAGTTTC
* * *
31589 AAATGAGAGTCTTTAAGTTTTC
1 AAATAAGAATCTTTGAG-TTTC
* * *
31611 -AATGAGAATTTTTAAAGTTTC
1 AAATAAGAATCTTT-GAGTTTC
31632 AAATAAGAATCTT
1 AAATAAGAATCTT
31645 GAGATGTGAA
Statistics
Matches: 291, Mismatches: 46, Indels: 53
0.75 0.12 0.14
Matches are distributed among these distances:
19 1 0.00
20 12 0.04
21 174 0.60
22 49 0.17
23 4 0.01
24 10 0.03
25 30 0.10
26 7 0.02
27 3 0.01
28 1 0.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (21 bp):
AAATAAGAATCTTTGAGTTTC
Found at i:31322 original size:42 final size:42
Alignment explanation
Indices: 31260--31644 Score: 285
Period size: 42 Copynumber: 8.8 Consensus size: 42
31250 ATGAATTCTT
* * * *
31260 AAATAAGAATATTTCAGTTTCAAATAAGAATCTTTGGGTTTC
1 AAATAAGAATCTTTGAGTTTCAAATGAGAATCTTTGAGTTTC
* * * *
31302 AAATGAGAATCTTTGGGTTTCAAATGAAAATATTTGAGTTTC
1 AAATAAGAATCTTTGAGTTTCAAATGAGAATCTTTGAGTTTC
* * *
31344 AAATGAGAATCTTTAAGTTTAAAATGAGAATCTTT-AGGTTTC
1 AAATAAGAATCTTTGAGTTTCAAATGAGAATCTTTGA-GTTTC
* *
31386 AAATAAGAATCTTTGAGTCTTCAAATGAGAATTTTTTAGTTTC
1 AAATAAGAATCTTTGAGT-TTCAAATGAGAATCTTTGAGTTTC
* *
31429 AAATAAGAATCTTTGAGATTCAAATGAGAATCTTTAAGACATTTTC
1 AAATAAGAATCTTTGAGTTTCAAATGAGAATCTTT--G--AGTTTC
* ** * * * *
31475 ACACGAGAACCTGTGAGTTTTAAATGAGAATCTTTAAGACATTTTC
1 AAATAAGAATCTTTGAGTTTCAAATGAGAATCTTT--G--AGTTTC
*
31521 AAATGAGAA-CTTTGAGTATT-AAATGAG-ATCTTTACATGATGTTTTC
1 AAATAAGAATCTTTGAGT-TTCAAATGAGAATC-TT---TGA-G-TTTC
* * *
31567 AAATAAGAACCCTTTGAGTTTCAAATGAGAGTCTTTAAGTTTTC
1 AAATAAGAA-TCTTTGAGTTTCAAATGAGAATCTTTGAG-TTTC
* * * *
31611 -AATGAGAATTTTTAAAGTTTCAAATAAGAATCTT
1 AAATAAGAATCTTT-GAGTTTCAAATGAGAATCTT
31645 GAGATGTGAA
Statistics
Matches: 283, Mismatches: 41, Indels: 37
0.78 0.11 0.10
Matches are distributed among these distances:
41 1 0.00
42 104 0.37
43 61 0.22
44 11 0.04
45 18 0.06
46 66 0.23
47 2 0.01
48 18 0.06
49 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (42 bp):
AAATAAGAATCTTTGAGTTTCAAATGAGAATCTTTGAGTTTC
Found at i:31482 original size:25 final size:25
Alignment explanation
Indices: 31447--31533 Score: 76
Period size: 25 Copynumber: 3.7 Consensus size: 25
31437 ATCTTTGAGA
*
31447 TTCAAATGAGAATCTTTAAGACATT
1 TTCAAACGAGAATCTTTAAGACATT
* * * *
31472 TTCACACGAGAACCTGT--GA-GTT
1 TTCAAACGAGAATCTTTAAGACATT
*
31494 TT-AAATGAGAATCTTTAAGACATT
1 TTCAAACGAGAATCTTTAAGACATT
*
31518 TTCAAATGAGAA-CTTT
1 TTCAAACGAGAATCTTT
31534 GAGTATTAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
21 10 0.21
22 4 0.08
23 4 0.08
24 8 0.17
25 22 0.46
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (25 bp):
TTCAAACGAGAATCTTTAAGACATT
Found at i:32066 original size:14 final size:14
Alignment explanation
Indices: 32047--32083 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
32037 CTTGCATATT
*
32047 TGAAATTTTGAGAC
1 TGAAATTTTGAGAA
32061 TGAAATTTTGAGAA
1 TGAAATTTTGAGAA
*
32075 TCAAATTTT
1 TGAAATTTT
32084 AGTGATTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (14 bp):
TGAAATTTTGAGAA
Found at i:32330 original size:41 final size:40
Alignment explanation
Indices: 32220--32551 Score: 251
Period size: 41 Copynumber: 8.0 Consensus size: 40
32210 ATTATCAAGG
* * * *
32220 AGCTTTTATTTTACAAAGTCATTGTGCCTCTGTTTAAATG-
1 AGCTTTTATTTTTCAAAGTCATTGAGCCTCTATTTAGA-GA
* * * *
32260 AGTTTTTA-TTTTCAAAATCGTTGTGCCTCTATTTAGAGA
1 AGCTTTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAGA
* * * *
32299 AGCTTTTATTTTTCAAAAGTCGTTGAACCTCTGTTTAAATG-
1 AGCTTTTATTTTTC-AAAGTCATTGAGCCTCTATTTAGA-GA
* *
32340 AGCCTTTTATTTTTCAAAGTCGTTGAGCCTCT-GTTAGA-A
1 AG-CTTTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAGA
* * *
32379 GAGCTTAATTTGTTTTTCAAAGTCATTGAGCCTCTACTTAGAGG
1 -AGC-T--TTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAGA
* * *
32423 AGCATTATTCATTTTTCAAAGTCATTGAGCCTTTGTTTAGAGG
1 AGC-TT-TT-ATTTTTCAAAGTCATTGAGCCTCTATTTAGAGA
** * *
32466 AGCCTTTTATTTTTTGAAGTCGTTGAGCCTCTATTTAGAGG
1 AG-CTTTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAGA
* *
32507 AGCTTAATTTTATTTTTCAAAGTTATTGAGTCTCTATTTAGAGA
1 AGC----TTTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAGA
32551 A
1 A
32552 AATCCGAGTA
Statistics
Matches: 238, Mismatches: 35, Indels: 34
0.78 0.11 0.11
Matches are distributed among these distances:
38 1 0.00
39 32 0.13
40 20 0.08
41 68 0.29
42 42 0.18
43 42 0.18
44 33 0.14
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.43
Consensus pattern (40 bp):
AGCTTTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAGA
Found at i:32451 original size:85 final size:85
Alignment explanation
Indices: 32222--32548 Score: 248
Period size: 85 Copynumber: 3.9 Consensus size: 85
32212 TATCAAGGAG
* * ** * * * *
32222 CTTTTATTTTACAAAGTCATTGTGCCTCTGTTTAAATGAG-TT--TTT-A-TTTTCAAAATCGTT
1 CTTTTATTTTTCAAAGTCATTGAGCCTCTACTTAGAGGAGCTTAATTTCATTTTTCAAAGTCATT
* *
32282 GTGCCTCTATTTAG-AGAAG-
66 GAGCCTCTGTTTAGAAG-AGC
* * ** * * * *
32301 CTTTTATTTTTCAAAAGTCGTTGAACCTCTGTTTAAATGAGCCT--TTT-ATTTTTCAAAGTCGT
1 CTTTTATTTTTC-AAAGTCATTGAGCCTCTACTTAGAGGAGCTTAATTTCATTTTTCAAAGTCAT
32363 TGAGCCTCTG-TTAGAAGAGC
65 TGAGCCTCTGTTTAGAAGAGC
* *
32383 TTAATTTGTTTTTCAAAGTCATTGAGCCTCTACTTAGAGGAGCATT-A-TTCATTTTTCAAAGTC
1 CT--TTTATTTTTCAAAGTCATTGAGCCTCTACTTAGAGGAGC-TTAATTTCATTTTTCAAAGTC
* *
32446 ATTGAGCCTTTGTTTAGAGGAGC
63 ATTGAGCCTCTGTTTAGAAGAGC
** * * * *
32469 CTTTTATTTTTTGAAGTCGTTGAGCCTCTATTTAGAGGAGCTTAATTTTATTTTTCAAAGTTATT
1 CTTTTATTTTTCAAAGTCATTGAGCCTCTACTTAGAGGAGCTTAATTTCATTTTTCAAAGTCATT
* *
32534 GAGTCTCTATTTAGA
66 GAGCCTCTGTTTAGA
32549 GAAAATCCGA
Statistics
Matches: 204, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
79 11 0.05
80 25 0.12
81 11 0.05
82 23 0.11
83 25 0.12
84 47 0.23
85 52 0.25
86 10 0.05
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (85 bp):
CTTTTATTTTTCAAAGTCATTGAGCCTCTACTTAGAGGAGCTTAATTTCATTTTTCAAAGTCATT
GAGCCTCTGTTTAGAAGAGC
Found at i:32473 original size:126 final size:123
Alignment explanation
Indices: 32216--32551 Score: 369
Period size: 126 Copynumber: 2.7 Consensus size: 123
32206 CATGATTATC
* * * *
32216 AAGGAG-CTTTTATTTTACAAAGTCATTGTGCCTCTGTTTA-AATGAG-TT--TTTATTTTCAAA
1 AAGGAGCCTTTTATTTTTCAAAGTCGTTGAGCCTCTG-TTAGAA-GAGCTTAATTTTTTTTCAAA
* * * *
32276 ATCGTTGTGCCTCTATTTAGAGAAGCTTTTATTTTTCAAAAGTCGTTGAACCTCTGTTTA
64 GTCATTGAGCCTCTATTTAGAGAAGCTTTTATTTTTCAAAAGTCATTGAACCTCTGTTTA
*
32336 AATGAGCCTTTTATTTTTCAAAGTCGTTGAGCCTCTGTTAGAAGAGCTTAATTTGTTTTTCAAAG
1 AAGGAGCCTTTTATTTTTCAAAGTCGTTGAGCCTCTGTTAGAAGAGCTTAATTT-TTTTTCAAAG
* * * *
32401 TCATTGAGCCTCTACTTAGAGGAGCATTATTCATTTTTC-AAAGTCATTGAGCCTTTGTTTA
65 TCATTGAGCCTCTATTTAGAGAAGC-TT-TT-ATTTTTCAAAAGTCATTGAACCTCTGTTTA
* ** * *
32462 GAGGAGCCTTTTATTTTTTGAAGTCGTTGAGCCTCTATTTAGAGGAGCTTAATTTTATTTTTCAA
1 AAGGAGCCTTTTATTTTTCAAAGTCGTTGAGCCTCT-GTTAGAAGAGCTTAA-TTT-TTTTTCAA
* *
32527 AGTTATTGAGTCTCTATTTAGAGAA
63 AGTCATTGAGCCTCTATTTAGAGAA
32552 AATCCGAGTA
Statistics
Matches: 181, Mismatches: 24, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
120 11 0.06
121 31 0.17
123 3 0.02
124 29 0.16
125 2 0.01
126 53 0.29
127 20 0.11
128 32 0.18
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.43
Consensus pattern (123 bp):
AAGGAGCCTTTTATTTTTCAAAGTCGTTGAGCCTCTGTTAGAAGAGCTTAATTTTTTTTCAAAGT
CATTGAGCCTCTATTTAGAGAAGCTTTTATTTTTCAAAAGTCATTGAACCTCTGTTTA
Found at i:34135 original size:52 final size:52
Alignment explanation
Indices: 34036--34138 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 52
34026 TATAAAAAGA
* * *
34036 ATTTCTAAATAGGCCCAAATGGTGAAAATTTTAGAAATTTCAAAAAAAAAAT
1 ATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAATTCCAAAAAAAAAAT
* * *
34088 ATTTCTAAATTGACTCAAATTGTGAAAAATTTAGAAA-TCCAACAAAAAAAA
1 ATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAATTCCAA-AAAAAAAA
34139 AATAAATAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
51 4 0.09
52 40 0.91
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.28
Consensus pattern (52 bp):
ATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAATTCCAAAAAAAAAAT
Found at i:34149 original size:52 final size:52
Alignment explanation
Indices: 34051--34149 Score: 119
Period size: 52 Copynumber: 1.9 Consensus size: 52
34041 TAAATAGGCC
* * * ***
34051 CAAATGGTGAAAATTTTAGAAATTTCAAAAAAAAAATATTTCTAAATTGACT
1 CAAATGGTGAAAAATTTAGAAATTCCAAAAAAAAAAAATAAATAAATTGACT
*
34103 CAAATTGTGAAAAATTTAGAAA-TCCAACAAAAAAAAAATAAATAAAT
1 CAAATGGTGAAAAATTTAGAAATTCCAA-AAAAAAAAAATAAATAAAT
34150 AAAGAGAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
51 4 0.10
52 35 0.90
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.27
Consensus pattern (52 bp):
CAAATGGTGAAAAATTTAGAAATTCCAAAAAAAAAAAATAAATAAATTGACT
Found at i:34152 original size:121 final size:124
Alignment explanation
Indices: 34008--34229 Score: 326
Period size: 121 Copynumber: 1.8 Consensus size: 124
33998 GTTTTTTCCT
* * *
34008 AAAATAAAAATATATAAATATAAAAAGAATTTCTAAATAGGCCCAAATGGTGAAAATTTTAGAAA
1 AAAAAAAAAATAAATAAATATAAAAAGAATTTCTAAATAGGCCCAAATGGTGAAAATTTTAAAAA
*
34073 TTTCAAAA-A-AAAAATATTTCTAAATTGACTCAAATTGTGAAAAATTTAGAAATCCAAC
66 TTTCAAAAGAGAAAAAT-TTTCTAAATTGACCCAAATTGTGAAAAATTTAGAAATCCAAC
* * *
34131 AAAAAAAAAATAAAT-AA-ATAAAGAGAATTTCTAAATAGGCCCAAATGTTGGAAATTTTAAAAA
1 AAAAAAAAAATAAATAAATATAAAAAGAATTTCTAAATAGGCCCAAATGGTGAAAATTTTAAAAA
* *
34194 TTTTAAAAGAGAAAAATTTTCTAATTTGACCCAAAT
66 TTTCAAAAGAGAAAAATTTTCTAAATTGACCCAAAT
34230 GGTAAAATAA
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
121 49 0.56
122 20 0.23
123 19 0.22
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (124 bp):
AAAAAAAAAATAAATAAATATAAAAAGAATTTCTAAATAGGCCCAAATGGTGAAAATTTTAAAAA
TTTCAAAAGAGAAAAATTTTCTAAATTGACCCAAATTGTGAAAAATTTAGAAATCCAAC
Found at i:36091 original size:24 final size:24
Alignment explanation
Indices: 36049--36095 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
36039 TAATATTAAT
*
36049 ATTAAAATCAATATCAAAATTTTA
1 ATTAAAATCAATATAAAAATTTTA
36073 ATTAAAATCAA-ATTAAAAATTTT
1 ATTAAAATCAATA-TAAAAATTTT
36096 GGGCTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (24 bp):
ATTAAAATCAATATAAAAATTTTA
Found at i:36928 original size:17 final size:17
Alignment explanation
Indices: 36903--36941 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
36893 GAATTTAAAT
* *
36903 ATTCACAAGGACTTCAG
1 ATTCGCAAGAACTTCAG
*
36920 ATTCGCAAGAACTTTAG
1 ATTCGCAAGAACTTCAG
36937 ATTCG
1 ATTCG
36942 TAGAAACTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (17 bp):
ATTCGCAAGAACTTCAG
Found at i:37329 original size:46 final size:46
Alignment explanation
Indices: 37208--37359 Score: 151
Period size: 46 Copynumber: 3.3 Consensus size: 46
37198 ACAAAGATTT
* *
37208 CAAAATTTCAAAGATTCACATTTTAAAAAAAAATTAGAGCTTTACAGC
1 CAAAATTTCAAAGATTCACA--TTAAAAAAAATTTAGAGCTTTACAAC
* * ** * * * * *
37256 CAAATTTTCAAAGGTTTTCATTCAAAAAATTTTAGGGTTTTGCAAC
1 CAAAATTTCAAAGATTCACATTAAAAAAAATTTAGAGCTTTACAAC
* * * *
37302 TAAAATTTCAAAGATTCACATTAAAAAAAATTTAGAGATTCACAAT
1 CAAAATTTCAAAGATTCACATTAAAAAAAATTTAGAGCTTTACAAC
37348 CAAAATTTCAAA
1 CAAAATTTCAAA
37360 TATCCTCATT
Statistics
Matches: 80, Mismatches: 24, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
46 64 0.80
48 16 0.20
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.32
Consensus pattern (46 bp):
CAAAATTTCAAAGATTCACATTAAAAAAAATTTAGAGCTTTACAAC
Found at i:37352 original size:24 final size:25
Alignment explanation
Indices: 37303--37352 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
37293 TTTTGCAACT
*
37303 AAAATTTCAAAGATTCACATTAAAA
1 AAAATTTCAAAGATTCACAATAAAA
* *
37328 AAAATTT-AGAGATTCACAATCAAA
1 AAAATTTCAAAGATTCACAATAAAA
37352 A
1 A
37353 TTTCAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (25 bp):
AAAATTTCAAAGATTCACAATAAAA
Found at i:37352 original size:25 final size:25
Alignment explanation
Indices: 37303--37352 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
37293 TTTTGCAACT
*
37303 AAAATTTCAAAGATTCACATTAAAA
1 AAAATTTCAAAGATTCACATCAAAA
*
37328 AAAATTT-AGAGATTCACAATCAAAA
1 AAAATTTCAAAGATTCAC-ATCAAAA
37353 TTTCAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (25 bp):
AAAATTTCAAAGATTCACATCAAAA
Found at i:39429 original size:101 final size:101
Alignment explanation
Indices: 39254--39458 Score: 275
Period size: 101 Copynumber: 2.0 Consensus size: 101
39244 ATAGGAAAAG
* * ** * * * * *
39254 ATGTAACACGGTAAAAGCATATGATGGAGATTCACATAACCGATGAGGTGTTATAAAAATGCATC
1 ATGTAACAAGGTAAAAGCATATGATGGAGATTCACACAAAAGAGGAGATGTCATAAAAATACACC
* * *
39319 ATATCTGCCATTTTTGTTAAAATAATGAAAAATAAA
66 ATATCTGCCAATTTTATTAAAATAATAAAAAATAAA
* *
39355 ATGTAACAAGGTAAAAGCATATGATGGTGATTCACACAAAAGAGGAGATGTCATGAAAATACACC
1 ATGTAACAAGGTAAAAGCATATGATGGAGATTCACACAAAAGAGGAGATGTCATAAAAATACACC
*
39420 ATATGTGCCAATTTTATTAAAATAATAAAAAATAAA
66 ATATCTGCCAATTTTATTAAAATAATAAAAAATAAA
39456 ATG
1 ATG
39459 AAATTCAAAT
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 89 1.00
ACGTcount: A:0.45, C:0.11, G:0.17, T:0.27
Consensus pattern (101 bp):
ATGTAACAAGGTAAAAGCATATGATGGAGATTCACACAAAAGAGGAGATGTCATAAAAATACACC
ATATCTGCCAATTTTATTAAAATAATAAAAAATAAA
Found at i:45494 original size:16 final size:16
Alignment explanation
Indices: 45469--45507 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
45459 AATAGACACG
*
45469 TAATATATACAAAGAA
1 TAATAAATACAAAGAA
45485 TAATAAATACAAAGAA
1 TAATAAATACAAAGAA
*
45501 CAATAAA
1 TAATAAA
45508 AAAGGTTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.67, C:0.08, G:0.05, T:0.21
Consensus pattern (16 bp):
TAATAAATACAAAGAA
Found at i:46751 original size:100 final size:99
Alignment explanation
Indices: 46612--46811 Score: 314
Period size: 100 Copynumber: 2.0 Consensus size: 99
46602 TTTTACAAAA
* * *
46612 TATTTTTTCAAGAAAATTCATTAAGTCATCCAATTGTTTGGTAAGATTTAATTCAAGATTTAAAT
1 TATTTTTTCAAGAAAATTCATTAAGTCATCCAATAGTTTGATAAGACTTAATTCAAGATTTAAAT
46677 CCTCCAATAGTTTGGTAGGATTGAAAATTTTATTAT
66 CCTCCAATAGTTTGGTAGGATT-AAAATTTT-TTAT
* *
46713 TATTTTTTACAA-AAAATTCA-TAAGTCCTCCAATAGTTTGATAAGACTTAATTCAATATTTAAA
1 TATTTTTT-CAAGAAAATTCATTAAGTCATCCAATAGTTTGATAAGACTTAATTCAAGATTTAAA
46776 TCCTCCAATAGTTTGGTAGGATTAAAATTTTTTAT
65 TCCTCCAATAGTTTGGTAGGATTAAAATTTTTTAT
46811 T
1 T
46812 TTATCAAAAA
Statistics
Matches: 93, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
98 5 0.05
99 8 0.09
100 61 0.66
101 16 0.17
102 3 0.03
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.42
Consensus pattern (99 bp):
TATTTTTTCAAGAAAATTCATTAAGTCATCCAATAGTTTGATAAGACTTAATTCAAGATTTAAAT
CCTCCAATAGTTTGGTAGGATTAAAATTTTTTAT
Found at i:48010 original size:23 final size:25
Alignment explanation
Indices: 47984--48047 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
47974 GTTTTCCTCT
47984 TTTATTTT-CTATTTAGA-TTTTCA
1 TTTATTTTACTATTTAGATTTTTCA
* * *
48007 TTTATTTTATTTTTTAGATTTTTCT
1 TTTATTTTACTATTTAGATTTTTCA
*
48032 TTTATTATTATTATTT
1 TTTATT-TTACTATTT
48048 TCATTATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 8 0.24
24 7 0.21
25 11 0.32
26 8 0.24
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (25 bp):
TTTATTTTACTATTTAGATTTTTCA
Found at i:48026 original size:24 final size:27
Alignment explanation
Indices: 47995--48048 Score: 78
Period size: 25 Copynumber: 2.1 Consensus size: 27
47985 TTATTTTCTA
47995 TTTAGA-TTTTCATTTATT-TTATT-T
1 TTTAGATTTTTCATTTATTATTATTAT
*
48019 TTTAGATTTTTCTTTTATTATTATTAT
1 TTTAGATTTTTCATTTATTATTATTAT
48046 TTT
1 TTT
48049 CATTATTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 6 0.23
25 11 0.42
26 5 0.19
27 4 0.15
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (27 bp):
TTTAGATTTTTCATTTATTATTATTAT
Found at i:48042 original size:6 final size:6
Alignment explanation
Indices: 48033--48114 Score: 58
Period size: 6 Copynumber: 13.7 Consensus size: 6
48023 GATTTTTCTT
* * * *
48033 TTATTA TTATTA TT-TTCA TTATTA TCATTA TCATTA TCATTA TCATTA
1 TTATTA TTATTA TTATT-A TTATTA TTATTA TTATTA TTATTA TTATTA
* * * * * *
48081 TCATTA TCATCA TTATCA TTATCA TTATCA TTAT
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTAT
48115 CATCATCATC
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
5 2 0.03
6 67 0.94
7 2 0.03
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (6 bp):
TTATTA
Found at i:48053 original size:15 final size:15
Alignment explanation
Indices: 48031--48108 Score: 68
Period size: 15 Copynumber: 5.1 Consensus size: 15
48021 TAGATTTTTC
*
48031 TTTT-ATTATTATTA
1 TTTTCATTATCATTA
* *
48045 TTTTCATTATTATCA
1 TTTTCATTATCATTA
*
48060 TTATCATTATCATTA
1 TTTTCATTATCATTA
*
48075 TCATTATCATTATCATCA
1 T--TT-TCATTATCATTA
*
48093 TTATCATTATCATTA
1 TTTTCATTATCATTA
48108 T
1 T
48109 CATTATCATC
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 4 0.08
15 34 0.65
16 1 0.02
17 1 0.02
18 12 0.23
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTTCATTATCATTA
Found at i:48055 original size:12 final size:12
Alignment explanation
Indices: 48035--48144 Score: 87
Period size: 12 Copynumber: 8.9 Consensus size: 12
48025 TTTTTCTTTT
48035 ATTATTATTAT-
1 ATTATTATTATC
*
48046 TTTCATTATTATC
1 ATT-ATTATTATC
*
48059 ATTATCATTATC
1 ATTATTATTATC
*
48071 ATTATCATTATC
1 ATTATTATTATC
48083 ATTATCATCATTATC
1 ATTAT--T-ATTATC
*
48098 ATTATCATTATC
1 ATTATTATTATC
* *
48110 ATTATCATCATC
1 ATTATTATTATC
* * *
48122 ATCATCATCATC
1 ATTATTATTATC
*
48134 ATCATTATTAT
1 ATTATTATTAT
48145 TATTGTTGGT
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
11 2 0.02
12 70 0.82
13 2 0.02
15 11 0.13
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:48085 original size:33 final size:33
Alignment explanation
Indices: 48033--48147 Score: 158
Period size: 33 Copynumber: 3.5 Consensus size: 33
48023 GATTTTTCTT
* * * *
48033 TTATTATTATTATTTTCATTATTATCATTATCA
1 TTATCATTATCATTATCATTATCATCATTATCA
48066 TTATCATTATCATTATCATTATCATCATTATCA
1 TTATCATTATCATTATCATTATCATCATTATCA
* *
48099 TTATCATTATCATTATCATCATCATCATCATCA
1 TTATCATTATCATTATCATTATCATCATTATCA
* *
48132 TCATCATTATTATTAT
1 TTATCATTATCATTAT
48148 TGTTGGTGGT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 74 1.00
ACGTcount: A:0.32, C:0.17, G:0.00, T:0.51
Consensus pattern (33 bp):
TTATCATTATCATTATCATTATCATCATTATCA
Found at i:48109 original size:27 final size:27
Alignment explanation
Indices: 48038--48141 Score: 136
Period size: 27 Copynumber: 3.9 Consensus size: 27
48028 TTCTTTTATT
* * * * *
48038 ATTATTATTTTCATTATTATCATTATC
1 ATTATCATTATCATTATCATTATCATC
48065 ATTATCATTATCATTATCATTATCATC
1 ATTATCATTATCATTATCATTATCATC
48092 ATTATCATTATCATTATCATTATCATC
1 ATTATCATTATCATTATCATTATCATC
* * *
48119 ATCATCATCATCATCATCATTAT
1 ATTATCATTATCATTATCATTAT
48142 TATTATTGTT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (27 bp):
ATTATCATTATCATTATCATTATCATC
Found at i:48115 original size:6 final size:6
Alignment explanation
Indices: 48053--48135 Score: 118
Period size: 6 Copynumber: 14.3 Consensus size: 6
48043 TATTTTCATT
48053 ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC ---ATC ATTATC
1 ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC
* * *
48098 ATTATC ATTATC ATTATC ATCATC ATCATC ATCATC AT
1 ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC AT
48136 CATTATTATT
Statistics
Matches: 73, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
3 3 0.04
6 70 0.96
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (6 bp):
ATTATC
Found at i:53081 original size:23 final size:23
Alignment explanation
Indices: 53054--53115 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
53044 AAAAGTGAGT
* * *
53054 AAAAAAATGAAAAATGAAAAAGA
1 AAAAAAAAGAAAAATAAAAAACA
*
53077 GAAAAAAAGAAAAATAAAAAACA
1 AAAAAAAAGAAAAATAAAAAACA
53100 AAAAAAAGGAGAAAAA
1 AAAAAAA--AGAAAAA
53116 AAGAAGACTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 25 0.78
25 7 0.22
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.05
Consensus pattern (23 bp):
AAAAAAAAGAAAAATAAAAAACA
Found at i:53120 original size:8 final size:8
Alignment explanation
Indices: 53054--53120 Score: 50
Period size: 8 Copynumber: 8.2 Consensus size: 8
53044 AAAAGTGAGT
53054 AAAAAAATG
1 AAAAAAA-G
*
53063 -AAAAATG
1 AAAAAAAG
*
53070 AAAAAGAG
1 AAAAAAAG
53078 AAAAAAAG
1 AAAAAAAG
53086 AAAAATAA-
1 AAAAA-AAG
53094 AAAACAAA-
1 AAAA-AAAG
*
53102 AAAAAGGAG
1 AAAAA-AAG
53111 AAAAAAAG
1 AAAAAAAG
53119 AA
1 AA
53121 GACTTAAACT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
7 2 0.04
8 37 0.79
9 8 0.17
ACGTcount: A:0.81, C:0.01, G:0.13, T:0.04
Consensus pattern (8 bp):
AAAAAAAG
Found at i:54209 original size:21 final size:22
Alignment explanation
Indices: 54160--54210 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
54150 TGAAATGTTA
54160 AAGTTTTTGCAGGTGAATTTTG
1 AAGTTTTTGCAGGTGAATTTTG
*
54182 AAATTTTTG-ATGG-GAATCTTT-
1 AAGTTTTTGCA-GGTGAAT-TTTG
54203 AAGTTTTT
1 AAGTTTTT
54211 CAAATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.25, C:0.04, G:0.22, T:0.49
Consensus pattern (22 bp):
AAGTTTTTGCAGGTGAATTTTG
Found at i:55671 original size:3 final size:3
Alignment explanation
Indices: 55659--55696 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
55649 TCAGGCCTAA
55659 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
55697 GGTTTATTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:56527 original size:23 final size:25
Alignment explanation
Indices: 56496--56543 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
56486 TTCATTTTTG
56496 TTTACA-TTTTCATTTATT-TTATT
1 TTTACATTTTTCATTTATTATTATT
* *
56519 TTTAGATTTTTCTTTTATTATTATT
1 TTTACATTTTTCATTTATTATTATT
56544 ATTATTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.24
24 11 0.52
25 5 0.24
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTACATTTTTCATTTATTATTATT
Done.