Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 85 of 322
Found at i:27189992 original size:51 final size:51
Alignment explanation
Indices: 27189929--27190061 Score: 185
Period size: 51 Copynumber: 2.6 Consensus size: 51
27189919 CAATCAAATC
* * *
27189929 TCTAAGAATATAAAATCATATCTTCTAAGATTACATATCTTATCTAAGATA
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
* ** * *
27189980 TGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATC
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
*
27190031 TCTAAGATTATAAAATCATATCTTTTAAGAT
1 TCTAAGATTATAAAATCATATCTTATAAGAT
27190062 CATGTTTCCA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (51 bp):
TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:27192497 original size:75 final size:75
Alignment explanation
Indices: 27192374--27192520 Score: 276
Period size: 75 Copynumber: 2.0 Consensus size: 75
27192364 TTTTGACATA
* *
27192374 TAGCTTATTTTCTCGTAGAGTTTGGAACACCTCCCCCAAGTGTCCCACATGCTCTTTGAGCGTCT
1 TAGCTCATTTTCTCGTAGAGTTTGGAACACCTCCCCCAAGTGTCCCACATGCTCTTCGAGCGTCT
27192439 TACTATACAC
66 TACTATACAC
27192449 TAGCTCATTTTCTCGTAGAGTTTGGAACACCTCCCCCAAGTGTCCCACATGCTCTTCGAGCGTCT
1 TAGCTCATTTTCTCGTAGAGTTTGGAACACCTCCCCCAAGTGTCCCACATGCTCTTCGAGCGTCT
27192514 TACTATA
66 TACTATA
27192521 TACCACAATA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.33
Consensus pattern (75 bp):
TAGCTCATTTTCTCGTAGAGTTTGGAACACCTCCCCCAAGTGTCCCACATGCTCTTCGAGCGTCT
TACTATACAC
Found at i:27194171 original size:79 final size:78
Alignment explanation
Indices: 27194069--27194291 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
27194059 GCTCCTCGTT
* *
27194069 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
27194134 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
27194149 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
27194212 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
27194227 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
27194290 GA
63 GA
27194292 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:27194186 original size:39 final size:40
Alignment explanation
Indices: 27194069--27194291 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
27194059 GCTCCTCGTT
* *
27194069 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
27194109 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
27194149 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
27194188 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
27194227 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
27194268 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27194292 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:27204696 original size:21 final size:21
Alignment explanation
Indices: 27204672--27204712 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
27204662 TCCCTGTCAG
27204672 TTTGTCCGAAGTGAATCTGAA
1 TTTGTCCGAAGTGAATCTGAA
*
27204693 TTTGTCCGAAGTGGATCTGA
1 TTTGTCCGAAGTGAATCTGA
27204713 GGGAGTCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (21 bp):
TTTGTCCGAAGTGAATCTGAA
Found at i:27205372 original size:19 final size:19
Alignment explanation
Indices: 27205348--27205425 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
27205338 AATCATATCT
27205348 TCTAAGATTACATATCTTA
1 TCTAAGATTACATATCTTA
**
27205367 TCTAAGA-TATGTAATCTTA
1 TCTAAGATTACAT-ATCTTA
*
27205386 --TAA-AATA-ATATCTTA
1 TCTAAGATTACATATCTTA
*
27205401 --TAAGATTACATATCATA
1 TCTAAGATTACATATCTTA
27205418 TCTAAGAT
1 TCTAAGAT
27205426 CTCTAAGATT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
15 9 0.19
16 5 0.10
17 12 0.25
18 3 0.06
19 19 0.40
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (19 bp):
TCTAAGATTACATATCTTA
Found at i:27205388 original size:51 final size:51
Alignment explanation
Indices: 27205325--27205457 Score: 185
Period size: 51 Copynumber: 2.6 Consensus size: 51
27205315 CAATCAAATC
* * *
27205325 TCTAAGAATATAAAATCATATCTTCTAAGATTACATATCTTATCTAAGATA
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
* ** * *
27205376 TGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATC
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
*
27205427 TCTAAGATTATAAAATCATATCTTTTAAGAT
1 TCTAAGATTATAAAATCATATCTTATAAGAT
27205458 CATGTTTCCG
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (51 bp):
TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:27206465 original size:11 final size:12
Alignment explanation
Indices: 27206438--27206463 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27206428 GAGCTGTAGC
27206438 AAACTAAATTAA
1 AAACTAAATTAA
27206450 AAACTAAATTAA
1 AAACTAAATTAA
27206462 AA
1 AA
27206464 CTTAGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AAACTAAATTAA
Found at i:27208738 original size:16 final size:15
Alignment explanation
Indices: 27208712--27208764 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 15
27208702 TTTAAAGTGT
27208712 AAATTTAAAAATAAA
1 AAATTTAAAAATAAA
27208727 AAATTATAAAAATAATTAA
1 AAATT-TAAAAAT-A--AA
27208746 GTAAATTTAAAAATAAA
1 --AAATTTAAAAATAAA
27208763 AA
1 AA
27208765 TCCTATAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
15 7 0.22
16 7 0.22
17 3 0.09
19 3 0.09
20 7 0.22
21 5 0.16
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (15 bp):
AAATTTAAAAATAAA
Found at i:27218397 original size:154 final size:153
Alignment explanation
Indices: 27218126--27218432 Score: 578
Period size: 154 Copynumber: 2.0 Consensus size: 153
27218116 GGTAACATCC
* *
27218126 CGAGAGACAAACATTCGGCCCAAGGTTGGTGAGTAATACTTATAGCCTTTTTGTGTGGGGAATAT
1 CGAGAGACAAACATTCGGCCCAAGGTTGGTGAGTAACACTTATAGCATTTTTGTGTGGGGAATAT
27218191 CCAATGAAGATGCAGGTGTGGGCTCGAGGATCAAGTTTGGATTGATTTGGTTAATGGTTATGGAC
66 CCAATGAAGATGCAGGTGTGGGCTCGAGGATCAAGTTTGGATTGATTTGGTTAATGGTTATGGAC
27218256 AAAAACTTTGCAACCGAATATTT
131 AAAAACTTTGCAACCGAATATTT
*
27218279 CGAGAGACAAACATTCGGCGCAAGGTTGGTGAGTAACACTTATAGCATTTTTGTGTGGGGGAATA
1 CGAGAGACAAACATTCGGCCCAAGGTTGGTGAGTAACACTTATAGCATTTTTGTGT-GGGGAATA
27218344 TCCAATGAAGATGCAGGTGTGGGCTCGAGGATCAAGTTTGGATTGATTTGGTTAATGGTTATGGA
65 TCCAATGAAGATGCAGGTGTGGGCTCGAGGATCAAGTTTGGATTGATTTGGTTAATGGTTATGGA
27218409 CAAAAACTTTGCAACCGAATATTT
130 CAAAAACTTTGCAACCGAATATTT
27218433 TGGCTGGAAG
Statistics
Matches: 150, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
153 53 0.35
154 97 0.65
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (153 bp):
CGAGAGACAAACATTCGGCCCAAGGTTGGTGAGTAACACTTATAGCATTTTTGTGTGGGGAATAT
CCAATGAAGATGCAGGTGTGGGCTCGAGGATCAAGTTTGGATTGATTTGGTTAATGGTTATGGAC
AAAAACTTTGCAACCGAATATTT
Found at i:27224935 original size:41 final size:41
Alignment explanation
Indices: 27224889--27224969 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
27224879 ATATTTTATT
*
27224889 TTATCTTTTAGTAGTTTATTAGAATAAGGGAAGTATTTTCC
1 TTATCTTTTAGTAGCTTATTAGAATAAGGGAAGTATTTTCC
*
27224930 TTATCTTTTAGTAGCTTATTAGAATAAGGGAATTATTTTC
1 TTATCTTTTAGTAGCTTATTAGAATAAGGGAAGTATTTTC
27224970 TCAATTAGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.47
Consensus pattern (41 bp):
TTATCTTTTAGTAGCTTATTAGAATAAGGGAAGTATTTTCC
Found at i:27229097 original size:15 final size:14
Alignment explanation
Indices: 27229064--27229097 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
27229054 GAAATAAGTC
27229064 ATTTTTTAAAAATT
1 ATTTTTTAAAAATT
*
27229078 ATTTTCTAAAAATT
1 ATTTTTTAAAAATT
27229092 ATTTTT
1 ATTTTT
27229098 AATGAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTTTTAAAAATT
Found at i:27233820 original size:31 final size:30
Alignment explanation
Indices: 27233757--27233821 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
27233747 TAGTTTATTA
* *
27233757 TTTTTATAATTTTTTAAGAATTAAATTAAAT
1 TTTTTATAA-TTTTTAAGAATCAAAATAAAT
27233788 TTTTTATAA-TTTTAAGAGATCAAAATATAAT
1 TTTTTATAATTTTTAAGA-ATCAAAATA-AAT
27233819 TTT
1 TTT
27233822 AACTTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 8 0.27
30 7 0.23
31 15 0.50
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (30 bp):
TTTTTATAATTTTTAAGAATCAAAATAAAT
Found at i:27246695 original size:61 final size:62
Alignment explanation
Indices: 27246615--27246757 Score: 209
Period size: 61 Copynumber: 2.3 Consensus size: 62
27246605 GATTATTATT
* * *
27246615 ATTAAATTTTAATAAAATTATTATTTAATATAATTT-AATAAAAATAAAAATAAATAATTTA
1 ATTATATTTTAATATAATTATTATTAAATATAATTTAAATAAAAATAAAAATAAATAATTTA
* *
27246676 ATTATATTTTAATATAATTATTATTAAATATAATTTAAATAAAAATAGAAATATATAATTTA
1 ATTATATTTTAATATAATTATTATTAAATATAATTTAAATAAAAATAAAAATAAATAATTTA
27246738 A-TATTATTCTTAATATAATT
1 ATTA-TATT-TTAATATAATT
27246758 TGGTTCATCT
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
61 35 0.47
62 28 0.38
63 11 0.15
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (62 bp):
ATTATATTTTAATATAATTATTATTAAATATAATTTAAATAAAAATAAAAATAAATAATTTA
Found at i:27253459 original size:4 final size:4
Alignment explanation
Indices: 27253450--27253507 Score: 55
Period size: 4 Copynumber: 14.8 Consensus size: 4
27253440 TGATTTTTAA
* * * * * *
27253450 AAAT AAAT AAAG AAAT -GAT AAAT AAAT AGAT AAAC AAAC AAAC AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
27253497 AAAT AAAT AAA
1 AAAT AAAT AAA
27253508 ACAATTTGTA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
3 2 0.04
4 43 0.96
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.17
Consensus pattern (4 bp):
AAAT
Found at i:27260608 original size:17 final size:17
Alignment explanation
Indices: 27260582--27260615 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27260572 TTTAGGATAA
* *
27260582 ATTTTGATTGATTTATG
1 ATTTTAATTGATATATG
27260599 ATTTTAATTGATATATG
1 ATTTTAATTGATATATG
27260616 TTAAATTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (17 bp):
ATTTTAATTGATATATG
Found at i:27264464 original size:40 final size:40
Alignment explanation
Indices: 27264405--27264564 Score: 277
Period size: 40 Copynumber: 4.0 Consensus size: 40
27264395 ATTTAGCCAC
* *
27264405 ATATAGCT-ACTCGCTCAAATGCCTTTGGGACTTAGCCCGG
1 ATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
27264445 ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
27264485 ATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
27264525 ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
27264565 TCATCATCTG
Statistics
Matches: 115, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
39 1 0.01
40 114 0.99
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
Found at i:27276188 original size:4 final size:4
Alignment explanation
Indices: 27276161--27276227 Score: 73
Period size: 4 Copynumber: 17.0 Consensus size: 4
27276151 CAATATGATT
* * * * *
27276161 TAAA AAAA TAAA GAAA T-GA TAAA TAAA TAGA TAAA TAAA CAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
*
27276208 TAAA CAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA
27276228 ACAATTTGTA
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
3 2 0.04
4 48 0.96
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.19
Consensus pattern (4 bp):
TAAA
Found at i:27278909 original size:35 final size:35
Alignment explanation
Indices: 27278789--27279117 Score: 292
Period size: 35 Copynumber: 9.3 Consensus size: 35
27278779 CAAAAACCCA
* **
27278789 TCTAAGGCAAACTTAAAAAGGTTATGATAGAC-CTTG
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACAC--G
* * * * **
27278825 TCTAAGGGAACCTTTAAAAAATGTTGAGATAAATCTTG
1 TCTAAGGCAACC-TT-AAAAAGGTTGGGATAGA-CACG
* *
27278863 CCTAAGGCAACCTTAAAAAGATTGGGATAGACACG
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACACG
* *
27278898 TCTAAGACAACCTTAACAAGGTTGGGATAGAC-C-
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACACG
* **
27278931 T-TAAGGCAATCTTTAAAGAAGGTTGGGATAGACAAA
1 TCTAAGGCAA-CCTTAAA-AAGGTTGGGATAGACACG
* *
27278967 TCTAAGGCAACCTTAAAAAGATTGGGATAGATACG
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACACG
* * **
27279002 TTTAAGGCAACATTAAAAA-GTTGGGATAGACTTTG
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGAC-ACG
* *
27279037 TTTAAAGCAACCTTAAAAATGGTTGGGATAGAC-CTG
1 TCTAAGGCAACCTTAAAAA-GGTTGGGATAGACAC-G
* *
27279073 TTTAAGGCAACCTTATAAAGGTTGGGATAGACACG
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACACG
27279108 TCTAAGGCAA
1 TCTAAGGCAA
27279118 TTATTTTTCT
Statistics
Matches: 239, Mismatches: 40, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
32 7 0.03
33 6 0.03
34 26 0.11
35 102 0.43
36 49 0.21
37 24 0.10
38 24 0.10
39 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (35 bp):
TCTAAGGCAACCTTAAAAAGGTTGGGATAGACACG
Found at i:27278971 original size:69 final size:67
Alignment explanation
Indices: 27278865--27279113 Score: 259
Period size: 69 Copynumber: 3.6 Consensus size: 67
27278855 AAATCTTGCC
* * *
27278865 TAAGGCAACCTTAAAAAGATTGGGATAGACACGTCTAAGACAACCTTAACAAGGTTGGGATAGAC
1 TAAGGCAACCTTAAAAAGGTTGGGATAGACAAGTCTAAGACAACCTTAAAAAGGTTGGGATAGAC
27278930 CT
66 CT
* * * *
27278932 TAAGGCAATCTTTAAAGAAGGTTGGGATAGACAAATCTAAGGCAACCTTAAAAAGATTGGGATAG
1 TAAGGCAA-CCTTAAA-AAGGTTGGGATAGACAAGTCTAAGACAACCTTAAAAAGGTTGGGATAG
*
27278997 ATACGTT
64 --AC-CT
* ** *
27279004 TAAGGCAACATTAAAAA-GTTGGGATAGACTTTGTTTAA-AGCAACCTTAAAAATGGTTGGGATA
1 TAAGGCAACCTTAAAAAGGTTGGGATAGAC-AAGTCTAAGA-CAACCTTAAAAA-GGTTGGGATA
27279067 GACCTGTT
63 GACC---T
* *
27279075 TAAGGCAACCTTATAAAGGTTGGGATAGACACGTCTAAG
1 TAAGGCAACCTTAAAAAGGTTGGGATAGACAAGTCTAAG
27279114 GCAATTATTT
Statistics
Matches: 148, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
67 8 0.05
68 6 0.04
69 56 0.38
70 18 0.12
71 39 0.26
72 21 0.14
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (67 bp):
TAAGGCAACCTTAAAAAGGTTGGGATAGACAAGTCTAAGACAACCTTAAAAAGGTTGGGATAGAC
CT
Found at i:27279086 original size:106 final size:104
Alignment explanation
Indices: 27278864--27279117 Score: 316
Period size: 106 Copynumber: 2.4 Consensus size: 104
27278854 TAAATCTTGC
* * *
27278864 CTAAGGCAACCTTAAAAAGATTGGGATAGACACGTCTAAGACAACCTTAACAAGGTTGGGATAGA
1 CTAAGGCAACCTTAAAAAGATTGGGATAGACACGTCTAAGGCAACATTAACAAAGTTGGGATAGA
* *
27278929 CCTTAAGGCAATCTTTAAAGAAGGTTGGGATAGACAAAT
66 CCTTAAAGCAATCCTTAAAGAAGGTTGGGATAGACAAAT
* *
27278968 CTAAGGCAACCTTAAAAAGATTGGGATAGATACGTTTAAGGCAACATTAA-AAAGTTGGGATAGA
1 CTAAGGCAACCTTAAAAAGATTGGGATAGACACGTCTAAGGCAACATTAACAAAGTTGGGATAGA
* ***
27279032 CTTTGTTTAAAGCAA-CCTTAAA-AATGGTTGGGATAGACCTGT
66 C----CTTAAAGCAATCCTTAAAGAA-GGTTGGGATAGACAAAT
* * *
27279074 TTAAGGCAACCTTATAAAGGTTGGGATAGACACGTCTAAGGCAA
1 CTAAGGCAACCTTAAAAAGATTGGGATAGACACGTCTAAGGCAA
27279118 TTATTTTTCT
Statistics
Matches: 129, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
103 14 0.11
104 46 0.36
105 2 0.02
106 59 0.46
107 8 0.06
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (104 bp):
CTAAGGCAACCTTAAAAAGATTGGGATAGACACGTCTAAGGCAACATTAACAAAGTTGGGATAGA
CCTTAAAGCAATCCTTAAAGAAGGTTGGGATAGACAAAT
Found at i:27283880 original size:20 final size:20
Alignment explanation
Indices: 27283857--27283899 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
27283847 CATGGATGAA
*
27283857 TATGCT-GAAAATTGGAAATT
1 TATGCTAGAAAA-TGAAAATT
*
27283877 TATGGTAGAAAATGAAAATT
1 TATGCTAGAAAATGAAAATT
27283897 TAT
1 TAT
27283900 TCATAGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.44, C:0.02, G:0.19, T:0.35
Consensus pattern (20 bp):
TATGCTAGAAAATGAAAATT
Found at i:27289970 original size:11 final size:11
Alignment explanation
Indices: 27289956--27290031 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
27289946 GATAATCACT
27289956 TTAATATTAAA
1 TTAATATTAAA
27289967 TTAATA--AAA
1 TTAATATTAAA
*
27289976 -TACTATTAAGA
1 TTAATATTAA-A
27289987 -TAAGTATTAAA
1 TTAA-TATTAAA
*
27289998 TTAAAATTAATA
1 TTAATATTAA-A
27290010 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
27290023 ATAATATTA
1 TTAATATTA
27290032 TTTTTCGAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 2 0.04
11 20 0.38
12 14 0.27
13 4 0.08
14 5 0.10
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:27289971 original size:20 final size:18
Alignment explanation
Indices: 27289924--27290030 Score: 62
Period size: 19 Copynumber: 5.8 Consensus size: 18
27289914 CAAGATAAAC
27289924 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
27289941 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
27289961 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
27289980 ATTAAGA-TAAGTA-TTAA-
1 ATTAA-ATTAA-TATTTAAT
*
27289997 ATTAAAATTAATATTAAACT
1 ATT-AAATTAATATTTAA-T
*
27290017 ATTAAAATAATATT
1 ATTAAATTAATATT
27290031 ATTTTTCGAA
Statistics
Matches: 70, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
17 14 0.20
18 11 0.16
19 24 0.34
20 21 0.30
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:27290005 original size:37 final size:36
Alignment explanation
Indices: 27289956--27290031 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
27289946 GATAATCACT
*
27289956 TTAATATTAAATTAATA-AAATACTATTAAGATAAGTA
1 TTAATATTAAATTAATATAAA-ACTATTAAAATAA-TA
*
27289993 TTAA-ATTAAAATTAATATTAAACTATTAAAATAATA
1 TTAATATT-AAATTAATATAAAACTATTAAAATAATA
27290029 TTA
1 TTA
27290032 TTTTTCGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 8 0.23
37 25 0.71
38 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (36 bp):
TTAATATTAAATTAATATAAAACTATTAAAATAATA
Found at i:27291628 original size:14 final size:15
Alignment explanation
Indices: 27291589--27291629 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
27291579 TGAAAAATAT
*
27291589 AAAATACATAATTTC
1 AAAAGACATAATTTC
*
27291604 AAAAGATATAATTTC
1 AAAAGACATAATTTC
27291619 -AAAGACATAAT
1 AAAAGACATAAT
27291630 AGTTAAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAGACATAATTTC
Found at i:27293046 original size:48 final size:48
Alignment explanation
Indices: 27292931--27293264 Score: 221
Period size: 48 Copynumber: 7.0 Consensus size: 48
27292921 GACAATTAGG
* * * * *
27292931 TGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGACATCTGC-C
1 TGATATGTGTACTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
** * * * *
27292978 ACATTATGAG-AGCCAGTGTAAGGCCATGTCTGGGACATGGCATTGGCGT
1 TGA-TATGTGTA-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
* * * * *
27293027 TGATATGTGTACTAATGTAAGACAATGTTTGGGACATGGCATTGGC-C
1 TGATATGTGTACTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
** * * * * * **
27293074 ACATTATGAG-AGCTAGTGTAAGGCCATGTTTGGGACAAGGAATCAACGT
1 TGA-TATGTGTA-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
* * *
27293123 TGATATGTGTGCTAGTGTAAAACCATGTCTGGGACATGGCATCGGCAT
1 TGATATGTGTACTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
* * * * * *
27293171 TGAGACGAG-AGCTAGTGTAAGACCAGGTTTGGGACATGGCATCGGCCT
1 TGATATGTGTA-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
* * * * *
27293219 CGACATGTG-AGCCAGTGTAAGATCATGTCTGGGATATGGCATCGGC
1 TGATATGTGTA-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
27293265 AATTTACCTA
Statistics
Matches: 217, Mismatches: 61, Indels: 17
0.74 0.21 0.06
Matches are distributed among these distances:
47 3 0.01
48 211 0.97
49 3 0.01
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (48 bp):
TGATATGTGTACTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
Found at i:27293095 original size:96 final size:96
Alignment explanation
Indices: 27292931--27293260 Score: 353
Period size: 96 Copynumber: 3.4 Consensus size: 96
27292921 GACAATTAGG
* * *
27292931 TGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGACATCT-GCCACATTATGAGAGCCAGT
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCAT-TGGCCACATTATGAGAGCTAGT
* ***
27292995 GTAAGGCCATGTCTGGGACATGGCATTGGCGT
65 GTAAGGCCATGTTTGGGACATGGCATCAACGT
* * * *
27293027 TGATATGTGTACTAATGTAAGACAATGTTTGGGACATGGCATTGGCCACATTATGAGAGCTAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCACATTATGAGAGCTAGTG
* *
27293092 TAAGGCCATGTTTGGGACAAGGAATCAACGT
66 TAAGGCCATGTTTGGGACATGGCATCAACGT
* * *
27293123 TGATATGTGTGCTAGTGTAAAACCATGTCTGGGACATGGCATCGG---CATTGAGACGAGAGCTA
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCACATT---ATGAGAGCTA
* * ** *
27293185 GTGTAAGACCAGGTTTGGGACATGGCATCGGCCT
63 GTGTAAGGCCATGTTTGGGACATGGCATCAACGT
* * * * * *
27293219 CGACATGTGAGCCAGTGTAAGATCATGTCTGGGATATGGCAT
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCAT
27293261 CGGCAATTTA
Statistics
Matches: 196, Mismatches: 34, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
93 4 0.02
95 1 0.01
96 191 0.97
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (96 bp):
TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCACATTATGAGAGCTAGTG
TAAGGCCATGTTTGGGACATGGCATCAACGT
Found at i:27293246 original size:144 final size:144
Alignment explanation
Indices: 27292992--27293252 Score: 328
Period size: 144 Copynumber: 1.8 Consensus size: 144
27292982 TATGAGAGCC
** * * * * * *
27292992 AGTGTAAGGCCATGTCTGGGACATGGCATTGGCGTTGATATGTGTACTAATGTAAGACAATGTTT
1 AGTGTAAAACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTACTAATGTAAGACAAGGTTT
* * * * *
27293057 GGGACATGGCATTGGCCACATTATGAGAGCTAGTGTAAGGCCATGTTTGGGACAAGGAATCAACG
66 GGGACATGGCATCGGCCACATCATGAGAGCCAGTGTAAGACCATGTCTGGGACAAGGAATCAACG
27293122 TTGATATGTGTGCT
131 TTGATATGTGTGCT
* *
27293136 AGTGTAAAACCATGTCTGGGACATGGCATCGGCATTGAGACGAG-AGCTAGTGTAAGACCAGGTT
1 AGTGTAAAACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTA-CTAATGTAAGACAAGGTT
* * *
27293200 TGGGACATGGCATCGGCCTCGA-CATGTGAGCCAGTGTAAGATCATGTCTGGGA
65 TGGGACATGGCATCGGCCAC-ATCATGAGAGCCAGTGTAAGACCATGTCTGGGA
27293253 TATGGCATCG
Statistics
Matches: 97, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
143 1 0.01
144 95 0.98
145 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.26
Consensus pattern (144 bp):
AGTGTAAAACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTACTAATGTAAGACAAGGTTT
GGGACATGGCATCGGCCACATCATGAGAGCCAGTGTAAGACCATGTCTGGGACAAGGAATCAACG
TTGATATGTGTGCT
Found at i:27296669 original size:19 final size:19
Alignment explanation
Indices: 27296633--27296669 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27296623 TAATTAGGCT
* *
27296633 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
27296652 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
27296670 GAAAAAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:27297270 original size:12 final size:12
Alignment explanation
Indices: 27297253--27297280 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
27297243 TAAAAGATAT
27297253 TTATTATAATTA
1 TTATTATAATTA
27297265 TTATTATAATTA
1 TTATTATAATTA
27297277 TTAT
1 TTAT
27297281 CGTTATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTATTATAATTA
Found at i:27297338 original size:14 final size:15
Alignment explanation
Indices: 27297321--27297349 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
27297311 GAAATGAAAT
27297321 AAAGAAAGAA-AGCA
1 AAAGAAAGAATAGCA
27297335 AAAGAAAGAATAGCA
1 AAAGAAAGAATAGCA
27297350 GAAGCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.07, G:0.21, T:0.03
Consensus pattern (15 bp):
AAAGAAAGAATAGCA
Found at i:27298315 original size:86 final size:80
Alignment explanation
Indices: 27298129--27298315 Score: 175
Period size: 78 Copynumber: 2.3 Consensus size: 80
27298119 AAAAGTGATT
* *
27298129 TGAATTAAGTAAT-TGAATAATTATGTGAATATTTGAAAGTATATTGATTGGAAACTAAAAGTGA
1 TGAATTAA--AATATGAATAAATATGTGAATATTTGAAAGTATATTGATTGAAAACTAAAAGTGA
*
27298193 TTTGAATTGAATCAAAT
64 TTTGAATTGAATCAAAA
* * * * *
27298210 TGAATT--GA-ATGAAGAAAATATGTGAGTATTTGAAATGTATATTGATTGAAAAGTAATTAGTG
1 TGAATTAAAATATGAA-TAAATATGTGAATATTTGAAA-GTATATTGATTGAAAACTAA-AAGTG
* *
27298272 ATTTGAATTTGATTGGAAAA
63 ATTTGAA-TTGAAT-CAAAA
27298292 TGAATTAAAAATATGAATTAAATA
1 TGAATT-AAAATATGAA-TAAATA
27298316 AAAGTTAATT
Statistics
Matches: 83, Mismatches: 13, Indels: 15
0.75 0.12 0.14
Matches are distributed among these distances:
77 5 0.06
78 18 0.22
79 18 0.22
80 11 0.13
81 11 0.13
82 9 0.11
85 1 0.01
86 10 0.12
ACGTcount: A:0.44, C:0.01, G:0.18, T:0.36
Consensus pattern (80 bp):
TGAATTAAAATATGAATAAATATGTGAATATTTGAAAGTATATTGATTGAAAACTAAAAGTGATT
TGAATTGAATCAAAA
Found at i:27298712 original size:23 final size:23
Alignment explanation
Indices: 27298680--27298767 Score: 99
Period size: 23 Copynumber: 3.9 Consensus size: 23
27298670 GGCTTTTCTG
* *
27298680 ATCAGACACTTTATGTGTCGTAT
1 ATCAGGCACCTTATGTGTCGTAT
*
27298703 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTTATGTGTCGTAT
* **
27298726 TTCAGGCACCTCGTGTGTCG--T
1 ATCAGGCACCTTATGTGTCGTAT
*
27298747 ATCAGGCACCTTGTGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
27298768 TTTAGGCACT
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
21 19 0.33
23 38 0.67
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (23 bp):
ATCAGGCACCTTATGTGTCGTAT
Found at i:27298751 original size:21 final size:21
Alignment explanation
Indices: 27298693--27298781 Score: 79
Period size: 21 Copynumber: 4.0 Consensus size: 21
27298683 AGACACTTTA
* **
27298693 TGTGTCGTATATCAGGCACTTTA
1 TGTGTCG--TATCAGGCACCTCG
27298716 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
*
27298739 TGTGTCGTATCAGGCACCTTG
1 TGTGTCGTATCAGGCACCTCG
* * *
27298760 TGTGTCGTTTTAGGCACTTCG
1 TGTGTCGTATCAGGCACCTCG
27298781 T
1 T
27298782 ATACTGATCA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
21 31 0.55
23 25 0.45
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.38
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:27298764 original size:44 final size:43
Alignment explanation
Indices: 27298693--27298781 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 43
27298683 AGACACTTTA
*
27298693 TGTGTCGTATATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCG
1 TGTGTCG-ATATCAGGCACCTTATGTGTCGT-TTT-AGGCACCTCG
* *
27298739 TGTGTCG-TATCAGGCACCTTGTGTGTCGTTTTAGGCACTTCG
1 TGTGTCGATATCAGGCACCTTATGTGTCGTTTTAGGCACCTCG
27298781 T
1 T
27298782 ATACTGATCA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
42 10 0.25
43 3 0.08
44 20 0.50
46 7 0.17
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.38
Consensus pattern (43 bp):
TGTGTCGATATCAGGCACCTTATGTGTCGTTTTAGGCACCTCG
Found at i:27303943 original size:14 final size:13
Alignment explanation
Indices: 27303911--27303943 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
27303901 CCACCTCACT
27303911 TCCTCATTTTTCA
1 TCCTCATTTTTCA
27303924 TCCTCATTTTTCA
1 TCCTCATTTTTCA
27303937 TCTCTCA
1 TC-CTCA
27303944 CTTTATACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.52
Consensus pattern (13 bp):
TCCTCATTTTTCA
Found at i:27315860 original size:12 final size:13
Alignment explanation
Indices: 27315841--27315877 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
27315831 TTTCACTTCA
27315841 AAATTTTTTTTCG
1 AAATTTTTTTTCG
* *
27315854 GATTTTTTTTTCG
1 AAATTTTTTTTCG
27315867 AAATTTTTTTT
1 AAATTTTTTTT
27315878 AAACTTGTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.19, C:0.05, G:0.08, T:0.68
Consensus pattern (13 bp):
AAATTTTTTTTCG
Found at i:27316280 original size:14 final size:14
Alignment explanation
Indices: 27316250--27316293 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
27316240 GAAGAAGAAA
27316250 GAAA-GGTACGAAC
1 GAAATGGTACGAAC
* *
27316263 GAAATGGTAGGAAT
1 GAAATGGTACGAAC
*
27316277 GAAATGGTATGAAC
1 GAAATGGTACGAAC
27316291 GAA
1 GAA
27316294 GGGATTTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 4 0.15
14 22 0.85
ACGTcount: A:0.45, C:0.07, G:0.32, T:0.16
Consensus pattern (14 bp):
GAAATGGTACGAAC
Found at i:27321028 original size:24 final size:24
Alignment explanation
Indices: 27321001--27321147 Score: 87
Period size: 24 Copynumber: 6.4 Consensus size: 24
27320991 TGGCGAGGGT
*
27321001 GGTGGTGGTGTCAGAGTAGGAGAG
1 GGTGGTGGTGTCATAGTAGGAGAG
* * *
27321025 GGTGGTGGTTTTATAGCAGGAGAG
1 GGTGGTGGTGTCATAGTAGGAGAG
*
27321049 GGAGGTGGT-T--TAGTA-GA-AG
1 GGTGGTGGTGTCATAGTAGGAGAG
* *
27321068 GTGATGGTGGTGCCACAGTAGGAGAG
1 G-G-TGGTGGTGTCATAGTAGGAGAG
* *
27321094 GGAGGTGGT-T--TATTAGGAG-G
1 GGTGGTGGTGTCATAGTAGGAGAG
* * *
27321114 TGATGGTGGTGCCACAGTAGGAGAG
1 -GGTGGTGGTGTCATAGTAGGAGAG
*
27321139 GGAGGTGGT
1 GGTGGTGGT
27321148 TGCGTTGCGG
Statistics
Matches: 91, Mismatches: 20, Indels: 24
0.67 0.15 0.18
Matches are distributed among these distances:
19 3 0.03
20 4 0.04
21 24 0.26
23 1 0.01
24 52 0.57
25 4 0.04
26 3 0.03
ACGTcount: A:0.22, C:0.05, G:0.49, T:0.24
Consensus pattern (24 bp):
GGTGGTGGTGTCATAGTAGGAGAG
Found at i:27321077 original size:45 final size:45
Alignment explanation
Indices: 27321042--27321148 Score: 196
Period size: 45 Copynumber: 2.4 Consensus size: 45
27321032 GTTTTATAGC
27321042 AGGAGAGGGAGGTGGTTTAGTAGAAGGTGATGGTGGTGCCACAGT
1 AGGAGAGGGAGGTGGTTTAGTAGAAGGTGATGGTGGTGCCACAGT
* *
27321087 AGGAGAGGGAGGTGGTTTATTAGGAGGTGATGGTGGTGCCACAGT
1 AGGAGAGGGAGGTGGTTTAGTAGAAGGTGATGGTGGTGCCACAGT
27321132 AGGAGAGGGAGGTGGTT
1 AGGAGAGGGAGGTGGTT
27321149 GCGTTGCGGG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.23, C:0.06, G:0.49, T:0.22
Consensus pattern (45 bp):
AGGAGAGGGAGGTGGTTTAGTAGAAGGTGATGGTGGTGCCACAGT
Found at i:27321133 original size:69 final size:69
Alignment explanation
Indices: 27320998--27321133 Score: 148
Period size: 69 Copynumber: 2.0 Consensus size: 69
27320988 AATTGGCGAG
* * * * ****
27320998 GGTGGTGGTGGTGTCAGAGTAGGAGAGGGTGGTGGTTTTATAGCAGGAGAGGGAGGTGGTTTAGT
1 GGTGATGGTGGTGCCACAGTAGGAGAGGGAGGTGGTTTTATAGCAGGAGAGGGAGGTGCCACAGT
27321063 AGAA
66 AGAA
* * * *
27321067 GGTGATGGTGGTGCCACAGTAGGAGAGGGAGGTGG-TTTATTAGGAGGTGATGGTGGTGCCACAG
1 GGTGATGGTGGTGCCACAGTAGGAGAGGGAGGTGGTTTTA-TAGCAGGAGAGGGAGGTGCCACAG
27321131 TAG
65 TAG
27321134 GAGAGGGAGG
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
68 4 0.07
69 50 0.93
ACGTcount: A:0.21, C:0.06, G:0.48, T:0.25
Consensus pattern (69 bp):
GGTGATGGTGGTGCCACAGTAGGAGAGGGAGGTGGTTTTATAGCAGGAGAGGGAGGTGCCACAGT
AGAA
Found at i:27322236 original size:19 final size:17
Alignment explanation
Indices: 27322221--27322270 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
27322211 ATTATTTCAC
27322221 AAAAATATTTTTATTTA
1 AAAAATATTTTTATTTA
* *
27322238 AAAAAAAATTTTAGTTTAA
1 AAAAATATTTTTA-TTT-A
27322257 AAAAATACTTTTTA
1 AAAAATA-TTTTTA
27322271 CATGCGGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 11 0.42
18 3 0.12
19 7 0.27
20 5 0.19
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
AAAAATATTTTTATTTA
Found at i:27322449 original size:22 final size:24
Alignment explanation
Indices: 27322399--27322442 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
27322389 GTTTTTAAGG
*
27322399 ATTGTTTAAAAATAATTTAATTCT
1 ATTGTTTAAAAATAATATAATTCT
27322423 ATTGTTT-AAAA-AATATAATT
1 ATTGTTTAAAAATAATATAATT
27322443 TTTTTGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 4 0.21
24 7 0.37
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (24 bp):
ATTGTTTAAAAATAATATAATTCT
Found at i:27322712 original size:23 final size:25
Alignment explanation
Indices: 27322684--27322740 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
27322674 AAAATAAGTT
27322684 TTAAATAAGT-TATAA-AGTATGCA
1 TTAAATAAGTATATAAGAGTATGCA
*
27322707 TTAAATAAATTATATAAGAGTATGCA
1 TTAAAT-AAGTATATAAGAGTATGCA
27322733 TTAAATAA
1 TTAAATAA
27322741 ACATATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 6 0.20
24 3 0.10
25 7 0.23
26 14 0.47
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.35
Consensus pattern (25 bp):
TTAAATAAGTATATAAGAGTATGCA
Found at i:27322746 original size:25 final size:25
Alignment explanation
Indices: 27322694--27322747 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 25
27322684 TTAAATAAGT
*
27322694 TATAAAGTATGCATTAAATAAATTA
1 TATAAAGTATGCATTAAATAAATCA
27322719 TATAAGAGTATGCATTAAATAAA-CA
1 TATAA-AGTATGCATTAAATAAATCA
27322744 TATA
1 TATA
27322748 TATTTAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (25 bp):
TATAAAGTATGCATTAAATAAATCA
Found at i:27324123 original size:27 final size:27
Alignment explanation
Indices: 27324051--27324126 Score: 70
Period size: 26 Copynumber: 2.9 Consensus size: 27
27324041 TGTTTATTGC
27324051 CTCGAC-GGACTACC-CATGTTTACTAT
1 CTCGACAGG-CTACCTCATGTTTACTAT
* * *
27324077 CTCGGA-AGACT-CCTCGTGTTTTCTAT
1 CTC-GACAGGCTACCTCATGTTTACTAT
*
27324103 CTCGACAGGCTACCTCTTGTTTAC
1 CTCGACAGGCTACCTCATGTTTAC
27324127 CATCCTAGCA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
25 4 0.10
26 22 0.56
27 13 0.33
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.34
Consensus pattern (27 bp):
CTCGACAGGCTACCTCATGTTTACTAT
Found at i:27330954 original size:20 final size:20
Alignment explanation
Indices: 27330930--27330985 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
27330920 AGGCTTTGAA
*
27330930 GTGCAAACAGAGGCATGATT
1 GTGCAATCAGAGGCATGATT
*
27330950 TTGCAATCAGAGGCATGATT
1 GTGCAATCAGAGGCATGATT
27330970 GTGCAATCAGAGGCAT
1 GTGCAATCAGAGGCAT
27330986 CGTAGTACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (20 bp):
GTGCAATCAGAGGCATGATT
Found at i:27338022 original size:48 final size:48
Alignment explanation
Indices: 27337970--27338066 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
27337960 TTGTTTGGCT
*
27337970 ATCATCTATTCTTGTTGGTGCCATTAACTTAGTGCCTTTGGTAAGTGA
1 ATCATCTATTCTTGTTGGTGCCATTAACTCAGTGCCTTTGGTAAGTGA
27338018 ATCATCTATTCTTGTTGGTGCCATTAACTCAGTGCCTTTGGTAAGTGA
1 ATCATCTATTCTTGTTGGTGCCATTAACTCAGTGCCTTTGGTAAGTGA
27338066 A
1 A
27338067 ACTCTTCATG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.40
Consensus pattern (48 bp):
ATCATCTATTCTTGTTGGTGCCATTAACTCAGTGCCTTTGGTAAGTGA
Found at i:27359132 original size:49 final size:49
Alignment explanation
Indices: 27359063--27359209 Score: 194
Period size: 47 Copynumber: 3.1 Consensus size: 49
27359053 GAAATGATAG
*
27359063 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
27359112 TAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
27359159 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
27359206 TAAG
1 TAAG
27359210 TCCCGAAGGG
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
47 48 0.56
48 1 0.01
49 37 0.43
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.27
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:27359371 original size:37 final size:37
Alignment explanation
Indices: 27359328--27359406 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
27359318 CCGAGCTCTA
* * *
27359328 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
* *
27359365 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
27359402 AAGAC
1 AAGAC
27359407 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
Found at i:27361276 original size:46 final size:46
Alignment explanation
Indices: 27361203--27361377 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 46
27361193 TGTAACCCGC
* * * * * *
27361203 CCATAATTGAAGTCGAACTCAAATCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTACAT
*
27361249 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAATTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-ATTTACAT
* * * *
27361299 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTACAT
* *
27361342 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
27361378 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
46 59 0.56
47 27 0.25
48 1 0.01
49 1 0.01
50 7 0.07
51 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTACAT
Found at i:27361397 original size:46 final size:46
Alignment explanation
Indices: 27361254--27361397 Score: 120
Period size: 46 Copynumber: 3.1 Consensus size: 46
27361244 CACATCCATA
* *
27361254 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAATTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-AA--CCATC-CT
* * * *
27361303 --CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCT
*
27361347 AGTGAACTCGGACTCAACTCAATGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
27361393 AGTGA
1 AGTGA
27361398 CATGTCACTT
Statistics
Matches: 75, Mismatches: 11, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
44 8 0.11
45 1 0.01
46 32 0.43
47 30 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:27366187 original size:25 final size:23
Alignment explanation
Indices: 27366142--27366196 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
27366132 AGTTAGTAAT
*
27366142 AAAGAAATGGAGAAAAAAAAAGA
1 AAAGAAAAGGAGAAAAAAAAAGA
*
27366165 GAAAGAAAAGGATGAAAACAAAAGA
1 -AAAGAAAAGGA-GAAAAAAAAAGA
27366190 AAA-AAAA
1 AAAGAAAA
27366197 TGTGTCCATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 4 0.14
24 13 0.46
25 11 0.39
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.04
Consensus pattern (23 bp):
AAAGAAAAGGAGAAAAAAAAAGA
Found at i:27367531 original size:40 final size:40
Alignment explanation
Indices: 27367441--27367625 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
27367431 TCGAATGATG
* * *
27367441 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
27367480 ATCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
27367521 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
27367560 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
27367599 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
27367626 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 36 0.29
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:27367647 original size:79 final size:79
Alignment explanation
Indices: 27367494--27367648 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
27367484 AGACTAAGAT
* **
27367494 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
27367559 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
27367573 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
27367636 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
27367649 ATTTCGAAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 41 0.61
80 24 0.36
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:27374540 original size:40 final size:41
Alignment explanation
Indices: 27374444--27374548 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
27374434 TGAATGATGT
*
27374444 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
* * * *
27374484 CCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTATAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCATAA
*
27374524 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
27374549 AACGAGTAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 46 0.84
41 8 0.15
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
Found at i:27381904 original size:40 final size:41
Alignment explanation
Indices: 27381811--27381915 Score: 133
Period size: 40 Copynumber: 2.6 Consensus size: 41
27381801 TGAATGATGT
*
27381811 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
* * * *
27381851 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
* *
27381891 CCGTGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
27381916 AACGAGTAGC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 49 0.88
41 7 0.12
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.27
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
Found at i:27384294 original size:25 final size:23
Alignment explanation
Indices: 27384249--27384303 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
27384239 AGTTAGTAAT
*
27384249 AAAGAAATGGAGAAAAAAAAAGA
1 AAAGAAAAGGAGAAAAAAAAAGA
*
27384272 GAAAGAAAAGGATGAAAACAAAAGA
1 -AAAGAAAAGGA-GAAAAAAAAAGA
27384297 AAA-AAAA
1 AAAGAAAA
27384304 TGTGTCCATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 4 0.14
24 13 0.46
25 11 0.39
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.04
Consensus pattern (23 bp):
AAAGAAAAGGAGAAAAAAAAAGA
Found at i:27385648 original size:39 final size:40
Alignment explanation
Indices: 27385548--27385732 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
27385538 TCGAATGATG
* * *
27385548 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
27385587 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * * *
27385628 TCCGAGCTAAG-CCCGAAGGCATTGGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
27385667 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
27385706 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
27385733 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 34 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:27385754 original size:79 final size:79
Alignment explanation
Indices: 27385601--27385755 Score: 181
Period size: 79 Copynumber: 2.0 Consensus size: 79
27385591 GGACTAAGAT
* ** *
27385601 CCGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGGCATTGGTGCGAGTTATTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
27385666 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * * *
27385680 CCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGAGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
27385743 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
27385756 ATTCCAAAGG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.61
80 23 0.36
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:27403320 original size:11 final size:10
Alignment explanation
Indices: 27403298--27403346 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
27403288 AAAATAAAAG
*
27403298 ATTTTATTTT
1 ATTTTTTTTT
27403308 ATTTTGTTTTT
1 ATTTT-TTTTT
*
27403319 ATTATTTTTT
1 ATTTTTTTTT
*
27403329 ATTTATTTTT
1 ATTTTTTTTT
27403339 ATTATTTT
1 ATT-TTTT
27403347 AGGATTAAGC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
10 21 0.66
11 11 0.34
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (10 bp):
ATTTTTTTTT
Found at i:27403337 original size:20 final size:21
Alignment explanation
Indices: 27403304--27403346 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
27403294 AAAGATTTTA
*
27403304 TTTTATTTTGTTTTTATTATT
1 TTTTATTTTATTTTTATTATT
27403325 TTTTA-TTTATTTTTATTATT
1 TTTTATTTTATTTTTATTATT
27403345 TT
1 TT
27403347 AGGATTAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.81
Consensus pattern (21 bp):
TTTTATTTTATTTTTATTATT
Found at i:27404240 original size:25 final size:25
Alignment explanation
Indices: 27404177--27404242 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 25
27404167 ACAAATCCCA
**
27404177 ATTTAATTTCTAATTTA-TTTAATT
1 ATTTAATTTCTAATCAATTTTAATT
* *
27404201 ATTT-A--TCTTAGCAATTTTAATT
1 ATTTAATTTCTAATCAATTTTAATT
27404223 ATTTAATTTCTAATCAATTT
1 ATTTAATTTCTAATCAATTT
27404243 CAAAATTCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
21 5 0.16
22 11 0.34
23 2 0.06
24 4 0.12
25 10 0.31
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.58
Consensus pattern (25 bp):
ATTTAATTTCTAATCAATTTTAATT
Found at i:27407856 original size:49 final size:50
Alignment explanation
Indices: 27407776--27408021 Score: 271
Period size: 49 Copynumber: 4.9 Consensus size: 50
27407766 ATCTATTGTG
* *
27407776 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
27407826 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * * * * **
27407876 CGATCACGTGTGTAATACTTAGTGCAAGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
27407926 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAAGT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
27407976 -GGTCGCATCTGTAGTACTAAGTGCATGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
27408022 GCTTTGGCTA
Statistics
Matches: 162, Mismatches: 32, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
49 82 0.51
50 44 0.27
51 36 0.22
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:27407965 original size:101 final size:100
Alignment explanation
Indices: 27407779--27407967 Score: 279
Period size: 100 Copynumber: 1.9 Consensus size: 100
27407769 TATTGTGAGG
* * * *
27407779 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAATACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
*
27407844 AAGTGCAGGCTACTATGTGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTACGTGTACCCGATAACTTCGA
* * ** *
27407879 TCACGTGTGTAATACTTAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAATACTAAGTGCAAGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTAC
27407944 TAAGTGCAGGCTACTACGTGTACC
65 TAAGTGCAGGCTACTACGTGTACC
27407968 AAATAAGTGG
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
100 40 0.51
101 38 0.49
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAATACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGTGTACCCGATAACTTCGA
Found at i:27416348 original size:15 final size:15
Alignment explanation
Indices: 27416328--27416358 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
27416318 ATTTGTCTAG
27416328 AATTAAAGGAACGTT
1 AATTAAAGGAACGTT
27416343 AATTAAAGGAACGTT
1 AATTAAAGGAACGTT
27416358 A
1 A
27416359 CTATCCTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.26
Consensus pattern (15 bp):
AATTAAAGGAACGTT
Found at i:27420067 original size:29 final size:28
Alignment explanation
Indices: 27420010--27420095 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
27420000 TACCTGTATC
* *
27420010 TGGCCCATTAAGCCCAATCAGATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
27420038 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* * *
27420067 TGGACCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
27420095 T
1 T
27420096 TCATGCTCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 26 0.52
29 24 0.48
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:27423052 original size:40 final size:40
Alignment explanation
Indices: 27423008--27423156 Score: 244
Period size: 40 Copynumber: 3.7 Consensus size: 40
27422998 GCTACTAGCT
*
27423008 CAAATGCCTTCGGGACTTAGCCCTGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
27423048 CAAATGCCTTCGGGACCTAGCCCGGTTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
27423088 CGAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
27423128 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
27423157 CAATCCGAAT
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:27432328 original size:40 final size:40
Alignment explanation
Indices: 27432237--27432406 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
27432227 TCCTCGTTCA
* * * * *
27432237 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
27432276 AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGTACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
27432316 AATGCCTTCGGGACTTAGCCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
27432356 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
27432396 AAGGCCTTCGG
1 AATGCCTTCGG
27432407 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:27432335 original size:79 final size:80
Alignment explanation
Indices: 27432237--27432383 Score: 242
Period size: 79 Copynumber: 1.9 Consensus size: 80
27432227 TCCTCGTTCA
* *
27432237 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACGTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGCTTTAATAACTCACACGAATGCCTTCGGGACGTAACCCGGAT
27432301 TTAACAACTCGTACG
66 TTAACAACTCGTACG
* * *
27432316 AATGCCTTCGGGACTTAGCCCGGCTTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGCTTTAATAACTCACACGAATGCCTTCGGGACGTAACCCGGAT
27432381 TTA
66 TTA
27432384 GTATCTCGCA
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
79 35 0.56
80 27 0.44
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACATAGCCCGGCTTTAATAACTCACACGAATGCCTTCGGGACGTAACCCGGAT
TTAACAACTCGTACG
Found at i:27432413 original size:80 final size:79
Alignment explanation
Indices: 27432235--27432406 Score: 236
Period size: 80 Copynumber: 2.2 Consensus size: 79
27432225 GCTCCTCGTT
* * *
27432235 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACGTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGCTTTAATAACTCACACAATGCCTTCGGGACGTAACCCGGA
*
27432300 TTTAACAACTCGTA
66 TTTAACAACTCGCA
* * *
27432314 CGAATGCCTTCGGGACTTAGCCCGGCTTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGCTTTAATAACTCACAC-AATGCCTTCGGGACGTAACCCGG
** *
27432379 ATTTAGTATCTCGCA
65 ATTTAACAACTCGCA
*
27432394 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
27432407 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
79 36 0.45
80 44 0.55
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGCTTTAATAACTCACACAATGCCTTCGGGACGTAACCCGGA
TTTAACAACTCGCA
Found at i:27432419 original size:40 final size:40
Alignment explanation
Indices: 27432235--27432459 Score: 195
Period size: 40 Copynumber: 5.7 Consensus size: 40
27432225 GCTCCTCGTT
* * * * *
27432235 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAAGGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCA
* * * * *
27432275 C-AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGTA
1 CAAAGGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCA
* * *
27432314 CGAATGCCTTCGGGACTTAGCCCGGCTTTAATAACTCGCA
1 CAAAGGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCA
* * * * *
27432354 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAAGGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCA
* * * ** *
27432394 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCGCTTAGCA
1 CAAAGGCCTTCGGGA-CTTAGCCCGGATTTAATAAC-TCGCA
27432435 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAAGGCCTTCGGGACTTAGCCCGGA
27432460 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
39 35 0.23
40 109 0.70
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAAGGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCA
Found at i:27434963 original size:26 final size:26
Alignment explanation
Indices: 27434909--27434963 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
27434899 TTTTAATCAA
* *
27434909 GAAGCTCACAAAAAGCCTTTAAATGG
1 GAAGCTCACAAAAAGCCATTAAATAG
* * *
27434935 GAAGCTCACGAAAAGGCATTAATTAG
1 GAAGCTCACAAAAAGCCATTAAATAG
27434961 GAA
1 GAA
27434964 CTTTGGATAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (26 bp):
GAAGCTCACAAAAAGCCATTAAATAG
Found at i:27439345 original size:26 final size:27
Alignment explanation
Indices: 27439316--27439367 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
27439306 ATCGAATGCC
* *
27439316 CACATGGCTTGG-GACATGGTCGTGTT
1 CACATGGCTTGGCCACATGGGCGTGTT
27439342 CACATGGCTTGGCCACATGGGCGTGT
1 CACATGGCTTGGCCACATGGGCGTGT
27439368 GTCCCCTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.15, C:0.23, G:0.35, T:0.27
Consensus pattern (27 bp):
CACATGGCTTGGCCACATGGGCGTGTT
Found at i:27448603 original size:29 final size:29
Alignment explanation
Indices: 27448555--27448648 Score: 138
Period size: 28 Copynumber: 3.3 Consensus size: 29
27448545 ATTGCATGAC
*
27448555 TATGAATGTG-TTTGGGCCTAACGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
27448583 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
* *
27448612 TATGAATGAGA-TTGGGCCTAGTGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
*
27448640 TATGCATGT
1 TATGAATGT
27448649 ATGTAGACTT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
28 33 0.55
29 27 0.45
ACGTcount: A:0.23, C:0.15, G:0.32, T:0.30
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGCCA
Found at i:27453115 original size:26 final size:26
Alignment explanation
Indices: 27453079--27453131 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
27453069 ACTCAAGGAG
27453079 AGTTAGATTCACGAGTTGATCTAATT
1 AGTTAGATTCACGAGTTGATCTAATT
27453105 AGTTAGATTCACGAGTTGATCTAATT
1 AGTTAGATTCACGAGTTGATCTAATT
27453131 A
1 A
27453132 AGGAAACTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (26 bp):
AGTTAGATTCACGAGTTGATCTAATT
Found at i:27459346 original size:27 final size:27
Alignment explanation
Indices: 27459316--27459374 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
27459306 CCTAAGAGAA
27459316 AAAAAAATTAAAAACTAAATTACAAAG
1 AAAAAAATTAAAAACTAAATTACAAAG
27459343 AAAAAAATTAAAAACTAAATTACAAAG
1 AAAAAAATTAAAAACTAAATTACAAAG
27459370 AAAAA
1 AAAAA
27459375 CTTAGAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.73, C:0.07, G:0.03, T:0.17
Consensus pattern (27 bp):
AAAAAAATTAAAAACTAAATTACAAAG
Found at i:27465338 original size:27 final size:27
Alignment explanation
Indices: 27465308--27465361 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
27465298 TCATACAACC
* *
27465308 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
27465335 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
27465362 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:27466633 original size:40 final size:40
Alignment explanation
Indices: 27466589--27466692 Score: 145
Period size: 40 Copynumber: 2.6 Consensus size: 40
27466579 CCAACCCAAT
* * * *
27466589 TGCCTTCGGGATTTAGCCCGGATATAACAACCAGCACAAA
1 TGCCTTCGGGACTTAACCCGAAAATAACAACCAGCACAAA
* *
27466629 TGCCTTCGGGACTTAACCCGAAAATAGCAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGAAAATAACAACCAGCACAAA
27466669 TGCCTTCGGGACTTAACCCAGAAA
1 TGCCTTCGGGACTTAACCC-GAAA
27466693 TAATCCTCAA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 53 0.93
41 4 0.07
ACGTcount: A:0.33, C:0.29, G:0.20, T:0.18
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGAAAATAACAACCAGCACAAA
Found at i:27471338 original size:27 final size:27
Alignment explanation
Indices: 27471308--27471485 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
27471298 ATATTGAGTC
* *
27471308 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
27471335 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
27471362 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
27471390 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
27471417 CGCACACTTAGTGCGT-CATATTCATTT
1 CGCACACTTAGTGC-TACATAATCAACT
* * *
27471444 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
27471471 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27471486 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:27471447 original size:82 final size:81
Alignment explanation
Indices: 27471329--27471484 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27471319 TGCTATATAA
* *
27471329 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
27471394 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
27471411 TCAATTCGCACACTTAGTGCGT-CATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGC-TACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
27471475 CACTTAGTGC
65 CACTTAGTGC
27471485 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:27472617 original size:53 final size:53
Alignment explanation
Indices: 27472537--27472642 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
27472527 ACCAAGAAAG
27472537 GAACTCATAGATATCAAGATGTGAGCAACTACCATTATTCATCTAAGTTTAGC
1 GAACTCATAGATATCAAGATGTGAGCAACTACCATTATTCATCTAAGTTTAGC
*
27472590 GAACTCATAGATATCGAGATGTGAGCAACTACCATTATTCATCTAAGTTTAGC
1 GAACTCATAGATATCAAGATGTGAGCAACTACCATTATTCATCTAAGTTTAGC
27472643 ATGAAACACA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (53 bp):
GAACTCATAGATATCAAGATGTGAGCAACTACCATTATTCATCTAAGTTTAGC
Found at i:27472643 original size:27 final size:27
Alignment explanation
Indices: 27472560--27472643 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
27472550 TCAAGATGTG
27472560 AGCAACTACCATTATTCATCTAAGTTT
1 AGCAACTACCATTATTCATCTAAGTTT
* * *
27472587 AGCGAACT--CA-TAGAT-ATC-GAGATGTG
1 AGC-AACTACCATTA-TTCATCTAAG-T-TT
27472613 AGCAACTACCATTATTCATCTAAGTTT
1 AGCAACTACCATTATTCATCTAAGTTT
27472640 AGCA
1 AGCA
27472644 TGAAACACAA
Statistics
Matches: 42, Mismatches: 6, Indels: 18
0.64 0.09 0.27
Matches are distributed among these distances:
24 2 0.05
25 10 0.24
26 7 0.17
27 11 0.26
28 10 0.24
29 2 0.05
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (27 bp):
AGCAACTACCATTATTCATCTAAGTTT
Found at i:27473020 original size:44 final size:44
Alignment explanation
Indices: 27472970--27473059 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
27472960 TTTCACGGCA
27472970 ATGGGGAGGGGAAGAAACAATTACACACATCCTTTCCTTTTTCC
1 ATGGGGAGGGGAAGAAACAATTACACACATCCTTTCCTTTTTCC
27473014 ATGGGGAGGGGAAGAAACAATTACACACATCCTTTCCTTTTTCC
1 ATGGGGAGGGGAAGAAACAATTACACACATCCTTTCCTTTTTCC
27473058 AT
1 AT
27473060 TTCTTTATTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (44 bp):
ATGGGGAGGGGAAGAAACAATTACACACATCCTTTCCTTTTTCC
Found at i:27490761 original size:19 final size:19
Alignment explanation
Indices: 27490737--27490776 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
27490727 CTTTTATTGA
27490737 ATTTAGAAAATAGTTTCTT
1 ATTTAGAAAATAGTTTCTT
27490756 ATTTAGAAAATAGTTTCTT
1 ATTTAGAAAATAGTTTCTT
27490775 AT
1 AT
27490777 CTCTCAAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (19 bp):
ATTTAGAAAATAGTTTCTT
Found at i:27504378 original size:16 final size:16
Alignment explanation
Indices: 27504357--27504389 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27504347 CTAGCATGGT
27504357 TTAA-TTGTGAATTTTA
1 TTAATTTGTG-ATTTTA
27504373 TTAATTTGTGATTTTA
1 TTAATTTGTGATTTTA
27504389 T
1 T
27504390 GAAATAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (16 bp):
TTAATTTGTGATTTTA
Found at i:27508840 original size:69 final size:70
Alignment explanation
Indices: 27508755--27508954 Score: 287
Period size: 72 Copynumber: 2.8 Consensus size: 70
27508745 ATACTATGTA
* * * *
27508755 GTAGCTAGGTCACATGTGTGAT-ACGGGATGTATC-CCATGTAGACAAGAGAGCTACGGGAGAGG
1 GTAGCTAGGTCGCATGTGTGATCAAGGGAAGCA-CACCATGTAGACAAGAGAGCTACGGGAGAGG
27508818 ATAAAT
65 ATAAAT
*
27508824 GTAGCTAGGTCGCATGTGTGATTCCAAGTGAAGCACACCATGTAGACAAGAGAGCTACGGGAGAG
1 GTAGCTAGGTCGCATGTGTGA-T-CAAGGGAAGCACACCATGTAGACAAGAGAGCTACGGGAGAG
27508889 GATAAAT
64 GATAAAT
*
27508896 GTAGCTAGGTCGCATGTGTGATTCCAAGTGAAGCACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGTGTGA-T-CAAGGGAAGCACACCATGTAGACAAGAGAGCTACG
27508955 AGATAAATTG
Statistics
Matches: 122, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
69 20 0.16
70 1 0.01
71 1 0.01
72 100 0.82
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGTGTGATCAAGGGAAGCACACCATGTAGACAAGAGAGCTACGGGAGAGGA
TAAAT
Found at i:27508875 original size:72 final size:72
Alignment explanation
Indices: 27508789--27508954 Score: 332
Period size: 72 Copynumber: 2.3 Consensus size: 72
27508779 GGGATGTATC
27508789 CCATGTAGACAAGAGAGCTACGGGAGAGGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTG
1 CCATGTAGACAAGAGAGCTACGGGAGAGGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTG
27508854 AAGCACA
66 AAGCACA
27508861 CCATGTAGACAAGAGAGCTACGGGAGAGGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTG
1 CCATGTAGACAAGAGAGCTACGGGAGAGGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTG
27508926 AAGCACA
66 AAGCACA
27508933 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
27508955 AGATAAATTG
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 94 1.00
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.19
Consensus pattern (72 bp):
CCATGTAGACAAGAGAGCTACGGGAGAGGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTG
AAGCACA
Found at i:27513025 original size:28 final size:28
Alignment explanation
Indices: 27512993--27513057 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
27512983 ATTTACTAGA
*
27512993 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
27513021 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
27513049 ATACCCCTA
1 ATACCCCTA
27513058 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:27513195 original size:28 final size:26
Alignment explanation
Indices: 27513163--27513252 Score: 90
Period size: 28 Copynumber: 3.2 Consensus size: 26
27513153 AGGAAGCGTC
27513163 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGC-ATGCCACAAA-TATCTGTT
* * **
27513191 TTGGTGGCCCTGCCACGTATATCTGTT
1 CTGGTGG-CATGCCACAAATATCTGTT
27513218 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCA-TGCCAC-AAATATCTGT-T
27513247 CTGGTG
1 CTGGTG
27513253 ACTCTGTCAC
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
26 1 0.02
27 20 0.40
28 21 0.42
29 8 0.16
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.33
Consensus pattern (26 bp):
CTGGTGGCATGCCACAAATATCTGTT
Found at i:27513222 original size:27 final size:28
Alignment explanation
Indices: 27513163--27513252 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 28
27513153 AGGAAGCGTC
*
27513163 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* * **
27513191 TTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
27513218 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
27513247 CTGGTG
1 CTGGTG
27513253 ACTCTGTCAC
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 21 0.42
29 7 0.14
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:27513263 original size:29 final size:28
Alignment explanation
Indices: 27513173--27513263 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
27513163 CTGGTGGCTA
* * * *
27513173 TGCCACAAATTATCTGTTTTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
27513201 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
27513228 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
27513257 TGTCACA
1 TGCCACA
27513264 TTTTCTGTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
27 22 0.43
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:27513271 original size:55 final size:56
Alignment explanation
Indices: 27513163--27513277 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
27513153 AGGAAGCGTC
* * * *
27513163 CTGGTGGCTATGCCACAAATTATCTGTTTTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
27513218 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
27513274 CTGG
1 CTGG
27513278 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.60
56 19 0.38
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:27514224 original size:6 final size:6
Alignment explanation
Indices: 27514213--27514238 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
27514203 GTGATATCAG
27514213 AGCCCA AGCCCA AGCCCA AGCCCA AG
1 AGCCCA AGCCCA AGCCCA AGCCCA AG
27514239 ATCCGGTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.46, G:0.19, T:0.00
Consensus pattern (6 bp):
AGCCCA
Found at i:27520512 original size:28 final size:28
Alignment explanation
Indices: 27520480--27520544 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
27520470 ATTTACTAGA
* *
27520480 ATACCCCTATGTATGGAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
27520508 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
*
27520536 ATATCCCTA
1 ATACCCCTA
27520545 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:27520681 original size:28 final size:26
Alignment explanation
Indices: 27520650--27520739 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 26
27520640 AGGAAGTGTC
27520650 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGC-ATGCCACAAA-TATCTGTT
* ** *
27520678 CTGGTGGCCCTGATACGTAA-ATCTGTT
1 CTGGTGG-CATGCCAC-AAATATCTGTT
27520705 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCA-TGCCAC-AAATATCTGT-T
27520734 CTGGTG
1 CTGGTG
27520740 ACTCTGTCAC
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
26 1 0.02
27 20 0.42
28 17 0.35
29 10 0.21
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.32
Consensus pattern (26 bp):
CTGGTGGCATGCCACAAATATCTGTT
Found at i:27538597 original size:33 final size:33
Alignment explanation
Indices: 27538555--27538662 Score: 180
Period size: 33 Copynumber: 3.3 Consensus size: 33
27538545 TCAATAACAT
* *
27538555 AGTATCAGTACAGTCTGGGCCAAAGCCCTATTC
1 AGTATCAGTACAGTCTGGGCCTAAGCCCTATAC
27538588 AGTATCAGTACAGTCTGGGCCTAAGCCCTATAC
1 AGTATCAGTACAGTCTGGGCCTAAGCCCTATAC
*
27538621 AGTATCAGTACAGTCTGGGCCTAAGCCCTATAT
1 AGTATCAGTACAGTCTGGGCCTAAGCCCTATAC
*
27538654 AGTAGCAGT
1 AGTATCAGT
27538663 GTGGGCCTAA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 71 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (33 bp):
AGTATCAGTACAGTCTGGGCCTAAGCCCTATAC
Found at i:27538662 original size:28 final size:28
Alignment explanation
Indices: 27538560--27538676 Score: 101
Period size: 33 Copynumber: 3.9 Consensus size: 28
27538550 AACATAGTAT
* *
27538560 CAGTA-CAGTCTGGGCCAAAGCCCTATT
1 CAGTAGCAGTCTGGGCCTAAGCCCTATA
27538587 CAGTATCAGTACAGTCTGGGCCTAAGCCCTATA
1 CAG--T-AG--CAGTCTGGGCCTAAGCCCTATA
27538620 CAGTATCAGTACAGTCTGGGCCTAAGCCCTATA
1 CAG--T-AG--CAGTCTGGGCCTAAGCCCTATA
* *
27538653 TAGTAGCAGTGTGGGCCTAAGCCC
1 CAGTAGCAGTCTGGGCCTAAGCCC
27538677 AATGGAGTAA
Statistics
Matches: 80, Mismatches: 4, Indels: 11
0.84 0.04 0.12
Matches are distributed among these distances:
27 3 0.04
28 17 0.21
29 1 0.01
30 3 0.04
31 1 0.01
33 55 0.69
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (28 bp):
CAGTAGCAGTCTGGGCCTAAGCCCTATA
Found at i:27538685 original size:28 final size:27
Alignment explanation
Indices: 27538594--27538685 Score: 76
Period size: 28 Copynumber: 3.1 Consensus size: 27
27538584 ATTCAGTATC
*
27538594 AGTACAGTCTGGGCCTAAGCCCTATACAGTATC
1 AGTACAGTCTGGGCCTAAGCCC---A-A-TA-G
* *
27538627 AGTACAGTCTGGGCCTAAGCCCTATAT
1 AGTACAGTCTGGGCCTAAGCCCAATAG
* *
27538654 AGTAGCAGTGTGGGCCTAAGCCCAATGG
1 AGTA-CAGTCTGGGCCTAAGCCCAATAG
27538682 AGTA
1 AGTA
27538686 ACAATATAGT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 4 0.08
28 25 0.48
29 1 0.02
33 22 0.42
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (27 bp):
AGTACAGTCTGGGCCTAAGCCCAATAG
Found at i:27539100 original size:27 final size:27
Alignment explanation
Indices: 27539053--27539111 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
27539043 TGTACCATAC
27539053 AGGGGTATTACGGCCACTTTACC-CTAT
1 AGGGGTATTACGGCCACTTTACCTCT-T
* **
27539080 AGGGGTATTACGGTCTTTTTACCTCTT
1 AGGGGTATTACGGCCACTTTACCTCTT
27539107 AGGGG
1 AGGGG
27539112 CATTTTAGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 26 0.93
28 2 0.07
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (27 bp):
AGGGGTATTACGGCCACTTTACCTCTT
Found at i:27539167 original size:27 final size:27
Alignment explanation
Indices: 27539132--27539196 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
27539122 ATTTCACCTA
* *
27539132 CAAGAGTATTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAAATCTACAAAC
* * *
27539159 CAAGGGTATTTTAGTAATTTTGCAAAC
1 CAAGGGTATTTTAGTAAATCTACAAAC
*
27539186 CAATGGTATTT
1 CAAGGGTATTT
27539197 CTATAATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAAATCTACAAAC
Found at i:27539203 original size:27 final size:27
Alignment explanation
Indices: 27539154--27539421 Score: 114
Period size: 27 Copynumber: 9.9 Consensus size: 27
27539144 GGTAAATCTA
27539154 CAAACCAAGGGTATTTTAGTAATTTTG
1 CAAACCAAGGGTATTTTAGTAATTTTG
*
27539181 CAAACCAATGGTATTTCTA-TAATTTTTAG
1 CAAACCAAGGGTATTT-TAGTAA-TTTT-G
* * * *
27539210 -AAAGTCAATGGTATTTTTGTAATTATG
1 CAAA-CCAAGGGTATTTTAGTAATTTTG
* * * *
27539237 TAAATCAGGGGTATTTCT-GTAATTTTC
1 CAAACCAAGGGTATTT-TAGTAATTTTG
** *
27539264 CAAATTAAGGGTATTTTAGTAATTTTA
1 CAAACCAAGGGTATTTTAGTAATTTTG
** ** * *
27539291 CAAGTCGGGGGTA-TTTCGATAATTTTA
1 CAAACCAAGGGTATTTTAG-TAATTTTG
* ***** * **
27539318 TAGGTTGAGGGTATTTCAGTAATTTCA
1 CAAACCAAGGGTATTTTAGTAATTTTG
** * *
27539345 CAAACCAAGAATATTTTTGTAATTTTA
1 CAAACCAAGGGTATTTTAGTAATTTTG
* * *
27539372 CAAACCAGGGGTATTTTGGTAATTTTA
1 CAAACCAAGGGTATTTTAGTAATTTTG
* * *
27539399 TAAACTAAAGGTA-TTTAGTAATT
1 CAAACCAAGGGTATTTTAGTAATT
27539422 CTACCCTACA
Statistics
Matches: 187, Mismatches: 44, Indels: 21
0.74 0.17 0.08
Matches are distributed among these distances:
26 14 0.07
27 138 0.74
28 20 0.11
29 15 0.08
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.41
Consensus pattern (27 bp):
CAAACCAAGGGTATTTTAGTAATTTTG
Found at i:27539447 original size:27 final size:27
Alignment explanation
Indices: 27539411--27539485 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
27539401 AACTAAAGGT
27539411 ATTT-AGTAATTCTACCCTACAAGGGC
1 ATTTCAGTAATTCTACCCTACAAGGGC
* *
27539437 ATTTCAGTAATTCTACCCTATAGGGGC
1 ATTTCAGTAATTCTACCCTACAAGGGC
* * *
27539464 AATTCAGTAATACTAGCCTACA
1 ATTTCAGTAATTCTACCCTACA
27539486 GATATGAGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 4 0.10
27 38 0.90
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.31
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTACAAGGGC
Found at i:27543133 original size:46 final size:46
Alignment explanation
Indices: 27543066--27543237 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
27543056 AACCCGCCCC
*
27543066 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* * *
27543112 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * * *
27543160 TCA-CGAACTCGGACTCAACTCAATGAGTTTGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
27543205 TAAGTGAACTTGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
27543238 ATGCTCAACC
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 56 0.55
47 27 0.27
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:27543178 original size:93 final size:93
Alignment explanation
Indices: 27543071--27543241 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
27543061 GCCCCTAAGT
* *
27543071 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
27543136 CGAGTTTGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * * *
27543164 GAACTCGGACTCAACTCAATGAGTTTGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27543229 CGAGTTCGGATGC
66 CGAGTTCGGATGC
27543242 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:27545679 original size:17 final size:16
Alignment explanation
Indices: 27545654--27545700 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
27545644 AGAGGATTTG
*
27545654 GAAATGAGTTAGAAAAA
1 GAAAAGAGTT-GAAAAA
*
27545671 GAAACGAG-TGAAAAA
1 GAAAAGAGTTGAAAAA
*
27545686 GAAAAGAGTGGAAAA
1 GAAAAGAGTTGAAAA
27545701 GAAGAAAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 13 0.50
16 6 0.23
17 7 0.27
ACGTcount: A:0.60, C:0.02, G:0.28, T:0.11
Consensus pattern (16 bp):
GAAAAGAGTTGAAAAA
Found at i:27545699 original size:16 final size:15
Alignment explanation
Indices: 27545665--27545703 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
27545655 AAATGAGTTA
*
27545665 GAAAAAGAAACGAGT
1 GAAAAAGAAAAGAGT
27545680 GAAAAAGAAAAGAGT
1 GAAAAAGAAAAGAGT
*
27545695 GGAAAAGAA
1 GAAAAAGAA
27545704 GAAAGTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.64, C:0.03, G:0.28, T:0.05
Consensus pattern (15 bp):
GAAAAAGAAAAGAGT
Found at i:27549342 original size:9 final size:9
Alignment explanation
Indices: 27549328--27549363 Score: 72
Period size: 9 Copynumber: 4.0 Consensus size: 9
27549318 CTATAAACAA
27549328 TTATATCAT
1 TTATATCAT
27549337 TTATATCAT
1 TTATATCAT
27549346 TTATATCAT
1 TTATATCAT
27549355 TTATATCAT
1 TTATATCAT
27549364 CAAACATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (9 bp):
TTATATCAT
Found at i:27558206 original size:46 final size:46
Alignment explanation
Indices: 27558156--27558328 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
27558146 TGGTTGAGCA
*
27558156 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
27558202 TCCGAACTCGTTGAGTTAAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * **
27558249 TCCAAACTCGTTGATTTGAGTCCGAGTTCGTTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
27558295 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
27558329 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 55 0.54
47 26 0.26
48 3 0.03
50 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:27558317 original size:93 final size:93
Alignment explanation
Indices: 27558153--27558323 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
27558143 GGATGGTTGA
* *
27558153 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
27558218 TAAGTCCGAGTTCGTGAGATGTAACTAG
66 TAAGTCCGAGTTCGTGAGATGTAACTAG
* ** *
27558246 GCATCCAAACTCGTTGATTTGAGTCCGAGTTCGTTTATGGATGCAAACG-CCTGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCGTTGAG
*
27558310 TTGAGTCCGAGTTC
65 TTAAGTCCGAGTTC
27558324 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TAAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:27565801 original size:46 final size:46
Alignment explanation
Indices: 27565748--27565920 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
27565738 TGGTTGAGCA
*
27565748 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAACG
* * * ** *
27565794 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATATAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGA-AT-GC-AAACG
* * *
27565841 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAACG
* * * *
27565887 CCCGAGCTCGTTGAGTTGAGTCCAAGGTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
27565921 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
44 2 0.02
45 4 0.04
46 60 0.59
47 31 0.30
48 4 0.04
49 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAACG
Found at i:27576490 original size:50 final size:50
Alignment explanation
Indices: 27576415--27576640 Score: 271
Period size: 50 Copynumber: 4.5 Consensus size: 50
27576405 TGAGTACACG
* *
27576415 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
* * **
27576465 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-TCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTAAGTCACA
* * *
27576516 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGTCACA
* * * *
27576566 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATT-GGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
27576615 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
27576641 TGCATATCAG
Statistics
Matches: 153, Mismatches: 16, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 35 0.23
50 73 0.48
51 36 0.24
52 3 0.02
53 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
Found at i:27576652 original size:99 final size:100
Alignment explanation
Indices: 27576415--27576640 Score: 314
Period size: 101 Copynumber: 2.3 Consensus size: 100
27576405 TGAGTACACG
* * * *
27576415 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGTGAAGTCACATGTGTAGTACTAAGT
*
27576480 GCAGGCTACTATGCGTACTCAATGACTTCGATCACA
65 GCAGGCTACTACGCGTACTCAATGACTTCGATCACA
*
27576516 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GTGAAGTCACATGTGTAGTACTAAGT
* * * *
27576581 GCAGGCTACTACGTGTAC-CGGATTA-TT-GGTCACA
65 GCAGGCTACTACGCGTACTC-AATGACTTCGATCACA
27576615 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
27576641 TGCATATCAG
Statistics
Matches: 113, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
99 32 0.28
100 4 0.04
101 77 0.68
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGTGAAGTCACATGTGTAGTACTAAGTG
CAGGCTACTACGCGTACTCAATGACTTCGATCACA
Found at i:27588934 original size:46 final size:45
Alignment explanation
Indices: 27588763--27588934 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 45
27588753 CTCATAGCCT
27588763 ATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCAA-GGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGC-T-CGTCTCAATGGCCG
* * * * *
27588809 ATGCATGTCCTAGATACGTCTTACACTAGCACTCGTCTCAAT-GCTG
1 ATGCATGTCCCAGACATGTCTTACACT-G-GCTCGTCTCAATGGCCG
* * * *
27588855 ATACCGTGTCCCAGATATGGTCTTACACTGGCTC-TCATAATATGGCCG
1 AT-GCATGTCCCAGACAT-GTCTTACACTGGCTCGTC-TCA-ATGGCCG
27588903 ATGCATGTCCCAGACATGTCTTACACTGGCTC
1 ATGCATGTCCCAGACATGTCTTACACTGGCTC
27588935 ACACAAGTAA
Statistics
Matches: 103, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
45 2 0.02
46 57 0.55
47 28 0.27
48 16 0.16
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTCGTCTCAATGGCCG
Found at i:27592341 original size:23 final size:25
Alignment explanation
Indices: 27592304--27592350 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
27592294 GGTGTGAAAA
27592304 TTTAATTTTTATAATTCTTT-GAATT
1 TTTAATTTTTATAATT-TTTAGAATT
27592329 TTTAA-TTTT-TAATTTTTAGAAT
1 TTTAATTTTTATAATTTTTAGAAT
27592351 CCAAATCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 3 0.14
23 9 0.43
24 4 0.19
25 5 0.24
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (25 bp):
TTTAATTTTTATAATTTTTAGAATT
Found at i:27592344 original size:6 final size:7
Alignment explanation
Indices: 27592304--27592346 Score: 50
Period size: 7 Copynumber: 5.6 Consensus size: 7
27592294 GGTGTGAAAA
27592304 TTTAATTT
1 TTTAA-TT
27592312 TTATAATT
1 TT-TAATT
27592320 CTTTGAATT
1 -TTT-AATT
27592329 TTTAATT
1 TTTAATT
27592336 TTTAATT
1 TTTAATT
27592343 TTTA
1 TTTA
27592347 GAATCCAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
7 15 0.47
8 8 0.25
9 9 0.28
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (7 bp):
TTTAATT
Found at i:27601343 original size:38 final size:38
Alignment explanation
Indices: 27601284--27601541 Score: 266
Period size: 38 Copynumber: 6.8 Consensus size: 38
27601274 CATTATTCGA
* * * * ** *
27601284 GCTCTGTTCCTAGTAGGCTTTGTGCTGGTGATATTTGA
1 GCTCTGTGCCTAGCAAGCTTCGTGCCAGTGATATTTGG
* * * **
27601322 GCCCTGTGCCTAGCAAGCTTTGTGTCAGTGATATTCAG
1 GCTCTGTGCCTAGCAAGCTTCGTGCCAGTGATATTTGG
* * * *
27601360 GCTCTGTGTCC-AGCAGGCTTCGTACCGGTGATATTCGG
1 GCTCTGTG-CCTAGCAAGCTTCGTGCCAGTGATATTTGG
*
27601398 GCTCTGTGCCTAGCAAGCTTCATGCCAGTGATATTTGG
1 GCTCTGTGCCTAGCAAGCTTCGTGCCAGTGATATTTGG
* * * *
27601436 GCTTTATGCCCAGCAAGCTTCGGGCCAGTGATATTTGG
1 GCTCTGTGCCTAGCAAGCTTCGTGCCAGTGATATTTGG
* ** * *
27601474 GCTCTGTGCCTAGCAGGCTTTTTGCCTGTTATATTTGG
1 GCTCTGTGCCTAGCAAGCTTCGTGCCAGTGATATTTGG
27601512 GCTCTGTGCCTAGCAAGCTTCGTGCCAGTG
1 GCTCTGTGCCTAGCAAGCTTCGTGCCAGTG
27601542 TTGTAACACC
Statistics
Matches: 177, Mismatches: 41, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
37 2 0.01
38 173 0.98
39 2 0.01
ACGTcount: A:0.15, C:0.23, G:0.28, T:0.33
Consensus pattern (38 bp):
GCTCTGTGCCTAGCAAGCTTCGTGCCAGTGATATTTGG
Found at i:27601477 original size:114 final size:114
Alignment explanation
Indices: 27601328--27601541 Score: 295
Period size: 114 Copynumber: 1.9 Consensus size: 114
27601318 TTGAGCCCTG
* * * *
27601328 TGCCTAGCAAGCTTTGTGTCAGTGATATTCAGGCTCTGTGTCC-AGCAGGCTTCGTACCGGTGAT
1 TGCCCAGCAAGCTTCGGGCCAGTGATATTCAGGCTCTGTG-CCTAGCAGGCTTCGTACCGGTGAT
27601392 ATTCGGGCTCTGTGCCTAGCAAGCTTCATGCCAGTGATATTTGGGCTTTA
65 ATTCGGGCTCTGTGCCTAGCAAGCTTCATGCCAGTGATATTTGGGCTTTA
** ** * * *
27601442 TGCCCAGCAAGCTTCGGGCCAGTGATATTTGGGCTCTGTGCCTAGCAGGCTTTTTGCCTGTTATA
1 TGCCCAGCAAGCTTCGGGCCAGTGATATTCAGGCTCTGTGCCTAGCAGGCTTCGTACCGGTGATA
* *
27601507 TTTGGGCTCTGTGCCTAGCAAGCTTCGTGCCAGTG
66 TTCGGGCTCTGTGCCTAGCAAGCTTCATGCCAGTG
27601542 TTGTAACACC
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
113 2 0.02
114 84 0.98
ACGTcount: A:0.16, C:0.24, G:0.28, T:0.32
Consensus pattern (114 bp):
TGCCCAGCAAGCTTCGGGCCAGTGATATTCAGGCTCTGTGCCTAGCAGGCTTCGTACCGGTGATA
TTCGGGCTCTGTGCCTAGCAAGCTTCATGCCAGTGATATTTGGGCTTTA
Found at i:27603322 original size:57 final size:57
Alignment explanation
Indices: 27603229--27603385 Score: 167
Period size: 57 Copynumber: 2.8 Consensus size: 57
27603219 ATCATATAGC
* * * *
27603229 AGGATTACCACTCCAAGCTAAATCTCGT-CTT-CAACATATGCTCACAAGAGCTTAATT
1 AGGATTACCAGTCCAAGCTAAATC-C-TAATTATAACATATGCTCACAAGAGCTCAATT
* * * * * *
27603286 AGGATTACTAGTCTAGGCTAAATCCT-TTCTATAACATATGTTCAGAAGAGCTCAATT
1 AGGATTACCAGTCCAAGCTAAATCCTAAT-TATAACATATGCTCACAAGAGCTCAATT
*
27603343 AGGATTACCAGTCCAAGCTAAATCCTAATTGTAACATATGCTC
1 AGGATTACCAGTCCAAGCTAAATCCTAATTATAACATATGCTC
27603386 GAGAGGGATT
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
55 2 0.02
56 2 0.02
57 77 0.94
58 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (57 bp):
AGGATTACCAGTCCAAGCTAAATCCTAATTATAACATATGCTCACAAGAGCTCAATT
Done.