Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 112 of 135
Found at i:38144569 original size:14 final size:14
Alignment explanation
Indices: 38144550--38144585 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
38144540 AGCCTAATAC
*
38144550 AAAAAAGAGAAGAA
1 AAAAAAGAAAAGAA
38144564 AAAAAAGAAAAGAA
1 AAAAAAGAAAAGAA
38144578 AGAAAAAG
1 A-AAAAAG
38144586 TCAAAGGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAGAA
Found at i:38146648 original size:98 final size:99
Alignment explanation
Indices: 38146491--38146938 Score: 348
Period size: 99 Copynumber: 4.5 Consensus size: 99
38146481 CGTAATGGCA
* * * * * *
38146491 AACCCGGTACCTCAAAAGATATGATGAGAATGATTGAGGCCGCAACGGCAAATCTGATACCATGA
1 AACCCGGTACCTTAAAAGATATGATGGGAAGGATTGAGGCCGCAACGACGAATCCGATACCATGA
* *
38146556 A-ATGTAATAGGAAAGATTGAGGTCGCAACGGCG
66 AGATGTGATAGGAAAGATTGAGGTCGCAACAGCG
* * *
38146589 AACCTGGTACCTTAGAAGATATGATGGGAAGGATTGAGGCCACAACGACGAATCCGATACCATGA
1 AACCCGGTACCTTAAAAGATATGATGGGAAGGATTGAGGCCGCAACGACGAATCCGATACCATGA
* * * * *
38146654 AGATATGATGGGAAAGGTTGAGGTCGTAATAGCG
66 AGATGTGATAGGAAAGATTGAGGTCGCAACAGCG
* * * * * * * * *
38146688 AACCCAGTACCAT-GAAGATATGAAGGGAAAGG-TTAAGGCCGCAATGGCGAACTCAG-TACCTT
1 AACCCGGTACCTTAAAAGATATGATGGG-AAGGATTGAGGCCGCAACGACGAA-TCCGATACCAT
* * * *
38146750 AAAAGATGTGATAGGAAGGATTGAGGCCGCAACAACG
64 -GAAGATGTGATAGGAAAGATTGAGGTCGCAACAGCG
* * * * * * *
38146787 AACTCGATACCTTTAAAAGATATGATTGGAAGGGTTGAGACCGCAACGACGGATCCAATACCATG
1 AACCCGGTACC-TTAAAAGATATGATGGGAAGGATTGAGGCCGCAACGACGAATCCGATACCATG
** * * * * * *
38146852 AAGACATGAAACGAAAGGTTAAGGCCGTAAC-GACG
65 AAGATGTGATAGGAAAGATTGAGGTCGCAACAG-CG
** * * * * * *
38146887 AACCTAGCACGTTAAAATATATGATGAGAATGATTGAGGTCGCAACGACGAA
1 AACCCGGTACCTTAAAAGATATGATGGGAAGGATTGAGGCCGCAACGACGAA
38146939 CCTGGTATCT
Statistics
Matches: 267, Mismatches: 74, Indels: 17
0.75 0.21 0.05
Matches are distributed among these distances:
98 90 0.34
99 110 0.41
100 37 0.14
101 30 0.11
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.19
Consensus pattern (99 bp):
AACCCGGTACCTTAAAAGATATGATGGGAAGGATTGAGGCCGCAACGACGAATCCGATACCATGA
AGATGTGATAGGAAAGATTGAGGTCGCAACAGCG
Found at i:38146780 original size:50 final size:50
Alignment explanation
Indices: 38146456--38147336 Score: 311
Period size: 49 Copynumber: 17.8 Consensus size: 50
38146446 AGAAAACATT
* * * * * * *
38146456 AAGATATGA-AGGAAAAGG-TTGAGGCCGTAATGGCAAACCCGGTACCTCAA
1 AAGATATGATAGG--AAGGATTGAGGCCGCAACGGCGAACTCAGTACCTTAG
* * * *
38146506 AAGATATGAT-GAGAATGATTGAGGCCGCAACGGC-AAATCTGATACCAT-G
1 AAGATATGATAG-GAAGGATTGAGGCCGCAACGGCGAACTCAG-TACCTTAG
* * * * *
38146555 AA-ATGTAATAGGAAAGATTGAGGTCGCAACGGCGAAC-CTGGTACCTTAG
1 AAGATATGATAGGAAGGATTGAGGCCGCAACGGCGAACTC-AGTACCTTAG
* * * * *
38146604 AAGATATGATGGGAAGGATTGAGGCCACAACGACGAA-TCCGATACCAT-G
1 AAGATATGATAGGAAGGATTGAGGCCGCAACGGCGAACTCAG-TACCTTAG
* * * ** * *
38146653 AAGATATGATGGGAAAGG-TTGAGGTCGTAATAGCGAACCCAGTACCAT-G
1 AAGATATGATAGG-AAGGATTGAGGCCGCAACGGCGAACTCAGTACCTTAG
* * *
38146702 AAGATATGA-AGGGAAAGG-TTAAGGCCGCAATGGCGAACTCAGTACCTTAA
1 AAGATATGATA-GG-AAGGATTGAGGCCGCAACGGCGAACTCAGTACCTTAG
* ** *
38146752 AAGATGTGATAGGAAGGATTGAGGCCGCAACAACGAACTC-GATACCTTTAA
1 AAGATATGATAGGAAGGATTGAGGCCGCAACGGCGAACTCAG-TACC-TTAG
* * * * * * *
38146803 AAGATATGATTGGAAGGGTTGAGACCGCAACGACGGA-TCCAATACCAT-G
1 AAGATATGATAGGAAGGATTGAGGCCGCAACGGCGAACT-CAGTACCTTAG
* * * * * * * * *
38146852 AAGACATGAAACGAAAGG-TTAAGGCCGTAACGACGAAC-CTAGCACGTTAA
1 AAGATATGATA-GGAAGGATTGAGGCCGCAACGGCGAACTC-AGTACCTTAG
* * * * * * *
38146902 AATATATGAT-GAGAATGATTGAGGTCGCAACGACGAAC-CTGGTATCTTTAA
1 AAGATATGATAG-GAAGGATTGAGGCCGCAACGGCGAACTC-AGTA-CCTTAG
* * * *
38146953 AAGATATGAT-GAGAATGATTGAGGCCGCAATGGCGAA-TCCGATACCAT-G
1 AAGATATGATAG-GAAGGATTGAGGCCGCAACGGCGAACTCAG-TACCTTAG
* * * * **
38147002 AA-ATGTAATGGGAAAGG-TTGAGGCCGCAACGG-TACACTTGGTACCTTAG
1 AAGATATGATAGG-AAGGATTGAGGCCGCAACGGCGA-ACTCAGTACCTTAG
* * * * * *
38147051 AAGATATGATGGGAAAGATTGAGGCCACAACGACGAA-TCCGATACCAT-G
1 AAGATATGATAGGAAGGATTGAGGCCGCAACGGCGAACTCAG-TACCTTAG
* * * * * * * *
38147100 AAGATATAACAGGAAAGG-TTGTGGCCGTAACAGCTAACCCAGTACCAT-G
1 AAGATATGATAGG-AAGGATTGAGGCCGCAACGGCGAACTCAGTACCTTAG
* * * * *
38147149 AAGATATGA-AGAGAAAGG-TTAATGCCGCAATGACGAACTCAGTACCTTAA
1 AAGATATGATAG-G-AAGGATTGAGGCCGCAACGGCGAACTCAGTACCTTAG
* * * ** * * *
38147199 AAGATGTGATGGGAAGGATTGATGCCGCAACAACGAACCCGGTACCTTTAA
1 AAGATATGATAGGAAGGATTGAGGCCGCAACGGCGAACTCAGTACC-TTAG
* * * * * *
38147250 AATATATGATGGGAAGGGTTGAGACCGCAACGGCGGA-TCCAGTACCAT-G
1 AAGATATGATAGGAAGGATTGAGGCCGCAACGGCGAACT-CAGTACCTTAG
** * * *
38147299 AAGACCTGAAAGGAAAGG-TTAAGGCCGCAACGACGAAC
1 AAGATATGATAGG-AAGGATTGAGGCCGCAACGGCGAAC
38147337 CTAGCACGTT
Statistics
Matches: 626, Mismatches: 156, Indels: 98
0.71 0.18 0.11
Matches are distributed among these distances:
47 1 0.00
48 61 0.10
49 234 0.37
50 206 0.33
51 124 0.20
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.19
Consensus pattern (50 bp):
AAGATATGATAGGAAGGATTGAGGCCGCAACGGCGAACTCAGTACCTTAG
Found at i:38146848 original size:51 final size:50
Alignment explanation
Indices: 38146735--38146833 Score: 135
Period size: 51 Copynumber: 2.0 Consensus size: 50
38146725 GCCGCAATGG
* * *
38146735 CGAACTCAGTACCTTAAAAGATGTGATAGGAAGGATTGAGGCCGCAACAA
1 CGAACTCAATACCTTAAAAGATATGATAGGAAGGATTGAGACCGCAACAA
* * *
38146785 CGAACTCGATACCTTTAAAAGATATGATTGGAAGGGTTGAGACCGCAAC
1 CGAACTCAATACC-TTAAAAGATATGATAGGAAGGATTGAGACCGCAAC
38146834 GACGGATCCA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 11 0.26
51 31 0.74
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.20
Consensus pattern (50 bp):
CGAACTCAATACCTTAAAAGATATGATAGGAAGGATTGAGACCGCAACAA
Found at i:38146889 original size:150 final size:150
Alignment explanation
Indices: 38146504--38147336 Score: 684
Period size: 150 Copynumber: 5.6 Consensus size: 150
38146494 CCGGTACCTC
* * * * * *
38146504 AAAAGATATGATGAGAATGATTGAGGCCGCAACGGCAAAT-CTGATACCATG-A-A-ATGTAATA
1 AAAAGATATGATGGGAAAGGTTGAGGCCGCAACGACGAATCCAG-TACCATGAAGACATG-AA-A
* * * * * *
38146565 GGAAAGATTGAGGTCGCAACGGCGAAC-CTGGTACCTTAGAAGATATGATGGGAAGGATTGAGGC
63 GGAAAGGTTAAGGCCGCAACGACGAACTC-AGTACCTTAAAAGATATGATGGGAAGGATTGAGGC
* *
38146629 CACAACGACGAA-TCCGATACC-AT
127 CGCAACGACGAACT-CGATACCTTT
* * * * * * *
38146652 -GAAGATATGATGGGAAAGGTTGAGGTCGTAA-TAGCGAACCCAGTACCATGAAGATATGAAGGG
1 AAAAGATATGATGGGAAAGGTTGAGGCCGCAACGA-CGAATCCAGTACCATGAAGACATGAAAGG
* * * *
38146715 AAAGGTTAAGGCCGCAATGGCGAACTCAGTACCTTAAAAGATGTGATAGGAAGGATTGAGGCCGC
65 AAAGGTTAAGGCCGCAACGACGAACTCAGTACCTTAAAAGATATGATGGGAAGGATTGAGGCCGC
*
38146780 AACAACGAACTCGATACCTTT
130 AACGACGAACTCGATACCTTT
* * * * * *
38146801 AAAAGATATGATTGGAAGGGTTGAGACCGCAACGACGGATCCAATACCATGAAGACATGAAACGA
1 AAAAGATATGATGGGAAAGGTTGAGGCCGCAACGACGAATCCAGTACCATGAAGACATGAAAGGA
* * * * * * *
38146866 AAGGTTAAGGCCGTAACGACGAAC-CTAGCACGTTAAAATATATGATGAGAATGATTGAGGTCGC
66 AAGGTTAAGGCCGCAACGACGAACTC-AGTACCTTAAAAGATATGATGGGAAGGATTGAGGCCGC
* *
38146930 AACGACGAAC-CTGGTATCTTT
130 AACGACGAACTC-GATACCTTT
* * * * * *
38146951 AAAAGATATGATGAGAATGATTGAGGCCGCAATGGCGAATCC-GATACCATG-A-A-ATGTAATG
1 AAAAGATATGATGGGAAAGGTTGAGGCCGCAACGACGAATCCAG-TACCATGAAGACATG-AA-A
* ** * *
38147012 GGAAAGGTTGAGGCCGCAACG--GTACACTTGGTACCTTAGAAGATATGATGGGAAAGATTGAGG
63 GGAAAGGTTAAGGCCGCAACGACG-A-ACTCAGTACCTTAAAAGATATGATGGGAAGGATTGAGG
* *
38147075 CCACAACGACGAA-TCCGATACC-AT
126 CCGCAACGACGAACT-CGATACCTTT
* * ** * * * * *
38147099 -GAAGATATAACAGGAAAGGTTGTGGCCGTAAC-AGCTAACCCAGTACCATGAAGATATG-AAGA
1 AAAAGATATGATGGGAAAGGTTGAGGCCGCAACGA-CGAATCCAGTACCATGAAGACATGAAAG-
* * * *
38147161 GAAAGGTTAATGCCGCAATGACGAACTCAGTACCTTAAAAGATGTGATGGGAAGGATTGATGCCG
64 GAAAGGTTAAGGCCGCAACGACGAACTCAGTACCTTAAAAGATATGATGGGAAGGATTGAGGCCG
* * *
38147226 CAACAACGAACCCGGTACCTTT
129 CAACGACGAACTCGATACCTTT
* * * * * *
38147248 AAAATATATGATGGGAAGGGTTGAGACCGCAACGGCGGATCCAGTACCATGAAGACCTGAAAGGA
1 AAAAGATATGATGGGAAAGGTTGAGGCCGCAACGACGAATCCAGTACCATGAAGACATGAAAGGA
38147313 AAGGTTAAGGCCGCAACGACGAAC
66 AAGGTTAAGGCCGCAACGACGAAC
38147337 CTAGCACGTT
Statistics
Matches: 531, Mismatches: 121, Indels: 64
0.74 0.17 0.09
Matches are distributed among these distances:
147 74 0.14
148 148 0.28
149 74 0.14
150 231 0.44
151 4 0.01
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.19
Consensus pattern (150 bp):
AAAAGATATGATGGGAAAGGTTGAGGCCGCAACGACGAATCCAGTACCATGAAGACATGAAAGGA
AAGGTTAAGGCCGCAACGACGAACTCAGTACCTTAAAAGATATGATGGGAAGGATTGAGGCCGCA
ACGACGAACTCGATACCTTT
Found at i:38146961 original size:51 final size:50
Alignment explanation
Indices: 38146873--38146982 Score: 157
Period size: 51 Copynumber: 2.2 Consensus size: 50
38146863 CGAAAGGTTA
* *
38146873 AGGCCGTAACGACGAACCTAGCACGTTAAAATATATGATGAGAATGATTG
1 AGGCCGCAACGACGAACCTAGCACGTTAAAAGATATGATGAGAATGATTG
* * * *
38146923 AGGTCGCAACGACGAACCTGGTATCTTTAAAAGATATGATGAGAATGATTG
1 AGGCCGCAACGACGAACCTAGCA-CGTTAAAAGATATGATGAGAATGATTG
38146974 AGGCCGCAA
1 AGGCCGCAA
38146983 TGGCGAATCC
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
50 19 0.37
51 33 0.63
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (50 bp):
AGGCCGCAACGACGAACCTAGCACGTTAAAAGATATGATGAGAATGATTG
Found at i:38147338 original size:447 final size:447
Alignment explanation
Indices: 38146504--38147347 Score: 1402
Period size: 447 Copynumber: 1.9 Consensus size: 447
38146494 CCGGTACCTC
*
38146504 AAAAGATATGATGAGAATGATTGAGGCCGCAACGGCAAATCTGATACCATGAAATGTAATAGGAA
1 AAAAGATATGATGAGAATGATTGAGGCCGCAACGGCAAATCCGATACCATGAAATGTAATAGGAA
* *
38146569 AGATTGAGGTCGCAACGGCGAACCTGGTACCTTAGAAGATATGATGGGAAGGATTGAGGCCACAA
66 AGATTGAGGCCGCAACGGCGAACCTGGTACCTTAGAAGATATGATGGGAAAGATTGAGGCCACAA
* ** * *
38146634 CGACGAATCCGATACCATGAAGATATGATGGGAAAGGTTGAGGTCGTAATAGCGAACCCAGTACC
131 CGACGAATCCGATACCATGAAGATATAACAGGAAAGGTTGAGGCCGTAACAGCGAACCCAGTACC
* *
38146699 ATGAAGATATGAAGGGAAAGGTTAAGGCCGCAATGGCGAACTCAGTACCTTAAAAGATGTGATAG
196 ATGAAGATATGAAGAGAAAGGTTAAGGCCGCAATGACGAACTCAGTACCTTAAAAGATGTGATAG
* *
38146764 GAAGGATTGAGGCCGCAACAACGAACTCGATACCTTTAAAAGATATGATTGGAAGGGTTGAGACC
261 GAAGGATTGAGGCCGCAACAACGAACCCGATACCTTTAAAAGATATGATGGGAAGGGTTGAGACC
*
38146829 GCAACGACGGATCCAATACCATGAAGACATGAAACGAAAGGTTAAGGCCGTAACGACGAACCTAG
326 GCAACGACGGATCCAATACCATGAAGACATGAAACGAAAGGTTAAGGCCGCAACGACGAACCTAG
38146894 CACGTTAAAATATATGATGAGAATGATTGAGGTCGCAACGACGAACCTGGTATCTTT
391 CACGTTAAAATATATGATGAGAATGATTGAGGTCGCAACGACGAACCTGGTATCTTT
* * *
38146951 AAAAGATATGATGAGAATGATTGAGGCCGCAATGGCGAATCCGATACCATGAAATGTAATGGGAA
1 AAAAGATATGATGAGAATGATTGAGGCCGCAACGGCAAATCCGATACCATGAAATGTAATAGGAA
* * *
38147016 AGGTTGAGGCCGCAACGG-TACACTTGGTACCTTAGAAGATATGATGGGAAAGATTGAGGCCACA
66 AGATTGAGGCCGCAACGGCGA-ACCTGGTACCTTAGAAGATATGATGGGAAAGATTGAGGCCACA
* *
38147080 ACGACGAATCCGATACCATGAAGATATAACAGGAAAGGTTGTGGCCGTAACAGCTAACCCAGTAC
130 ACGACGAATCCGATACCATGAAGATATAACAGGAAAGGTTGAGGCCGTAACAGCGAACCCAGTAC
* *
38147145 CATGAAGATATGAAGAGAAAGGTTAATGCCGCAATGACGAACTCAGTACCTTAAAAGATGTGATG
195 CATGAAGATATGAAGAGAAAGGTTAAGGCCGCAATGACGAACTCAGTACCTTAAAAGATGTGATA
* * *
38147210 GGAAGGATTGATGCCGCAACAACGAACCCGGTACCTTTAAAATATATGATGGGAAGGGTTGAGAC
260 GGAAGGATTGAGGCCGCAACAACGAACCCGATACCTTTAAAAGATATGATGGGAAGGGTTGAGAC
* * * *
38147275 CGCAACGGCGGATCCAGTACCATGAAGACCTGAAAGGAAAGGTTAAGGCCGCAACGACGAACCTA
325 CGCAACGACGGATCCAATACCATGAAGACATGAAACGAAAGGTTAAGGCCGCAACGACGAACCTA
38147340 GCACGTTA
390 GCACGTTA
38147348 GAATCATAAC
Statistics
Matches: 366, Mismatches: 30, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
446 1 0.00
447 365 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (447 bp):
AAAAGATATGATGAGAATGATTGAGGCCGCAACGGCAAATCCGATACCATGAAATGTAATAGGAA
AGATTGAGGCCGCAACGGCGAACCTGGTACCTTAGAAGATATGATGGGAAAGATTGAGGCCACAA
CGACGAATCCGATACCATGAAGATATAACAGGAAAGGTTGAGGCCGTAACAGCGAACCCAGTACC
ATGAAGATATGAAGAGAAAGGTTAAGGCCGCAATGACGAACTCAGTACCTTAAAAGATGTGATAG
GAAGGATTGAGGCCGCAACAACGAACCCGATACCTTTAAAAGATATGATGGGAAGGGTTGAGACC
GCAACGACGGATCCAATACCATGAAGACATGAAACGAAAGGTTAAGGCCGCAACGACGAACCTAG
CACGTTAAAATATATGATGAGAATGATTGAGGTCGCAACGACGAACCTGGTATCTTT
Found at i:38147660 original size:39 final size:39
Alignment explanation
Indices: 38147606--38148006 Score: 340
Period size: 39 Copynumber: 10.4 Consensus size: 39
38147596 TCAATCTCGT
* *
38147606 TCATGGGGCAGATTGAAACCACCCAATCTCTTACCCCGA
1 TCATGAGGCAGATTGAAACCACCCAATCTCTTACCCCAA
*
38147645 TCATGAGGCAGATTGAAACCACTCAATCTCTTACCCCAA
1 TCATGAGGCAGATTGAAACCACCCAATCTCTTACCCCAA
** * *
38147684 TCATG-GGACAGATT-ACAGTCATCCAATCTCTTACCCCGA
1 TCATGAGG-CAGATTGA-AACCACCCAATCTCTTACCCCAA
38147723 TCATGAGGCAGATTGAAACCACCCAATCTCTTACCCCAA
1 TCATGAGGCAGATTGAAACCACCCAATCTCTTACCCCAA
* * * **
38147762 TCATGGGGTAAATTGAAACCATACAATCTCTTACCCCAA
1 TCATGAGGCAGATTGAAACCACCCAATCTCTTACCCCAA
* * *
38147801 TCATAAGGCAGATTAAAACCACCCAATCTCTTACCCCGA
1 TCATGAGGCAGATTGAAACCACCCAATCTCTTACCCCAA
* * * ** *
38147840 TCATGGGGCAGATTG-AAGCATCC--T-T-TTACCTTAG
1 TCATGAGGCAGATTGAAACCACCCAATCTCTTACCCCAA
* ** **
38147874 TC-GGAAGGCAGATTGAAGA-CATGCAATCTCTTACCCTGA
1 TCATG-AGGCAGATTGAA-ACCACCCAATCTCTTACCCCAA
* * * * **
38147913 TCATGGGGCAGATTG-AAGCATCCAATCTTTTACCTTAA
1 TCATGAGGCAGATTGAAACCACCCAATCTCTTACCCCAA
* **
38147951 TCA-GAAGGCAGATT-AAAGACATGCAATCTCTTACCCCAA
1 TCATG-AGGCAGATTGAAA-CCACCCAATCTCTTACCCCAA
*
38147990 TCATGGGGCAGATTGAA
1 TCATGAGGCAGATTGAA
38148007 GCATCTAACC
Statistics
Matches: 291, Mismatches: 53, Indels: 35
0.77 0.14 0.09
Matches are distributed among these distances:
33 1 0.00
34 16 0.05
35 6 0.02
36 2 0.01
37 3 0.01
38 40 0.14
39 216 0.74
40 7 0.02
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (39 bp):
TCATGAGGCAGATTGAAACCACCCAATCTCTTACCCCAA
Found at i:38147813 original size:117 final size:117
Alignment explanation
Indices: 38147606--38147856 Score: 380
Period size: 117 Copynumber: 2.1 Consensus size: 117
38147596 TCAATCTCGT
* *
38147606 TCATGGGGCAGATTGAAACCACCCAATCTCTTACCCCGATCATGAGGCAGATTGAAACCACTCAA
1 TCATGGGGCAGATTGAAACCACCCAATCTCTTACCCCAATCATGAGGCAAATTGAAACCACTCAA
* * ** *
38147671 TCTCTTACCCCAATCATGGGACAGATTACAGTCATCCAATCTCTTACCCCGA
66 TCTCTTACCCCAATCATAGGACAGATTAAAACCACCCAATCTCTTACCCCGA
* * *
38147723 TCATGAGGCAGATTGAAACCACCCAATCTCTTACCCCAATCATGGGGTAAATTGAAACCA-TACA
1 TCATGGGGCAGATTGAAACCACCCAATCTCTTACCCCAATCATGAGGCAAATTGAAACCACT-CA
38147787 ATCTCTTACCCCAATCATAAGG-CAGATTAAAACCACCCAATCTCTTACCCCGA
65 ATCTCTTACCCCAATCAT-AGGACAGATTAAAACCACCCAATCTCTTACCCCGA
38147840 TCATGGGGCAGATTGAA
1 TCATGGGGCAGATTGAA
38147857 GCATCCTTTT
Statistics
Matches: 121, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
116 1 0.01
117 118 0.98
118 2 0.02
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (117 bp):
TCATGGGGCAGATTGAAACCACCCAATCTCTTACCCCAATCATGAGGCAAATTGAAACCACTCAA
TCTCTTACCCCAATCATAGGACAGATTAAAACCACCCAATCTCTTACCCCGA
Found at i:38148279 original size:78 final size:78
Alignment explanation
Indices: 38147606--38148279 Score: 654
Period size: 78 Copynumber: 8.7 Consensus size: 78
38147596 TCAATCTCGT
* * * *** **
38147606 TCATGGGGCAGATTGAAACCACCCAATCTCTTACCCCGATCATGAGGCAGATTGAA-AC-CACTC
1 TCATGGGGCAGATTG-AAGCATCCAATCTTTTACCTTAATCAAAAGGCAGATTGAAGACACAC-C
*
38147669 AATCTCTTACCCCAA
64 AATCTCTTACCCCGA
* * *** **
38147684 TCATGGGACAGATT-ACAGTCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAA-AC-CACC
1 TCATGGGGCAGATTGA-AG-CATCCAATCTTTTACCTTAATCAAAAGGCAGATTGAAGACACA-C
*
38147746 CAATCTCTTACCCCAA
63 CAATCTCTTACCCCGA
* * * * * ** * *
38147762 TCATGGGGTAAATTGAAACCATACAATCTCTTACCCCAATCATAAGGCAGATT-AAAAC-CACCC
1 TCATGGGGCAGATTG-AAGCATCCAATCTTTTACCTTAATCAAAAGGCAGATTGAAGACACA-CC
38147825 AATCTCTTACCCCGA
64 AATCTCTTACCCCGA
* ** **
38147840 TCATGGGGCAGATTGAAGCAT-C---CTTTTACCTTAGTCGGAAGGCAGATTGAAGACA-TGCAA
1 TCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAAAAGGCAGATTGAAGACACACCAA
*
38147900 TCTCTTACCCTGA
66 TCTCTTACCCCGA
* * **
38147913 TCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCAGATTAAAGACA-TGCAA
1 TCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAAAAGGCAGATTGAAGACACACCAA
*
38147977 TCTCTTACCCCAA
66 TCTCTTACCCCGA
* * *
38147990 TCATGGGGCAGATTGAAGCATCTAACCTTTTACCTTAATCAAAAGGCAGATTGAAGACACATCAA
1 TCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAAAAGGCAGATTGAAGACACACCAA
* *
38148055 TCTTTTACTCCGA
66 TCTCTTACCCCGA
* * * * **
38148068 TCATGGAGCAGATTGAAGCATCAAATCTTTTACCTTAATCAGAAGACAGATTGAAGACACATTAA
1 TCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAAAAGGCAGATTGAAGACACACCAA
* *
38148133 TTTTTTACCCCGA
66 TCTCTTACCCCGA
* * * * * *
38148146 TTATGGGGCAGATTAAAGCATCCAACCTTTTGCTTTAATCAAAAGGCAGATTGAAGGCACACCAA
1 TCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAAAAGGCAGATTGAAGACACACCAA
*
38148211 TCTTTTACCCCGA
66 TCTCTTACCCCGA
* * *
38148224 TAATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAAAAGGTAGATTGAAG
1 TCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAAAAGGCAGATTGAAG
38148280 CTATCATCTC
Statistics
Matches: 517, Mismatches: 66, Indels: 26
0.85 0.11 0.04
Matches are distributed among these distances:
73 56 0.11
74 5 0.01
76 2 0.00
77 109 0.21
78 342 0.66
79 2 0.00
80 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (78 bp):
TCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAAAAGGCAGATTGAAGACACACCAA
TCTCTTACCCCGA
Found at i:38148744 original size:16 final size:17
Alignment explanation
Indices: 38148724--38148757 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
38148714 AAACCAAAAC
38148724 AAAAATAA-ACAAAATA
1 AAAAATAACACAAAATA
*
38148740 AAAAATAACAGAAAATA
1 AAAAATAACACAAAATA
38148757 A
1 A
38148758 CACATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (17 bp):
AAAAATAACACAAAATA
Found at i:38149395 original size:69 final size:69
Alignment explanation
Indices: 38149278--38149439 Score: 252
Period size: 69 Copynumber: 2.3 Consensus size: 69
38149268 ATACAAAGAT
* * *
38149278 ATACATTTTGATTTTATTTTTATTTTTTATTTATATACGTACGCATGTACATATATATGTATATA
1 ATACATCTTGATTTTATTTTTA-TTTTTATTTATAAACATACGCATGTACATATATATGTATATA
38149343 TAAAC
65 TAAAC
* * *
38149348 ATACATCTTGACTTTATTTTTATTTTTGTTTATAAATATACGCATGTACATATATATGTATATAT
1 ATACATCTTGATTTTATTTTTATTTTTATTTATAAACATACGCATGTACATATATATGTATATAT
38149413 AAAC
66 AAAC
*
38149417 ATAAATCTTGATTTTATTTTTAT
1 ATACATCTTGATTTTATTTTTAT
38149440 ATATATATAC
Statistics
Matches: 84, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
69 64 0.76
70 20 0.24
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (69 bp):
ATACATCTTGATTTTATTTTTATTTTTATTTATAAACATACGCATGTACATATATATGTATATAT
AAAC
Found at i:38149506 original size:61 final size:60
Alignment explanation
Indices: 38149290--38149507 Score: 175
Period size: 61 Copynumber: 3.4 Consensus size: 60
38149280 ACATTTTGAT
*
38149290 TTTATTTTTATTTTTTATTTATATACGTACGCATGTACATATATATGTATATATAAACATACATC
1 TTTA-TTTT-TTTTTT-TTTATATA--TACGCATGTACATATATATGTATAAATAAACATA-A--
*
38149355 TTGA
58 AT-A
* *
38149359 CTTTATTTTTATTTTTGTTTATAAATATACGCATGTACATATATATGTATATATAAACATAAATC
1 -TTTATTTTT-TTTTT-TTTAT--ATATACGCATGTACATATATATGTATAAATAAACATAAATA
* * * * * * * * *
38149424 TTGATTTTATTTTTATATATATATACGTATGTGCATATATATTTGTAAATAAATATACATA
1 TTTATTTT-TTTTTTTTTATATATACGCATGTACATATATATGTATAAATAAACATAAATA
38149485 TTTATTTTTTTATTTTTTATATA
1 TTTATTTTTTT-TTTTTTATATA
38149508 AATACAGAAA
Statistics
Matches: 126, Mismatches: 17, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
60 3 0.02
61 49 0.39
63 4 0.03
64 11 0.09
65 1 0.01
66 1 0.01
68 2 0.02
69 48 0.38
70 4 0.03
71 3 0.02
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.52
Consensus pattern (60 bp):
TTTATTTTTTTTTTTTTATATATACGCATGTACATATATATGTATAAATAAACATAAATA
Found at i:38154307 original size:16 final size:16
Alignment explanation
Indices: 38154247--38154307 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
38154237 TAAAAAATAT
*
38154247 TTTTGGGAAAAAATGC
1 TTTTGAGAAAAAATGC
* **
38154263 TTTTGAGATAAAATAA
1 TTTTGAGAAAAAATGC
38154279 TTTCT-A-AACAAAATGC
1 TTT-TGAGAA-AAAATGC
38154295 TTTTGAGAAAAAA
1 TTTTGAGAAAAAA
38154308 AGTGTTTTTC
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
15 2 0.06
16 29 0.85
17 3 0.09
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.33
Consensus pattern (16 bp):
TTTTGAGAAAAAATGC
Found at i:38158251 original size:63 final size:63
Alignment explanation
Indices: 38158152--38158279 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
38158142 CCCATTATGT
38158152 TAGAACACAATTTCTCGAATTCCCTAAGTAAATAAACATTACCTTAGTTTAAAAATTTTTACA
1 TAGAACACAATTTCTCGAATTCCCTAAGTAAATAAACATTACCTTAGTTTAAAAATTTTTACA
38158215 TAGAACACAATTTCTCGAATTCCCTAAGTAAATAAACATTACCTTAGTTTAAAAATTTTTACA
1 TAGAACACAATTTCTCGAATTCCCTAAGTAAATAAACATTACCTTAGTTTAAAAATTTTTACA
38158278 TA
1 TA
38158280 CGTAACATAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.35
Consensus pattern (63 bp):
TAGAACACAATTTCTCGAATTCCCTAAGTAAATAAACATTACCTTAGTTTAAAAATTTTTACA
Found at i:38159876 original size:13 final size:13
Alignment explanation
Indices: 38159840--38159880 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
38159830 TACATAATCA
38159840 TTTTTC-TTTGTC
1 TTTTTCATTTGTC
38159852 TTTTTCATTTGT-
1 TTTTTCATTTGTC
*
38159864 TTTTTCTTCTTGTC
1 TTTTTCAT-TTGTC
38159878 TTT
1 TTT
38159881 GTGCTCCTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 13 0.52
13 9 0.36
14 3 0.12
ACGTcount: A:0.02, C:0.15, G:0.07, T:0.76
Consensus pattern (13 bp):
TTTTTCATTTGTC
Found at i:38160561 original size:14 final size:14
Alignment explanation
Indices: 38160542--38160571 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
38160532 AATGTAGAAT
38160542 TTATTCTTTTATCA
1 TTATTCTTTTATCA
38160556 TTATTCTTTTATCA
1 TTATTCTTTTATCA
38160570 TT
1 TT
38160572 CTTAAAGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATTCTTTTATCA
Found at i:38161117 original size:16 final size:16
Alignment explanation
Indices: 38161066--38161120 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
38161056 GTTTGGTTCG
* *
38161066 CTGTAATGGAATAGAA
1 CTGTAATAGAATAGGA
* *
38161082 GTGTAACAGAATA-GA
1 CTGTAATAGAATAGGA
38161097 GCTGTAATAGAATAGGA
1 -CTGTAATAGAATAGGA
38161114 CTGTAAT
1 CTGTAAT
38161121 CAGTAATTCA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
15 1 0.03
16 28 0.90
17 2 0.06
ACGTcount: A:0.42, C:0.07, G:0.25, T:0.25
Consensus pattern (16 bp):
CTGTAATAGAATAGGA
Found at i:38161359 original size:58 final size:59
Alignment explanation
Indices: 38161290--38161444 Score: 192
Period size: 58 Copynumber: 2.6 Consensus size: 59
38161280 AATTTTAATG
* *
38161290 ATTATTATTAAATATAATTTAATAAAAATATTA-ATTAATTTAATTATA-TTTTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATAATATA-TAATTTAATAATATTTTTAACATA
* *
38161348 ATTATTATTAAATACAATTTAAT-AAAATAATATATAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAATATTTTTAACATA
* *
38161406 ATTATTATTAAAATATGAA-TTAGTAAAAATTATAATATA
1 ATTATTATT-AAATAT-AATTTAATAAAAATAAT-ATATA
38161445 TAATATTAGA
Statistics
Matches: 84, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
57 20 0.24
58 41 0.49
59 9 0.11
60 9 0.11
61 5 0.06
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAATATTTTTAACATA
Found at i:38161438 original size:25 final size:24
Alignment explanation
Indices: 38161409--38161459 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
38161399 TAATATAATT
*
38161409 ATTATTAAAATATGA-ATTAGTAAAA
1 ATTA-TAAAATATAATATTAG-AAAA
*
38161434 ATTATAATATATAATATTAGAAAA
1 ATTATAAAATATAATATTAGAAAA
38161458 AT
1 AT
38161460 AATATATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (24 bp):
ATTATAAAATATAATATTAGAAAA
Found at i:38164089 original size:28 final size:28
Alignment explanation
Indices: 38164058--38164118 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
38164048 AAAACGGGAC
38164058 TTTTGGATATC-CGGGGGC-AAAATGGTAA
1 TTTTGGAT-TCTCGGGGGCAAAAAT-GTAA
*
38164086 TTTTTGATTCTCGGGGGCAAAAATGTAA
1 TTTTGGATTCTCGGGGGCAAAAATGTAA
38164114 TTTTG
1 TTTTG
38164119 AGAAAAGTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 2 0.07
28 22 0.76
29 5 0.17
ACGTcount: A:0.26, C:0.10, G:0.28, T:0.36
Consensus pattern (28 bp):
TTTTGGATTCTCGGGGGCAAAAATGTAA
Found at i:38164217 original size:29 final size:29
Alignment explanation
Indices: 38164095--38164270 Score: 89
Period size: 30 Copynumber: 6.0 Consensus size: 29
38164085 ATTTTTGATT
** *
38164095 CTCGGGGGCAAAAATGTAATTTTGAGAAAAG
1 CTCGGGGTTAAAAATGGAATTTTG-G-AAAG
* * *
38164126 -TCAGGGTTAAAAATGGTATTTTGGAAGG
1 CTCGGGGTTAAAAATGGAATTTTGGAAAG
* *
38164154 TTCGAGG-T-AAAATGGTAATTTTTGGTGAAA-
1 CTCGGGGTTAAAAATGG-AA-TTTT-G-GAAAG
*
38164184 C-CGGGGTTAAAAATGGGATTTTGGAAAG
1 CTCGGGGTTAAAAATGGAATTTTGGAAAG
* * *
38164212 CTCGGGGGT-AAAATAGTATTTTTTAGTGAAA-
1 CTCGGGGTTAAAAAT-GGA-ATTTT-G-GAAAG
*
38164243 CT-GAGGTTAAAAATGGAATTTTGGAAAG
1 CTCGGGGTTAAAAATGGAATTTTGGAAAG
38164271 TTTAGGGGTA
Statistics
Matches: 109, Mismatches: 21, Indels: 33
0.67 0.13 0.20
Matches are distributed among these distances:
27 15 0.14
28 13 0.12
29 28 0.26
30 31 0.28
31 18 0.17
32 4 0.04
ACGTcount: A:0.35, C:0.06, G:0.30, T:0.30
Consensus pattern (29 bp):
CTCGGGGTTAAAAATGGAATTTTGGAAAG
Found at i:38164371 original size:30 final size:30
Alignment explanation
Indices: 38164337--38164430 Score: 70
Period size: 30 Copynumber: 3.2 Consensus size: 30
38164327 AGTTCGAGGG
38164337 TAAAATAGTCATTTTTGGTGAAATCGGGGT
1 TAAAATAGTCATTTTTGGTGAAATCGGGGT
* ** * * *
38164367 TAAAA-A-TGGAAGTTTGG-GAAGTTTGGGGG
1 TAAAATAGT-CATTTTTGGTGAA-ATCGGGGT
*
38164396 TAAAAT-GATCATTTTTGGTGAAATCGGGAT
1 TAAAATAG-TCATTTTTGGTGAAATCGGGGT
38164426 TAAAA
1 TAAAA
38164431 ATGGAATTTT
Statistics
Matches: 45, Mismatches: 13, Indels: 12
0.64 0.19 0.17
Matches are distributed among these distances:
28 4 0.09
29 17 0.38
30 20 0.44
31 4 0.09
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (30 bp):
TAAAATAGTCATTTTTGGTGAAATCGGGGT
Found at i:38164383 original size:29 final size:28
Alignment explanation
Indices: 38164349--38164501 Score: 98
Period size: 29 Copynumber: 5.2 Consensus size: 28
38164339 AAATAGTCAT
38164349 TTTTGGTGAAATCGGGGTTAAAAATGGAA
1 TTTTGGTGAAATCGGGGTT-AAAATGGAA
* * * *
38164378 GTTTGG-GAAGTTTGGGGGTAAAAT-GATCA
1 TTTTGGTGAA-ATCGGGGTTAAAATGGA--A
*
38164407 TTTTTGGTGAAATCGGGATTAAAAATGGAA
1 -TTTTGGTGAAATCGGGGTT-AAAATGGAA
* * *
38164437 TTTT-GAGAAGTTTAGGGG-TAAAATGGTAA
1 TTTTGGTGAA--ATCGGGGTTAAAATGG-AA
*
38164466 TTTTTGGTGAAATCAGGGTTTAAAATGGAA
1 -TTTTGGTGAAATC-GGGGTTAAAATGGAA
38164496 TTTTGG
1 TTTTGG
38164502 AAAGTTTAGG
Statistics
Matches: 93, Mismatches: 17, Indels: 28
0.67 0.12 0.20
Matches are distributed among these distances:
27 2 0.02
28 19 0.20
29 26 0.28
30 24 0.26
31 20 0.22
32 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.31, T:0.35
Consensus pattern (28 bp):
TTTTGGTGAAATCGGGGTTAAAATGGAA
Found at i:38164440 original size:30 final size:28
Alignment explanation
Indices: 38164347--38164499 Score: 82
Period size: 30 Copynumber: 5.2 Consensus size: 28
38164337 TAAAATAGTC
38164347 ATTTTTGGTGAAATCGGGGTTAAAAATGGA
1 ATTTTTGGTGAAATC-GGGTT-AAAATGGA
* * * *
38164377 A-GTTTGG-GAAGTTTGGGGGTAAAAT-GA
1 ATTTTTGGTGAA--ATCGGGTTAAAATGGA
38164404 TCATTTTTGGTGAAATCGGGATTAAAAATGGA
1 --ATTTTTGGTGAAATCGGG-TT-AAAATGGA
* * * *
38164436 A-TTTT-GAGAAGTTTAGGGGTAAAATGGTA
1 ATTTTTGGTGAA--ATCGGGTTAAAATGG-A
38164465 ATTTTTGGTGAAATCAGGGTTTAAAATGGA
1 ATTTTTGGTGAAATC-GGG-TTAAAATGGA
38164495 ATTTT
1 ATTTT
38164500 GGAAAGTTTA
Statistics
Matches: 91, Mismatches: 16, Indels: 32
0.65 0.12 0.23
Matches are distributed among these distances:
27 2 0.02
28 19 0.21
29 22 0.24
30 26 0.29
31 20 0.22
32 2 0.02
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.35
Consensus pattern (28 bp):
ATTTTTGGTGAAATCGGGTTAAAATGGA
Found at i:38164485 original size:118 final size:117
Alignment explanation
Indices: 38164126--38164532 Score: 507
Period size: 117 Copynumber: 3.5 Consensus size: 117
38164116 TTGAGAAAAG
* * * * *
38164126 TCAGGGTTAAAAATGGTATTTTGG-AAGGTTCGAGGTAAAATGGTAATTTTTGGTGAAACCGGGG
1 TCAGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAACCGGGA
* ** * *
38164190 TTAAAAATGGGATTTTGGAAAGCTCGGGGGTAAAATAGTATTTTTTAGTGAAA
66 TTAAAAATGGAATTTTGGAAAG-TTAGGGGTAAAATAGTAATTTTTGGTGAAA
* * *
38164243 -CTGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAACGGTAATTTTTGGTG-AACCGAG
1 TCAG-GGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAACCGGG
* * *
38164306 AATAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATAGTCATTTTTGGTGAAA
65 ATTAAAAATGGAATTTTGGAAAGTTAG-GGGTAAAATAGTAATTTTTGGTGAAA
* * * * * * *
38164360 TCGGGGTTAAAAATGGAAGTTTGGGAAGTTTGGGGGTAAAATGATCATTTTTGGTGAAATCGGGA
1 TCAGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAACCGGGA
*
38164425 TTAAAAATGGAATTTT-GAGAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAA
66 TTAAAAATGGAATTTTGGA-AAG-TTAGGGGTAAAATAGTAATTTTTGGTGAAA
*
38164478 TCAGGGTTTAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATAGGTAATTTTTGG
1 TCAGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAAT-GGTAATTTTTGG
38164533 AAGTTTTGGG
Statistics
Matches: 247, Mismatches: 35, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
116 4 0.02
117 116 0.47
118 114 0.46
119 13 0.05
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (117 bp):
TCAGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAACCGGGA
TTAAAAATGGAATTTTGGAAAGTTAGGGGTAAAATAGTAATTTTTGGTGAAA
Found at i:38164528 original size:30 final size:29
Alignment explanation
Indices: 38164428--38164562 Score: 111
Period size: 30 Copynumber: 4.6 Consensus size: 29
38164418 ATCGGGATTA
38164428 AAAATGGAA-TTTT-GAGAAGTTTAGGGGT
1 AAAATGGAATTTTTGGA-AAGTTTAGGGGT
* *
38164456 AAAATGGTAATTTTTGGTGAAA--TCAGGGTTT
1 AAAATGG-AATTTTT-G-GAAAGTTTAGGG-GT
38164487 AAAATGGAA-TTTTGGAAAGTTTAGGGGT
1 AAAATGGAATTTTTGGAAAGTTTAGGGGT
*
38164515 AAAATAGGTAATTTTTGG-AAGTTTTGGGGTT
1 AAAAT-GG-AATTTTTGGAAAGTTTAGGGG-T
* *
38164546 AAAGTGCAATTTTTGGA
1 AAAATGGAATTTTTGGA
38164563 CTGTTTGGGG
Statistics
Matches: 87, Mismatches: 7, Indels: 24
0.74 0.06 0.20
Matches are distributed among these distances:
27 4 0.05
28 14 0.16
29 22 0.25
30 24 0.28
31 19 0.22
32 2 0.02
33 2 0.02
ACGTcount: A:0.33, C:0.01, G:0.29, T:0.36
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAAAGTTTAGGGGT
Found at i:38164548 original size:59 final size:60
Alignment explanation
Indices: 38164129--38164532 Score: 459
Period size: 59 Copynumber: 6.9 Consensus size: 60
38164119 AGAAAAGTCA
* * * *
38164129 GGGTTAAAAATGGTATTTTGG-AAGGTTCGAGGTAAAAT-GGTAATTTTTGGTGAAACCG
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATAGGTAATTTTTGGTGAAACCG
* * ** * * *
38164187 GGGTTAAAAATGGGATTTTGGAAAGCTCGGGGGTAAAATA-GTATTTTTTAGTGAAACTG
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATAGGTAATTTTTGGTGAAACCG
* *
38164246 AGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAA-CGGTAATTTTTGGTG-AACCG
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATAGGTAATTTTTGGTGAAACCG
* ** * * *
38164304 AGAATAAAAATGGAATTTTGGAAAG-TTCGAGGGTAAAATA-GTCATTTTTGGTGAAATCG
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAG-GGGTAAAATAGGTAATTTTTGGTGAAACCG
* * * * * *
38164363 GGGTTAAAAATGGAAGTTTGGGAAGTTTGGGGGTAAAAT-GATCATTTTTGGTGAAATCG
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATAGGTAATTTTTGGTGAAACCG
* * *
38164422 GGATTAAAAATGGAATTTT-GAGAAGTTTAGGGGTAAAAT-GGTAATTTTTGGTGAAATCA
1 GGGTTAAAAATGGAATTTTGGA-AAGTTTAGGGGTAAAATAGGTAATTTTTGGTGAAACCG
*
38164481 GGGTTTAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATAGGTAATTTTTGG
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATAGGTAATTTTTGG
38164533 AAGTTTTGGG
Statistics
Matches: 296, Mismatches: 39, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
57 3 0.01
58 68 0.23
59 208 0.70
60 17 0.06
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.33
Consensus pattern (60 bp):
GGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATAGGTAATTTTTGGTGAAACCG
Found at i:38166230 original size:6 final size:6
Alignment explanation
Indices: 38166210--38166298 Score: 80
Period size: 6 Copynumber: 15.0 Consensus size: 6
38166200 TTAAATTTGT
* **
38166210 TTTATAA TTTGAA TTTAAA TTTAAA TTT-AA GGTAAA TTTAAA TAATTAAA
1 TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
38166260 TTTAAA TTTAAGA --TAAA TTTAAA TTTAAA --TAAA TTTAAA
1 TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
38166299 ATCAATTTAA
Statistics
Matches: 68, Mismatches: 6, Indels: 17
0.75 0.07 0.19
Matches are distributed among these distances:
4 5 0.07
5 6 0.09
6 47 0.69
7 4 0.06
8 6 0.09
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:38166247 original size:11 final size:11
Alignment explanation
Indices: 38166231--38166281 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
38166221 AATTTAAATT
*
38166231 TAAATTTAAGG
1 TAAATTTAAGA
38166242 TAAATTTAA-A
1 TAAATTTAAGA
* **
38166252 T-AATTAAATT
1 TAAATTTAAGA
38166262 TAAATTTAAGA
1 TAAATTTAAGA
38166273 TAAATTTAA
1 TAAATTTAA
38166282 ATTTAAATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 6 0.19
10 2 0.06
11 24 0.75
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (11 bp):
TAAATTTAAGA
Found at i:38166262 original size:31 final size:32
Alignment explanation
Indices: 38166224--38166298 Score: 116
Period size: 31 Copynumber: 2.3 Consensus size: 32
38166214 TAATTTGAAT
*
38166224 TTAAATTTAAATTTAAGGTAAATTTAAA-TAA
1 TTAAATTTAAATTTAAGATAAATTTAAATTAA
38166255 TTAAATTTAAATTTAAGATAAATTTAAATTTAA
1 TTAAATTTAAATTTAAGATAAATTTAAA-TTAA
*
38166288 ATAAATTTAAA
1 TTAAATTTAAA
38166299 ATCAATTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
31 27 0.68
33 13 0.32
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (32 bp):
TTAAATTTAAATTTAAGATAAATTTAAATTAA
Found at i:38166300 original size:17 final size:17
Alignment explanation
Indices: 38166225--38166298 Score: 102
Period size: 17 Copynumber: 4.6 Consensus size: 17
38166215 AATTTGAATT
*
38166225 TAAATTTAAATTTAAGG
1 TAAATTTAAATTTAAGA
*
38166242 TAAATTTAAA--TAA-T
1 TAAATTTAAATTTAAGA
38166256 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAAGA
38166273 TAAATTTAAATTTAA-A
1 TAAATTTAAATTTAAGA
38166289 TAAATTTAAA
1 TAAATTTAAA
38166299 ATCAATTTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
14 10 0.19
15 3 0.06
16 14 0.27
17 25 0.48
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (17 bp):
TAAATTTAAATTTAAGA
Found at i:38166309 original size:17 final size:16
Alignment explanation
Indices: 38166210--38166298 Score: 92
Period size: 17 Copynumber: 5.4 Consensus size: 16
38166200 TTAAATTTGT
38166210 TTTATAATTTGAATTTAAA
1 TTTA-AATTT-AA-TTAAA
*
38166229 TTTAAATTTAAGGTAAA
1 TTTAAATTTAA-TTAAA
38166246 TTTAAA--TAATTAAA
1 TTTAAATTTAATTAAA
*
38166260 TTTAAATTTAAGATAAA
1 TTTAAATTTAA-TTAAA
*
38166277 TTTAAATTTAAATAAA
1 TTTAAATTTAATTAAA
38166293 TTTAAA
1 TTTAAA
38166299 ATCAATTTAA
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
14 10 0.16
15 3 0.05
16 14 0.22
17 27 0.43
18 5 0.08
19 4 0.06
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (16 bp):
TTTAAATTTAATTAAA
Found at i:38166663 original size:38 final size:38
Alignment explanation
Indices: 38166621--38167050 Score: 119
Period size: 38 Copynumber: 11.3 Consensus size: 38
38166611 CTATCCGACT
*
38166621 TTACTTCAATTTCGAGAGGATGGGAAACGATCTTGGTC
1 TTACTTCAATTTCGAGAGGATGGGAAACGATCTTGATC
38166659 TTACTTCAATTTC-AGA-GAT---AAA-GA-CTTGTTATCCAAC
1 TTACTTCAATTTCGAGAGGATGGGAAACGATCTTG--AT----C
* *
38166696 TCTACTTCAATTTCAAGAGGATGGGAAACGATCTTGCTC
1 T-TACTTCAATTTCGAGAGGATGGGAAACGATCTTGATC
38166735 TTACTTCAATTTC-AGA-GAT---AAA-GA-CTTGTTATCCAAC
1 TTACTTCAATTTCGAGAGGATGGGAAACGATCTTG--AT----C
* * * * * *
38166772 TCTACTTCAATTTCAAGCGGATAGGAAAAGATCTTGCTT
1 T-TACTTCAATTTCGAGAGGATGGGAAACGATCTTGATC
* * ** *
38166811 TTACTTCAATTTC-AGA-GAT--AAAGACTTGATATCCAGC
1 TTACTTCAATTTCGAGAGGATGGGAA-AC--GATCTTGATC
* * * * * *
38166848 TTTACTTCAATTTCAAAAGGATAGGAAATGATGTTGCTC
1 -TTACTTCAATTTCGAGAGGATGGGAAACGATCTTGATC
* *
38166887 TTACTTCAATTTC-AGA-GAT--AAAGACG-TGTT-ATCCAC
1 TTACTTCAATTTCGAGAGGATGGGAA-ACGATCTTGAT---C
* * * *
38166923 TCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
1 T-TACTTCAATTTCGAGAGGATGGGAAACGATCTTGATC
* *
38166962 TTACTTCAATTTC-AGA-GAT--AAAGACG-TGTT-ATCCAAC
1 TTACTTCAATTTCGAGAGGATGGGAA-ACGATCTTGAT----C
* *
38166999 TCTACTTCAATTTCAAGAGGATGGGAAACGATCTTGCTC
1 T-TACTTCAATTTCGAGAGGATGGGAAACGATCTTGATC
38167038 TTACTTCAATTTC
1 TTACTTCAATTTC
38167051 AGACTTGTTA
Statistics
Matches: 295, Mismatches: 38, Indels: 118
0.65 0.08 0.26
Matches are distributed among these distances:
31 8 0.03
32 4 0.01
33 10 0.03
34 13 0.04
35 5 0.02
36 17 0.06
37 35 0.12
38 126 0.43
39 25 0.08
40 14 0.05
41 9 0.03
42 8 0.03
43 9 0.03
44 4 0.01
45 8 0.03
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Consensus pattern (38 bp):
TTACTTCAATTTCGAGAGGATGGGAAACGATCTTGATC
Found at i:38166686 original size:76 final size:76
Alignment explanation
Indices: 38166596--38167180 Score: 864
Period size: 76 Copynumber: 7.8 Consensus size: 76
38166586 TGCTCTTCAG
* * * * * *
38166596 AGAGATAAAGACTTGCTATCCGACTTTACTTCAATTTCGAGAGGATGGGAAACGATCTTGGTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATCTTGCTCTT
38166661 ACTTCAATTTC
66 ACTTCAATTTC
*
38166672 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGGGAAACGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATCTTGCTCTT
38166737 ACTTCAATTTC
66 ACTTCAATTTC
* * *
38166748 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAAAGATCTTGCTTTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATCTTGCTCTT
38166813 ACTTCAATTTC
66 ACTTCAATTTC
* * * * * *
38166824 AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAAAGGATAGGAAATGATGTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATCTTGCTCTT
38166889 ACTTCAATTTC
66 ACTTCAATTTC
* *
38166900 AGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATCTTGCTCTT
38166964 ACTTCAATTTC
66 ACTTCAATTTC
* *
38166975 AGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGGGAAACGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATCTTGCTCTT
38167040 ACTTCAATTTC
66 ACTTCAATTTC
* *
38167051 --------AGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAAAGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATCTTGCTCTT
38167108 ACTTCAATTTC
66 ACTTCAATTTC
* ** * *
38167119 AGAGATAAAGACGTGTTATCCAGTTTTACTTCAATTTCAAGAGGATGGGAAACGATCTTGCT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATCTTGCT
38167181 GCGGTCTGAT
Statistics
Matches: 463, Mismatches: 37, Indels: 18
0.89 0.07 0.03
Matches are distributed among these distances:
68 64 0.14
75 70 0.15
76 329 0.71
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (76 bp):
AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATCTTGCTCTT
ACTTCAATTTC
Found at i:38179280 original size:28 final size:28
Alignment explanation
Indices: 38179249--38179309 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
38179239 AAAACGGGAC
38179249 TTTTGGATATC-CGGGGGC-AAAATGGTAA
1 TTTTGGAT-TCTCGGGGGCAAAAAT-GTAA
*
38179277 TTTTTGATTCTCGGGGGCAAAAATGTAA
1 TTTTGGATTCTCGGGGGCAAAAATGTAA
38179305 TTTTG
1 TTTTG
38179310 AGAAAAGTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 2 0.07
28 22 0.76
29 5 0.17
ACGTcount: A:0.26, C:0.10, G:0.28, T:0.36
Consensus pattern (28 bp):
TTTTGGATTCTCGGGGGCAAAAATGTAA
Found at i:38179383 original size:59 final size:58
Alignment explanation
Indices: 38179320--38179666 Score: 435
Period size: 59 Copynumber: 5.9 Consensus size: 58
38179310 AGAAAAGTCA
* * * *
38179320 AGGTTGAAAACGGTATTTTG-AAAGGTTCGAGGGTAAAATGGTAATTTTTGGTGAAACCG
1 AGGTTAAAAATGGAATTTTGGAAA-GTTCG-GGGTAAAATGGTAATTTTTGGTGAAATCG
* * *** * *
38179379 AGGTTAAAAATGGGATTTTGGAAAGCTCGGGGGTAAAACAATATTTTTTAGTGAAATCG
1 AGGTTAAAAATGGAATTTTGGAAAGTTC-GGGGTAAAATGGTAATTTTTGGTGAAATCG
* *
38179438 AGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAACCG
1 AGGTTAAAAATGGAATTTTGGAAAG-TTCGGGGTAAAATGGTAATTTTTGGTGAAATCG
* * *
38179497 AGGTTAAAATTGGAATTTTGGAAAGTTCAGGGGTAAAATGATCATTTTTGGTGAAATCG
1 AGGTTAAAAATGGAATTTTGGAAAGTTC-GGGGTAAAATGGTAATTTTTGGTGAAATCG
* *
38179556 AGGTTAAAAATGGAATTTTGGGAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAATCG
1 AGGTTAAAAATGGAATTTTGGAAAG-TTCGGGGTAAAATGGTAATTTTTGGTGAAATCG
* *
38179615 GGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATAGGTAATTTTTGG
1 AGGTTAAAAATGGAATTTTGGAAAG-TTCGGGGTAAAAT-GGTAATTTTTGG
38179667 AAGTTTTGGG
Statistics
Matches: 250, Mismatches: 32, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
58 2 0.01
59 229 0.92
60 19 0.08
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (58 bp):
AGGTTAAAAATGGAATTTTGGAAAGTTCGGGGTAAAATGGTAATTTTTGGTGAAATCG
Found at i:38179564 original size:177 final size:178
Alignment explanation
Indices: 38179334--38179666 Score: 510
Period size: 177 Copynumber: 1.9 Consensus size: 178
38179324 TGAAAACGGT
* *
38179334 ATTTTGAAAGGTTCGAGGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTAAAAATGGGATTTTG
1 ATTTTGAAAGGTTCGAGGGTAAAATGATAATTTTTGGTGAAACCGAGGTTAAAAATGGAATTTTG
*
38179399 GAAAGCTCGGGGGTAAAACAATATTTTTTAGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGT
66 GAAAGCTCGGGGGTAAAACAATAATTTTTAGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGT
38179464 TTAGGGGTAAAAT-GGTAATTTTTGGTGAAACCGAGGTTAAAATTGGA
131 TTAGGGGTAAAATAGGTAATTTTTGGTGAAACCGAGGTTAAAATTGGA
* *
38179511 ATTTTGGAAA-GTTC-AGGGGTAAAATGATCATTTTTGGTGAAATCGAGGTTAAAAATGGAATTT
1 ATTTT-GAAAGGTTCGA-GGGTAAAATGATAATTTTTGGTGAAACCGAGGTTAAAAATGGAATTT
* * * *** * *
38179574 TGGGAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAA
64 TGGAAAGCTCGGGGGTAAAACAATAATTTTTAGTGAAATCGAGGTTAAAAATGGAATTTTGGAAA
38179639 GTTTAGGGGTAAAATAGGTAATTTTTGG
129 GTTTAGGGGTAAAATAGGTAATTTTTGG
38179667 AAGTTTTGGG
Statistics
Matches: 140, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
176 1 0.01
177 123 0.88
178 16 0.11
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (178 bp):
ATTTTGAAAGGTTCGAGGGTAAAATGATAATTTTTGGTGAAACCGAGGTTAAAAATGGAATTTTG
GAAAGCTCGGGGGTAAAACAATAATTTTTAGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGT
TTAGGGGTAAAATAGGTAATTTTTGGTGAAACCGAGGTTAAAATTGGA
Found at i:38179648 original size:30 final size:29
Alignment explanation
Indices: 38179442--38179691 Score: 130
Period size: 30 Copynumber: 8.5 Consensus size: 29
38179432 AAATCGAGGT
38179442 TAAAAATGGAATTTTGGAAAGTTTAGGGG
1 TAAAAATGGAATTTTGGAAAGTTTAGGGG
*** *
38179471 T-AAAATGGTAATTTTTGGTGAAA-CCGA-GGT
1 TAAAAATGG-AA-TTTT-G-GAAAGTTTAGGGG
* *
38179501 TAAAATTGGAATTTTGGAAAGTTCAGGGG
1 TAAAAATGGAATTTTGGAAAGTTTAGGGG
** *
38179530 T-AAAAT-GATCATTTTTGGTGAAA-TCGA-GGT
1 TAAAAATGGA--A-TTTT-G-GAAAGTTTAGGGG
* *
38179560 TAAAAATGGAATTTTGGGAAGTTTGGGGG
1 TAAAAATGGAATTTTGGAAAGTTTAGGGG
*
38179589 T-AAAATGGTAATTTTTGGTGAAA---TCGGGG
1 TAAAAATGG-AA-TTTT-G-GAAAGTTTAGGGG
38179618 TTAAAAATGGAATTTTGGAAAGTTTAGGGG
1 -TAAAAATGGAATTTTGGAAAGTTTAGGGG
*
38179648 T-AAAATAGGTAATTTTTGG-AAGTTTTGGGG
1 TAAAAAT-GG-AA-TTTTGGAAAGTTTAGGGG
*
38179678 TAAAAATGTAATTT
1 TAAAAATGGAATTT
38179692 CTGAACTGTT
Statistics
Matches: 169, Mismatches: 23, Indels: 59
0.67 0.09 0.24
Matches are distributed among these distances:
27 13 0.08
28 31 0.18
29 34 0.20
30 43 0.25
31 35 0.21
32 13 0.08
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.34
Consensus pattern (29 bp):
TAAAAATGGAATTTTGGAAAGTTTAGGGG
Found at i:38179691 original size:118 final size:119
Alignment explanation
Indices: 38179350--38179664 Score: 490
Period size: 118 Copynumber: 2.7 Consensus size: 119
38179340 AAAGGTTCGA
* * *
38179350 GGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTAAAAATGGGATTTTGGAAAGCTCGGGGGTAA
1 GGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAA
* *
38179415 AACA-ATATTTTTTAGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAG
66 AATAGATAATTTTTAGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAG
*
38179468 GGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTAAAATTGGAATTTTGGAAAGTTCAGGGGTAA
1 GGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAA
* * * *
38179533 AAT-GATCATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGGAAGTTTGG
66 AATAGATAATTTTTAGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAG
* * *
38179586 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAA
1 GGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAA
*
38179651 AATAGGTAATTTTT
66 AATAGATAATTTTT
38179665 GGAAGTTTTG
Statistics
Matches: 179, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
118 171 0.96
119 8 0.04
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (119 bp):
GGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAA
AATAGATAATTTTTAGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAG
Found at i:38181367 original size:6 final size:6
Alignment explanation
Indices: 38181347--38181441 Score: 92
Period size: 6 Copynumber: 16.0 Consensus size: 6
38181337 TTAAATTTGT
* **
38181347 TTTATAA TTTGAA TTTAAA TTTAAA TTTAAA TTT-AA GGTAAA TTTAAA
1 TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
38181395 TAATTAAA TTTAAA TTTAAGA --TAAA TTTAAA TTTAAA --TAAA TTTAAA
1 T--TTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
38181442 ATCAATTTAA
Statistics
Matches: 74, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
4 5 0.07
5 6 0.08
6 53 0.72
7 4 0.05
8 6 0.08
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:38181390 original size:11 final size:11
Alignment explanation
Indices: 38181374--38181424 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
38181364 AATTTAAATT
*
38181374 TAAATTTAAGG
1 TAAATTTAAGA
38181385 TAAATTTAA-A
1 TAAATTTAAGA
* **
38181395 T-AATTAAATT
1 TAAATTTAAGA
38181405 TAAATTTAAGA
1 TAAATTTAAGA
38181416 TAAATTTAA
1 TAAATTTAA
38181425 ATTTAAATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 6 0.19
10 2 0.06
11 24 0.75
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (11 bp):
TAAATTTAAGA
Found at i:38181426 original size:37 final size:37
Alignment explanation
Indices: 38181361--38181434 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
38181351 TAATTTGAAT
*
38181361 TTAAATTTAAATTTAAATTTAAGGTAAATTTAAATAA
1 TTAAATTTAAATTTAAATTAAAGGTAAATTTAAATAA
**
38181398 TTAAATTTAAATTTAAGA-TAAATTTAAATTTAAATAA
1 TTAAATTTAAATTTAA-ATTAAAGGTAAATTTAAATAA
38181435 ATTTAAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 32 0.97
38 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (37 bp):
TTAAATTTAAATTTAAATTAAAGGTAAATTTAAATAA
Found at i:38181443 original size:17 final size:16
Alignment explanation
Indices: 38181352--38181441 Score: 103
Period size: 17 Copynumber: 5.5 Consensus size: 16
38181342 TTTGTTTTAT
*
38181352 AATTTGAATTTAAATTTA
1 AATTTAAATTTAAA--TA
*
38181370 AATTTAAATTTAAGGTA
1 AATTTAAATTTAA-ATA
*
38181387 AATTTAAA--TAATTA
1 AATTTAAATTTAAATA
38181401 AATTTAAATTTAAGATA
1 AATTTAAATTTAA-ATA
38181418 AATTTAAATTTAAATA
1 AATTTAAATTTAAATA
38181434 AATTTAAA
1 AATTTAAA
38181442 ATCAATTTAA
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
14 10 0.16
15 3 0.05
16 14 0.22
17 25 0.39
18 12 0.19
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (16 bp):
AATTTAAATTTAAATA
Found at i:38186277 original size:2 final size:2
Alignment explanation
Indices: 38186270--38186301 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
38186260 TTTATTTTAA
38186270 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38186302 GTTTGATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38188627 original size:26 final size:26
Alignment explanation
Indices: 38188591--38188644 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
38188581 CGCTCGAAGA
38188591 TGTAGCTAGAATGGTGAGTAATAAGC
1 TGTAGCTAGAATGGTGAGTAATAAGC
38188617 TGTAGCTAGAATGGTGAGTAATAAGC
1 TGTAGCTAGAATGGTGAGTAATAAGC
38188643 TG
1 TG
38188645 GGTTTTCTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.28
Consensus pattern (26 bp):
TGTAGCTAGAATGGTGAGTAATAAGC
Found at i:38217246 original size:12 final size:12
Alignment explanation
Indices: 38217229--38217256 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
38217219 AATTCCCATA
38217229 AATTATTAATAT
1 AATTATTAATAT
38217241 AATTATTAATAT
1 AATTATTAATAT
38217253 AATT
1 AATT
38217257 TTATTTTATA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AATTATTAATAT
Found at i:38220201 original size:440 final size:439
Alignment explanation
Indices: 38219204--38220343 Score: 1587
Period size: 440 Copynumber: 2.6 Consensus size: 439
38219194 ACATCTTGTC
* * * *
38219204 TATATTTCATTCATAAATGGTATTATAACATCACTATATTCAATCCAACCTTTGGGACCCAGTAT
1 TATATTTCATTCATAAATGGTATTGTAACACCACTATACTCGAT-CAACCTTTGGGACCCAGTAT
* ** * * **
38219269 AGGACTATTACATTTGGTATCAAAGCGATCTTGGCTAAACACTAGGTGATTTTGAACATTTAGTG
65 AAGACTATTACATTTGGTGCCAAAGCAATCTTGGCTAAACACTAGGTAATTTTGAACATTTAACG
* * *
38219334 ATAGTATTTTAACTTATTAAGCTCAATAATTATTACTTTGAACATTTGGGGCCATTATTAGTTAA
130 ATAGTATTTTAACTTATTAAGCTAAATAATTATTACTTTGAACATTT-GGGTCATTATTGGTTAA
* * *
38219399 TCGTTTACGTTTAAAAATAAATTAAATATGATTTTTAATTA-AAACAGGGGCAAGTATCGATACT
194 TCGTTTATGTTTGAAAATAAATTAAATATGATTTTTAA-TACAAACAGGGGCAAGTATCGGTACT
38219463 AGAACATAAAGTATCAATACCTAACACAAGGTATCTATACCCTAGACAAGTACCGATACCAAAAT
258 AGAACATAAAGTATCAATACCTAACACAAGGTATCTATACCCTAGACAAGTACCGATACCAAAAT
* * * *
38219528 CAGCAACTGGAATTGAAAATTTTAATATTTTTTAGTAGGTATCAATACCTATGGCCAAGGTATCG
323 CAACAACTGAAATTGAAAATTTTAATATTTTTTAGTAGGTATC-AGA-CTATGGACAAGGTATCG
38219593 ATACCTTGCCTTGGGTACCAATACCAAAGTGAGGTATCAATACCAAAGCAATCT
386 ATACCTTGCCTTGGGTACCAATACCAAAGTGAGGTATCAATACCAAAGCAATCT
* * * ***
38219647 TATATTTCATTCATAAATGATATTGTAACTCCACTATACTTGATCCAGTTTTTGGGACCCAGTAT
1 TATATTTCATTCATAAATGGTATTGTAACACCACTATACTCGAT-CAACCTTTGGGACCCAGTAT
* *
38219712 -AGAACTATTACATTTGGTGCCAAAGCAGTCTTGGTTAAACACTAGGTAATTTTGAACATTTAAC
65 AAG-ACTATTACATTTGGTGCCAAAGCAATCTTGGCTAAACACTAGGTAATTTTGAACATTTAAC
**
38219776 GATAGTATTTTAACTTATTAAGCTAAATAATTATTA-TTCTGAACATTTGAAATCATTATTGGTT
129 GATAGTATTTTAACTTATTAAGCTAAATAATTATTACTT-TGAACATTTG-GGTCATTATTGGTT
* *
38219840 AATCGTTTATGTTTGAAAATTAATTAAATATAATTTTTAATACAAACAGGGGGCAAGTATCGGTA
192 AATCGTTTATGTTTGAAAATAAATTAAATATGATTTTTAATACAAACA-GGGGCAAGTATCGGTA
* *
38219905 CTAGAACATAAAGTATCGATACCTAACACAAGGTATCTATACCCTAGACAAGTACCGCTACCAAA
256 CTAGAACATAAAGTATCAATACCTAACACAAGGTATCTATACCCTAGACAAGTACCGATACCAAA
**
38219970 ATCAACAACAT-AAATTGAATTTTTTAAT-TTTTTTGAGTAGGTATC-GA-TATGGACAAGGTAT
321 ATCAACAAC-TGAAATTGAAAATTTTAATATTTTTT-AGTAGGTATCAGACTATGGACAAGGTAT
*
38220031 CGATACCTTGCCTTGGGTACCAATACCAAAGTGAGGTATCAATACCAAAGCGATCT
384 CGATACCTTGCCTTGGGTACCAATACCAAAGTGAGGTATCAATACCAAAGCAATCT
* * * * **
38220087 TATATGTT-ATTCATAAATGGTATTGTAACACCCCAATACTCGATCTGACCTTTAGGACTTAGTA
1 TATAT-TTCATTCATAAATGGTATTGTAACACCACTATACTCGATC-AACCTTTGGGACCCAGTA
* * *
38220151 TAAGATTATTATATTTTGTGCCAAAGCAATCTTGGCTAAACACTAGGTAATTTTGAACATTTAAC
64 TAAGACTATTACATTTGGTGCCAAAGCAATCTTGGCTAAACACTAGGTAATTTTGAACATTTAAC
* * * *
38220216 AATAATATTTTAACTTATTAAGCTAAATAATTATTACTTTAAACATTTCGGGTCATTATTGCTTA
129 GATAGTATTTTAACTTATTAAGCTAAATAATTATTACTTTGAACATTT-GGGTCATTATTGGTTA
* * * *
38220281 ACCGTTTATGTTTGAAAATGAATTAAATATGATTTTTAAT-CAAAAAGGGGCAAGTATAGGTAC
193 ATCGTTTATGTTTGAAAATAAATTAAATATGATTTTTAATACAAACAGGGGCAAGTATCGGTAC
38220344 CCTAGACAGG
Statistics
Matches: 619, Mismatches: 66, Indels: 29
0.87 0.09 0.04
Matches are distributed among these distances:
438 16 0.03
439 6 0.01
440 263 0.42
441 7 0.01
442 7 0.01
443 209 0.34
444 110 0.18
445 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (439 bp):
TATATTTCATTCATAAATGGTATTGTAACACCACTATACTCGATCAACCTTTGGGACCCAGTATA
AGACTATTACATTTGGTGCCAAAGCAATCTTGGCTAAACACTAGGTAATTTTGAACATTTAACGA
TAGTATTTTAACTTATTAAGCTAAATAATTATTACTTTGAACATTTGGGTCATTATTGGTTAATC
GTTTATGTTTGAAAATAAATTAAATATGATTTTTAATACAAACAGGGGCAAGTATCGGTACTAGA
ACATAAAGTATCAATACCTAACACAAGGTATCTATACCCTAGACAAGTACCGATACCAAAATCAA
CAACTGAAATTGAAAATTTTAATATTTTTTAGTAGGTATCAGACTATGGACAAGGTATCGATACC
TTGCCTTGGGTACCAATACCAAAGTGAGGTATCAATACCAAAGCAATCT
Found at i:38220439 original size:24 final size:24
Alignment explanation
Indices: 38220407--38220463 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
38220397 AATCTTTTAG
*
38220407 TTAAACTCTATTTATTTGCTTCAA
1 TTAAACTCTATTTAGTTGCTTCAA
* * *
38220431 TTAAACTCTATTTAGTTGTTTGAT
1 TTAAACTCTATTTAGTTGCTTCAA
38220455 TTAAACTCT
1 TTAAACTCT
38220464 TATTAGTCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.51
Consensus pattern (24 bp):
TTAAACTCTATTTAGTTGCTTCAA
Found at i:38221943 original size:24 final size:24
Alignment explanation
Indices: 38221915--38221977 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
38221905 AGAAATAATC
*
38221915 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTAGTTG
*
38221939 TTTCAATTAAACTCTGTTTAGTTG
1 TTTCAGTTAAACTCTGTTTAGTTG
* *
38221963 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
38221978 TATTAGTCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.24, C:0.14, G:0.13, T:0.49
Consensus pattern (24 bp):
TTTCAGTTAAACTCTGTTTAGTTG
Found at i:38229001 original size:36 final size:35
Alignment explanation
Indices: 38228944--38229016 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 35
38228934 TTTAAAAATA
*
38228944 AATATATTTAAAAATTAAAAAAA-TAAATTATAATTT
1 AATATATTTAAAAATGAAAAAAAGTAAA-TAT-ATTT
*
38228980 AATATATTTTAAAAA-GGAAAAAAGTAAATATATTT
1 AATATA-TTTAAAAATGAAAAAAAGTAAATATATTT
38229015 AA
1 AA
38229017 AAAATAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
35 6 0.18
36 15 0.45
37 12 0.36
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (35 bp):
AATATATTTAAAAATGAAAAAAAGTAAATATATTT
Found at i:38229001 original size:37 final size:34
Alignment explanation
Indices: 38228944--38229016 Score: 92
Period size: 37 Copynumber: 2.1 Consensus size: 34
38228934 TTTAAAAATA
**
38228944 AATATATTTAAAAATTAAAAAAATAAATTATAATTT
1 AATATATTTAAAAAGGAAAAAAATAAA-TAT-ATTT
*
38228980 AATATATTTTAAAAAGGAAAAAAGTAAATATATTT
1 AATATA-TTTAAAAAGGAAAAAAATAAATATATTT
38229015 AA
1 AA
38229017 AAAATAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 6 0.18
36 9 0.27
37 18 0.55
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (34 bp):
AATATATTTAAAAAGGAAAAAAATAAATATATTT
Found at i:38229025 original size:24 final size:25
Alignment explanation
Indices: 38228980--38229031 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
38228970 ATTATAATTT
*
38228980 AATATATTTTAAAAAGGAAAAAAGTA
1 AATATATTTTAAAAA-GAAAAAAATA
38229006 AATATA-TTTAAAAA-ATAAAAAATA
1 AATATATTTTAAAAAGA-AAAAAATA
38229030 AA
1 AA
38229032 ATTGAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 1 0.04
24 9 0.38
25 8 0.33
26 6 0.25
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (25 bp):
AATATATTTTAAAAAGAAAAAAATA
Found at i:38229033 original size:25 final size:26
Alignment explanation
Indices: 38228980--38229031 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
38228970 ATTATAATTT
*
38228980 AATATATTTTAAAAAGGAAAAAAGTA
1 AATATATTTTAAAAAAGAAAAAAGTA
*
38229006 AATATA-TTTAAAAAATAAAAAA-TA
1 AATATATTTTAAAAAAGAAAAAAGTA
38229030 AA
1 AA
38229032 ATTGAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 4 0.17
25 14 0.58
26 6 0.25
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (26 bp):
AATATATTTTAAAAAAGAAAAAAGTA
Found at i:38229034 original size:62 final size:66
Alignment explanation
Indices: 38228937--38229115 Score: 183
Period size: 62 Copynumber: 2.7 Consensus size: 66
38228927 AAATGAATTT
*
38228937 AAAAA-TAAATATATTTAAAAATTAAAAAA-ATAAATTATAATTTAAT-ATAT-T-TT-AAAAAG
1 AAAAAGTAAATATATTTAAAAAATAAAAAATA-AAATTATAATTTAATAATATATATTAAAAAAG
38228996 GA
65 GA
38228998 AAAAAGTAAATATATTTAAAAAATAAAAAATAAAATTGAATTATAATTTAATAGATATATATTAA
1 AAAAAGTAAATATATTTAAAAAATAAAAAAT--AA---AATTATAATTTAATA-ATATATATTAA
*
38229063 AAAATGA
60 AAAAGGA
*
38229070 AAAAAGAAATAAATATATTTAAAAAAATAAAAAAT-GAATTATAATT
1 AAAAAG---TAAATATATTT-AAAAAATAAAAAATAAAATTATAATT
38229116 AACTATTATT
Statistics
Matches: 99, Mismatches: 3, Indels: 23
0.79 0.02 0.18
Matches are distributed among these distances:
61 5 0.05
62 23 0.23
64 1 0.01
65 1 0.01
67 14 0.14
69 4 0.04
70 11 0.11
71 2 0.02
72 13 0.13
75 11 0.11
76 14 0.14
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (66 bp):
AAAAAGTAAATATATTTAAAAAATAAAAAATAAAATTATAATTTAATAATATATATTAAAAAAGG
A
Found at i:38229090 original size:75 final size:69
Alignment explanation
Indices: 38228939--38229104 Score: 193
Period size: 67 Copynumber: 2.4 Consensus size: 69
38228929 ATGAATTTAA
*
38228939 AAATAAATATATTT-AAAAAT--TAAA-AAAATAAATTATAATTTAATATATTTTAAAAAGGAAA
1 AAATAAATATATTTAAAAAATAAAAAATAAAATAAATTATAATTTAATATATTTTAAAAAGGAAA
38229000 AAAG
66 AAAG
*
38229004 ---TAAATATATTTAAAAAATAAAAAATAAAATTGAATTATAATTTAATAGATATATATTAAAAA
1 AAATAAATATATTTAAAAAATAAAAAATAAAA-TAAATTATAATTTAAT--ATAT-T-TT-AAAA
*
38229066 ATGAAAAAAG
60 AGGAAAAAAG
38229076 AAATAAATATATTTAAAAAAATAAAAAAT
1 AAATAAATATATTT-AAAAAATAAAAAAT
38229105 GAATTATAAT
Statistics
Matches: 84, Mismatches: 3, Indels: 17
0.81 0.03 0.16
Matches are distributed among these distances:
62 11 0.13
63 6 0.07
65 3 0.04
66 4 0.05
67 15 0.18
69 4 0.05
70 1 0.01
71 2 0.02
72 13 0.15
75 11 0.13
76 14 0.17
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (69 bp):
AAATAAATATATTTAAAAAATAAAAAATAAAATAAATTATAATTTAATATATTTTAAAAAGGAAA
AAAG
Found at i:38229101 original size:28 final size:29
Alignment explanation
Indices: 38229047--38229103 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
38229037 ATTATAATTT
*
38229047 AATAGATATATATTAAAAAATGAAAAAAGA
1 AATAAATATATATTAAAAAAT-AAAAAAGA
38229077 AATAAATATAT-TTAAAAAAATAAAAAA
1 AATAAATATATATT-AAAAAATAAAAAA
38229104 TGAATTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (29 bp):
AATAAATATATATTAAAAAATAAAAAAGA
Found at i:38229176 original size:11 final size:11
Alignment explanation
Indices: 38229162--38229220 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
38229152 ATTGAAATTA
38229162 AAATTCAAATG
1 AAATTCAAATG
*
38229173 AAATTTC-CATG
1 AAA-TTCAAATG
*
38229184 AAATTCAATTG
1 AAATTCAAATG
*
38229195 AAA-TGAAATG
1 AAATTCAAATG
*
38229205 AAATTCAATTG
1 AAATTCAAATG
38229216 AAATT
1 AAATT
38229221 TAAAAACATA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
10 11 0.29
11 24 0.63
12 3 0.08
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.32
Consensus pattern (11 bp):
AAATTCAAATG
Found at i:38229248 original size:15 final size:15
Alignment explanation
Indices: 38229228--38229288 Score: 68
Period size: 15 Copynumber: 3.9 Consensus size: 15
38229218 ATTTAAAAAC
38229228 ATAAGTAAAATTTAT
1 ATAAGTAAAATTTAT
**
38229243 ATAAGTAGACTTTTTAT
1 ATAAGTA-A-AATTTAT
*
38229260 ATAAATAAAATTTAT
1 ATAAGTAAAATTTAT
*
38229275 ATAACTAAAATTTA
1 ATAAGTAAAATTTA
38229289 AGAAGTTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
15 25 0.66
16 2 0.05
17 11 0.29
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (15 bp):
ATAAGTAAAATTTAT
Found at i:38229323 original size:19 final size:19
Alignment explanation
Indices: 38229291--38229333 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
38229281 AAAATTTAAG
*
38229291 AAGT-TAAATTAATTAAAA
1 AAGTATAAATAAATTAAAA
*
38229309 AAGTATAAATAAATTATAA
1 AAGTATAAATAAATTAAAA
38229328 AA-TATA
1 AAGTATA
38229334 TTAATTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
AAGTATAAATAAATTAAAA
Found at i:38229799 original size:14 final size:15
Alignment explanation
Indices: 38229747--38229804 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 15
38229737 TAATTAATTA
38229747 AAAAATAAATTAATTT
1 AAAAATAAATT-ATTT
* *
38229763 GAACAAA-AGACTATTT
1 -AA-AAATAAATTATTT
38229779 AAAAATAAATTATTT
1 AAAAATAAATTATTT
38229794 -AAAATAAATTA
1 AAAAATAAATTA
38229805 ATTTGAACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
14 14 0.40
15 9 0.26
16 4 0.11
17 5 0.14
18 3 0.09
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (15 bp):
AAAAATAAATTATTT
Found at i:38242344 original size:26 final size:26
Alignment explanation
Indices: 38242279--38242346 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
38242269 GTCAATGGTT
* *
38242279 AACGGGTTCGGGTTATCGAGTTGATC
1 AACGGGTTCGGGTCATCGAGTCGATC
** * *
38242305 AACGGGTTTAGGTCGTCGGGTCGATC
1 AACGGGTTCGGGTCATCGAGTCGATC
38242331 AACGGGTTCGGGTCAT
1 AACGGGTTCGGGTCAT
38242347 TTGGTTTGAG
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.18, C:0.18, G:0.37, T:0.28
Consensus pattern (26 bp):
AACGGGTTCGGGTCATCGAGTCGATC
Found at i:38259582 original size:42 final size:42
Alignment explanation
Indices: 38259524--38259712 Score: 218
Period size: 42 Copynumber: 4.5 Consensus size: 42
38259514 TATGCTCTAA
* *
38259524 CGAGTCATAAGTCTTCCTTTAATCATATTCTCATTCTCATCC
1 CGAGACATGAGTCTTCCTTTAATCATATTCTCATTCTCATCC
* * *
38259566 CGAGACATGATTCTTCCTTTAATAATATTCTCATTCTCATCT
1 CGAGACATGAGTCTTCCTTTAATCATATTCTCATTCTCATCC
* * * *
38259608 TGAGACATGAGTCTTCCTTCAATCATAATCTCATTCTCATCT
1 CGAGACATGAGTCTTCCTTTAATCATATTCTCATTCTCATCC
* * * * *
38259650 CGAGACATGAGTATTCCATTT-ATACAAATCCTCATGCTCAACC
1 CGAGACATGAGTCTTCC-TTTAAT-CATATTCTCATTCTCATCC
*
38259693 CGAGACATGAGTCTCCCTTT
1 CGAGACATGAGTCTTCCTTT
38259713 TTATACATCA
Statistics
Matches: 124, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 94 0.76
43 30 0.24
ACGTcount: A:0.26, C:0.27, G:0.10, T:0.37
Consensus pattern (42 bp):
CGAGACATGAGTCTTCCTTTAATCATATTCTCATTCTCATCC
Found at i:38267405 original size:7 final size:7
Alignment explanation
Indices: 38267395--38267424 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
38267385 AGTTATGGAA
38267395 ATTCCAC
1 ATTCCAC
38267402 ATTCCAC
1 ATTCCAC
38267409 ATTCCAC
1 ATTCCAC
*
38267416 ATTTCAC
1 ATTCCAC
38267423 AT
1 AT
38267425 CTAACCTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (7 bp):
ATTCCAC
Found at i:38268453 original size:24 final size:27
Alignment explanation
Indices: 38268405--38268456 Score: 83
Period size: 24 Copynumber: 2.0 Consensus size: 27
38268395 ACCACCTTTA
38268405 TCAGATAAAATAAATAAATTTTTTTGG
1 TCAGATAAAATAAATAAATTTTTTTGG
38268432 TCAGAT-AAA-AAAT-AATTTTTTTGG
1 TCAGATAAAATAAATAAATTTTTTTGG
38268456 T
1 T
38268457 GTCGCCCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 12 0.48
25 4 0.16
26 3 0.12
27 6 0.24
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (27 bp):
TCAGATAAAATAAATAAATTTTTTTGG
Found at i:38270202 original size:30 final size:28
Alignment explanation
Indices: 38270141--38270229 Score: 99
Period size: 30 Copynumber: 3.1 Consensus size: 28
38270131 AAAAAATAAT
* * *
38270141 AATTAGAAATGAAATTTAAAA-AAATGA
1 AATTAGAAATTAAATTAAAAATAAACGA
38270168 AATTAGAAATTAAATTGAAAATATAAACGA
1 AATTAGAAATTAAATT-AAAA-ATAAACGA
*
38270198 AATTACAAATTAAATTTAAAAAGTAAACGA
1 AATTAGAAATTAAA-TTAAAAA-TAAACGA
38270228 AA
1 AA
38270230 AAATCAAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
27 15 0.28
28 3 0.06
29 2 0.04
30 31 0.58
31 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.09, T:0.26
Consensus pattern (28 bp):
AATTAGAAATTAAATTAAAAATAAACGA
Found at i:38273023 original size:51 final size:50
Alignment explanation
Indices: 38272947--38273133 Score: 216
Period size: 51 Copynumber: 3.6 Consensus size: 50
38272937 CTATAAACGA
* *
38272947 AAAGGTCTGATGAGTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTA-GGATT
* *
38272998 AAAGGTCCGTTGACTAAGTGTCATCGTGAGTAAATGAATCCATGATA-GATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCC-T-TTAGGATT
* * **
38273049 AAAGGTCCGATGACTTAGTGTCATCGTGAGTATATGAATTCCTATTAGGAAC
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAA-TCCT-TTAGGATT
*
38273101 AAGAGGTCCGATGACTATA-TGTCATCATGAGTA
1 AA-AGGTCCGATGACTA-AGTGTCATCGTGAGTA
38273134 TTAAATGAAA
Statistics
Matches: 117, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
51 80 0.68
52 8 0.07
53 28 0.24
54 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (50 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTAGGATT
Found at i:38274882 original size:51 final size:51
Alignment explanation
Indices: 38274811--38275088 Score: 389
Period size: 51 Copynumber: 5.4 Consensus size: 51
38274801 AAAGGGTTCA
*
38274811 ATGACTAAGAGTCATCGTGAGTGAATGAATCCTTTATGGATTAAAGGTCCG
1 ATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAAGGTCCG
* *
38274862 ATGACTAAGTGTCATTGTGAGTGAATGAATCCTTTATGGATTAATGGTCCG
1 ATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAAGGTCCG
* *
38274913 ATGACTAAGTGTCATCGTGAGTGAATGAATCC-TTATGGATTAATGGTCAG
1 ATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAAGGTCCG
* *
38274963 ATGACTAAGTGCCATCGTGAGTAAATGAATCCTTTATGGATTAAAGGTCCG
1 ATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAAGGTCCG
** * * **
38275014 ATGACTAAGTGTCATCGTGAGTTTATGGATTCCTATATGGAACAAGAGGTCCG
1 ATGACTAAGTGTCATCGTGAGTGAAT-GAATCCTTTATGGATTAA-AGGTCCG
*
38275067 ATGACTATA-TATCATCGTGAGT
1 ATGACTA-AGTGTCATCGTGAGT
38275089 ATTAAATGAA
Statistics
Matches: 206, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
50 47 0.23
51 118 0.57
52 14 0.07
53 26 0.13
54 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (51 bp):
ATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAAGGTCCG
Found at i:38274990 original size:101 final size:102
Alignment explanation
Indices: 38274811--38275035 Score: 380
Period size: 101 Copynumber: 2.2 Consensus size: 102
38274801 AAAGGGTTCA
* * *
38274811 ATGACTAAGAGTCATCGTGAGTGAATGAATCCTTTATGGATTAAAGGTCCGATGACTAAGTGTCA
1 ATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAAGGTCAGATGACTAAGTGCCA
* * *
38274876 TTGTGAGTGAATGAATCCTTTATGGATTAATGGTCCG
66 TCGTGAGTAAATGAATCCTTTATGGATTAAAGGTCCG
*
38274913 ATGACTAAGTGTCATCGTGAGTGAATGAATCC-TTATGGATTAATGGTCAGATGACTAAGTGCCA
1 ATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAAGGTCAGATGACTAAGTGCCA
38274977 TCGTGAGTAAATGAATCCTTTATGGATTAAAGGTCCG
66 TCGTGAGTAAATGAATCCTTTATGGATTAAAGGTCCG
38275014 ATGACTAAGTGTCATCGTGAGT
1 ATGACTAAGTGTCATCGTGAGT
38275036 TTATGGATTC
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
101 85 0.73
102 31 0.27
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (102 bp):
ATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAAGGTCAGATGACTAAGTGCCA
TCGTGAGTAAATGAATCCTTTATGGATTAAAGGTCCG
Found at i:38276227 original size:15 final size:15
Alignment explanation
Indices: 38276207--38276262 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
38276197 ACATCAACAC
38276207 TTTAATTTGAATAAT
1 TTTAATTTGAATAAT
*
38276222 TTTAATTTGAATAGT
1 TTTAATTTGAATAAT
38276237 TTT--TTT-AATAGATT
1 TTTAATTTGAATA-A-T
38276251 TTTAATTTGAAT
1 TTTAATTTGAAT
38276263 TTAAATATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
12 4 0.12
13 3 0.09
14 4 0.12
15 17 0.50
16 3 0.09
17 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (15 bp):
TTTAATTTGAATAAT
Found at i:38276630 original size:26 final size:26
Alignment explanation
Indices: 38276576--38276632 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
38276566 TTTATTTAAC
38276576 TTTATT-AAATATTTTTAAAAAATTA
1 TTTATTAAAATATTTTTAAAAAATTA
* *
38276601 -TTATTAAAATCATTTTT-TAAATTTA
1 TTTATTAAAAT-ATTTTTAAAAAATTA
38276626 TTTATTA
1 TTTATTA
38276633 TTTTTTCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 5 0.19
25 10 0.37
26 12 0.44
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
TTTATTAAAATATTTTTAAAAAATTA
Found at i:38276899 original size:24 final size:23
Alignment explanation
Indices: 38276848--38276905 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 23
38276838 ATATTTTCAA
38276848 TATTTTAAATTAAATTTCAACTT
1 TATTTTAAATTAAATTTCAACTT
* * * *
38276871 CATTTTCAATTTAGATTTCAATTT
1 TATTTT-AAATTAAATTTCAACTT
*
38276895 TATTTAAAATT
1 TATTTTAAATT
38276906 CATTTGAAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (23 bp):
TATTTTAAATTAAATTTCAACTT
Found at i:38276910 original size:11 final size:11
Alignment explanation
Indices: 38276896--38276994 Score: 63
Period size: 12 Copynumber: 8.4 Consensus size: 11
38276886 TTTCAATTTT
*
38276896 ATTTAAAATTC
1 ATTTAAAATTA
38276907 ATTTGAAAATTAA
1 ATTT-AAAATT-A
* *
38276920 ATTTAAATTTC
1 ATTTAAAATTA
* *
38276931 ATTGAAATTTCA
1 ATTTAAAATT-A
* *
38276943 ATTTTAAATGAA
1 ATTTAAAAT-TA
*
38276955 ATTTAAATTTA
1 ATTTAAAATTA
38276966 ATTTAAAATTGTA
1 ATTTAAAA-T-TA
38276979 AGTTTAAAATTA
1 A-TTTAAAATTA
38276991 ATTT
1 ATTT
38276995 TTTAATTATT
Statistics
Matches: 68, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
11 24 0.35
12 29 0.43
13 8 0.12
14 7 0.10
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.46
Consensus pattern (11 bp):
ATTTAAAATTA
Found at i:38276917 original size:24 final size:23
Alignment explanation
Indices: 38276896--38276951 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
38276886 TTTCAATTTT
38276896 ATTTAAAATTCATTTGAAAATTAA
1 ATTTAAAATTCA-TTGAAAATTAA
* * *
38276920 ATTTAAATTTCATTGAAATTTCA
1 ATTTAAAATTCATTGAAAATTAA
*
38276943 ATTTTAAAT
1 ATTTAAAAT
38276952 GAAATTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (23 bp):
ATTTAAAATTCATTGAAAATTAA
Found at i:38276927 original size:6 final size:6
Alignment explanation
Indices: 38276851--38276991 Score: 51
Period size: 6 Copynumber: 23.8 Consensus size: 6
38276841 TTTTCAATAT
* * * * * * * *
38276851 TTTAAA -TTAAA TTTCAA CTTCAT TTTCAA TTTAGA TTTCAA TTT-TA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * * *
38276897 TTTAAA ATT-CA TTTGAAA ATTAAA TTTAAA TTT-CA TTGAAA TTTCAAT
1 TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA
* * *
38276945 TTTAAA -TGAAA TTTAAA TTT-AA TTTAAAA TTGTAAG TTTAAA ATTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TT-TAAA TTTAAA TTTAA
38276992 TTTTTTAATT
Statistics
Matches: 97, Mismatches: 28, Indels: 20
0.67 0.19 0.14
Matches are distributed among these distances:
5 24 0.25
6 56 0.58
7 16 0.16
8 1 0.01
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:38276929 original size:35 final size:35
Alignment explanation
Indices: 38276885--38276975 Score: 103
Period size: 35 Copynumber: 2.6 Consensus size: 35
38276875 TTCAATTTAG
* * *
38276885 ATTTCAATTTTATTTAAAATTC-ATTTGAAAATTAA
1 ATTTAAATTTAATTTAAAATTCAATTT-AAAATGAA
* * * *
38276920 ATTTAAATTTCATTGAAATTTCAATTTTAAATGAA
1 ATTTAAATTTAATTTAAAATTCAATTTAAAATGAA
38276955 ATTTAAATTTAATTTAAAATT
1 ATTTAAATTTAATTTAAAATT
38276976 GTAAGTTTAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
35 42 0.91
36 4 0.09
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.48
Consensus pattern (35 bp):
ATTTAAATTTAATTTAAAATTCAATTTAAAATGAA
Found at i:38276935 original size:23 final size:25
Alignment explanation
Indices: 38276896--38276951 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
38276886 TTTCAATTTT
*
38276896 ATTTAAAATTCATTTGAAAATT-AA
1 ATTTAAATTTCATTTGAAAATTCAA
*
38276920 ATTTAAATTTCA-TTGAAATTTCAA
1 ATTTAAATTTCATTTGAAAATTCAA
*
38276944 TTTTAAAT
1 ATTTAAAT
38276952 GAAATTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 8 0.29
24 20 0.71
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (25 bp):
ATTTAAATTTCATTTGAAAATTCAA
Found at i:38276975 original size:18 final size:17
Alignment explanation
Indices: 38276914--38276968 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
38276904 TTCATTTGAA
38276914 AATT-AAATTTAAATTT
1 AATTGAAATTTAAATTT
* *
38276930 CATTGAAATTTCAATTTT
1 AATTGAAATTT-AAATTT
*
38276948 AAATGAAATTTAAATTT
1 AATTGAAATTTAAATTT
38276965 AATT
1 AATT
38276969 TAAAATTGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
16 3 0.10
17 14 0.45
18 14 0.45
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (17 bp):
AATTGAAATTTAAATTT
Found at i:38276986 original size:14 final size:12
Alignment explanation
Indices: 38276890--38276994 Score: 67
Period size: 11 Copynumber: 8.8 Consensus size: 12
38276880 TTTAGATTTC
*
38276890 AATTTTATTTAA
1 AATTTAATTTAA
*
38276902 AA-TTCATTTGAA
1 AATTTAATTT-AA
*
38276914 AATTAAATTT-A
1 AATTTAATTTAA
* *
38276925 AATTTCA-TTGA
1 AATTTAATTTAA
*
38276936 AATTTCAATTTTA
1 AATTT-AATTTAA
**
38276949 AATGAAATTT-A
1 AATTTAATTTAA
38276960 AATTTAATTTAA
1 AATTTAATTTAA
38276972 AATTGTAAGTTTAA
1 AATT-TAA-TTTAA
38276986 AA-TTAATTT
1 AATTTAATTT
38276995 TTTAATTATT
Statistics
Matches: 74, Mismatches: 11, Indels: 17
0.73 0.11 0.17
Matches are distributed among these distances:
10 2 0.03
11 30 0.41
12 20 0.27
13 15 0.20
14 7 0.09
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.48
Consensus pattern (12 bp):
AATTTAATTTAA
Found at i:38277142 original size:19 final size:19
Alignment explanation
Indices: 38277097--38277134 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
38277087 ATTTTAATTT
* *
38277097 TAATTTCAAATTTAAACTA
1 TAATTTTAAATTCAAACTA
38277116 TAATTTTAAATTCAAACTA
1 TAATTTTAAATTCAAACTA
38277135 GTATTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (19 bp):
TAATTTTAAATTCAAACTA
Found at i:38277197 original size:37 final size:36
Alignment explanation
Indices: 38277117--38277197 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
38277107 TTTAAACTAT
* *
38277117 AATTTTAAATTCAAACTAGTATTTTATTTTGAAGTT
1 AATTTTAAATTCAAACTAGTATTTTATTTTGAAATC
* *
38277153 AAATTTAAATTTAAAC-ATGTATTTTAATTTTGAAATC
1 AATTTTAAATTCAAACTA-GTATTTT-ATTTTGAAATC
38277190 AATTTTAA
1 AATTTTAA
38277198 CTTAATTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
35 1 0.03
36 21 0.55
37 16 0.42
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (36 bp):
AATTTTAAATTCAAACTAGTATTTTATTTTGAAATC
Found at i:38280449 original size:23 final size:22
Alignment explanation
Indices: 38280407--38280453 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
38280397 TTTTTTTCGT
38280407 TTATTTTTTAATATTAATTTTAA
1 TTATTTTTTAATATTAA-TTTAA
38280430 TTATTTTTTAATA-TATATTTAA
1 TTATTTTTTAATATTA-ATTTAA
38280452 TT
1 TT
38280454 TTTCGATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TTATTTTTTAATATTAATTTAA
Found at i:38280473 original size:18 final size:18
Alignment explanation
Indices: 38280427--38280479 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
38280417 ATATTAATTT
38280427 TAATTATTTTTTAATATA
1 TAATTATTTTTTAATATA
* **
38280445 TATTTAATTTTTCGATA-A
1 TAATT-ATTTTTTAATATA
38280463 TAATTATTTTTTAATAT
1 TAATTATTTTTTAATAT
38280480 TTTCACAACA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
17 9 0.33
18 9 0.33
19 9 0.33
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
TAATTATTTTTTAATATA
Found at i:38281070 original size:42 final size:41
Alignment explanation
Indices: 38281024--38281141 Score: 113
Period size: 37 Copynumber: 2.9 Consensus size: 41
38281014 TGGTGTCGGC
38281024 CATGGCATAGACGACACCAAAAAAAATATTTGTTTTATCAGA-
1 CATGGCAT-GACGACACCAAAAAAAATATTT-TTTTATCAGAT
*
38281066 CATGGC----CGACACCAAGAAAAAATATTTTTTTATTAGAT
1 CATGGCATGACGACACCAA-AAAAAATATTTTTTTATCAGAT
* *
38281104 AAAGGTCATGGACGACA-CAAAAAAAATTATTTTTTTAT
1 CATGG-CAT-GACGACACCAAAAAAAA-TATTTTTTTAT
38281142 TTGATAAAGT
Statistics
Matches: 64, Mismatches: 3, Indels: 17
0.76 0.04 0.20
Matches are distributed among these distances:
37 18 0.28
38 14 0.22
39 1 0.02
42 12 0.19
43 14 0.22
44 5 0.08
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (41 bp):
CATGGCATGACGACACCAAAAAAAATATTTTTTTATCAGAT
Found at i:38281136 original size:43 final size:44
Alignment explanation
Indices: 38281066--38281150 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 44
38281056 TTTTATCAGA
*
38281066 CATGGCCGACACCAAGAAAAAATATTTTTTTATTAGATAAAGGT
1 CATGGACGACACCAAGAAAAAATATTTTTTTATTAGATAAAGGT
*
38281110 CATGGACGACA-CAA-AAAAAATTATTTTTTTATTTGATAAAG
1 CATGGACGACACCAAGAAAAAA-TATTTTTTTATTAGATAAAG
38281151 TAAGTGTCAG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 6 0.16
43 22 0.58
44 10 0.26
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (44 bp):
CATGGACGACACCAAGAAAAAATATTTTTTTATTAGATAAAGGT
Found at i:38281241 original size:58 final size:57
Alignment explanation
Indices: 38281121--38281245 Score: 137
Period size: 58 Copynumber: 2.2 Consensus size: 57
38281111 ATGGACGACA
* * * * * * *
38281121 CAAAAAAAATTATTTTTTTATTTGATAAAGTAAGTGTCAGCCATGTTTTGGGCGACAT
1 CAAAAAAAATTATTTTTTTATCTGATAAAGT-AGTGTCAGCCATGGTATAGCCAACAC
38281179 CAAAAAAAATTATTTTTTTATCTGATAAAAGT-GCTGTC-GACCATGGTATAGCCAACAC
1 CAAAAAAAATTATTTTTTTATCTGAT-AAAGTAG-TGTCAG-CCATGGTATAGCCAACAC
38281237 CAAAAAAAA
1 CAAAAAAAA
38281246 ATTTATCTGA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
57 2 0.04
58 50 0.88
59 5 0.09
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (57 bp):
CAAAAAAAATTATTTTTTTATCTGATAAAGTAGTGTCAGCCATGGTATAGCCAACAC
Found at i:38282992 original size:118 final size:118
Alignment explanation
Indices: 38282784--38283024 Score: 464
Period size: 118 Copynumber: 2.0 Consensus size: 118
38282774 CGTACATGAG
38282784 TATTTAATCAACTTCCCAATGGTGTTAAATTTGTAGCCAAGCAGGTTGTGGAATCTCATTACAGC
1 TATTTAATCAACTTCCCAATGGTGTTAAATTTGTAGCCAAGCAGGTTGTGGAATCTCATTACAGC
*
38282849 AAACAATGGAATATTCTCGACATAGAACTCCAAAATTTCACCAACCATTGTTT
66 AAACAATGGAATATTCTCAACATAGAACTCCAAAATTTCACCAACCATTGTTT
*
38282902 TATTTAATCAACTTCCCAATGGTGTTAAATTTGTAGCCAAGCTGGTTGTGGAATCTCATTACAGC
1 TATTTAATCAACTTCCCAATGGTGTTAAATTTGTAGCCAAGCAGGTTGTGGAATCTCATTACAGC
38282967 AAACAATGGAATATTCTCAACATAGAACTCCAAAATTTCACCAACCATTGTTT
66 AAACAATGGAATATTCTCAACATAGAACTCCAAAATTTCACCAACCATTGTTT
38283020 TATTT
1 TATTT
38283025 TGCAGGACAT
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 121 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.33
Consensus pattern (118 bp):
TATTTAATCAACTTCCCAATGGTGTTAAATTTGTAGCCAAGCAGGTTGTGGAATCTCATTACAGC
AAACAATGGAATATTCTCAACATAGAACTCCAAAATTTCACCAACCATTGTTT
Found at i:38289991 original size:21 final size:21
Alignment explanation
Indices: 38289967--38290019 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 21
38289957 TTGTGCTAGC
38289967 TCTACCGATACAAGT-ATG-A
1 TCTACCGATACAAGTCATGCA
38289986 TTTCTACCGATACAAGTCATGCA
1 --TCTACCGATACAAGTCATGCA
38290009 TCTACCGATAC
1 TCTACCGATAC
38290020 CAAAAACTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 26 0.87
22 3 0.10
23 1 0.03
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.28
Consensus pattern (21 bp):
TCTACCGATACAAGTCATGCA
Found at i:38291741 original size:22 final size:23
Alignment explanation
Indices: 38291716--38291759 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
38291706 ACTTTCATTA
38291716 TTAAGCTTAATT-AACCCATTTT
1 TTAAGCTTAATTAAACCCATTTT
* *
38291738 TTAATCTTGATTAAACCCATTT
1 TTAAGCTTAATTAAACCCATTT
38291760 ATACTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (23 bp):
TTAAGCTTAATTAAACCCATTTT
Found at i:38307365 original size:11 final size:11
Alignment explanation
Indices: 38307349--38307374 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
38307339 TAGCTATCAA
38307349 ATATCTTGTAG
1 ATATCTTGTAG
38307360 ATATCTTGTAG
1 ATATCTTGTAG
38307371 ATAT
1 ATAT
38307375 ATACTTTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (11 bp):
ATATCTTGTAG
Found at i:38308335 original size:15 final size:15
Alignment explanation
Indices: 38308315--38308345 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
38308305 GGCAACTACA
*
38308315 AGGTTCGACGTTGAG
1 AGGTTCGACATTGAG
38308330 AGGTTCGACATTGAG
1 AGGTTCGACATTGAG
38308345 A
1 A
38308346 ATTTCGATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.13, G:0.35, T:0.26
Consensus pattern (15 bp):
AGGTTCGACATTGAG
Found at i:38314968 original size:52 final size:52
Alignment explanation
Indices: 38314890--38315176 Score: 394
Period size: 52 Copynumber: 5.5 Consensus size: 52
38314880 ATAGGTTCGG
* * *
38314890 TGACTATTTGTCATCGTGAGTATATGAATCCTTTACGGATTATGTCGTCTGA
1 TGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGTGGTCCGA
* * * * *
38314942 TGACTATGTGTAATCGTGAGTATATGAATTCTTTACAGATTATGTAGTCTGA
1 TGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGTGGTCCGA
* *
38314994 TGACTATGTGTTATCGTGAGTATATGCATCCTTTACGGATTATGTGGTCCGA
1 TGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGTGGTCCGA
* * * * * *
38315046 TGATTATGTGTCATTGTGAGTGTATGAATCCCTTACGGATAATGAGGTCCGA
1 TGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGTGGTCCGA
* *
38315098 TGACTATGTGTCATTGTGAGTATATGAATCCTTTACGGATTATGAGGTCCGA
1 TGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGTGGTCCGA
* *
38315150 TGGCTATATGTCATCGTGAGTATATGA
1 TGACTATGTGTCATCGTGAGTATATGA
38315177 TTCCCAATAC
Statistics
Matches: 209, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 209 1.00
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (52 bp):
TGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGTGGTCCGA
Found at i:38315198 original size:52 final size:52
Alignment explanation
Indices: 38314890--38315224 Score: 217
Period size: 52 Copynumber: 6.4 Consensus size: 52
38314880 ATAGGTTCGG
* ** * *** *
38314890 TGACTATTTGTCATCGTGAGTATATGAATCCTTTACGGATTATGTCGTCTGA
1 TGACTATATGTCATCGTGAGTATATGAATCCAATACGAATTATAAGGTCCGA
* * * ** * *
38314942 TGACTATGTGTAATCGTGAGTATATGAATTCTTTAC-AGATTATGTA-GTCTGA
1 TGACTATATGTCATCGTGAGTATATGAATCCAATACGA-ATTAT-AAGGTCCGA
* * * ** * **
38314994 TGACTATGTGTTATCGTGAGTATATGCATCCTTTACGGATTATGTGGTCCGA
1 TGACTATATGTCATCGTGAGTATATGAATCCAATACGAATTATAAGGTCCGA
* * * * ** * * *
38315046 TGATTATGTGTCATTGTGAGTGTATGAATCCCTTACGGATAATGAGGTCCGA
1 TGACTATATGTCATCGTGAGTATATGAATCCAATACGAATTATAAGGTCCGA
* * ** * *
38315098 TGACTATGTGTCATTGTGAGTATATGAATCCTTTACGGATTATGAGGTCCGA
1 TGACTATATGTCATCGTGAGTATATGAATCCAATACGAATTATAAGGTCCGA
* * *
38315150 TGGCTATATGTCATCGTGAGTATATGATTCCCAATACGAATTA-AAGGTCTGA
1 TGACTATATGTCATCGTGAGTATATGAAT-CCAATACGAATTATAAGGTCCGA
* * * *
38315202 TTACTCTGTGTCATCGTAAGTAT
1 TGACTATATGTCATCGTGAGTAT
38315225 CAAATATGCA
Statistics
Matches: 239, Mismatches: 39, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
52 229 0.96
53 10 0.04
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (52 bp):
TGACTATATGTCATCGTGAGTATATGAATCCAATACGAATTATAAGGTCCGA
Found at i:38315198 original size:104 final size:103
Alignment explanation
Indices: 38314890--38315224 Score: 381
Period size: 104 Copynumber: 3.2 Consensus size: 103
38314880 ATAGGTTCGG
* * * *
38314890 TGACTATTTGTCATCGTGAGTATATGAATCCTTTACGGATTATGTCGTCTGATGACTATGTGTAA
1 TGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGTGGTCCGATGACTATGTGTCA
* *
38314955 TCGTGAGTATATGAATT-CTTTAC-AGATT-ATGTAGTCTGA
66 TCGTGAGTATATG-ATTCCCTTACGA-ATTAAAG--GTCTGA
* * *
38314994 TGACTATGTGTTATCGTGAGTATATGCATCCTTTACGGATTATGTGGTCCGATGATTATGTGTCA
1 TGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGTGGTCCGATGACTATGTGTCA
* * * * *
38315059 TTGTGAGTGTATGAATCCCTTACGGA-TAATGAGGTCCGA
66 TCGTGAGTATATGATTCCCTTACGAATTAA--AGGTCTGA
* * * *
38315098 TGACTATGTGTCATTGTGAGTATATGAATCCTTTACGGATTATGAGGTCCGATGGCTATATGTCA
1 TGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGTGGTCCGATGACTATGTGTCA
*
38315163 TCGTGAGTATATGATTCCCAATACGAATTAAAGGTCTGA
66 TCGTGAGTATATGATTCCC-TTACGAATTAAAGGTCTGA
* * *
38315202 TTACTCTGTGTCATCGTAAGTAT
1 TGACTATGTGTCATCGTGAGTAT
38315225 CAAATATGCA
Statistics
Matches: 193, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
103 3 0.02
104 181 0.94
105 5 0.03
106 4 0.02
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (103 bp):
TGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGTGGTCCGATGACTATGTGTCA
TCGTGAGTATATGATTCCCTTACGAATTAAAGGTCTGA
Found at i:38315212 original size:156 final size:156
Alignment explanation
Indices: 38314890--38315224 Score: 388
Period size: 156 Copynumber: 2.1 Consensus size: 156
38314880 ATAGGTTCGG
* * * * *
38314890 TGACTATTTGTCATCGTGAGTATATGAATCCTTTACGGATTATGTCGTCTGATGACTATGTGTAA
1 TGACTATGTGTCATCGTGAGTATATGAATCCCTTACGGATAATGACGTCCGATGACTATGTGTAA
* * * *
38314955 TCGTGAGTATATGAATTCTTTACAGATTATGTAGTCTGATGACTATGTGTTATCGTGAGTATATG
66 TCGTGAGTATATGAATCCTTTACAGATTATGTAGTCCGATGACTATATGTCATCGTGAGTATATG
** * **
38315020 CATCCTTTACGGATTATGTGGTCCGA
131 CATCCAATACGAATTATAAGGTCCGA
* * * * *
38315046 TGATTATGTGTCATTGTGAGTGTATGAATCCCTTACGGATAATGAGGTCCGATGACTATGTGTCA
1 TGACTATGTGTCATCGTGAGTATATGAATCCCTTACGGATAATGACGTCCGATGACTATGTGTAA
* * *
38315111 TTGTGAGTATATGAATCCTTTACGGATTATG-AGGTCCGATGGCTATATGTCATCGTGAGTATAT
66 TCGTGAGTATATGAATCCTTTACAGATTATGTA-GTCCGATGACTATATGTCATCGTGAGTATAT
*
38315175 G-ATTCCCAATACGAATTA-AAGGTCTGA
130 GCA-T-CCAATACGAATTATAAGGTCCGA
* * *
38315202 TTACTCTGTGTCATCGTAAGTAT
1 TGACTATGTGTCATCGTGAGTAT
38315225 CAAATATGCA
Statistics
Matches: 147, Mismatches: 29, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
155 2 0.01
156 135 0.92
157 10 0.07
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (156 bp):
TGACTATGTGTCATCGTGAGTATATGAATCCCTTACGGATAATGACGTCCGATGACTATGTGTAA
TCGTGAGTATATGAATCCTTTACAGATTATGTAGTCCGATGACTATATGTCATCGTGAGTATATG
CATCCAATACGAATTATAAGGTCCGA
Found at i:38317766 original size:40 final size:38
Alignment explanation
Indices: 38317698--38317832 Score: 96
Period size: 40 Copynumber: 3.4 Consensus size: 38
38317688 ACCAGAATGG
* *
38317698 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAAAGTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAG-AATAAAGTGA
* *
38317738 CACCCAGTGTCTCATCGGCCTAGCCGAAG--TAAAGTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAATAAAGTGA
* * * * *
38317775 TACCCAGTACCTCATCGAATCTATCCGAAGTAA-AATAATGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAG-AATAA-AGTGA
*
38317816 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
38317833 ACTCGAGGTC
Statistics
Matches: 74, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
37 21 0.28
38 9 0.12
40 24 0.32
41 20 0.27
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAATAAAGTGA
Found at i:38317830 original size:41 final size:38
Alignment explanation
Indices: 38317730--38317833 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 38
38317720 TTCGAAGCAA
* *
38317730 TAAAGTGACACCCAGTGTCTCATCG-GCCTAGCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
* ** ** * *
38317767 TAAAGTGGTACCCAGTACCTCATCGAATCTATCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
38317805 TAAAATAATGACACCCAGTGTCTCATCGA
1 T--AA-AATGACACCCAGTGTCTCATCGA
38317834 CTCGAGGTCA
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
37 21 0.41
38 10 0.20
40 2 0.04
41 18 0.35
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (38 bp):
TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
Found at i:38318732 original size:11 final size:12
Alignment explanation
Indices: 38318699--38318757 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 12
38318689 ATATTAGTTA
38318699 ATAATAATAA-T
1 ATAATAATAATT
*
38318710 ATAATACTAATT
1 ATAATAATAATT
38318722 A-AATAATAATTT
1 ATAATAATAA-TT
* *
38318734 ATATTATTATATT
1 ATAATAATA-ATT
*
38318747 ATAATATTAAT
1 ATAATAATAAT
38318758 AAATTAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
11 16 0.41
12 7 0.18
13 15 0.38
14 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (12 bp):
ATAATAATAATT
Found at i:38323936 original size:41 final size:38
Alignment explanation
Indices: 38323836--38323939 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 38
38323826 TTCGAAGCAA
* *
38323836 TAAAGTGACACCCAGTGTCTCATCG-GCCTAGCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
* ** ** * *
38323873 TAAAGTGGTACCCAGTACCTCATCGAATCTATCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
38323911 TAAAATAATGACACCCAGTGTCTCATCGA
1 T--AA-AATGACACCCAGTGTCTCATCGA
38323940 CTCGAGGTCA
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
37 21 0.41
38 10 0.20
40 2 0.04
41 18 0.35
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (38 bp):
TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
Found at i:38324836 original size:11 final size:12
Alignment explanation
Indices: 38324803--38324861 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 12
38324793 ATATTAGTTA
38324803 ATAATAATAA-T
1 ATAATAATAATT
*
38324814 ATAATACTAATT
1 ATAATAATAATT
38324826 A-AATAATAATTT
1 ATAATAATAA-TT
* *
38324838 ATATTATTATATT
1 ATAATAATA-ATT
*
38324851 ATAATATTAAT
1 ATAATAATAAT
38324862 AAATTAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
11 16 0.41
12 7 0.18
13 15 0.38
14 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (12 bp):
ATAATAATAATT
Found at i:38328086 original size:16 final size:16
Alignment explanation
Indices: 38328062--38328093 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38328052 GTCCTTACAA
*
38328062 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
38328078 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
38328094 AAAAATTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:38336667 original size:16 final size:16
Alignment explanation
Indices: 38336646--38336680 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
38336636 AAAATTTAAT
38336646 TTTATTAT-TTTAATAA
1 TTTATTATATTT-ATAA
38336662 TTTATTATATTTATAA
1 TTTATTATATTTATAA
38336678 TTT
1 TTT
38336681 TTAAAAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTATTATATTTATAA
Found at i:38337436 original size:388 final size:387
Alignment explanation
Indices: 38336630--38337787 Score: 1657
Period size: 388 Copynumber: 3.0 Consensus size: 387
38336620 TTGGTATGTC
* *
38336630 ATAATAAAAATTTAATTTTATTATTTTAATAATTTATTATATTTATAATTTTTAAAAGATTAAAT
1 ATAATAAAAATATAATTTTATTATTTTAATAATTTA-TATCTTTATAATTTTTAAAAGATTAAAT
* ** * *
38336695 TAAATTTTTATTTTTTTTAGGGAATCAAAGTGCTACTATTACTATTTTAAACTTTTATAAATCAT
65 CAAATTTTTATCATTTTTAGGG-GTCAAAGTGCTACTATTACTAATTTAAACTTTTATAAATCAT
* *
38336760 AAAAAGGTCTAAATGAATTTTTTTTTCATTTTTTTATTTTA-GGGATCCCTTCCAATTGT-CAAT
129 AAAAAGGTTTAAATGAA-TTTTTTTTCATTTTTTTATTTTAGGGGATCCCTACCAATT-TCCAAT
* * *
38336823 AAAATCCAGTATATCTTAATGATTTCATATCAATTTTTAGTAAGTTTGTTTAAGGGTTAAATTAT
192 AAAATCCAGTATGTCTTAATGATTTCATATCAATTTTTAGTAAGTTCGTTTAAGGGTTAAATCAT
* * *
38336888 TATTTGGGATTTAAATTTTAGGGCTTGAAATTTTACTTTTATTTTGGTTCAAATTAGGCTTCAAA
257 TATTTGGGACTTAAATTTTAGGGCTTGAAA-TTT--TTTT-TTTT-GTTCAAATTAAGCTCCAAA
* **
38336953 CTTGCTAATTGCTCTCACATTAAAACTTGAACTAGATAATTATTTCAACATTGAAATTTGAAATT
317 CTTGCTAATTGCTCTCACATTAAAACTTGAACTAGACAATTATTTCAACATTGAAGCTTGAAATT
38337018 TTTACG
382 TTTACG
*
38337024 ATAATAAAAATATAATTTTATTATTTTAATAATTTATATCTTTATAGTTTTTAAAAGATTAAATC
1 ATAATAAAAATATAATTTTATTATTTTAATAATTTATATCTTTATAATTTTTAAAAGATTAAATC
*
38337089 AAAATTTTATCATTTTTAGGGGTTCAAAGTGCTACTATTACTAATTTAAACTTTTATAAATCATA
66 AAATTTTTATCATTTTTAGGGG-TCAAAGTGCTACTATTACTAATTTAAACTTTTATAAATCATA
38337154 AAAAGGTTTAAATGAATTATTTTTTCATTTTTTTTATTTTAGGGGATCCCTACCAATTTCCAATA
130 AAAAGGTTTAAATGAATT-TTTTTTCA-TTTTTTTATTTTAGGGGATCCCTACCAATTTCCAATA
* * * * *
38337219 AAATTCAGGATGTCTTAATGATTTCATATCAATTTTTGGTAAGTTCATTTAAGGGTTAAATCAAT
193 AAATCCAGTATGTCTTAATGATTTCATATCAATTTTTAGTAAGTTCGTTTAAGGGTTAAATCATT
*
38337284 ATTTGGGACTTAAATTTTAGGGCTT-AAA-TTTTTTTTTTGTTTAAATTAAGCTCCAAACTTGCT
258 ATTTGGGACTTAAATTTTAGGGCTTGAAATTTTTTTTTTTGTTCAAATTAAGCTCCAAACTTGCT
* * *
38337347 AATTGCTCTCACATTAAAAATTGAACTAGACAACTATTTCAACATTGAAGCTTGAAATTTTTAGG
323 AATTGCTCTCACATTAAAACTTGAACTAGACAATTATTTCAACATTGAAGCTTGAAATTTTTACG
*
38337412 ATAATAAAAATATAATTTTATTATTTTAATAACTTATATCTTTATAATTTTTAAAAGATTAAATC
1 ATAATAAAAATATAATTTTATTATTTTAATAATTTATATCTTTATAATTTTTAAAAGATTAAATC
*
38337477 AAATTTTTATCATTTTTAAGGGGTCAAAATGCTACTATTACTAATTTAAACTTTTATAAATCATA
66 AAATTTTTATCATTTTT-AGGGGTCAAAGTGCTACTATTACTAATTTAAACTTTTATAAATCATA
* * * ** * *
38337542 AAAAAGCTTAAATG-A-TTTTTTTC--------ATTTTAGGGGGT-CCTGTCAATTGCCAGTAAA
130 AAAAGGTTTAAATGAATTTTTTTTCATTTTTTTATTTTAGGGGATCCCTACCAATTTCCAATAAA
*
38337596 ATCCAATATGTCTTAATGATTTCATATCAA-TTTTAGTAAGTTCGTTTAAGGGTTAAATCATTAT
195 ATCCAGTATGTCTTAATGATTTCATATCAATTTTTAGTAAGTTCGTTTAAGGGTTAAATCATTAT
* *
38337660 TTGAGACTTAAATTTTAGGGTTTGAAATTTTATTTTATTTTTGTTCAAATTAAGCTCCAAACTTG
260 TTGGGACTTAAATTTTAGGGCTTGAAA--TT-TTTT-TTTTTGTTCAAATTAAGCTCCAAACTTG
* *
38337725 CTAATTGCTCTCACATTAAAACTTGAACTAGACAATTGTTTCAACATTAAAGCTTG-AATTTTT
321 CTAATTGCTCTCACATTAAAACTTGAACTAGACAATTATTTCAACATTGAAGCTTGAAATTTTT
38337788 CTTTGTCCAA
Statistics
Matches: 699, Mismatches: 53, Indels: 39
0.88 0.07 0.05
Matches are distributed among these distances:
374 52 0.07
375 45 0.06
376 11 0.02
378 1 0.00
379 11 0.02
380 79 0.11
385 7 0.01
386 1 0.00
387 1 0.00
388 213 0.30
389 9 0.01
390 4 0.01
392 4 0.01
393 108 0.15
394 52 0.07
395 101 0.14
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.44
Consensus pattern (387 bp):
ATAATAAAAATATAATTTTATTATTTTAATAATTTATATCTTTATAATTTTTAAAAGATTAAATC
AAATTTTTATCATTTTTAGGGGTCAAAGTGCTACTATTACTAATTTAAACTTTTATAAATCATAA
AAAGGTTTAAATGAATTTTTTTTCATTTTTTTATTTTAGGGGATCCCTACCAATTTCCAATAAAA
TCCAGTATGTCTTAATGATTTCATATCAATTTTTAGTAAGTTCGTTTAAGGGTTAAATCATTATT
TGGGACTTAAATTTTAGGGCTTGAAATTTTTTTTTTTGTTCAAATTAAGCTCCAAACTTGCTAAT
TGCTCTCACATTAAAACTTGAACTAGACAATTATTTCAACATTGAAGCTTGAAATTTTTACG
Found at i:38338953 original size:40 final size:40
Alignment explanation
Indices: 38338895--38338983 Score: 160
Period size: 40 Copynumber: 2.2 Consensus size: 40
38338885 TCTCTTTCAA
*
38338895 GCATTTCATCGAACACATGGGTAGCTTCCTCAAACATATT
1 GCATTTCATCGAACACATGGGCAGCTTCCTCAAACATATT
*
38338935 GCATTTCATCGAATACATGGGCAGCTTCCTCAAACATATT
1 GCATTTCATCGAACACATGGGCAGCTTCCTCAAACATATT
38338975 GCATTTCAT
1 GCATTTCAT
38338984 ATACATGGCC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (40 bp):
GCATTTCATCGAACACATGGGCAGCTTCCTCAAACATATT
Found at i:38342211 original size:26 final size:27
Alignment explanation
Indices: 38342176--38342227 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
38342166 TAAGAATACT
38342176 ATATAAAAATTT-GTAATAAATAAAAA
1 ATATAAAAATTTAGTAATAAATAAAAA
* * *
38342202 ATATATAAATTTATTAATTAATAAAA
1 ATATAAAAATTTAGTAATAAATAAAA
38342228 TAAAATAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (27 bp):
ATATAAAAATTTAGTAATAAATAAAAA
Found at i:38342622 original size:28 final size:29
Alignment explanation
Indices: 38342590--38342663 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 29
38342580 TTTAGGTTTA
38342590 GGTTTAAGTTTATGGTTTTAAG-GATTAG
1 GGTTTAAGTTTATGGTTTTAAGAGATTAG
* * * *
38342618 GGTTTGAGTTTAAT-G-TTCAAGAGTTTGG
1 GGTTTAAGTTT-ATGGTTTTAAGAGATTAG
38342646 GGTTTAAGTTTA-GGTTTT
1 GGTTTAAGTTTATGGTTTT
38342664 GGATTTTATA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
27 7 0.19
28 27 0.75
29 2 0.06
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.47
Consensus pattern (29 bp):
GGTTTAAGTTTATGGTTTTAAGAGATTAG
Found at i:38351554 original size:17 final size:17
Alignment explanation
Indices: 38351529--38351599 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
38351519 GCAAGGTAAG
* *
38351529 GAGCGCGCACTATTGAT
1 GAGCTCGCACTATTGGT
* *
38351546 GAGCTCGCAATTTTGGT
1 GAGCTCGCACTATTGGT
*
38351563 GAGCTTGCAC-ATTTGGT
1 GAGCTCGCACTA-TTGGT
38351580 GAGCTCGCA-TATCTGGT
1 GAGCTCGCACTAT-TGGT
38351597 GAG
1 GAG
38351600 TTCACAGATT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
16 1 0.02
17 42 0.98
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.30
Consensus pattern (17 bp):
GAGCTCGCACTATTGGT
Found at i:38352622 original size:2 final size:2
Alignment explanation
Indices: 38352615--38352652 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
38352605 GTCATTTTAA
38352615 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38352653 TTATCATACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38355235 original size:16 final size:17
Alignment explanation
Indices: 38355216--38355284 Score: 52
Period size: 18 Copynumber: 3.9 Consensus size: 17
38355206 ATAATTTAAC
*
38355216 ATTTTTTATT-TATTTT
1 ATTTATTATTCTATTTT
*
38355232 ATTTATTATTCTATTTGC
1 ATTTATTATTCTATTT-T
*
38355250 ATTTATT-TATCCATTGTT
1 ATTTATTAT-TCTATT-TT
*
38355268 ATGTCATTATTCTATTT
1 AT-TTATTATTCTATTT
38355285 GTTTATCATC
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
16 9 0.22
17 6 0.15
18 15 0.37
19 10 0.24
20 1 0.02
ACGTcount: A:0.22, C:0.09, G:0.04, T:0.65
Consensus pattern (17 bp):
ATTTATTATTCTATTTT
Found at i:38358486 original size:15 final size:13
Alignment explanation
Indices: 38358462--38358500 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 13
38358452 TGCATATGCA
38358462 TACATGCATTCAT
1 TACATGCATTCAT
38358475 TAGCATTGCATTTCAT
1 TA-CA-TGCA-TTCAT
38358491 TACATGCATT
1 TACATGCATT
38358501 AAATTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.17
14 6 0.26
15 6 0.26
16 7 0.30
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (13 bp):
TACATGCATTCAT
Found at i:38361484 original size:17 final size:17
Alignment explanation
Indices: 38361444--38361492 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
38361434 ATGATATATG
*
38361444 AAAATGCAATGACAATG
1 AAAATGCAATGACAATA
* * *
38361461 TAGATGCAGTGACAATA
1 AAAATGCAATGACAATA
38361478 AAAATGCAATGACAA
1 AAAATGCAATGACAA
38361493 AGGAAATGTG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.51, C:0.12, G:0.18, T:0.18
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:38361499 original size:17 final size:17
Alignment explanation
Indices: 38361443--38361500 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
38361433 AATGATATAT
*
38361443 GAAAATGCAATGACAAT
1 GAAAATGCAATGACAAA
* * *
38361460 GTAGATGCAGTGACAATA
1 GAAAATGCAATGACAA-A
38361478 -AAAATGCAATGACAAA
1 GAAAATGCAATGACAAA
*
38361494 GGAAATG
1 GAAAATG
38361501 TGGTAACAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
16 1 0.03
17 30 0.97
ACGTcount: A:0.50, C:0.10, G:0.22, T:0.17
Consensus pattern (17 bp):
GAAAATGCAATGACAAA
Found at i:38361510 original size:34 final size:34
Alignment explanation
Indices: 38361444--38361510 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
38361434 ATGATATATG
* * * *
38361444 AAAATGCAATGACAATGTAGATGCAGTGACAATA
1 AAAATGCAATGACAAAGGAAATGCAGTAACAATA
**
38361478 AAAATGCAATGACAAAGGAAATGTGGTAACAAT
1 AAAATGCAATGACAAAGGAAATGCAGTAACAAT
38361511 TACATTACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.49, C:0.10, G:0.21, T:0.19
Consensus pattern (34 bp):
AAAATGCAATGACAAAGGAAATGCAGTAACAATA
Found at i:38365580 original size:24 final size:24
Alignment explanation
Indices: 38365553--38365612 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
38365543 ATTAGGTCAC
38365553 ACGAGCCCAGATAGATTAGCTC-TT
1 ACGAGCCCAGATAG-TTAGCTCATT
* *
38365577 ACGAGCCCAAATTAGTTATCTCATT
1 ACGAGCCCAGA-TAGTTAGCTCATT
38365602 -CGAGCCCAGAT
1 ACGAGCCCAGAT
38365613 CGAGTTTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 1 0.03
24 25 0.81
25 5 0.16
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (24 bp):
ACGAGCCCAGATAGTTAGCTCATT
Found at i:38367805 original size:5 final size:5
Alignment explanation
Indices: 38367790--38367834 Score: 58
Period size: 5 Copynumber: 9.0 Consensus size: 5
38367780 TTTCACTCAA
38367790 AAAAG -AAAG AAAAG AAAAG AAAAAAG AAAAG AAAAG AAAA- AAAAG
1 AAAAG AAAAG AAAAG AAAAG --AAAAG AAAAG AAAAG AAAAG AAAAG
38367835 GGAAAAAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
4 8 0.22
5 23 0.64
7 5 0.14
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:38367813 original size:22 final size:21
Alignment explanation
Indices: 38367789--38367850 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
38367779 ATTTCACTCA
38367789 AAAAAG-AAAGAAAAGAAAAGA
1 AAAAAGAAAAGAAAAGAAAA-A
38367810 AAAAAGAAAAGAAAAGAAAAA
1 AAAAAGAAAAGAAAAGAAAAA
** *
38367831 AAAGGGAAAA-AGAAGAAAAA
1 AAAAAGAAAAGAAAAGAAAAA
38367851 TGAGAGGTCG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.24
21 15 0.41
22 13 0.35
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAAGAAAAGAAAAA
Found at i:38367817 original size:17 final size:17
Alignment explanation
Indices: 38367795--38367831 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
38367785 CTCAAAAAAG
38367795 AAAGAAAAGAAAAGAAA
1 AAAGAAAAGAAAAGAAA
38367812 AAAGAAAAGAAAAGAAA
1 AAAGAAAAGAAAAGAAA
38367829 AAA
1 AAA
38367832 AAGGGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAGAAAAGAAAAGAAA
Found at i:38367831 original size:12 final size:12
Alignment explanation
Indices: 38367788--38367824 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
38367778 AATTTCACTC
38367788 AAAAAAG-AAAG
1 AAAAAAGAAAAG
38367799 --AAAAGAAAAG
1 AAAAAAGAAAAG
38367809 AAAAAAGAAAAG
1 AAAAAAGAAAAG
38367821 AAAA
1 AAAA
38367825 GAAAAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
9 5 0.22
10 4 0.17
12 14 0.61
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:38369074 original size:49 final size:48
Alignment explanation
Indices: 38369021--38369179 Score: 129
Period size: 49 Copynumber: 3.2 Consensus size: 48
38369011 ACTAGAGTTG
*
38369021 TGAAGGGAAAGGTTGAAGCCAAAAAGGCGAACCTTGTACCTTAAAGATA
1 TGAAGGGAAAGGTTGAAGCCACAAAGGCGAACCTT-TACCTTAAAGATA
* * * * * **
38369070 TGAAGGGAGAGATTGAAGCCACAACGACGAATCTTTCATGTTAGAAGATA
1 TGAAGGGAAAGGTTGAAGCCACAAAGGCGAACCTTT-ACCTTA-AAGATA
* * * * * * * *
38369120 TGAAGCGAAATGTTGAAGTCGCAATGGCGAACCTCATGCCTTAAAGATG
1 TGAAGGGAAAGGTTGAAGCCACAAAGGCGAACCT-TTACCTTAAAGATA
*
38369169 TGATGGGAAAG
1 TGAAGGGAAAG
38369180 ATTAAAGTCG
Statistics
Matches: 82, Mismatches: 25, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
48 1 0.01
49 46 0.56
50 34 0.41
51 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (48 bp):
TGAAGGGAAAGGTTGAAGCCACAAAGGCGAACCTTTACCTTAAAGATA
Found at i:38369095 original size:98 final size:96
Alignment explanation
Indices: 38368810--38369095 Score: 323
Period size: 93 Copynumber: 3.0 Consensus size: 96
38368800 GAAAACGTTG
* * *
38368810 AATCTCATACCTTAGAGATGTGAAGGGAAAGGTTAAAGCCACAAAGACAAACCTTGTACCCTAAA
1 AATCTCATACC-TAGAGATGTGAAGGGAAAGGTTGAAGCCAAAAAGGCAAACCTTGTACCCTAAA
** **
38368875 AATATGAAGGGAGAGATTGAAGTCGTAACGGTG
65 AATATGAAGGGAGAGATTGAAG-CACAACGGCA
* *
38368908 AATCTCATACCCTAGAGATGTGAA--G---GGTTGAAGCCACAATA-GCAAACCTTGTACCCTAG
1 AATCTCATA-CCTAGAGATGTGAAGGGAAAGGTTGAAGCCA-AAAAGGCAAACCTTGTACCCTAA
* * *
38368967 ATATATGGAGGGAGAGTTTGAAGCAGCAACGGCA
64 AAATATGAAGGGAGAGATTGAAGCA-CAACGGCA
* * *
38369001 AATCTCATACACTAGAGTTGTGAAGGGAAAGGTTGAAGCCAAAAAGGCGAACCTTGTACCTTAAA
1 AATCTCATAC-CTAGAGATGTGAAGGGAAAGGTTGAAGCCAAAAAGGCAAACCTTGTACCCTAAA
*
38369066 GATATGAAGGGAGAGATTGAAGCCACAACG
65 AATATGAAGGGAGAGATTGAAG-CACAACG
38369096 ACGAATCTTT
Statistics
Matches: 157, Mismatches: 20, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
92 2 0.01
93 72 0.46
94 2 0.01
95 1 0.01
96 1 0.01
97 3 0.02
98 72 0.46
99 4 0.03
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.20
Consensus pattern (96 bp):
AATCTCATACCTAGAGATGTGAAGGGAAAGGTTGAAGCCAAAAAGGCAAACCTTGTACCCTAAAA
ATATGAAGGGAGAGATTGAAGCACAACGGCA
Done.