Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 142 of 186
Found at i:46937749 original size:94 final size:93
Alignment explanation
Indices: 46937578--46937753 Score: 282
Period size: 93 Copynumber: 1.9 Consensus size: 93
46937568 GGGTAAAGTG
**
46937578 CCGATGCCATGTCCCAGACACGGTCTTACACTGACTATCATCTTGTGCCGATGCATGTCCCAAAC
1 CCGATGCCATGTCCCAGACACGGTCTTACACTGACTATCATAATGTGCCGATGCATGTCCCAAAC
46937643 ATGTCTTACACTAGCTCTCGTCTCAATA
66 ATGTCTTACACTAGCTCTCGTCTCAATA
* * *
46937671 CCGATGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCATAATGTGGCCGATGCATGTCCCAG
1 CCGATGCCATGTCCCAGACACGGTCTTACACTGA-CTATCATAATGT-GCCGATGCATGTCCCAA
46937735 ACATGTCTTACACTAGCTC
64 ACATGTCTTACACTAGCTC
46937754 AGAAACAAAT
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
92 1 0.01
93 40 0.53
94 35 0.46
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (93 bp):
CCGATGCCATGTCCCAGACACGGTCTTACACTGACTATCATAATGTGCCGATGCATGTCCCAAAC
ATGTCTTACACTAGCTCTCGTCTCAATA
Found at i:46938816 original size:19 final size:19
Alignment explanation
Indices: 46938792--46938832 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
46938782 ACTTTTTTAC
*
46938792 TTTATGCGATTTAGTCCTT
1 TTTATGCAATTTAGTCCTT
46938811 TTTATGCAATTTAGTCCTT
1 TTTATGCAATTTAGTCCTT
46938830 TTT
1 TTT
46938833 CGCAATTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.56
Consensus pattern (19 bp):
TTTATGCAATTTAGTCCTT
Found at i:46938837 original size:18 final size:19
Alignment explanation
Indices: 46938800--46938839 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
46938790 ACTTTATGCG
*
46938800 ATTTAGTCCTTTTTATGCA
1 ATTTAGTCCTTTTTACGCA
46938819 ATTTAGTCCTTTTT-CGCA
1 ATTTAGTCCTTTTTACGCA
46938837 ATT
1 ATT
46938840 GGACTCACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.20, C:0.17, G:0.10, T:0.53
Consensus pattern (19 bp):
ATTTAGTCCTTTTTACGCA
Found at i:46939701 original size:13 final size:13
Alignment explanation
Indices: 46939683--46939707 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46939673 ATTCAGCCTC
46939683 CAAAGAACAAAAG
1 CAAAGAACAAAAG
46939696 CAAAGAACAAAA
1 CAAAGAACAAAA
46939708 ATGTTCACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.16, G:0.12, T:0.00
Consensus pattern (13 bp):
CAAAGAACAAAAG
Found at i:46943932 original size:28 final size:28
Alignment explanation
Indices: 46943892--46943969 Score: 86
Period size: 29 Copynumber: 2.8 Consensus size: 28
46943882 TACATGCTTG
* *
46943892 TGGCCTACTAGGCCCAATCTCAT-TCATA
1 TGGCCCACTAGGCCCAATCACATCT-ATA
* *
46943920 TGGCCCATTAGGCCCAAATCACATCTATG
1 TGGCCCACTAGGCCC-AATCACATCTATA
*
46943949 TGGCCCACTAGGCCTAATCAC
1 TGGCCCACTAGGCCCAATCAC
46943970 TTTTACAGTC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 19 0.45
29 22 0.52
30 1 0.02
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (28 bp):
TGGCCCACTAGGCCCAATCACATCTATA
Found at i:46943953 original size:29 final size:28
Alignment explanation
Indices: 46943890--46943969 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 28
46943880 CATACATGCT
* *
46943890 TGTGGCCTACTAGGCCCAATCTCATTCA
1 TGTGGCCCACTAGGCCCAATCACATTCA
* *
46943918 TATGGCCCATTAGGCCCAAATCACA-TCTA
1 TGTGGCCCACTAGGCCC-AATCACATTC-A
*
46943947 TGTGGCCCACTAGGCCTAATCAC
1 TGTGGCCCACTAGGCCCAATCAC
46943970 TTTTACAGTC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 22 0.51
29 21 0.49
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (28 bp):
TGTGGCCCACTAGGCCCAATCACATTCA
Found at i:46947332 original size:46 final size:46
Alignment explanation
Indices: 46947265--46947391 Score: 209
Period size: 46 Copynumber: 2.8 Consensus size: 46
46947255 TGTAACCTGC
* *
46947265 CCATAAGCGAACTCGAACTCAACTCAACGAGCTCGGGAGTTCGCAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCAGGAGTTCGCAT
* *
46947311 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCAGGAGTTCGCAT
*
46947357 CCATAAGTGAACTCGAACTCAACTCAACGAACTCA
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCA
46947392 ATACTCAAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.18
Consensus pattern (46 bp):
CCATAAGTGAACTCGAACTCAACTCAACGAGCTCAGGAGTTCGCAT
Found at i:46949757 original size:56 final size:56
Alignment explanation
Indices: 46949671--46949790 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
46949661 ACAAGGGATG
46949671 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
46949727 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
46949783 ATGGGCAA
1 ATGGGCAA
46949791 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:46951741 original size:47 final size:47
Alignment explanation
Indices: 46951645--46951773 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 47
46951635 ATTTAGGATT
* * * *
46951645 CGATGTGATGAATGTGAAAGCGTATATATATGTGATAAGGTCTAATGGC
1 CGATGTGATGAATGTGAAA--GTGTATATATGTGACAAGGGCGAATGGC
* *
46951694 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGGCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGGCGAATGGC
* * * *
46951741 CAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGA
46951774 TAAGTCCCGA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
47 51 0.73
49 19 0.27
ACGTcount: A:0.32, C:0.08, G:0.33, T:0.28
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGGCGAATGGC
Found at i:46951952 original size:37 final size:37
Alignment explanation
Indices: 46951896--46951974 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
46951886 CCGAGCTCTA
* * * *
46951896 AAGACCCGATGACTACGTGTGGGGATTTTGTTCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
46951933 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
46951970 AAGAC
1 AAGAC
46951975 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:46954368 original size:78 final size:79
Alignment explanation
Indices: 46954247--46954444 Score: 231
Period size: 78 Copynumber: 2.5 Consensus size: 79
46954237 TATCATTAAT
* ** * *
46954247 ATATTTAAAGTAGTATGCTTACACTTTATGTAGTTTGAAACAGGG-GGAAGATCTAGGAAAATCA
1 ATATTTTAAGTAGTATGCTTATGCTTTATGTAGTCTGAAACAGGGAGGAAGATCCAGGAAAATCA
*
46954311 ACAACATGGAAAAC
66 ACAACATAGAAAAC
* * * * * ***
46954325 ATATTTTAAGTAGTATGTTTATGCTTAATGTAGTCTGAGACAGGGAAGGAGGGTCCAGGATGGTC
1 ATATTTTAAGTAGTATGCTTATGCTTTATGTAGTCTGAAACAGGG-AGGAAGATCCAGGAAAATC
46954390 AACAACATAGAAAAC
65 AACAACATAGAAAAC
*
46954405 --ATTTTAAGTAGTATGCTTATGCTTTATGTTGTCTGAAACA
1 ATATTTTAAGTAGTATGCTTATGCTTTATGTAGTCTGAAACA
46954445 AGAGAGGAGG
Statistics
Matches: 100, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
78 74 0.74
80 26 0.26
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (79 bp):
ATATTTTAAGTAGTATGCTTATGCTTTATGTAGTCTGAAACAGGGAGGAAGATCCAGGAAAATCA
ACAACATAGAAAAC
Found at i:46954453 original size:78 final size:77
Alignment explanation
Indices: 46954308--46954479 Score: 231
Period size: 78 Copynumber: 2.2 Consensus size: 77
46954298 TCTAGGAAAA
* * *
46954308 TCAACAACATGGAAAACATATTTTAAGTAGTATGTTTATGCTTAATGTAGTCTGAGACAGGGAAG
1 TCAACAACAT-GAAAACA-ATTTTAAGTAGTATGCTTATGCTTAATGTAGTCTGAAACAGAGAAG
*
46954373 GAGGGTCCAGGATGG
64 GA-GGTCCAGAATGG
* *
46954388 TCAACAACATAGAAAAC-ATTTTAAGTAGTATGCTTATGCTTTATGTTGTCTGAAACA-AGAGAG
1 TCAACAACAT-GAAAACAATTTTAAGTAGTATGCTTATGCTTAATGTAGTCTGAAACAGAGA-AG
46954451 GAGGTCCAGAATGG
64 GAGGTCCAGAATGG
46954465 TCAACAACATGAAAA
1 TCAACAACATGAAAA
46954480 TACTGTGAAA
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
76 5 0.06
77 23 0.27
78 40 0.48
80 16 0.19
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (77 bp):
TCAACAACATGAAAACAATTTTAAGTAGTATGCTTATGCTTAATGTAGTCTGAAACAGAGAAGGA
GGTCCAGAATGG
Found at i:46955723 original size:309 final size:296
Alignment explanation
Indices: 46955095--46956887 Score: 2488
Period size: 296 Copynumber: 6.0 Consensus size: 296
46955085 AATTCACTCG
* * * * *
46955095 ATGATTAAAAGGGAGAAGATAATTAATATCTATTTGGAACCA-AAGTTTTGTTCAATACG-AGAA
1 ATGAATAAAAGGGAGAAGATAATTAATATATATTTGGAACCACGAGTTTTATTCAATATGAAG-A
* ** ** ** *** *
46955158 AACATTTGGTACATGAAAGACATAGCTTTAGTATTTGTTCTTATTTTCTAGCAGCTCCCACCAAC
65 AATATTCAGTACATGAAAGACATAGCTTTAGTACCTACTCTTATTTTCTAATGGCTCCCCCCAAC
* * * *
46955223 AACGGCGTAAAAAGCTTTTGGTAATTTATACCATGACCTCTCCCCA-AATTTTTTGCCCAAACAA
130 AATGGCGTAAAAAGCTTTTGGTAATTTACACCATGACCTCTCCCCACAATGTCTTGCCCAAACAA
* * * ** * *
46955287 TCTTATTTTCCTTTTAATCAGAACCTTGGATTCATTCTAAGGCCCTCCAAGGTCACCTTCTTGTT
195 TCTTATTTTCCTTTTAATCAAAACCTTGAATTCATTCTGAGGCCCTCCATTGTCGCCTTCGTGTT
46955352 GAGGTCTTGCCATGAGAGTGATTTCATCATATGGTAGCCAATATTTGTA
260 GAGGTCTTGCCATGAGAGTGA-TT--TC--AT--T-----ATATTTGTA
* *
46955401 ATGAATAAAAGGGATAAGATAATTAATATATATTTGGAACCACGAATTTTATTCAATAT-AAGGA
1 ATGAATAAAAGGGAGAAGATAATTAATATATATTTGGAACCACGAGTTTTATTCAATATGAA-GA
** * * ** ** ** **
46955465 AATATTTGGTACATAAAAGACATAACTTTAGTATTTGTTCTTATTTTCTAGCGGCTCCTACCAAC
65 AATATTCAGTACATGAAAGACATAGCTTTAGTACCTACTCTTATTTTCTAATGGCTCCCCCCAAC
* * * * *
46955530 AATGGCATAAAAAGCTTTTTGATAATTTACACGATGACCTCTCCCCA-AATGTCTTGCCTAAATA
130 AATGGCGTAAAAAGC-TTTTGGTAATTTACACCATGACCTCTCCCCACAATGTCTTGCCCAAACA
* * * * *
46955594 ATCTTATTTTCCTTTTAATCAAAACCTTAAAAATCATTCTGAGGCCTTCCATTGCCGCCTTCTTG
194 ATCTTATTTTCCTTTTAATCAAAACCTT-GAATTCATTCTGAGGCCCTCCATTGTCGCCTTCGTG
46955659 TTGAGGTCTTGCCATGAGAGTGATTTCGTCATTTGGTAGCCAATATTTGTA
258 TTGAGGTCTTGCCATGAGAGTGA-TT--TCA--T--T-----ATATTTGTA
*
46955710 ATGAATAAAAGGGAGAAGATAATTAATATATATTTGGAACCACGGGTTTTATTCAATATGAAGAA
1 ATGAATAAAAGGGAGAAGATAATTAATATATATTTGGAACCACGAGTTTTATTCAATATGAAGAA
46955775 ATATTCAGTACATGAAAGACATAGCTTTAGTACCTACTCTTATTTTCTAATGGCTCCCCCCAACA
66 ATATTCAGTACATGAAAGACATAGCTTTAGTACCTACTCTTATTTTCTAATGGCTCCCCCCAACA
46955840 ATGGCGTAAAAAGCTTTTGGTAATTTACACCATGACCTCTCCCCACAATGTCTTGCCCAAACAAT
131 ATGGCGTAAAAAGCTTTTGGTAATTTACACCATGACCTCTCCCCACAATGTCTTGCCCAAACAAT
* *
46955905 CTTATTTTCCTTTTAATGAAAATCTTGAATTCATTCTGAGGCCCTCCATTGTCGCCTTCGTGTTG
196 CTTATTTTCCTTTTAATCAAAACCTTGAATTCATTCTGAGGCCCTCCATTGTCGCCTTCGTGTTG
46955970 AGGTCTTGCCATGAGAGTGATTTCATTATATTTGTA
261 AGGTCTTGCCATGAGAGTGATTTCATTATATTTGTA
*
46956006 ATGAATAAAAGGGAGAAGATAATTAATATATATTTGGAACCACGGGTTTTATTCAATATGAAGAA
1 ATGAATAAAAGGGAGAAGATAATTAATATATATTTGGAACCACGAGTTTTATTCAATATGAAGAA
46956071 ATATTCAGTACATGAAAGACATAGCTTTAGTACCTACTCTTATTTTCTAATGGCTCCCCCCAACA
66 ATATTCAGTACATGAAAGACATAGCTTTAGTACCTACTCTTATTTTCTAATGGCTCCCCCCAACA
46956136 ATGGCGTAAAAAGCTTTTGGTAATTTACACCATGACCTCTCCCCACAATGTCTTGCCCAAACAAT
131 ATGGCGTAAAAAGCTTTTGGTAATTTACACCATGACCTCTCCCCACAATGTCTTGCCCAAACAAT
* *
46956201 CTTATTTTCCTTTTAATGAAAATCTTGAATTCATTCTGAGGCCCTCCATTGTCGCCTTCGTGTTG
196 CTTATTTTCCTTTTAATCAAAACCTTGAATTCATTCTGAGGCCCTCCATTGTCGCCTTCGTGTTG
46956266 AGGTCTTGCCATGAGAGTGATTTCATTATATTTGTA
261 AGGTCTTGCCATGAGAGTGATTTCATTATATTTGTA
46956302 ATGAATAAAAGGGAGAAGATAATTAATATATATTTGGAACCACGAGTTTTATTCAATATG-AGAA
1 ATGAATAAAAGGGAGAAGATAATTAATATATATTTGGAACCACGAGTTTTATTCAATATGAAG-A
* ** * * **
46956366 AACATTTGGTATATGAAAGACATAACTTTAGTACCTGTTCTTATTTTCTAATGGCTCCCCCCAAC
65 AATATTCAGTACATGAAAGACATAGCTTTAGTACCTACTCTTATTTTCTAATGGCTCCCCCCAAC
46956431 AATGGCGTAAAAAGCTTTTGGTAATTTACACCATGACCTCTCCCCACAATGTCTTGCCCAAACAA
130 AATGGCGTAAAAAGCTTTTGGTAATTTACACCATGACCTCTCCCCACAATGTCTTGCCCAAACAA
* *
46956496 TCTTATTTTCCTTTTAATGAAAATCTTGAATTCATTCTGAGGCCCTCCATTGTCGCCTTCGTGTT
195 TCTTATTTTCCTTTTAATCAAAACCTTGAATTCATTCTGAGGCCCTCCATTGTCGCCTTCGTGTT
46956561 GAGGTCTTGCCATGAGAGTGATTTCATTATATTTGTA
260 GAGGTCTTGCCATGAGAGTGATTTCATTATATTTGTA
*
46956598 ATGAATAAAAGGGAGAAGATAATTAATATATATTTGGAACCACGGGTTTTATTCAATATGAAGAA
1 ATGAATAAAAGGGAGAAGATAATTAATATATATTTGGAACCACGAGTTTTATTCAATATGAAGAA
46956663 ATATTCAGTACATGAAAGACATAGCTTTAGTACCTACTCTTATTTTCTAATGGCTCCCCCCAACA
66 ATATTCAGTACATGAAAGACATAGCTTTAGTACCTACTCTTATTTTCTAATGGCTCCCCCCAACA
* * ** * * * *
46956728 ATGGCATAAAAACCTTTTGACAATTTACATCATGACCTCTCCCCA-AATGT-TCTGTCCGAATAA
131 ATGGCGTAAAAAGCTTTTGGTAATTTACACCATGACCTCTCCCCACAATGTCT-TGCCCAAACAA
* ** * * *
46956791 TCTTATTTTCCTTTTAATCAGAACCTTGAATTCATTCTGA-GCTTTTCCATTGTCGCATTCCTAT
195 TCTTATTTTCCTTTTAATCAAAACCTTGAATTCATTCTGAGGC-CCTCCATTGTCGCCTTCGTGT
* * *
46956855 TAAGGTCTTGCCATGAAAGTGATTTCATCATAT
259 TGAGGTCTTGCCATGAGAGTGATTTCATTATAT
46956888 GGGTTCAGTC
Statistics
Matches: 1380, Mismatches: 94, Indels: 37
0.91 0.06 0.02
Matches are distributed among these distances:
294 3 0.00
295 98 0.07
296 749 0.54
297 2 0.00
301 1 0.00
303 1 0.00
305 3 0.00
306 39 0.03
307 90 0.07
308 152 0.11
309 240 0.17
310 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (296 bp):
ATGAATAAAAGGGAGAAGATAATTAATATATATTTGGAACCACGAGTTTTATTCAATATGAAGAA
ATATTCAGTACATGAAAGACATAGCTTTAGTACCTACTCTTATTTTCTAATGGCTCCCCCCAACA
ATGGCGTAAAAAGCTTTTGGTAATTTACACCATGACCTCTCCCCACAATGTCTTGCCCAAACAAT
CTTATTTTCCTTTTAATCAAAACCTTGAATTCATTCTGAGGCCCTCCATTGTCGCCTTCGTGTTG
AGGTCTTGCCATGAGAGTGATTTCATTATATTTGTA
Found at i:46958483 original size:19 final size:18
Alignment explanation
Indices: 46958446--46958485 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
46958436 AAAGCATGAT
*
46958446 TAATTAAATTTAATAATA
1 TAATTAAAATTAATAATA
*
46958464 TAATTAAAAATTAGTAATA
1 TAATT-AAAATTAATAATA
46958483 TAA
1 TAA
46958486 CAACAAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
TAATTAAAATTAATAATA
Found at i:46962201 original size:14 final size:14
Alignment explanation
Indices: 46962182--46962210 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
46962172 TTTTTCTTTT
46962182 TGGAACAATGAAAA
1 TGGAACAATGAAAA
46962196 TGGAACAATGAAAA
1 TGGAACAATGAAAA
46962210 T
1 T
46962211 TCGAACTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.07, G:0.21, T:0.17
Consensus pattern (14 bp):
TGGAACAATGAAAA
Found at i:46986752 original size:21 final size:21
Alignment explanation
Indices: 46986726--46986765 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
46986716 CAGAATCAAC
46986726 TTCTTTGCTTAAAGGCTTAAT
1 TTCTTTGCTTAAAGGCTTAAT
46986747 TTCTTTGCTTAAAGGCTTA
1 TTCTTTGCTTAAAGGCTTA
46986766 GTTTGTACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (21 bp):
TTCTTTGCTTAAAGGCTTAAT
Found at i:46997255 original size:14 final size:14
Alignment explanation
Indices: 46997236--46997269 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
46997226 GCTTATTAGT
46997236 TTGAATAATTTCCA
1 TTGAATAATTTCCA
* *
46997250 TTGAATCATTTTCA
1 TTGAATAATTTCCA
46997264 TTGAAT
1 TTGAAT
46997270 TTTTATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (14 bp):
TTGAATAATTTCCA
Found at i:47006571 original size:13 final size:13
Alignment explanation
Indices: 47006553--47006584 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
47006543 TAGTCAGATA
47006553 AAATAACTAAAAT
1 AAATAACTAAAAT
*
47006566 AAATAACTAAGAT
1 AAATAACTAAAAT
47006579 AAATAA
1 AAATAA
47006585 AATAGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.22
Consensus pattern (13 bp):
AAATAACTAAAAT
Found at i:47007039 original size:16 final size:16
Alignment explanation
Indices: 47007018--47007050 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47007008 TGTTGACATA
47007018 AAACTA-TTAAATAATT
1 AAACTACTT-AATAATT
47007034 AAACTACTTAATAATT
1 AAACTACTTAATAATT
47007050 A
1 A
47007051 TTAAAAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (16 bp):
AAACTACTTAATAATT
Found at i:47007820 original size:36 final size:36
Alignment explanation
Indices: 47007780--47007854 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
47007770 TTTTGGGAAG
*
47007780 TTAAAACATGAACTTCTTTAACTTGGTATGTTTATA
1 TTAAAACATGAACTTATTTAACTTGGTATGTTTATA
*
47007816 TTAAAACATGAACTTATTTAGCTTGGTATGTTTATA
1 TTAAAACATGAACTTATTTAACTTGGTATGTTTATA
47007852 TTA
1 TTA
47007855 GTAGAATGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.45
Consensus pattern (36 bp):
TTAAAACATGAACTTATTTAACTTGGTATGTTTATA
Found at i:47010910 original size:17 final size:16
Alignment explanation
Indices: 47010888--47010920 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
47010878 AATGTCAAAG
47010888 ATATGGGTATCAGAAAT
1 ATATGGGTATCA-AAAT
47010905 ATATGGGTATCAAAAT
1 ATATGGGTATCAAAAT
47010921 CTGGGATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.30
Consensus pattern (16 bp):
ATATGGGTATCAAAAT
Found at i:47013174 original size:55 final size:58
Alignment explanation
Indices: 47013058--47013183 Score: 168
Period size: 55 Copynumber: 2.2 Consensus size: 58
47013048 ATCACTTTAA
* *
47013058 TATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATC
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAAAC
* * * *
47013116 TATTAAATTAATAGAATAGTTATCTA-TTAAAT-TTA-ATTTAATTTAATATTAAAAC
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAAAC
*
47013171 TATTAAAATAATA
1 TATTAAATTAATA
47013184 TTATTTTTGA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
55 30 0.49
56 3 0.05
57 5 0.08
58 23 0.38
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAAAC
Found at i:47020481 original size:18 final size:18
Alignment explanation
Indices: 47020460--47020498 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
47020450 GATTGAGAGT
*
47020460 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAACA
* *
47020478 GAAAAGAAATTTGAAATA
1 GAAAAGAAATGTGAAACA
47020496 GAA
1 GAA
47020499 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.23, T:0.15
Consensus pattern (18 bp):
GAAAAGAAATGTGAAACA
Found at i:47027331 original size:26 final size:27
Alignment explanation
Indices: 47027286--47027339 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
47027276 CATATATCAT
*
47027286 TTCCCTACAAAAATATTCTCCCTTAGA
1 TTCCCTACAAAAATACTCTCCCTTAGA
47027313 TTCCCTACAAAAAT-CTCTCCCTTAGA
1 TTCCCTACAAAAATACTCTCCCTTAGA
47027339 T
1 T
47027340 AGAATAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.31, C:0.31, G:0.04, T:0.33
Consensus pattern (27 bp):
TTCCCTACAAAAATACTCTCCCTTAGA
Found at i:47029602 original size:138 final size:138
Alignment explanation
Indices: 47029354--47029629 Score: 516
Period size: 138 Copynumber: 2.0 Consensus size: 138
47029344 ATAATGAAAG
*
47029354 CTAAGGGGAGATTTTTGCAAAGTATTGATAAGGTTAAAAAGAGGATCCCTCTAAAGATAAACATA
1 CTAAGGGGAGACTTTTGCAAAGTATTGATAAGGTTAAAAAGAGGATCCCTCTAAAGATAAACATA
47029419 CTTTAGTATTTGTTCTAAGGCCTTCAATTGCCCTAAGGTTGCCGATTGTGTAGAAGTATGTGAGG
66 CTTTAGTATTTGTTCTAAGGCCTTCAATTGCCCTAAGGTTGCCGATTGTGTAGAAGTATGTGAGG
47029484 GCTAAGTT
131 GCTAAGTT
* *
47029492 CTAAGGGGGGACTTTTGCAAAGTATTGGTAAGGTTAAAAAGAGGATCCCTCTAAAGATAAACATA
1 CTAAGGGGAGACTTTTGCAAAGTATTGATAAGGTTAAAAAGAGGATCCCTCTAAAGATAAACATA
*
47029557 CTTTAGTATTTGTTCTAAGGTCTTCAATTGCCCTAAGGTTGCCGATTGTGTAGAAGTATGTGAGG
66 CTTTAGTATTTGTTCTAAGGCCTTCAATTGCCCTAAGGTTGCCGATTGTGTAGAAGTATGTGAGG
47029622 GCTAAGTT
131 GCTAAGTT
47029630 GTCCCTCACA
Statistics
Matches: 134, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
138 134 1.00
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (138 bp):
CTAAGGGGAGACTTTTGCAAAGTATTGATAAGGTTAAAAAGAGGATCCCTCTAAAGATAAACATA
CTTTAGTATTTGTTCTAAGGCCTTCAATTGCCCTAAGGTTGCCGATTGTGTAGAAGTATGTGAGG
GCTAAGTT
Found at i:47031591 original size:3 final size:3
Alignment explanation
Indices: 47031583--47031608 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47031573 TGCCAATGAT
47031583 TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TA
47031609 ATCATATGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
TAG
Found at i:47035502 original size:20 final size:20
Alignment explanation
Indices: 47035479--47035516 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
47035469 AAAAGTTATT
*
47035479 ATAAAAAAATCTAAAATTTG
1 ATAAAAAAATATAAAATTTG
*
47035499 ATAAAAATATATAAAATT
1 ATAAAAAAATATAAAATT
47035517 CAAAAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (20 bp):
ATAAAAAAATATAAAATTTG
Found at i:47037945 original size:3 final size:3
Alignment explanation
Indices: 47037937--47037961 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
47037927 AGGTTCTTGT
47037937 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
47037962 CTTTCGGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:47039706 original size:2 final size:2
Alignment explanation
Indices: 47039699--47039729 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
47039689 ATTGATTCTT
47039699 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
47039730 TTAAGAGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47047285 original size:125 final size:123
Alignment explanation
Indices: 47046855--47047327 Score: 784
Period size: 123 Copynumber: 3.8 Consensus size: 123
47046845 TTATTTCGAG
* *
47046855 TTGACGTTTCTGAGTAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTATG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATACTATTTGAGAAGAAATTATG
* *
47046920 AAATCACACCCTCGTGGACGTGATTTTTCTACAGTAGGTCATGTAAGAAATAATTTTT
66 AAATCACACCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTT
* *
47046978 TTGACGTTTCCGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTATG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATACTATTTGAGAAGAAATTATG
* *
47047043 AAATCACACCCTCGTGGACGTGATTTTTCTACAGTAGGTCATGTAAGAAATAATTTTT
66 AAATCACACCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTT
*
47047101 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATACTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATACTATTTGAGAAGAAATTATG
*** *
47047166 AAATCGGGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATGTAAGAAATAATTTTTTT
66 AAATCACACCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAA--TTTTT
*
47047226 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAAGATACTATTTGAGAAGAAATTATG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATACTATTTGAGAAGAAATTATG
* *
47047291 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
66 AAATCACACCCTCGTGGACGCGATTTTGCTACAGTAG
47047328 CAAGTTTGGG
Statistics
Matches: 333, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
123 230 0.69
125 103 0.31
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (123 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATACTATTTGAGAAGAAATTATG
AAATCACACCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTT
Found at i:47050360 original size:9 final size:9
Alignment explanation
Indices: 47050336--47050368 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
47050326 TTTATTCAAT
47050336 TATTAATTG
1 TATTAATTG
47050345 -A-TAATTG
1 TATTAATTG
47050352 TATTAATTG
1 TATTAATTG
47050361 TATTAATT
1 TATTAATT
47050369 TTTAGTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 6 0.27
8 2 0.09
9 14 0.64
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (9 bp):
TATTAATTG
Found at i:47050456 original size:10 final size:10
Alignment explanation
Indices: 47050441--47050465 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
47050431 CAAATCTAAC
47050441 ATTATGTAAA
1 ATTATGTAAA
47050451 ATTATGTAAA
1 ATTATGTAAA
47050461 ATTAT
1 ATTAT
47050466 TAAGTCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:47050548 original size:29 final size:29
Alignment explanation
Indices: 47050514--47050579 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
47050504 AAATTATGTA
47050514 AAATTAGGTTAGAGTTAGGGTTTTTAATT
1 AAATTAGGTTAGAGTTAGGGTTTTTAATT
*
47050543 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGAGTTAGGGTTTTTAATT
47050572 AAATTAGG
1 AAATTAGG
47050580 GTTTTTATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (29 bp):
AAATTAGGTTAGAGTTAGGGTTTTTAATT
Found at i:47051127 original size:18 final size:18
Alignment explanation
Indices: 47051100--47051134 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
47051090 CGGAAAAGGA
*
47051100 TACATGTAAGGGTTAGGG
1 TACATATAAGGGTTAGGG
47051118 TACATATAAGGGTTAGG
1 TACATATAAGGGTTAGG
47051135 AAACACACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.34, T:0.29
Consensus pattern (18 bp):
TACATATAAGGGTTAGGG
Found at i:47052941 original size:28 final size:30
Alignment explanation
Indices: 47052892--47052954 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
47052882 GCCATTGATG
*
47052892 AAAATATAAAAAAATTTAAAATTATTTTTA
1 AAAATATAAAAAAATTTAAAATTATTTTAA
47052922 AAAATAT-AAAAAATTT-AAATTATTTTAA
1 AAAATATAAAAAAATTTAAAATTATTTTAA
47052950 AAAAT
1 AAAAT
47052955 GAAATTGAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 16 0.50
29 9 0.28
30 7 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAATTATTTTAA
Found at i:47053013 original size:51 final size:51
Alignment explanation
Indices: 47052955--47053062 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 51
47052945 TTTAAAAAAT
* *
47052955 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGACAGAATTTTGGAAG
*
47053006 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGACAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGACAGAATTTTGGAAG
47053057 GAAATT
1 GAAATT
47053063 TGGAATGAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.42, C:0.01, G:0.28, T:0.30
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGACAGAATTTTGGAAG
Found at i:47055971 original size:30 final size:29
Alignment explanation
Indices: 47055937--47056008 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
47055927 AAACTTTTCT
*
47055937 AAAATTACATTTCAACACCTAATCTTCCTC
1 AAAATTACATTT-AACACCTAAACTTCCTC
* ** *
47055967 AAAATTACACTTTAACCCCTAAACTTTTTG
1 AAAATTACA-TTTAACACCTAAACTTCCTC
47055997 AAAATTACATTT
1 AAAATTACATTT
47056009 TAGCCCCATA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 3 0.08
30 30 0.83
31 3 0.08
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (29 bp):
AAAATTACATTTAACACCTAAACTTCCTC
Found at i:47056025 original size:60 final size:59
Alignment explanation
Indices: 47055927--47056044 Score: 141
Period size: 60 Copynumber: 2.0 Consensus size: 59
47055917 TTTTGACCTC
47055927 AAACTTTTCTAAAATTACATTTCAACACCTAATCTTCCTCAAAATTACACTTTAACCCCT
1 AAACTTTTCTAAAATTACATTTCAACACCTAATCTTCCT-AAAATTACACTTTAACCCCT
* * * * * *
47055987 AAACTTTT-TGAAAATTACATTTTAGC-CCCATATTTTCCTAAAATTACATTTTTACCCC
1 AAACTTTTCT-AAAATTACATTTCAACACCTA-ATCTTCCTAAAATTACACTTTAACCCC
47056045 AAATATTTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
59 21 0.42
60 29 0.58
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.38
Consensus pattern (59 bp):
AAACTTTTCTAAAATTACATTTCAACACCTAATCTTCCTAAAATTACACTTTAACCCCT
Found at i:47056603 original size:5 final size:6
Alignment explanation
Indices: 47056585--47056635 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
47056575 TCGCCCGAAG
* * **
47056585 AAGAAA AAGAAA AAGAAA AATAGA AAGAAA AAGAGG AAGAAA ACAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA A-AGAAA
47056634 AA
1 AA
47056636 AAATTTTAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
6 30 0.83
7 6 0.17
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAGAAA
Found at i:47056896 original size:21 final size:20
Alignment explanation
Indices: 47056870--47056915 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
47056860 AGCAGCAGGC
47056870 CCAGCGCCCAGGCCAAGCGCA
1 CCAGCGCCC-GGCCAAGCGCA
* * *
47056891 CCAGCGTCCGGCCCAGTGCA
1 CCAGCGCCCGGCCAAGCGCA
47056911 CCAGC
1 CCAGC
47056916 ATTCGGCCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.20, C:0.48, G:0.28, T:0.04
Consensus pattern (20 bp):
CCAGCGCCCGGCCAAGCGCA
Found at i:47056911 original size:20 final size:20
Alignment explanation
Indices: 47056888--47056926 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47056878 CAGGCCAAGC
*
47056888 GCACCAGCGTCCGGCCCAGT
1 GCACCAGCATCCGGCCCAGT
*
47056908 GCACCAGCATTCGGCCCAG
1 GCACCAGCATCCGGCCCAG
47056927 CGCCCAGGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.44, G:0.28, T:0.10
Consensus pattern (20 bp):
GCACCAGCATCCGGCCCAGT
Found at i:47057639 original size:17 final size:18
Alignment explanation
Indices: 47057614--47057665 Score: 81
Period size: 16 Copynumber: 3.0 Consensus size: 18
47057604 TGTTTCTAAT
47057614 ATTCTCGTATTTCAAAAA
1 ATTCTCGTATTTCAAAAA
*
47057632 ATTC-CGTA-TTAAAAAA
1 ATTCTCGTATTTCAAAAA
47057648 ATTCTCGTATTTCAAAAA
1 ATTCTCGTATTTCAAAAA
47057666 TTTTCATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 11 0.37
17 8 0.27
18 11 0.37
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.37
Consensus pattern (18 bp):
ATTCTCGTATTTCAAAAA
Found at i:47057666 original size:17 final size:17
Alignment explanation
Indices: 47057614--47057667 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
47057604 TGTTTCTAAT
47057614 ATTCTCGTATTTCAAAAA
1 ATTCTCGTATTTC-AAAA
**
47057632 ATTC-CGTATTAAAAAA
1 ATTCTCGTATTTCAAAA
47057648 ATTCTCGTATTTCAAAA
1 ATTCTCGTATTTCAAAA
47057665 ATT
1 ATT
47057668 TTCATGTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 8 0.26
17 19 0.61
18 4 0.13
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.39
Consensus pattern (17 bp):
ATTCTCGTATTTCAAAA
Found at i:47057682 original size:34 final size:34
Alignment explanation
Indices: 47057597--47057683 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
47057587 AAAAAAAATT
** *
47057597 ATTTTCATGTTTCTAATATTCTCGTATTTCAAAA
1 ATTTTCATGTTTAAAAAATTCTCGTATTTCAAAA
* * * * *
47057631 AATTCCGTATTAAAAAAATTCTCGTATTTCAAAA
1 ATTTTCATGTTTAAAAAATTCTCGTATTTCAAAA
47057665 ATTTTCATGTTTGAAAAAA
1 ATTTTCATGTTT-AAAAAA
47057684 AAAATTCGTG
Statistics
Matches: 39, Mismatches: 13, Indels: 1
0.74 0.25 0.02
Matches are distributed among these distances:
34 33 0.85
35 6 0.15
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.43
Consensus pattern (34 bp):
ATTTTCATGTTTAAAAAATTCTCGTATTTCAAAA
Found at i:47057701 original size:17 final size:17
Alignment explanation
Indices: 47057681--47057819 Score: 59
Period size: 19 Copynumber: 7.6 Consensus size: 17
47057671 ATGTTTGAAA
47057681 AAAAAAATTCGTGTTTC
1 AAAAAAATTCGTGTTTC
47057698 --AAAAATTCCTGTGTTT-
1 AAAAAAATT-C-GTGTTTC
* **
47057714 TAAAAGTTTCCGTGTTTTC
1 AAAAAAATT-CGTG-TTTC
47057733 AAAAAAAATCTTCGTGTTTTC
1 -AAAAAAA--TTCGTG-TTTC
47057754 AAAAAAAATTCGTGTTTTC
1 -AAAAAAATTCGTG-TTTC
** *
47057773 TAAAAATTTTCGTATTTC
1 -AAAAAAATTCGTGTTTC
** *
47057791 AAAAATTTTCATGTTTTTC
1 AAAAAAATTC--GTGTTTC
47057810 AAAAAAATTC
1 AAAAAAATTC
47057820 CCATGTTTTG
Statistics
Matches: 99, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
15 7 0.07
16 1 0.01
17 19 0.19
18 14 0.14
19 35 0.35
20 4 0.04
21 17 0.17
22 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (17 bp):
AAAAAAATTCGTGTTTC
Found at i:47057748 original size:21 final size:19
Alignment explanation
Indices: 47057724--47057778 Score: 83
Period size: 21 Copynumber: 2.7 Consensus size: 19
47057714 TAAAAGTTTC
47057724 CGTGTTTTCAAAAAAAATCTT
1 CGTGTTTTCAAAAAAAA--TT
47057745 CGTGTTTTCAAAAAAAATT
1 CGTGTTTTCAAAAAAAATT
47057764 CGTGTTTTCTAAAAA
1 CGTGTTTTC-AAAAA
47057779 TTTTCGTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 11 0.33
20 5 0.15
21 17 0.52
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (19 bp):
CGTGTTTTCAAAAAAAATT
Found at i:47057817 original size:21 final size:21
Alignment explanation
Indices: 47057728--47057833 Score: 66
Period size: 21 Copynumber: 5.4 Consensus size: 21
47057718 AGTTTCCGTG
* *
47057728 TTTTCAAAAAAAATCTTCGTG-
1 TTTTC-AAAAAAATTTTCATGT
* *
47057749 TTTTCAAAAAAA-ATTCGTG-
1 TTTTCAAAAAAATTTTCATGT
*
47057768 TTTTC-TAAAAATTTTC--GT
1 TTTTCAAAAAAATTTTCATGT
*
47057786 ATTTC--AAAAATTTTCATGT
1 TTTTCAAAAAAATTTTCATGT
**
47057805 TTTTCAAAAAAATTCCCATGT
1 TTTTCAAAAAAATTTTCATGT
*
47057826 TTTGCAAA
1 TTTTCAAA
47057834 TTACCGTGTT
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
17 11 0.15
18 9 0.13
19 20 0.28
20 7 0.10
21 24 0.34
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (21 bp):
TTTTCAAAAAAATTTTCATGT
Found at i:47057827 original size:76 final size:75
Alignment explanation
Indices: 47057680--47057833 Score: 170
Period size: 76 Copynumber: 2.0 Consensus size: 75
47057670 CATGTTTGAA
* * * * *
47057680 AAAAAAAATTCGTGTTTCAAAAATTCCTGTGTTTTAAAAGTTTCCGTGTTTTCAAAAAAAATCTT
1 AAAAAAAATTCGTGTTTCAAAAATTCCTGTATTTCAAAAATTTCCATGTTTTCAAAAAAAATCTC
*
47057745 CGTGTTTT-C
66 CATGTTTTGC
* * *
47057754 AAAAAAAATTCGTGTTTTCTAAAAATT-TTCGTATTTCAAAAATTTTCATGTTTTTCAAAAAAAT
1 AAAAAAAATTCGTG-TTTC-AAAAATTCCT-GTATTTCAAAAATTTCCATG-TTTTCAAAAAAAA
47057818 TC-CCATGTTTTGC
62 TCTCCATGTTTTGC
47057831 AAA
1 AAA
47057834 TTACCGTGTT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
74 14 0.21
75 5 0.08
76 29 0.44
77 18 0.27
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (75 bp):
AAAAAAAATTCGTGTTTCAAAAATTCCTGTATTTCAAAAATTTCCATGTTTTCAAAAAAAATCTC
CATGTTTTGC
Found at i:47057885 original size:18 final size:18
Alignment explanation
Indices: 47057864--47058026 Score: 106
Period size: 18 Copynumber: 9.1 Consensus size: 18
47057854 TCAGGTTTTC
*
47057864 AAAATTTTCGTGTCTCAA
1 AAAATTTTCGTGTTTCAA
* * *
47057882 AAAATTCAT-ATTTTTCAA
1 AAAATT-TTCGTGTTTCAA
47057900 AAAA-TTTCGTGCTTTC-A
1 AAAATTTTCGTG-TTTCAA
** *
47057917 AAAA-TTTCG-GCGATCCA
1 AAAATTTTCGTG-TTTCAA
47057934 AAAATTTTCGTGTTTTC-A
1 AAAATTTTCGTG-TTTCAA
**
47057952 AAAATTTTCGTGTTTTTA
1 AAAATTTTCGTGTTTCAA
* *
47057970 AGAATTTTCGTGTTTC-T
1 AAAATTTTCGTGTTTCAA
* *
47057987 AAAATTCTCGTGTTTTAAA
1 AAAATTTTCGTG-TTTCAA
47058006 AAAATTTTCGTGTTCTCAA
1 AAAATTTTCGTGTT-TCAA
47058025 AA
1 AA
47058027 TATAATTATT
Statistics
Matches: 113, Mismatches: 22, Indels: 19
0.73 0.14 0.12
Matches are distributed among these distances:
16 5 0.04
17 30 0.27
18 58 0.51
19 20 0.18
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (18 bp):
AAAATTTTCGTGTTTCAA
Found at i:47057976 original size:36 final size:36
Alignment explanation
Indices: 47057644--47058026 Score: 193
Period size: 35 Copynumber: 10.6 Consensus size: 36
47057634 TCCGTATTAA
* * * **
47057644 AAAAATTCTCGT-ATTTCAAAAATTTTCATGTTTGAAA
1 AAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTT--TC
** *
47057681 AAAAAAATTCGTG-TTTCAAAAA-TTCCTGTGTTTT-
1 AAAAATTTTCGTGTTTTCAAAAATTTTC-GTGTTTTC
* * *
47057715 AAAAGTTTCCGTGTTTTCAAAAAAAATCTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC---AAAAATTTTCGTGTTTTC
** *
47057754 AAAAAAAATTCGTGTTTTCTAAAAATTTTCGT-ATTTC
1 -AAAAATTTTCGTGTTTTC-AAAAATTTTCGTGTTTTC
* ** *
47057791 AAAAATTTTCATGTTTTTCAAAAAAATTCCCATGTTTTGC
1 AAAAATTTTCGTG-TTTTC--AAAAATTTTCGTGTTTT-C
** *
47057831 --AAATTACCGTGTTGT-AAAAATTTTCAG-GTTTTC
1 AAAAATTTTCGTGTTTTCAAAAATTTTC-GTGTTTTC
* * * *
47057864 -AAAATTTTCGTG-TCTCAAAAA-ATTCATATTTTTC
1 AAAAATTTTCGTGTTTTCAAAAATTTTCGT-GTTTTC
* * ** *
47057898 AAAAAATTTCGTGCTTTCAAAAA-TTTCG-GCGATCC
1 AAAAATTTTCGTGTTTTCAAAAATTTTCGTG-TTTTC
*
47057933 AAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTTT
1 AAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTTC
* * * *
47057969 AAGAATTTTCGTG-TTTCTAAAATTCTCGTGTTTTAA
1 AAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTT-C
*
47058005 AAAAATTTTCGTGTTCTCAAAA
1 AAAAATTTTCGTGTTTTCAAAA
47058027 TATAATTATT
Statistics
Matches: 260, Mismatches: 61, Indels: 50
0.70 0.16 0.13
Matches are distributed among these distances:
33 6 0.02
34 41 0.16
35 57 0.22
36 54 0.21
37 42 0.16
38 40 0.15
39 5 0.02
40 15 0.06
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (36 bp):
AAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTTC
Found at i:47057976 original size:53 final size:53
Alignment explanation
Indices: 47057838--47058026 Score: 149
Period size: 53 Copynumber: 3.6 Consensus size: 53
47057828 TGCAAATTAC
* *
47057838 CGTGTTGT-AAAAATTTTCAG-GTTTTC-AAAATTTTCGTG-TCTCAAAAAATTCAT
1 CGTGTTTTCAAAAATTTTC-GTGTTTTCAAAAATTTTCGCGATC-C-AAAAATTC-T
* * * *
47057891 -AT-TTTTCAAAAAATTTCGTGCTTTCAAAAA-TTTCGGCGATCCAAAAATTTT
1 CGTGTTTTCAAAAATTTTCGTGTTTTCAAAAATTTTC-GCGATCCAAAAATTCT
* * * * * *
47057942 CGTGTTTTCAAAAATTTTCGTGTTTTTAAGAATTTTCGTGTTTCTAAAATTCT
1 CGTGTTTTCAAAAATTTTCGTGTTTTCAAAAATTTTCGCGATCCAAAAATTCT
* *
47057995 CGTGTTTTAAAAAAATTTTCGTGTTCTCAAAA
1 CGTGTTTT-CAAAAATTTTCGTGTTTTCAAAA
47058027 TATAATTATT
Statistics
Matches: 107, Mismatches: 20, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
51 5 0.05
52 27 0.25
53 50 0.47
54 25 0.23
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.43
Consensus pattern (53 bp):
CGTGTTTTCAAAAATTTTCGTGTTTTCAAAAATTTTCGCGATCCAAAAATTCT
Found at i:47057991 original size:35 final size:36
Alignment explanation
Indices: 47057933--47058027 Score: 122
Period size: 36 Copynumber: 2.6 Consensus size: 36
47057923 TCGGCGATCC
* * *
47057933 AAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTT-T
1 AAAAATTTTCGTG-TTTCTAAAATTCTCGTGTTTTAA
*
47057969 AAGAATTTTCGTGTTTCTAAAATTCTCGTGTTTTAA
1 AAAAATTTTCGTGTTTCTAAAATTCTCGTGTTTTAA
47058005 AAAAATTTTCGTG-TTCTCAAAAT
1 AAAAATTTTCGTGTTTCT-AAAAT
47058028 ATAATTATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
35 23 0.44
36 29 0.56
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.47
Consensus pattern (36 bp):
AAAAATTTTCGTGTTTCTAAAATTCTCGTGTTTTAA
Found at i:47058044 original size:53 final size:54
Alignment explanation
Indices: 47057932--47058062 Score: 133
Period size: 53 Copynumber: 2.5 Consensus size: 54
47057922 TTCGGCGATC
* * * * * ** *
47057932 CAAAAATTTTCGTGTTTT-CAAAAATTTTCGTGTTTTTAAGAATTTTCGTGTTT
1 CAAAAATTCTCGTGTTTTAAAAAAATTTTCGTGTTCTCAAGAATATAAGTATTT
* *
47057985 CTAAAATTCTCGTGTTTTAAAAAAATTTTCGTGTTCTCAA-AATATAATTATTT
1 CAAAAATTCTCGTGTTTTAAAAAAATTTTCGTGTTCTCAAGAATATAAGTATTT
*
47058038 CAAAAA-TCTTTGTGTTTTAAAAAAA
1 CAAAAATTC-TCGTGTTTTAAAAAAA
47058063 ATCGTATTTT
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
52 2 0.03
53 44 0.69
54 18 0.28
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (54 bp):
CAAAAATTCTCGTGTTTTAAAAAAATTTTCGTGTTCTCAAGAATATAAGTATTT
Found at i:47058519 original size:12 final size:12
Alignment explanation
Indices: 47058503--47058538 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
47058493 AATAACATCT
47058503 ATAATAATAGTA
1 ATAATAATAGTA
*
47058515 GTAATAATAGTA
1 ATAATAATAGTA
47058527 ATAATAATAGTA
1 ATAATAATAGTA
47058539 TTATAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (12 bp):
ATAATAATAGTA
Found at i:47060859 original size:151 final size:148
Alignment explanation
Indices: 47060646--47061259 Score: 657
Period size: 151 Copynumber: 4.0 Consensus size: 148
47060636 AAAAATAGTG
* * *
47060646 TTTTTTTTAAGAAGAAAGTTTAGATTTTGAAATAATAATAATAATATGGTTTTTTTAGTTATTTT
1 TTTTTTTTAAAAAGAAAGTTTAGATTTTGAAA-AAT-A-AA-AATCTGTTTTTTTTAGTTATTTT
* * *
47060711 AAA-GAGAAGTTTAATTTTTTAAAATAAAGTTTTGATTTTCTTTTCAACTATTTCAAAGTAAAAG
62 AAAGGA-AAGTTTAAATTTTTAAAACAAAGTTTT-AATTT-TTTT-AACTATTTCAAAGTAAAAG
* *
47060775 TTTTAATCTTTAAGAAAAATAATCTT
123 CTTTAATCTTTAAGAAAAATAATGTT
47060801 TTTTTTTTAAAAAGAAAGTTTAGATTTTGAAAAATAAAAATCTGTTTTTTTTAGTTATTTTAAAG
1 TTTTTTTTAAAAAGAAAGTTTAGATTTTGAAAAATAAAAATCTGTTTTTTTTAGTTATTTTAAAG
* *
47060866 GAAAGTTTAAATTTTTAAAATAAAGTTTTGATTTTTTTTTCAACTATTTCAAAGTAAAAGCTTTA
66 GAAAGTTTAAATTTTTAAAACAAAGTTTT-A-ATTTTTTT-AACTATTTCAAAGTAAAAGCTTTA
* *
47060931 ATCCTTAAGAAAAAT-A-GTA
128 ATCTTTAAGAAAAATAATGTT
* *
47060950 TTTTTTTTAAAAGGAGAAAGTTTAGATTTTGAAAAATAAAAATTTG-TTTTTTTAATTATTTTAA
1 TTTTTTTTAAAA--AGAAAGTTTAGATTTTGAAAAATAAAAATCTGTTTTTTTTAGTTATTTTAA
* * *
47061014 AGGAAAGTTTAAATTTTTAAAACAAAATTTTAATTTTTTTAACTACTTCAAAATAAAAAGCTTTA
64 AGGAAAGTTTAAATTTTTAAAACAAAGTTTTAATTTTTTTAACTATTTCAAAGT-AAAAGCTTTA
* *
47061079 ATTTTTAAG-AAAATAGTGTT
128 ATCTTTAAGAAAAATAATGTT
** * * * * *
47061099 TTTTAATAAATAAAAAAAAAGAGAATGTTTAGATTTTGAAAATTAAAAATCTATGTTTTTAAGTC
1 TTTT--T---T--TTAAAAAGA-AA-GTTTAGATTTTGAAAAATAAAAATCTGTTTTTTTTAGTT
* *
47061164 ATTTTAAAGGAAAGTTTAACTTTTTAAAACAAAGTTTTAAATTTTTTAACTATTTCGAAA-T-AA
57 ATTTTAAAGGAAAGTTTAAATTTTTAAAACAAAGTTTTAATTTTTTTAACTATTTC-AAAGTAAA
* * * * * *
47061227 GGTTTTGATTTTTAAGAAAATTAATGAT
121 AGCTTTAATCTTTAAGAAAAATAATGTT
47061255 TTTTT
1 TTTTT
47061260 CTAAAGATCA
Statistics
Matches: 402, Mismatches: 38, Indels: 39
0.84 0.08 0.08
Matches are distributed among these distances:
147 17 0.04
148 24 0.06
149 20 0.05
150 47 0.12
151 126 0.31
152 8 0.02
153 1 0.00
154 8 0.02
155 48 0.12
156 40 0.10
157 60 0.15
158 3 0.01
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (148 bp):
TTTTTTTTAAAAAGAAAGTTTAGATTTTGAAAAATAAAAATCTGTTTTTTTTAGTTATTTTAAAG
GAAAGTTTAAATTTTTAAAACAAAGTTTTAATTTTTTTAACTATTTCAAAGTAAAAGCTTTAATC
TTTAAGAAAAATAATGTT
Found at i:47073418 original size:23 final size:22
Alignment explanation
Indices: 47073391--47073458 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
47073381 GTGTATTTAA
47073391 AATATTTCACATATAAACATAAT
1 AATATTTCACATATAAA-ATAAT
* * * *
47073414 GATATTTCAAATAATTAATTAA-
1 AATATTTCACAT-ATAAAATAAT
47073436 AATATTTCACATATAAAAATAAT
1 AATATTTCACATAT-AAAATAAT
47073459 TAAAATATCA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
21 2 0.06
22 15 0.44
23 13 0.38
24 4 0.12
ACGTcount: A:0.53, C:0.09, G:0.01, T:0.37
Consensus pattern (22 bp):
AATATTTCACATATAAAATAAT
Found at i:47074754 original size:18 final size:19
Alignment explanation
Indices: 47074731--47074771 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
47074721 GCTTTTTTAA
47074731 TTTTGTT-AGGTTTAGGG-T
1 TTTTGTTAAGG-TTAGGGAT
47074749 TTTTGTTAAGGTTAGGGAT
1 TTTTGTTAAGGTTAGGGAT
47074768 TTTT
1 TTTT
47074772 AAGGGTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (19 bp):
TTTTGTTAAGGTTAGGGAT
Found at i:47079945 original size:23 final size:23
Alignment explanation
Indices: 47079900--47079945 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
47079890 AAATTTTAAC
* *
47079900 AATATTTATATTATTTTTAATTT
1 AATATTTATATAATTTATAATTT
47079923 AATATTTA-ATAATTTATATATTT
1 AATATTTATATAATTTATA-ATTT
47079946 TTATCATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
AATATTTATATAATTTATAATTT
Found at i:47079956 original size:17 final size:16
Alignment explanation
Indices: 47079901--47079956 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
47079891 AATTTTAACA
47079901 ATATTTATATTATTTTT
1 ATATTTATA-TATTTTT
*
47079918 A-ATTTA-ATA-TTTA
1 ATATTTATATATTTTT
47079931 ATAATTTATATATTTTT
1 AT-ATTTATATATTTTT
47079948 ATCATTTAT
1 AT-ATTTAT
47079957 TAAAATTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
13 4 0.12
14 2 0.06
15 6 0.19
16 8 0.25
17 12 0.38
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
ATATTTATATATTTTT
Found at i:47081015 original size:19 final size:19
Alignment explanation
Indices: 47080983--47081022 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
47080973 ATTATTTTGG
*
47080983 TAAAAAAACCTAACAAAAC
1 TAAAAAAACATAACAAAAC
* *
47081002 TAAAAAAATATAACTAAAC
1 TAAAAAAACATAACAAAAC
47081021 TA
1 TA
47081023 CAACTATGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (19 bp):
TAAAAAAACATAACAAAAC
Found at i:47082784 original size:49 final size:48
Alignment explanation
Indices: 47082712--47082806 Score: 172
Period size: 49 Copynumber: 2.0 Consensus size: 48
47082702 GAAAAGGAAT
47082712 GGAGGGATGTGAGAGGTCACATTCTTTTTTTCTTGTTCATCGGTTACCA
1 GGAGGGATGTGAGAGGTCACATTC-TTTTTTCTTGTTCATCGGTTACCA
*
47082761 GGAGGGATGTGAGAGGTCACATTCTTTTTTCTTTTTCATCGGTTAC
1 GGAGGGATGTGAGAGGTCACATTCTTTTTTCTTGTTCATCGGTTAC
47082807 ATTCTTTCCA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 21 0.47
49 24 0.53
ACGTcount: A:0.18, C:0.16, G:0.26, T:0.40
Consensus pattern (48 bp):
GGAGGGATGTGAGAGGTCACATTCTTTTTTCTTGTTCATCGGTTACCA
Found at i:47090077 original size:18 final size:18
Alignment explanation
Indices: 47090054--47090096 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
47090044 ACCTAATCCA
**
47090054 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
47090072 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
47090090 AACCCAA
1 AACCCAA
47090097 TCATAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:47094506 original size:7 final size:8
Alignment explanation
Indices: 47094481--47094506 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
47094471 TTCTAATTTG
47094481 TTTCAATT
1 TTTCAATT
47094489 TTTCAATT
1 TTTCAATT
47094497 TTTCAATT
1 TTTCAATT
47094505 TT
1 TT
47094507 AATATAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTCAATT
Found at i:47095514 original size:9 final size:9
Alignment explanation
Indices: 47095502--47095532 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
47095492 TGATTAACCG
47095502 AATTACCCA
1 AATTACCCA
47095511 AATTACCCA
1 AATTACCCA
*
47095520 AATTACCCG
1 AATTACCCA
47095529 AATT
1 AATT
47095533 GAATCACTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.42, C:0.29, G:0.03, T:0.26
Consensus pattern (9 bp):
AATTACCCA
Found at i:47095562 original size:17 final size:17
Alignment explanation
Indices: 47095540--47095602 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
47095530 ATTGAATCAC
47095540 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
***
47095557 TACATAAGTCTTTGAATCAT
1 TACATAA-T-TAAAAAT-AT
*
47095577 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
47095594 TACATAATT
1 TACATAATT
47095603 CTTGAAATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
17 18 0.50
18 4 0.11
19 5 0.14
20 9 0.25
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:47095581 original size:37 final size:37
Alignment explanation
Indices: 47095531--47095605 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
47095521 ATTACCCGAA
*
47095531 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
* *
47095568 TTGAATCATTACATAATTAAAAACATTACATAATTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
47095605 T
1 T
47095606 GAAATTAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.37
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:47095619 original size:37 final size:37
Alignment explanation
Indices: 47095531--47095619 Score: 101
Period size: 37 Copynumber: 2.4 Consensus size: 37
47095521 ATTACCCGAA
*
47095531 TTGAATC-ACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCAAC-ACATAATTAAAAACATTACATAAGTCT
** *
47095568 TTGAATCATTACATAATTAAAAACATTACATAATTC-
1 TTGAATCAACACATAATTAAAAACATTACATAAGTCT
*
47095604 TTGAAATTAACACATA
1 TTG-AATCAACACATA
47095620 GTTGAAATGT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
36 3 0.07
37 40 0.93
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.35
Consensus pattern (37 bp):
TTGAATCAACACATAATTAAAAACATTACATAAGTCT
Found at i:47095787 original size:17 final size:16
Alignment explanation
Indices: 47095761--47095818 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
47095751 ATTTTTATTG
*
47095761 GGTTGGTAATTGGGTT
1 GGTTGATAATTGGGTT
47095777 AGGTTGATAATTGGGTT
1 -GGTTGATAATTGGGTT
47095794 GG--G-TAATTGGGTT
1 GGTTGATAATTGGGTT
47095807 GGGTTGGATAAT
1 -GGTT-GATAAT
47095819 ATTATTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
13 10 0.29
14 3 0.09
16 2 0.06
17 16 0.46
18 4 0.11
ACGTcount: A:0.19, C:0.00, G:0.41, T:0.40
Consensus pattern (16 bp):
GGTTGATAATTGGGTT
Found at i:47095801 original size:30 final size:30
Alignment explanation
Indices: 47095757--47095818 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
47095747 TTTTATTTTT
47095757 ATTGGGTTGGTAATTGGGTTAGGTT-GATA
1 ATTGGGTTGGTAATTGGGTTAGGTTGGATA
*
47095786 ATTGGGTTGGGTAATTGGGTTGGGTTGGATA
1 ATTGGGTT-GGTAATTGGGTTAGGTTGGATA
47095817 AT
1 AT
47095819 ATTATTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 8 0.27
30 16 0.53
31 6 0.20
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.40
Consensus pattern (30 bp):
ATTGGGTTGGTAATTGGGTTAGGTTGGATA
Found at i:47095802 original size:13 final size:13
Alignment explanation
Indices: 47095757--47095810 Score: 65
Period size: 13 Copynumber: 3.9 Consensus size: 13
47095747 TTTTATTTTT
47095757 ATTGGGTT-GGTA
1 ATTGGGTTGGGTA
47095769 ATTGGGTTAGGTTGATA
1 ATTGGGTT-GG--G-TA
47095786 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
47095799 ATTGGGTTGGGT
1 ATTGGGTTGGGT
47095811 TGGATAATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 8 0.22
13 14 0.38
14 2 0.05
16 3 0.08
17 10 0.27
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.41
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:47103650 original size:21 final size:21
Alignment explanation
Indices: 47103635--47103695 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 21
47103625 AAGAAGAAGA
*
47103635 AAAAGGAAATAGAGAAAAATG
1 AAAAGAAAATAGAGAAAAATG
*
47103656 AAAAGAAAATAGAAGTGGAAAATG
1 AAAAGAAAATAG-A--GAAAAATG
*
47103680 AAAAG-AAATAAAGAAA
1 AAAAGAAAATAGAGAAA
47103696 GAAAAAGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
20 3 0.09
21 11 0.33
22 2 0.06
23 5 0.15
24 12 0.36
ACGTcount: A:0.69, C:0.00, G:0.21, T:0.10
Consensus pattern (21 bp):
AAAAGAAAATAGAGAAAAATG
Found at i:47103722 original size:22 final size:21
Alignment explanation
Indices: 47103681--47103726 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
47103671 TGGAAAATGA
47103681 AAAGAAATAAAGAAAGAAAAAG
1 AAAGAAATAAAGAAAG-AAAAG
*
47103703 AAAGAAATAAA-ATAATAAAAG
1 AAAGAAATAAAGA-AAGAAAAG
47103724 AAA
1 AAA
47103727 CCATGTTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (21 bp):
AAAGAAATAAAGAAAGAAAAG
Found at i:47106983 original size:13 final size:13
Alignment explanation
Indices: 47106965--47106990 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47106955 ACACTCAAAT
47106965 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
47106978 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
47106991 ATTTCCACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:47112308 original size:17 final size:17
Alignment explanation
Indices: 47112278--47112311 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47112268 TCATGCACCA
**
47112278 TTTTTTAATTTTTAAAT
1 TTTTTTAAAATTTAAAT
47112295 TTTTTTAAAATTTAAAT
1 TTTTTTAAAATTTAAAT
47112312 ATAAAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTTAAAATTTAAAT
Found at i:47113546 original size:28 final size:28
Alignment explanation
Indices: 47113514--47113586 Score: 128
Period size: 28 Copynumber: 2.6 Consensus size: 28
47113504 AGATGATTTG
* *
47113514 AAAACCCAAAGTTCGAAAACATTTATTC
1 AAAACCCAAAATTCAAAAACATTTATTC
47113542 AAAACCCAAAATTCAAAAACATTTATTC
1 AAAACCCAAAATTCAAAAACATTTATTC
47113570 AAAACCCAAAATTCAAA
1 AAAACCCAAAATTCAAA
47113587 TTCAAAGTCG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.53, C:0.22, G:0.03, T:0.22
Consensus pattern (28 bp):
AAAACCCAAAATTCAAAAACATTTATTC
Found at i:47113557 original size:14 final size:14
Alignment explanation
Indices: 47113538--47113586 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
47113528 GAAAACATTT
47113538 ATTCAAAACCCAAA
1 ATTCAAAACCCAAA
* **
47113552 ATTCAAAA-ACATTT
1 ATTCAAAACCCA-AA
47113566 ATTCAAAACCCAAA
1 ATTCAAAACCCAAA
47113580 ATTCAAA
1 ATTCAAA
47113587 TTCAAAGTCG
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
13 2 0.07
14 23 0.85
15 2 0.07
ACGTcount: A:0.55, C:0.22, G:0.00, T:0.22
Consensus pattern (14 bp):
ATTCAAAACCCAAA
Found at i:47113867 original size:6 final size:6
Alignment explanation
Indices: 47113823--47113866 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
47113813 AATAAAAGCA
**
47113823 AAAACC AAAACC AAAACC AAGCCC AAAA-C AAAACC AAAA-C AAAA
1 AAAACC AAAACC AAAACC AAAACC AAAACC AAAACC AAAACC AAAA
47113867 AACTTAGTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
5 10 0.30
6 23 0.70
ACGTcount: A:0.68, C:0.30, G:0.02, T:0.00
Consensus pattern (6 bp):
AAAACC
Found at i:47113867 original size:12 final size:12
Alignment explanation
Indices: 47113823--47113866 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
47113813 AATAAAAGCA
47113823 AAAACCAAAACC
1 AAAACCAAAACC
**
47113835 AAAACCAAGCCC
1 AAAACCAAAACC
47113847 AAAA-CAAAACC
1 AAAACCAAAACC
47113858 AAAA-CAAAA
1 AAAACCAAAA
47113867 AACTTAGTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 14 0.50
12 14 0.50
ACGTcount: A:0.68, C:0.30, G:0.02, T:0.00
Consensus pattern (12 bp):
AAAACCAAAACC
Found at i:47114267 original size:133 final size:133
Alignment explanation
Indices: 47114029--47114279 Score: 448
Period size: 133 Copynumber: 1.9 Consensus size: 133
47114019 AGCCCAATGC
*
47114029 ACATGCAAAATCATAATATCATATATTCATATTACATAATTGAACCAAATAGCTTATCAAAACAG
1 ACATGCAAAATCATAATATCATATATTCATATTACACAATTGAACCAAATAGCTTATCAAAACAG
47114094 ATAACAAAATAAGTATAACACACATGATTTACAAAATAGTCATGCTTAACTCACCCCAATGTACA
66 ATAACAAAATAAGTATAACACACATGATTTACAAAATAGTCATGCTTAACTCACCCCAATGTACA
47114159 TGG
131 TGG
* * * *
47114162 ACATGCAGAATCATAATATCATATGTTCATATTACACAATTGAATCAATTAGCTTATCAAAACAG
1 ACATGCAAAATCATAATATCATATATTCATATTACACAATTGAACCAAATAGCTTATCAAAACAG
*
47114227 ATAATAAAATAAGTATAACACACATGATTTACAAAATAGTCATGCTTAACTCA
66 ATAACAAAATAAGTATAACACACATGATTTACAAAATAGTCATGCTTAACTCA
47114280 TGTACCTACT
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
133 112 1.00
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (133 bp):
ACATGCAAAATCATAATATCATATATTCATATTACACAATTGAACCAAATAGCTTATCAAAACAG
ATAACAAAATAAGTATAACACACATGATTTACAAAATAGTCATGCTTAACTCACCCCAATGTACA
TGG
Found at i:47117109 original size:55 final size:57
Alignment explanation
Indices: 47117025--47117172 Score: 198
Period size: 56 Copynumber: 2.6 Consensus size: 57
47117015 GCGTGTCCTG
** *
47117025 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAAT-AGA-AAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAATAAAATAAA
*
47117080 AGGCTCAACTCACCTCTCGCAATATGAGTTG---GTTTTTTTGAAAAATAAAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAAT-AAAA-TAAA
*
47117136 AGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
47117173 GAAAAACAGA
Statistics
Matches: 80, Mismatches: 6, Indels: 10
0.83 0.06 0.10
Matches are distributed among these distances:
52 14 0.17
54 2 0.03
55 29 0.36
56 33 0.41
59 2 0.03
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (57 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAATAAAATAAA
Found at i:47117190 original size:14 final size:14
Alignment explanation
Indices: 47117171--47117205 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
47117161 GAGTTGATTT
47117171 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
47117185 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
47117199 TTGAAAA
1 TTGAAAA
47117206 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:47117258 original size:87 final size:87
Alignment explanation
Indices: 47117136--47117349 Score: 331
Period size: 86 Copynumber: 2.5 Consensus size: 87
47117126 AAAAATTAAA
* ** *
47117136 AGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGTAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAACAGAAATG
*
47117201 GAAAATACCTCAGCGTGCCCTG
66 GAAAATACCTCAGCATGCCCTG
* * *
47117223 AGGCTCAACTCACCTCTTGCAATATGAATTGATTTTTG-AAAACATAAATTGAAAAACAGAAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAACAGAAATG
*
47117287 GAAAATACCTCAGCATGTCCTG
66 GAAAATACCTCAGCATGCCCTG
*
47117309 AGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
47117350 CATACAAAAA
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
86 77 0.68
87 37 0.32
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAACAGAAATG
GAAAATACCTCAGCATGCCCTG
Found at i:47117618 original size:72 final size:72
Alignment explanation
Indices: 47117275--47117948 Score: 935
Period size: 72 Copynumber: 9.2 Consensus size: 72
47117265 CATAAATTGA
* * * * ** *
47117275 AAAACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
*
47117340 ATTTTTG
66 AATTTTG
* *
47117347 AAACATACAAAAAATTGACAATACCT-AA-GTATGTCTTGAGGCTCAACTCATTTCTCGCAATAT
1 -AA-A-AC-AGAAATTGAAAATACCTCAACG--TGTCTTGAGGCTCAACTCATTTCTCGCAATAT
47117410 GAGTTGAATTTTG
60 GAGTTGAATTTTG
*
47117423 AAAAGCAGAAATTGAAAATACCTCAACTTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
47117488 GAATTTTG
65 GAATTTTG
*
47117496 AAAAGCAGAAATTGAAAATACCTCAACTTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
47117561 GAATTTTG
65 GAATTTTG
*
47117569 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
47117634 AATTTTG
66 AATTTTG
*
47117641 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
47117706 AATTTTG
66 AATTTTG
* * *
47117713 AAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTT
1 AAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
47117778 GAATTTTG
65 GAATTTTG
* * *
47117786 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
* *
47117851 ATTTTTTTT
66 A--ATTTTG
* * ** *
47117860 AACAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGT
1 AA-AACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
47117924 TG-ATTTTG
64 TGAATTTTG
*
47117932 AAAAACATAAATT-AAAA
1 -AAAACAGAAATTGAAAA
47117949 GGCTTAACTC
Statistics
Matches: 557, Mismatches: 30, Indels: 29
0.90 0.05 0.05
Matches are distributed among these distances:
72 219 0.39
73 210 0.38
74 14 0.03
75 60 0.11
76 54 0.10
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (72 bp):
AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
AATTTTG
Found at i:47117711 original size:217 final size:217
Alignment explanation
Indices: 47117271--47117948 Score: 988
Period size: 217 Copynumber: 3.1 Consensus size: 217
47117261 AAAACATAAA
* ** *
47117271 TTGAAAAACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
* *
47117336 GTTGATTTTTGAAACATACAAAAAATTGACAA-TACCT-AA-GTATGTCTTGAGGCTCAACTCAT
66 GTTGAATTTTG-AA-A-AC-AGAAATTGA-AATTACCTCAACG--TGTCTTGAGGCTCAACTCAT
* *
47117398 TTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACTTGTCTTGAGGCT
124 TTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCT
47117463 CAACTCATTTCTCGCAATATGAGTTGAATT
188 CAACTCATTTCTCGCAATATGAGTTGAATT
* * * *
47117493 TTGAAAAGCAGAAATTGAAAATACCTCAACTTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
47117558 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
66 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
47117623 AATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCAT
131 AATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCAT
47117688 TTCTCGCAATATGAGTTGAATT
196 TTCTCGCAATATGAGTTGAATT
* * *
47117710 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
* *
47117775 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGC
66 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
* * * * *
47117840 AATATGAGTTGATTTTTTTTAACAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACT
131 AATATGAGTTGA--ATTTTGAA-AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACT
** *
47117905 CACCTCTAGCAATATGAGTTG-ATT
193 CATTTCTCGCAATATGAGTTGAATT
*
47117929 TTGAAAAACATAAATT-AAAA
1 TTGAAAAACAGAAATTGAAAA
47117949 GGCTTAACTC
Statistics
Matches: 422, Mismatches: 28, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
217 201 0.48
218 66 0.16
219 27 0.06
220 59 0.14
221 2 0.00
222 67 0.16
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (217 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
AATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCAT
TTCTCGCAATATGAGTTGAATT
Found at i:47118043 original size:122 final size:123
Alignment explanation
Indices: 47117895--47118311 Score: 599
Period size: 122 Copynumber: 3.3 Consensus size: 123
47117885 GCGTGTCCTG
47117895 AGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACATAAATTAAAAGGCTTAACTC
1 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAACATAAATTAAAAGGCTTAACTC
47117959 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGCGTGCCCCT
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGCGTGCCCCT
* * * *
47118017 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTC
1 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAACATAAATTAAAAGGCTTAACTC
* * * ** ** *
47118082 ATCTCTCGCAATATGAGTTGATTTTTGAAAA-ATAACAGAAATTGAAATTACCTCAGCGTG-TCC
66 ACCTCTCGCAATATGAG-TCA-ATTT-AAAACATAA-ACTAA---AAA-TACCTTGGCGTGCCCC
47118145 T
123 T
47118146 GAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACATAAATTAAAAGGCTTAACT
1 -AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAACATAAATTAAAAGGCTTAACT
47118210 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGCGTGCCCCT
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGCGTGCCCCT
* *
47118269 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAA
1 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAA
47118312 TAACAGAAAT
Statistics
Matches: 256, Mismatches: 26, Indels: 25
0.83 0.08 0.08
Matches are distributed among these distances:
122 70 0.27
123 62 0.24
124 2 0.01
125 7 0.03
126 14 0.05
127 7 0.03
128 2 0.01
129 52 0.20
130 40 0.16
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (123 bp):
AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAACATAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGCGTGCCCCT
Found at i:47118264 original size:252 final size:251
Alignment explanation
Indices: 47117820--47118311 Score: 921
Period size: 252 Copynumber: 2.0 Consensus size: 251
47117810 GCGTGTCCTG
* ***
47117820 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTAAAATTACCTCA
1 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTAAAAACAACAGAAATTAAAATTACCTCA
47117885 GCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACATAAATTAAAAG
66 GCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACATAAATTAAAAG
47117950 GCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGCGTGCCC
131 GCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGCGTGCCC
47118015 CTAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
196 CTAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
47118071 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAAATAACAGAAATTGAAATTACCTC
1 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTT-AAAAACAACAGAAATTAAAATTACCTC
47118136 AGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACATAAATTAAAA
65 AGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACATAAATTAAAA
47118201 GGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGCGTGCC
130 GGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGCGTGCC
47118266 CCTAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAA
195 CCTAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAA
47118312 TAACAGAAAT
Statistics
Matches: 234, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
251 36 0.15
252 198 0.85
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (251 bp):
AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTAAAAACAACAGAAATTAAAATTACCTCA
GCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACATAAATTAAAAG
GCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGCGTGCCC
CTAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:47118295 original size:198 final size:198
Alignment explanation
Indices: 47118071--47118509 Score: 862
Period size: 198 Copynumber: 2.2 Consensus size: 198
47118061 AGAAATTAAA
47118071 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTTTGAAAAATAACAGAAATTGAAATTACCT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTTTGAAAAATAACAGAAATTGAAATTACCT
47118135 CAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACATAAATTAAA
65 CAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACATAAATTAAA
47118200 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGCGTGC
130 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGCGTGC
47118265 CCCT
195 CCCT
47118269 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAATAACAGAAATTGAAATTACCTC
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAATAACAGAAATTGAAATTACCTC
47118334 AGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACATAAATTAAAA
66 AGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACATAAATTAAAA
47118399 GGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGCGTGCC
131 GGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGCGTGCC
47118464 CCT
196 CCT
47118467 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAA
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAA
47118510 CAGAAATTAA
Statistics
Matches: 240, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
198 239 1.00
199 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.29
Consensus pattern (198 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAATAACAGAAATTGAAATTACCTC
AGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACATAAATTAAAA
GGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGCGTGCC
CCT
Found at i:47118543 original size:123 final size:123
Alignment explanation
Indices: 47118335--47118925 Score: 889
Period size: 123 Copynumber: 4.8 Consensus size: 123
47118325 AATTACCTCA
* * * * *
47118335 GCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACATAAATTAAAA
1 GCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAA
47118399 GGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTG
66 GGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTG
* *
47118457 GCGTGCCCCTAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAA
1 GCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAA
* * * * ** *
47118522 GGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAA-ATAACAGAAATTGAAATTACCTC
66 GGCTTAACTCACCTCTCGCAATATGAG-TCA-ATTT-AAAACATAA-ACTAA---AAA-TACCTT
*
47118586 A
123 G
* * * *
47118587 GCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAA
1 GCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAA
47118652 GGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTG
66 GGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTG
47118710 GCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAA
1 GCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAA
47118775 GGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTG
66 GGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTG
*
47118833 GCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAA
1 GCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAA
* **
47118898 GGCTCAACTCACCTCTCGTGATATGAGT
66 GGCTTAACTCACCTCTCGCAATATGAGT
47118926 TGATTTTCCT
Statistics
Matches: 423, Mismatches: 36, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
122 37 0.09
123 259 0.61
124 5 0.01
125 7 0.02
126 7 0.02
127 7 0.02
128 7 0.02
129 5 0.01
130 89 0.21
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (123 bp):
GCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAA
GGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTG
Found at i:47118741 original size:253 final size:252
Alignment explanation
Indices: 47118269--47118925 Score: 1053
Period size: 253 Copynumber: 2.6 Consensus size: 252
47118259 GCGTGCCCCT
47118269 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAATAACAGAAATTGAAATTACCTC
1 AGGCTCAACTCAC-TCTCGCAATATGAGTTGATTTTTGAAAAATAACAGAAATTGAAATTACCTC
*
47118334 AGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACATAAATTAAA
65 AGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAA
47118398 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGCGTGC
130 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGCGTGC
* *
47118463 CCCTAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
195 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAA
47118521 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAAATAACAGAAATTGAAATTACCTC
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTTGAAAAATAACAGAAATTGAAATTACCTC
47118586 AGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAA
65 AGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAA
47118651 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGCGTGC
130 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGCGTGC
47118716 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAA
195 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAA
* * * **
47118774 AGGCTTAACTCACCTCTCGCAATATGAG-TCA-ATTT-AAAACATAA-ACTAA---AAA-TACCT
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTTGAAAA-ATAACAGAAATTGAAATTACCT
** * * * * *
47118831 TGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
64 CAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAACAAAAATTAA
* **
47118896 AAGGCTCAACTCACCTCTCGTGATATGAGT
129 AAGGCTTAACTCACCTCTCGCAATATGAGT
47118926 TGATTTTCCT
Statistics
Matches: 383, Mismatches: 19, Indels: 12
0.93 0.05 0.03
Matches are distributed among these distances:
246 90 0.23
247 3 0.01
250 7 0.02
251 7 0.02
252 108 0.28
253 168 0.44
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (252 bp):
AGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTGAAAAATAACAGAAATTGAAATTACCTCA
GCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAA
GGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGCGTGCC
CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAA
Found at i:47130648 original size:18 final size:18
Alignment explanation
Indices: 47130627--47131056 Score: 115
Period size: 18 Copynumber: 24.8 Consensus size: 18
47130617 AACGAAAGTT
47130627 TTTTTTAAAACACGAGAA
1 TTTTTTAAAACACGAGAA
*
47130645 TTTTTGAAAACACGAGAA
1 TTTTTTAAAACACGAGAA
*
47130663 -TTTGT-AAACACGA-AA
1 TTTTTTAAAACACGAGAA
* *
47130678 -ATTTTAGAAACACGAAAA
1 TTTTTTA-AAACACGAGAA
* * *
47130696 TTTTTAGAAAAAAC-AAAA
1 TTTTT-TAAAACACGAGAA
* *
47130714 TTTTCTTAAAACACGACATTT
1 TTTT-TTAAAACACGAGA--A
*
47130735 TTTTTTGAAACACGA-AA
1 TTTTTTAAAACACGAGAA
* *
47130752 ATTTTTAAAACA-GGGAA
1 TTTTTTAAAACACGAGAA
*
47130769 -ATTTTAGAAACACGA-AA
1 TTTTTTA-AAACACGAGAA
* *
47130786 ATTTTTAAAACACGA-CA
1 TTTTTTAAAACACGAGAA
*
47130803 TTTTTTGAAACAC--G-A
1 TTTTTTAAAACACGAGAA
*
47130818 ---TTTAAAAAAC-A-AA
1 TTTTTTAAAACACGAGAA
** * **
47130831 --AATTGAAATGCGAGAA
1 TTTTTTAAAACACGAGAA
* * *
47130847 TATTTTGAAACACGA-AT
1 TTTTTTAAAACACGAGAA
* *
47130864 TTTTTTTAAACGCGAGAA
1 TTTTTTAAAACACGAGAA
* *
47130882 TTTTTGAAAACATG-GAA
1 TTTTTTAAAACACGAGAA
** * *
47130899 -ACTTTGAAACACTG-GAG
1 TTTTTTAAAACAC-GAGAA
*
47130916 TTTTTGAAAACACGAGAA
1 TTTTTTAAAACACGAGAA
* * *
47130934 -TTTGTGAAACACGAAAA
1 TTTTTTAAAACACGAGAA
* *
47130951 TTTGTGAAAACACGTA-AA
1 TTTTTTAAAACACG-AGAA
*
47130969 TTTTTTTTTAAACACGA-AA
1 --TTTTTTAAAACACGAGAA
* * * *
47130988 ATTTTTGAAACGCCAGAA
1 TTTTTTAAAACACGAGAA
* * *
47131006 TTTTTGAAATCAC-AAAGA
1 TTTTTTAAAACACGAGA-A
* *
47131024 TTTTTGAAAACACGAAAA
1 TTTTTTAAAACACGAGAA
*
47131042 TTTTTGAAAACACGA
1 TTTTTTAAAACACGA
47131057 AAACACTAAA
Statistics
Matches: 305, Mismatches: 75, Indels: 64
0.69 0.17 0.14
Matches are distributed among these distances:
12 8 0.03
13 1 0.00
14 6 0.02
15 7 0.02
16 23 0.08
17 96 0.31
18 119 0.39
19 19 0.06
20 22 0.07
21 4 0.01
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.31
Consensus pattern (18 bp):
TTTTTTAAAACACGAGAA
Found at i:47130893 original size:35 final size:34
Alignment explanation
Indices: 47130841--47131056 Score: 120
Period size: 35 Copynumber: 6.1 Consensus size: 34
47130831 AATTGAAATG
* *
47130841 CGAGAATATTTTG-AAACACGAATTTTTTTTAAACG
1 CGAGAAT-TTTTGAAAACACGAA-TTTTTTGAAACA
* **
47130876 CGAGAATTTTTGAAAACATGGAA-ACTTTGAAACA
1 CGAGAATTTTTGAAAACA-CGAATTTTTTGAAACA
* * *
47130910 CTG-GAGTTTTTGAAAACACGAGAATTTGTGAAACA
1 C-GAGAATTTTTGAAAACACGA-ATTTTTTGAAACA
* * *
47130945 CGAAAATTTGTGAAAACACGTAAATTTTTTTTTAAACA
1 CGAGAATTTTTGAAAACACG--AA--TTTTTTGAAACA
* *
47130983 CGAAAATTTTTG-AAACGCCAGAA-TTTTTGAAATCA
1 CGAGAATTTTTGAAAAC-AC-GAATTTTTTGAAA-CA
* *
47131018 C-AAAGATTTTTGAAAACACGAAAATTTTTGAAAACA
1 CGAGA-ATTTTTGAAAACACG-AATTTTTTG-AAACA
47131054 CGA
1 CGA
47131057 AAACACTAAA
Statistics
Matches: 142, Mismatches: 20, Indels: 36
0.72 0.10 0.18
Matches are distributed among these distances:
33 2 0.01
34 41 0.29
35 49 0.35
36 17 0.12
37 11 0.08
38 21 0.15
39 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (34 bp):
CGAGAATTTTTGAAAACACGAATTTTTTGAAACA
Found at i:47130991 original size:55 final size:53
Alignment explanation
Indices: 47130916--47131059 Score: 162
Period size: 55 Copynumber: 2.7 Consensus size: 53
47130906 AACACTGGAG
* * **
47130916 TTTTTGAAAACACGAGAATTTGTGAAACACGAAAATTTGTGAAAACACGTAAATT
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTGTGAAAACAC--AAAGA
** * * * * *
47130971 TTTTTTTAAACACGAAAATTTTTGAAACGCCAGAATTTTTGAAATCACAAAGA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTGTGAAAACACAAAGA
47131024 TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAATTTTTG-AAACACGAAAA
47131060 CACTAAATTT
Statistics
Matches: 72, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
53 25 0.35
54 8 0.11
55 39 0.54
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (53 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTGTGAAAACACAAAGA
Found at i:47131057 original size:18 final size:18
Alignment explanation
Indices: 47130627--47131059 Score: 236
Period size: 17 Copynumber: 25.0 Consensus size: 18
47130617 AACGAAAGTT
* *
47130627 TTTTTTAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
47130645 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
47130663 --TTTGTAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
47130679 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
47130696 TTTTTAGAAAAAAC-AAAA
1 TTTTT-GAAAACACGAAAA
* **
47130714 TTTTCTTAAAACACGACATTTT
1 TTTT-TGAAAACACGA-A--AA
47130736 TTTTTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
47130753 TTTTT-AAAACAGGGAAA
1 TTTTTGAAAACACGAAAA
*
47130770 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
47130787 TTTTT-AAAACACGACAT
1 TTTTTGAAAACACGAAAA
47130804 TTTTTG-AAACACG---A
1 TTTTTGAAAACACGAAAA
*
47130818 --TTT-AAAAAAC-AAAA
1 TTTTTGAAAACACGAAAA
* ** *
47130832 --ATTG-AAATGCGAGAA
1 TTTTTGAAAACACGAAAA
*
47130847 TATTTTG-AAACACG-AAT
1 T-TTTTGAAAACACGAAAA
** * *
47130864 TTTTTTTAAACGCGAGAA
1 TTTTTGAAAACACGAAAA
* *
47130882 TTTTTGAAAACATGGAAA
1 TTTTTGAAAACACGAAAA
* * *
47130900 -CTTTG-AAACACTG-GAG
1 TTTTTGAAAACAC-GAAAA
*
47130916 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
47130934 TTTGTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
47130951 TTTGTGAAAACACGTAAATT
1 TTTTTGAAAACACG-AAA-A
**
47130971 TTTTTTTAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
47130989 TTTTTG-AAACGCCAGAA
1 TTTTTGAAAACACGAAAA
*
47131006 TTTTTGAAATCAC-AAAGA
1 TTTTTGAAAACACGAAA-A
47131024 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
47131042 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
47131060 CACTAAATTT
Statistics
Matches: 318, Mismatches: 63, Indels: 68
0.71 0.14 0.15
Matches are distributed among these distances:
12 8 0.03
14 7 0.02
15 3 0.01
16 24 0.08
17 117 0.37
18 117 0.37
19 17 0.05
20 20 0.06
21 1 0.00
22 4 0.01
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:47131175 original size:20 final size:20
Alignment explanation
Indices: 47131154--47131190 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
47131144 TTATTTTTAT
47131154 TTTTTTTTG-AAACACGAGA
1 TTTTTTTTGAAAACACGAGA
47131173 TTTTTTTTGAAAACACGA
1 TTTTTTTTGAAAACACGA
47131191 AAACACGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (20 bp):
TTTTTTTTGAAAACACGAGA
Found at i:47131238 original size:17 final size:16
Alignment explanation
Indices: 47131189--47131236 Score: 64
Period size: 15 Copynumber: 3.0 Consensus size: 16
47131179 TTGAAAACAC
47131189 GAAAACACGAATTTTT
1 GAAAACACGAATTTTT
47131205 G-AAACACGGAAATTTTT
1 GAAAACAC-G-AATTTTT
47131222 GAAAACACG-ATTTTT
1 GAAAACACGAATTTTT
47131237 TTAGAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 2 0.07
17 9 0.31
18 6 0.21
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (16 bp):
GAAAACACGAATTTTT
Found at i:47132565 original size:30 final size:30
Alignment explanation
Indices: 47132525--47132626 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
47132515 ATTTAGGATT
* *
47132525 AAAATGAAATTTAATGAAGGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
47132555 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
47132585 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
47132615 AAAATGCAATTT
1 AAAATGAAATTT
47132627 TTATTTTAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.43, C:0.04, G:0.24, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:47142138 original size:19 final size:19
Alignment explanation
Indices: 47142114--47142154 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
47142104 GAGTTACGTA
47142114 TTACTAAGCTTGAATTTGG
1 TTACTAAGCTTGAATTTGG
47142133 TTACTAAGCTTGAATTTGG
1 TTACTAAGCTTGAATTTGG
47142152 TTA
1 TTA
47142155 GCTTGATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.44
Consensus pattern (19 bp):
TTACTAAGCTTGAATTTGG
Found at i:47146914 original size:18 final size:19
Alignment explanation
Indices: 47146869--47146918 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
47146859 CTCATACCAT
47146869 AAATATATTAA-AAATCTTTA
1 AAAT-TATTAATAAATC-TTA
*
47146889 AAAGTATTAATAAATC-TA
1 AAATTATTAATAAATCTTA
47146907 AAATTATTAATA
1 AAATTATTAATA
47146919 TTAGTAAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 13 0.48
19 6 0.22
20 8 0.30
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (19 bp):
AAATTATTAATAAATCTTA
Found at i:47150440 original size:19 final size:19
Alignment explanation
Indices: 47150416--47150482 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
47150406 GGTATTTATG
47150416 TGTTTGATTTGTGTATGAA
1 TGTTTGATTTGTGTATGAA
* *
47150435 TGTTTGA-TTGTG-CTCAA
1 TGTTTGATTTGTGTATGAA
*
47150452 TTGGTTTTGATTTGTGTATGTA
1 -T-G-TTTGATTTGTGTATGAA
47150474 TGTTTGATT
1 TGTTTGATT
47150483 GTGCTCAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
17 3 0.08
18 6 0.16
19 15 0.39
20 6 0.16
21 6 0.16
22 2 0.05
ACGTcount: A:0.16, C:0.03, G:0.25, T:0.55
Consensus pattern (19 bp):
TGTTTGATTTGTGTATGAA
Found at i:47150477 original size:39 final size:39
Alignment explanation
Indices: 47150418--47150505 Score: 149
Period size: 39 Copynumber: 2.3 Consensus size: 39
47150408 TATTTATGTG
47150418 TTTGATTTGTGTATGAATGTTTGATTGTGCTCAATTGGT
1 TTTGATTTGTGTATGAATGTTTGATTGTGCTCAATTGGT
*
47150457 TTTGATTTGTGTATGTATGTTTGATTGTGCTCAATTGGT
1 TTTGATTTGTGTATGAATGTTTGATTGTGCTCAATTGGT
* *
47150496 TGTGAATTGT
1 TTTGATTTGT
47150506 ATGAAAGGTG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.05, G:0.26, T:0.52
Consensus pattern (39 bp):
TTTGATTTGTGTATGAATGTTTGATTGTGCTCAATTGGT
Found at i:47156626 original size:91 final size:91
Alignment explanation
Indices: 47156488--47156695 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
47156478 TTGATTTTAG
* *
47156488 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
47156553 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
47156580 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
47156645 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
47156671 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
47156696 GTTATAATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:47156664 original size:26 final size:28
Alignment explanation
Indices: 47156610--47156670 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
47156600 TATTATCAAG
* *
47156610 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
47156638 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
47156664 AATTATA
1 AATTATA
47156671 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:47156670 original size:44 final size:43
Alignment explanation
Indices: 47156528--47156670 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
47156518 GAATTTTATG
* *
47156528 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
47156572 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
47156619 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
47156663 AAATTATA
1 AAATTATA
47156671 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:47156860 original size:18 final size:17
Alignment explanation
Indices: 47156832--47156866 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47156822 ATTATTAAGA
*
47156832 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
47156849 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
47156867 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:47157096 original size:44 final size:45
Alignment explanation
Indices: 47157031--47157121 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
47157021 ACCTCTATTC
* * *
47157031 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
47157075 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
47157120 CA
1 CA
47157122 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:47157123 original size:16 final size:16
Alignment explanation
Indices: 47157102--47157170 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
47157092 GATTAGCTAT
47157102 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47157118 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
47157135 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47157151 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47157167 TACA
1 TACA
47157171 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:47157144 original size:33 final size:32
Alignment explanation
Indices: 47157102--47157170 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
47157092 GATTAGCTAT
47157102 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
47157135 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
47157167 TACA
1 TACA
47157171 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:47158905 original size:27 final size:27
Alignment explanation
Indices: 47158875--47158928 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
47158865 CATAATTACG
*
47158875 ATTTCTGCTGTGTATATTTAACAGTGT
1 ATTTCTGCTATGTATATTTAACAGTGT
*
47158902 ATTTCTGCTATGTATATTTAACGGTGT
1 ATTTCTGCTATGTATATTTAACAGTGT
47158929 TACAAAGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.11, G:0.19, T:0.48
Consensus pattern (27 bp):
ATTTCTGCTATGTATATTTAACAGTGT
Found at i:47162862 original size:3 final size:3
Alignment explanation
Indices: 47162856--47162881 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47162846 AAAAGTGGTT
47162856 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
47162882 TTAAATCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:47165903 original size:13 final size:15
Alignment explanation
Indices: 47165866--47165909 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
47165856 GACGAGAATG
47165866 ATTTTTAATTAAATAA
1 ATTTTTAATT-AATAA
47165882 ATTTATTAATTAA-AA
1 ATTT-TTAATTAATAA
*
47165897 ATTTTAAATTAAT
1 ATTTTTAATTAAT
47165910 TACACCTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 7 0.28
15 6 0.24
16 6 0.24
17 6 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTTTAATTAATAA
Found at i:47168311 original size:45 final size:45
Alignment explanation
Indices: 47168262--47168523 Score: 402
Period size: 45 Copynumber: 5.8 Consensus size: 45
47168252 ACTAGAAACA
**
47168262 AGTAAGACCATGACTGAAAGGTGTTATGGCATCACGATTCTAAT-G
1 AGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCT-ATCG
* *
47168307 AGTAAGACCGTGACTGAAAGACGTTATGGCATCACGATTCTATTG
1 AGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTATCG
*
47168352 AGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATCG
1 AGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTATCG
*
47168397 AGTAAGACTATGACTGAAAGACGTTATGGCATCACGATTCTATCG
1 AGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTATCG
* * *
47168442 AGGAAGACCATGACTGAAAGACGTTATGGCATCACAATTCTATCA
1 AGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTATCG
*
47168487 AGTAAGACCAT-AGCTGAAAGACGCTATGGCATCACGA
1 AGTAAGACCATGA-CTGAAAGACGTTATGGCATCACGA
47168524 ATCAAATTAA
Statistics
Matches: 200, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
44 3 0.01
45 197 0.99
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.24
Consensus pattern (45 bp):
AGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTATCG
Found at i:47168538 original size:135 final size:135
Alignment explanation
Indices: 47168264--47168553 Score: 388
Period size: 135 Copynumber: 2.1 Consensus size: 135
47168254 TAGAAACAAG
** * *
47168264 TAAGACCATGACTGAAAGGTGTTATGGCATCACGATTCTAATGAGTAAGACCGTGACTGAAAGAC
1 TAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAATGAGGAAGACCATGACTGAAAGAC
* ** * * * *
47168329 GTTATGGCATCACGATTCTATTGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTA
66 GTTATGGCATCACAATTCTATCAAGTAAGACCATGACTGAAAGACGCTATGGCATCACGAATCAA
*
47168394 TCGAG
131 TCGAA
*
47168399 TAAGACTATGACTGAAAGACGTTATGGCATCACGATTCT-ATCGAGGAAGACCATGACTGAAAGA
1 TAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAAT-GAGGAAGACCATGACTGAAAGA
47168463 CGTTATGGCATCACAATTCTATCAAGTAAGACCAT-AGCTGAAAGACGCTATGGCATCACGAATC
65 CGTTATGGCATCACAATTCTATCAAGTAAGACCATGA-CTGAAAGACGCTATGGCATCACGAATC
*
47168527 AAAT-TAA
129 -AATCGAA
**
47168534 TAAGACCATGGTTGAAAGAC
1 TAAGACCATGACTGAAAGAC
47168554 ACTATGACAA
Statistics
Matches: 135, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
134 3 0.02
135 130 0.96
136 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (135 bp):
TAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAATGAGGAAGACCATGACTGAAAGAC
GTTATGGCATCACAATTCTATCAAGTAAGACCATGACTGAAAGACGCTATGGCATCACGAATCAA
TCGAA
Found at i:47168539 original size:90 final size:89
Alignment explanation
Indices: 47168262--47168553 Score: 390
Period size: 90 Copynumber: 3.2 Consensus size: 89
47168252 ACTAGAAACA
** *
47168262 AGTAAGACCATGACTGAAAGGTGTTATGGCATCACGATTCTAAT-GAGTAAGACCGTGACTGAAA
1 AGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCT-ATCGAGTAAGACCATGACTGAAA
47168326 GACGTTATGGCATCACGATTCTATT
65 GACGTTATGGCATCACGATTCTATT
* *
47168351 GAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATCGAGTAAGACTATGACTGAAA
1 -AGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTATCGAGTAAGACCATGACTGAAA
*
47168416 GACGTTATGGCATCACGATTCTATCG
65 GACGTTATGGCATCACGATTCTAT-T
* * *
47168442 AGGAAGACCATGACTGAAAGACGTTATGGCATCACAATTCTATCAAGTAAGACCAT-AGCTGAAA
1 AGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTATCGAGTAAGACCATGA-CTGAAA
* * *
47168506 GACGCTATGGCATCACGAATCAAATT
65 GACGTTATGGCATCACGATTC-TATT
* **
47168532 AATAAGACCATGGTTGAAAGAC
1 AGTAAGACCATGACTGAAAGAC
47168554 ACTATGACAA
Statistics
Matches: 181, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
89 3 0.02
90 176 0.97
91 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (89 bp):
AGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTATCGAGTAAGACCATGACTGAAAG
ACGTTATGGCATCACGATTCTATT
Found at i:47168559 original size:45 final size:45
Alignment explanation
Indices: 47168219--47168608 Score: 182
Period size: 45 Copynumber: 8.6 Consensus size: 45
47168209 GGAAAATGAT
* * * * * *
47168219 TAAGACCATAGTTGAAAGACACTATGGCACCA-TACT-AGAAACAA
1 TAAGACCATGGCTGAAAGACACTATGGCATCACGAATCA-AATCAA
* **** * * * *
47168263 GTAAGACCATGACTGAAAGGTGTTATGGCATCACGATTCTAATGAG
1 -TAAGACCATGGCTGAAAGACACTATGGCATCACGAATCAAATCAA
* * ** * * * * *
47168309 TAAGACCGTGACTGAAAGACGTTATGGCATCACGATTCTATTGAG
1 TAAGACCATGGCTGAAAGACACTATGGCATCACGAATCAAATCAA
* *** * * *
47168354 TAAGACCATGACTGAAAGATGTTATGGCATCACGATTC-TATCGAG
1 TAAGACCATGGCTGAAAGACACTATGGCATCACGAATCAAATC-AA
* * ** * * *
47168399 TAAGACTATGACTGAAAGACGTTATGGCATCACGATTC-TATCGAG
1 TAAGACCATGGCTGAAAGACACTATGGCATCACGAATCAAATC-AA
* * ** *
47168444 GAAGACCATGACTGAAAGACGTTATGGCATCAC-AATTC-TATCAA
1 TAAGACCATGGCTGAAAGACACTATGGCATCACGAA-TCAAATCAA
* * *
47168488 GTAAGACCATAGCTGAAAGACGCTATGGCATCACGAATCAAATTAA
1 -TAAGACCATGGCTGAAAGACACTATGGCATCACGAATCAAATCAA
* * * * *
47168534 TAAGACCATGGTTGAAAGACACTATGACAACACGACGA-AAAATGAA
1 TAAGACCATGGCTGAAAGACACTATGGCATCACGA--ATCAAATCAA
* *
47168580 TAAGACCATGGTTGAAAGACACCATGGCA
1 TAAGACCATGGCTGAAAGACACTATGGCA
47168609 CACTCCAATC
Statistics
Matches: 292, Mismatches: 44, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
44 3 0.01
45 244 0.84
46 44 0.15
47 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.22
Consensus pattern (45 bp):
TAAGACCATGGCTGAAAGACACTATGGCATCACGAATCAAATCAA
Found at i:47171745 original size:21 final size:20
Alignment explanation
Indices: 47171716--47171774 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
47171706 ATTAGGTGGA
47171716 TTAGCTCTTACGAGCTTCTGT
1 TTAGCTCTT-CGAGCTTCTGT
* *
47171737 TTCGCTCTTGCGAGCTTTTGT
1 TTAGCTCTT-CGAGCTTCTGT
47171758 TTAGCT-TTCGAGCTTCT
1 TTAGCTCTTCGAGCTTCT
47171775 ATTGACATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
19 8 0.24
20 2 0.06
21 23 0.70
ACGTcount: A:0.10, C:0.24, G:0.20, T:0.46
Consensus pattern (20 bp):
TTAGCTCTTCGAGCTTCTGT
Found at i:47172327 original size:4 final size:4
Alignment explanation
Indices: 47172318--47172384 Score: 134
Period size: 4 Copynumber: 16.8 Consensus size: 4
47172308 ATGGGTGATA
47172318 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
47172366 TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TAT
47172385 TCGAATTGTA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 63 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:47175346 original size:25 final size:24
Alignment explanation
Indices: 47175318--47175383 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
47175308 TGTTACGGAA
*
47175318 GTTTGAATTTGTTTGGAATT-CTTTT
1 GTTT-AATTTGTTTGGAATTGC-TAT
*
47175343 GTTTAAGTTGTTGTGCG-ATTGCTAT
1 GTTTAATTTGTT-TG-GAATTGCTAT
47175368 GTTTAATTTGTTTGGA
1 GTTTAATTTGTTTGGA
47175384 TTATTATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
23 1 0.03
24 9 0.26
25 22 0.65
26 2 0.06
ACGTcount: A:0.17, C:0.05, G:0.24, T:0.55
Consensus pattern (24 bp):
GTTTAATTTGTTTGGAATTGCTAT
Found at i:47180205 original size:17 final size:18
Alignment explanation
Indices: 47180160--47180206 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
47180150 TTAAATGAAT
*
47180160 ATTTTTATTT-TTTATTA
1 ATTTTAATTTATTTATTA
47180177 ATTTTAAATTTATTTA-TA
1 ATTTT-AATTTATTTATTA
47180195 ATTTTAATTTAT
1 ATTTTAATTTAT
47180207 AATTATTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 12 0.44
18 11 0.41
19 4 0.15
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTAATTTATTTATTA
Found at i:47180386 original size:27 final size:26
Alignment explanation
Indices: 47180337--47180388 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
47180327 CAATTCATAA
** *
47180337 TTTAATTTTATAATGATTGACATATT
1 TTTAATTTTATAAAAATTCACATATT
47180363 TTTAATTGTTATAAAAATTCACATAT
1 TTTAATT-TTATAAAAATTCACATAT
47180389 GATTTATACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (26 bp):
TTTAATTTTATAAAAATTCACATATT
Found at i:47180542 original size:29 final size:30
Alignment explanation
Indices: 47180495--47180553 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
47180485 ACCCAATTAT
47180495 TATAAAAATATAAAGAAAATAT-TAGAAAA
1 TATAAAAATATAAAGAAAATATATAGAAAA
47180524 TATAAAAATATGAAA-AAAATATATAGAAAA
1 TATAAAAATAT-AAAGAAAATATATAGAAAA
47180554 ATATTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (30 bp):
TATAAAAATATAAAGAAAATATATAGAAAA
Done.