Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 142 of 333
Found at i:46537474 original size:27 final size:27
Alignment explanation
Indices: 46537442--46537507 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
46537432 ATACCCTTAG
* * *
46537442 GGTAAAATGATTGTATTACCTCTGTAA
1 GGTAAAATGACTATATTACCCCTGTAA
*
46537469 GGTAAAATGACTATTTTACCCCTGTAA
1 GGTAAAATGACTATATTACCCCTGTAA
46537496 GGTAAAATGACT
1 GGTAAAATGACT
46537508 GATTTGCCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (27 bp):
GGTAAAATGACTATATTACCCCTGTAA
Found at i:46537905 original size:34 final size:34
Alignment explanation
Indices: 46537867--46537953 Score: 129
Period size: 34 Copynumber: 2.6 Consensus size: 34
46537857 TATACTGATT
46537867 CTGAAATGGGCTCAGGCCCAGACTGCTACTGCTA
1 CTGAAATGGGCTCAGGCCCAGACTGCTACTGCTA
* * *
46537901 CTGAAATGGGCTCAGACCTAGACTGCTACTGTTA
1 CTGAAATGGGCTCAGGCCCAGACTGCTACTGCTA
* *
46537935 CTGAAATGGTCTAAGGCCC
1 CTGAAATGGGCTCAGGCCC
46537954 TAATTGAAAC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.23
Consensus pattern (34 bp):
CTGAAATGGGCTCAGGCCCAGACTGCTACTGCTA
Found at i:46544971 original size:25 final size:26
Alignment explanation
Indices: 46544889--46545011 Score: 149
Period size: 26 Copynumber: 4.7 Consensus size: 26
46544879 AACACGTTAG
* *
46544889 GAAAAAAAGCCTTTATGGCGTAATAT
1 GAAAGAAAGCCTTTGTGGCGTAATAT
* * *
46544915 GAAAGAAAGCTTTTTTGGCATAATAT
1 GAAAGAAAGCCTTTGTGGCGTAATAT
*
46544941 GAAAGAAAGCCTTTGT-GCTTAATAT
1 GAAAGAAAGCCTTTGTGGCGTAATAT
* *
46544966 GGAAGAAAGCCTTTGTGGCGAAATAT
1 GAAAGAAAGCCTTTGTGGCGTAATAT
*
46544992 GAAAGAAATTCCTTTGTGGC
1 GAAAGAAA-GCCTTTGTGGC
46545012 AAACTCTGTA
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
25 23 0.28
26 50 0.60
27 10 0.12
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (26 bp):
GAAAGAAAGCCTTTGTGGCGTAATAT
Found at i:46544972 original size:51 final size:51
Alignment explanation
Indices: 46544889--46545009 Score: 145
Period size: 51 Copynumber: 2.3 Consensus size: 51
46544879 AACACGTTAG
* * * *
46544889 GAAAAAAAGCCTTTATGGCGTAATATGAAAGAAAGCTTTTTTGGC-ATAATAT
1 GAAAGAAAGCCTTTGT-GCGTAATATGAAAGAAAGCCTTTGTGGCGA-AATAT
* *
46544941 GAAAGAAAGCCTTTGTGCTTAATATGGAAGAAAGCCTTTGTGGCGAAATAT
1 GAAAGAAAGCCTTTGTGCGTAATATGAAAGAAAGCCTTTGTGGCGAAATAT
*
46544992 GAAAGAAATTCCTTTGTG
1 GAAAGAAA-GCCTTTGTG
46545010 GCAAACTCTG
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
51 37 0.62
52 23 0.38
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (51 bp):
GAAAGAAAGCCTTTGTGCGTAATATGAAAGAAAGCCTTTGTGGCGAAATAT
Found at i:46546773 original size:68 final size:66
Alignment explanation
Indices: 46546701--46546872 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
46546691 CATCATGTGT
* * * *
46546701 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
46546764 TGTAG
62 TGTAG
** * *
46546769 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
46546834 AG
65 AG
* * * *
46546836 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
46546873 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:46546806 original size:64 final size:64
Alignment explanation
Indices: 46546725--46546908 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
46546715 AGACATTATG
* * *
46546725 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
46546789 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
46546854 AA
63 AA
* * *
46546856 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
46546909 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:46549431 original size:2 final size:2
Alignment explanation
Indices: 46549424--46549475 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
46549414 GAGCTTTTTG
46549424 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
46549466 CT CT CT CT CT
1 CT CT CT CT CT
46549476 TTTTGCTTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:46550732 original size:80 final size:80
Alignment explanation
Indices: 46550635--46550796 Score: 279
Period size: 80 Copynumber: 2.0 Consensus size: 80
46550625 CACGCCTTGT
* *
46550635 ATGTATGATTATATTGGAAACATTGCATGGTGGATCCATTGGATACAGTGGGCATGCCATGGGAT
1 ATGTATGATTATATTGGAAACATTGCATGGTGGATCAATTGGATACAGTGAGCATGCCATGGGAT
46550700 TTGTGAGTACCCACC
66 TTGTGAGTACCCACC
* *
46550715 ATGTATGATTATATTGGAAACATTGCATGGTGGATCAATTGGATATAGTTAGCATGCCATGGGAT
1 ATGTATGATTATATTGGAAACATTGCATGGTGGATCAATTGGATACAGTGAGCATGCCATGGGAT
*
46550780 TTGTGAGTACTCACC
66 TTGTGAGTACCCACC
46550795 AT
1 AT
46550797 TATTTGTGAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (80 bp):
ATGTATGATTATATTGGAAACATTGCATGGTGGATCAATTGGATACAGTGAGCATGCCATGGGAT
TTGTGAGTACCCACC
Found at i:46557295 original size:93 final size:93
Alignment explanation
Indices: 46557174--46557343 Score: 322
Period size: 93 Copynumber: 1.8 Consensus size: 93
46557164 GTTTCATATC
46557174 ATGGCCTAATGGTATAGTGGCCATAGGGACAATGTTACATTTTATTATCATTGATTTATTATCCT
1 ATGGCCTAATGGTATAGTGGCCATAGGGACAATGTTACATTTTATTATCATTGATTTATTATCCT
46557239 ACTAATACTACTCCTTACCATCCTTCAT
66 ACTAATACTACTCCTTACCATCCTTCAT
*
46557267 ATGGCCTAATGGTATAGTGGCCATAGGGACAATGTTACATTTTATTATCATTTATTTATTATCCT
1 ATGGCCTAATGGTATAGTGGCCATAGGGACAATGTTACATTTTATTATCATTGATTTATTATCCT
*
46557332 ACTCATACTACT
66 ACTAATACTACT
46557344 TACCATCTTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (93 bp):
ATGGCCTAATGGTATAGTGGCCATAGGGACAATGTTACATTTTATTATCATTGATTTATTATCCT
ACTAATACTACTCCTTACCATCCTTCAT
Found at i:46558039 original size:22 final size:22
Alignment explanation
Indices: 46558002--46558053 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
46557992 CATCAGTGTT
* *
46558002 ATCAATGGTAGTTTATCTGCAA
1 ATCAGTGGCAGTTTATCTGCAA
*
46558024 ATTAGTGGCAGTTTATCTGCAA
1 ATCAGTGGCAGTTTATCTGCAA
46558046 ATCAGTGG
1 ATCAGTGG
46558054 TGGCTTGTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (22 bp):
ATCAGTGGCAGTTTATCTGCAA
Found at i:46560671 original size:51 final size:49
Alignment explanation
Indices: 46560483--46560777 Score: 347
Period size: 49 Copynumber: 5.9 Consensus size: 49
46560473 TAGCCGAAGC
* * *
46560483 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
46560532 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * * *
46560582 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * * * *
46560633 TATCAGGCACGCATAGTAGCCTGCACTTAGTACTACACACGTTATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * * * *
46560684 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
46560733 TATCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGAC
46560778 TTCACAATAG
Statistics
Matches: 208, Mismatches: 34, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
49 83 0.40
50 46 0.22
51 78 0.38
52 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:46561441 original size:30 final size:30
Alignment explanation
Indices: 46561407--46561466 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
46561397 CTTTAATACG
46561407 AACTTTTGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTTGCAAAATTACAC-TTTTGCCCCTA
*
46561437 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTGCAAAATTACACTTTTGCCCCTA
46561467 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTTGCAAAATTACACTTTTGCCCCTA
Found at i:46564429 original size:26 final size:26
Alignment explanation
Indices: 46564338--46564429 Score: 114
Period size: 26 Copynumber: 3.5 Consensus size: 26
46564328 AACACGTTAG
*
46564338 GAAAGAAAGCATTTATGGCGTAATAT
1 GAAAGAAAGCCTTTATGGCGTAATAT
* *
46564364 GAAAGAAAGTCC-TTGTGGTGTAATAT
1 GAAAGAAAG-CCTTTATGGCGTAATAT
* *
46564390 GAAATAAAGCCTTTATAGCGTAATAT
1 GAAAGAAAGCCTTTATGGCGTAATAT
*
46564416 AAAAGAAAGCCTTT
1 GAAAGAAAGCCTTT
46564430 GTACGGATTC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
25 2 0.04
26 52 0.95
27 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (26 bp):
GAAAGAAAGCCTTTATGGCGTAATAT
Found at i:46570403 original size:15 final size:15
Alignment explanation
Indices: 46570385--46570426 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
46570375 TCCATAACGG
*
46570385 AGAAATCCAGAATAT
1 AGAAATCCAGAATAA
46570400 AGAAATCCA-ACATAA
1 AGAAATCCAGA-ATAA
46570415 AGAAATCCAGAA
1 AGAAATCCAGAA
46570427 GAAAACATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.57, C:0.17, G:0.12, T:0.14
Consensus pattern (15 bp):
AGAAATCCAGAATAA
Found at i:46574315 original size:40 final size:40
Alignment explanation
Indices: 46574247--46574485 Score: 249
Period size: 40 Copynumber: 6.3 Consensus size: 40
46574237 ATTCGGATTG
* *
46574247 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAATCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
46574286 ATATTCGGGCTAAGTCCC-AATGGCATTTGTGCGAGTTACT
1 ATAATCGGGCTAAGTCCCGAA-GGCAATTGTGCGAGTTACT
* *
46574326 ATAATCGGGCCAAGTCCCGAAGGCAATTGTGTGAGTTACT
1 ATAATCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
46574366 ATAA-C---C---G----G-AGGCAATTGTGCGAGTTACT
1 ATAATCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
46574394 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAATCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* * *
46574434 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAATCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CT
*
46574474 AT-ATCCGGCTAA
1 ATAATCGGGCTAA
46574486 ACCCTGAAGG
Statistics
Matches: 173, Mismatches: 11, Indels: 32
0.80 0.05 0.15
Matches are distributed among these distances:
28 23 0.13
29 2 0.01
32 1 0.01
33 1 0.01
35 1 0.01
36 1 0.01
39 26 0.15
40 116 0.67
41 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAATCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:46574389 original size:28 final size:28
Alignment explanation
Indices: 46574346--46574401 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
46574336 CAAGTCCCGA
*
46574346 AGGCAATTGTGTGAGTTACTATAACCGG
1 AGGCAATTGTGCGAGTTACTATAACCGG
46574374 AGGCAATTGTGCGAGTTACTATAACCGG
1 AGGCAATTGTGCGAGTTACTATAACCGG
46574402 GCTAAGTCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (28 bp):
AGGCAATTGTGCGAGTTACTATAACCGG
Found at i:46574421 original size:68 final size:68
Alignment explanation
Indices: 46574307--46574441 Score: 234
Period size: 68 Copynumber: 2.0 Consensus size: 68
46574297 AAGTCCCAAT
* * *
46574307 GGCATTTGTGCGAGTTACTATAATCGGGCCAAGTCCCGAAGGCAATTGTGTGAGTTACTATAACC
1 GGCAATTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACC
46574372 GGA
66 GGA
*
46574375 GGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACC
1 GGCAATTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACC
46574440 GG
66 GG
46574442 GCTAAGTCCC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (68 bp):
GGCAATTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACC
GGA
Found at i:46574476 original size:108 final size:108
Alignment explanation
Indices: 46574266--46574469 Score: 311
Period size: 108 Copynumber: 1.9 Consensus size: 108
46574256 CTAAGCCCGA
* ** * *
46574266 AGGCATTTGTGCGAGTTACTATATTCGGGCTAAGTCCCAATGGCATTTGTGCGAGTTACTATAAT
1 AGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCAATGGCAATTGTGCGAGTTACTATAAC
* *
46574331 CGGGCCAAGTCCCGAAGGCAATTGTGTGAGTTACTATAACCGG
66 CGGGCCAAGTCCCGAAGGCAATTGAGCGAGTTACTATAACCGG
46574374 AGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAA-GGCAATTGTGCGAGTTACTATAA
1 AGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCC-AATGGCAATTGTGCGAGTTACTATAA
* *
46574438 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
65 CCGGGCCAAGTCCCGAAGGCAATTGAGCGAGT
46574470 AGCTATATCC
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
108 84 0.98
109 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (108 bp):
AGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCAATGGCAATTGTGCGAGTTACTATAAC
CGGGCCAAGTCCCGAAGGCAATTGAGCGAGTTACTATAACCGG
Found at i:46578439 original size:30 final size:30
Alignment explanation
Indices: 46578398--46578454 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
46578388 AAAATCATAT
* * *
46578398 TTTGGCAAAATTATATTTTTTCCCCTATAC
1 TTTGGCAAAATTACACTTTTGCCCCTATAC
*
46578428 TTTGTCAAAATTACACTTTTGCCCCTA
1 TTTGGCAAAATTACACTTTTGCCCCTA
46578455 AGCTCGTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (30 bp):
TTTGGCAAAATTACACTTTTGCCCCTATAC
Found at i:46580391 original size:11 final size:13
Alignment explanation
Indices: 46580376--46580405 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
46580366 CTTTATTTTC
46580376 TTTTT-ATATATA
1 TTTTTAATATATA
46580388 TTTTTAATATATA
1 TTTTTAATATATA
46580401 TTTTT
1 TTTTT
46580406 TATCCAAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTTAATATATA
Found at i:46582111 original size:16 final size:16
Alignment explanation
Indices: 46582092--46582123 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
46582082 AGGACAATTA
46582092 ATCATAGAGTCAATGT
1 ATCATAGAGTCAATGT
46582108 ATCATAGAGTCAATGT
1 ATCATAGAGTCAATGT
46582124 TTTCATGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (16 bp):
ATCATAGAGTCAATGT
Found at i:46583184 original size:16 final size:16
Alignment explanation
Indices: 46583159--46583189 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46583149 TTGAATTACT
46583159 TATTACAGCTCTATTC
1 TATTACAGCTCTATTC
*
46583175 TATTATAGCTCTATT
1 TATTACAGCTCTATT
46583190 AAATTATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (16 bp):
TATTACAGCTCTATTC
Found at i:46584187 original size:21 final size:21
Alignment explanation
Indices: 46584163--46584214 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
46584153 AACCAGATGA
*
46584163 ATTTTAATTTGAATTGATTTT
1 ATTTTAATTTAAATTGATTTT
* * *
46584184 A-TTTAAGGTAAAATTGTTTTT
1 ATTTTAA-TTTAAATTGATTTT
46584205 ATTTTAATTT
1 ATTTTAATTT
46584215 CATTTTTTTA
Statistics
Matches: 23, Mismatches: 6, Indels: 4
0.70 0.18 0.12
Matches are distributed among these distances:
20 5 0.22
21 13 0.57
22 5 0.22
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.60
Consensus pattern (21 bp):
ATTTTAATTTAAATTGATTTT
Found at i:46596259 original size:27 final size:28
Alignment explanation
Indices: 46596175--46596272 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
46596165 CATGAGATTG
* * *
46596175 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
46596204 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
46596232 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
46596259 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
46596273 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:46596286 original size:29 final size:27
Alignment explanation
Indices: 46596203--46596287 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 27
46596193 TAAATTGTTC
* *
46596203 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
46596231 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
46596258 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
46596287 A
1 A
46596288 TTTTTGAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.45
28 22 0.43
29 6 0.12
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:46604254 original size:27 final size:28
Alignment explanation
Indices: 46604170--46604267 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
46604160 CATGAGATTG
* * *
46604170 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
46604199 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
46604227 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
46604254 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
46604268 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:46604281 original size:29 final size:27
Alignment explanation
Indices: 46604198--46604282 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 27
46604188 TAAATTGTTC
* *
46604198 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
46604226 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
46604253 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
46604282 A
1 A
46604283 TTTTTGAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.45
28 22 0.43
29 6 0.12
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:46607811 original size:765 final size:767
Alignment explanation
Indices: 46606334--46607856 Score: 2570
Period size: 765 Copynumber: 2.0 Consensus size: 767
46606324 GATATACATG
* *
46606334 CAATTCTTTGGTTACCCGAGTCTAGCCAAATGCATTATAAACTCATACTAGCCCACATTTTCCTC
1 CAATTCCTTGGTTACCCAAGTCTAGCCAAATGCATTATAAACTCATACTAGCCCACATTTTCCTC
* * * *
46606399 TACTTCACATTTCTACTACATATTTTGTGCCTTTTGCAAAAAAGTCCTTTTTAGGTGCTTTTCAT
66 TACTTCACATATCTACCACATATTTTGTACCTTTTGCAAAAAAGTCCTTTTTAGGGGCTTTTCAT
* *
46606464 GAAAATCACTTAGGAAAAGATGTTTAACACACATCTAACTTTCATATTCCCCCATAAAACATCAA
131 GAAAATCACTTAAGAAAAGATGTTTAACACACATCTAACTTTCAAATTCCCCCATAAAACATCAA
*
46606529 AGGACAAACATGTCACACATGGGTCACTTTGCATACATGAACCCTAGCTTAAAATATAGGTAGAA
196 AGAACAAACATGTCACACATGGGTCACTTTGCATACATGAACCCTAGCTTAAAATATAGGTAGAA
* * *
46606594 ATGGAGAGAACATGTTACAAGGATCTCAAAAATACAGAGAACATTAAAAACGGGGCTAGAAGTTA
261 ATGGAGAGAACATGTCACAAGGATCTAAAAAATACAAAGAACATTAAAAACGGGGCTAGAAGTTA
* *
46606659 CTTACTATTGAGCTTGAAAATGTTGAAAACCCTAGCTATAGAGGGCTTGAGAATTTCGGCTAGTA
326 CTTACTATTGAGCTTGAAAATGTTAAAAACCCTAGCTATAGAGGGCTTGAAAATTTCGGCTAGTA
*
46606724 CAAGGGAGAAGATGGCTGAGTTTTTCCTTCATTTTCCTTTTTTATTGATTTTATTACCAAATGAC
391 CAAGGGAGAAGATGGCTGAGTTTTTCCTTCATTTTCCCTTTTTATTGATTTTATTACCAAATGAC
* *
46606789 CACAATGCCCTTCCTTACTAAACTTCCAAAATTTTCCATGTATGCCCATTTTTGTCCAAAAACTT
456 CACAATGCCCCTCCTTACTAAACTTCCAAAATTTTCCATGCATGCCCATTTTTGTCCAAAAACTT
* *
46606854 AGAAATTGGGAAAATTGCTCTTTAAGACCTTCTAATTAATATCCTAAAGCAATTTCATGTAAATT
521 AGAAATTGGGAAAATTGCTCTTTAAGACCTTCTAATTAATATCCGAAAGCAATTTCATGCAAATT
* *
46606919 GCTTCTAGAATCCAAGTTTTACAATTTATTCAATTTGGTCCTTATTTTTCAATTGGACGCCTTAC
586 GCTTCTAGAATCCAAGTTTCACAATTTATTCAATTTGGTCCTTATTTTCCAATTGGACGCCTTAC
* * *
46606984 TCATATAATTTCTTCATGAAACTTTAACACATGCATATTTTCATATTCTAGTCCTCATAATAATC
651 TCATAGAATTTCTTCATGAAACTTTAACACATGCATATTTTCATATTCTAGGCATCATAATAATC
* *
46607049 AT-AAA-AAATATTTTAACGTCGGATTTTTGGTCCCGAAACCACTATTCCCA
716 ATAAAACAAATATTTCAACGTCGGATTTATGGTCCCGAAACCACTATTCCCA
* * *
46607099 CAATTCCTTGGTTACCTAAG-CTTAGCCGAATGCATTATAAACTCATACTAGCCCATATTTTCCT
1 CAATTCCTTGGTTACCCAAGTC-TAGCCAAATGCATTATAAACTCATACTAGCCCACATTTTCCT
* *
46607163 CTACTTCCCATATCTACCACATATTTTGTACCTTTTGCAAAAAGGTCCTTTTTAGGGGCTTTTCA
65 CTACTTCACATATCTACCACATATTTTGTACCTTTTGCAAAAAAGTCCTTTTTAGGGGCTTTTCA
*
46607228 TGAAAATCACTTAAGAAAAGATGTTTAATACACATCTAACTTTCAAATTCCCCCATAAAACATCA
130 TGAAAATCACTTAAGAAAAGATGTTTAACACACATCTAACTTTCAAATTCCCCCATAAAACATCA
46607293 AAGAACAAACATGTCACACATGGGTCACTTTGCATACATGAACCCTAGCTTAAAATATAGGTAGA
195 AAGAACAAACATGTCACACATGGGTCACTTTGCATACATGAACCCTAGCTTAAAATATAGGTAGA
*
46607358 AATGGAGAGAACATGTCACAAGGATCTAAAAAATACAAAGAACATTAAAAACGGGGCTAGGAGTT
260 AATGGAGAGAACATGTCACAAGGATCTAAAAAATACAAAGAACATTAAAAACGGGGCTAGAAGTT
* *
46607423 ACTTACTATTGAGCTTGAAAATGTTAAAAACCCTAGCTATGGAGGGCTTGAAAATTTCGGCTGGT
325 ACTTACTATTGAGCTTGAAAATGTTAAAAACCCTAGCTATAGAGGGCTTGAAAATTTCGGCTAGT
* *
46607488 ACAAGGGATAAGATGGCTGATTTTTTCCTTCATTTTCCCTTTTTATTGATTTTATTACCAAATGA
390 ACAAGGGAGAAGATGGCTGAGTTTTTCCTTCATTTTCCCTTTTTATTGATTTTATTACCAAATGA
*
46607553 CCA-AAGTGCCCCTCCTTACTAAACTTCCAAAATTTTCCATGCATGCTCATTTTTGTCCAAAAAC
455 CCACAA-TGCCCCTCCTTACTAAACTTCCAAAATTTTCCATGCATGCCCATTTTTGTCCAAAAAC
* * *
46607617 TTAGAAATTGTGCAAATTTCTCTTTAAGACCTTCTAATTAATAAT-CGAAAGCAATTTCATGCAA
519 TTAGAAATTGGGAAAATTGCTCTTTAAGACCTTCTAATTAAT-ATCCGAAAGCAATTTCATGCAA
* *
46607681 ATTTCTTCTAGAATCCAAGTTTCGCAATTTATTCAATTTGGTCCTTATTTTCCAATTGGACGCCT
583 ATTGCTTCTAGAATCCAAGTTTCACAATTTATTCAATTTGGTCCTTATTTTCCAATTGGACGCCT
*
46607746 TACTCATAGAATTTCTTCATGAAACTTTAGCACATGCATATTTTCATATTCTAGGCATCATAATA
648 TACTCATAGAATTTCTTCATGAAACTTTAACACATGCATATTTTCATATTCTAGGCATCATAATA
* *
46607811 ATCATAAAACAAATATTTCAACTTCGGATTTATGGTCCTGAAACCA
713 ATCATAAAACAAATATTTCAACGTCGGATTTATGGTCCCGAAACCA
46607857 GTGTTCCGAC
Statistics
Matches: 707, Mismatches: 46, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
764 3 0.00
765 667 0.94
766 5 0.01
767 32 0.05
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (767 bp):
CAATTCCTTGGTTACCCAAGTCTAGCCAAATGCATTATAAACTCATACTAGCCCACATTTTCCTC
TACTTCACATATCTACCACATATTTTGTACCTTTTGCAAAAAAGTCCTTTTTAGGGGCTTTTCAT
GAAAATCACTTAAGAAAAGATGTTTAACACACATCTAACTTTCAAATTCCCCCATAAAACATCAA
AGAACAAACATGTCACACATGGGTCACTTTGCATACATGAACCCTAGCTTAAAATATAGGTAGAA
ATGGAGAGAACATGTCACAAGGATCTAAAAAATACAAAGAACATTAAAAACGGGGCTAGAAGTTA
CTTACTATTGAGCTTGAAAATGTTAAAAACCCTAGCTATAGAGGGCTTGAAAATTTCGGCTAGTA
CAAGGGAGAAGATGGCTGAGTTTTTCCTTCATTTTCCCTTTTTATTGATTTTATTACCAAATGAC
CACAATGCCCCTCCTTACTAAACTTCCAAAATTTTCCATGCATGCCCATTTTTGTCCAAAAACTT
AGAAATTGGGAAAATTGCTCTTTAAGACCTTCTAATTAATATCCGAAAGCAATTTCATGCAAATT
GCTTCTAGAATCCAAGTTTCACAATTTATTCAATTTGGTCCTTATTTTCCAATTGGACGCCTTAC
TCATAGAATTTCTTCATGAAACTTTAACACATGCATATTTTCATATTCTAGGCATCATAATAATC
ATAAAACAAATATTTCAACGTCGGATTTATGGTCCCGAAACCACTATTCCCA
Found at i:46609436 original size:40 final size:39
Alignment explanation
Indices: 46609300--46609482 Score: 152
Period size: 40 Copynumber: 4.5 Consensus size: 39
46609290 CGATATCTCA
* * ** *
46609300 CACACTAAGTGCCAATACAAAGCCAAAGCTATTATAACCTTG
1 CACACTAAGTGCC-ATATATAGCCAAAGCTATCCTAA--TCG
* * * * * **
46609342 CACACTAAGTGCCTTACATAACCGAAGCTATCTTGGTCTCG
1 CACACTAAGTGCCATATATAGCCAAAGCTATCCT--AATCG
*
46609383 CACACTACA-TGCCATATATAGCCGAAGCTATTCCTAATCG
1 CACACTA-AGTGCCATATATAGCCAAAGCTA-TCCTAATCG
* *
46609423 CACACTAAGTGCCATATATAGCCAAAGCTATCTCAAATTG
1 CACACTAAGTGCCATATATAGCCAAAGCTATC-CTAATCG
46609463 CACACTAAGTGCCATATATA
1 CACACTAAGTGCCATATATA
46609483 TATCTGAATC
Statistics
Matches: 117, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
39 3 0.03
40 55 0.47
41 42 0.36
42 17 0.15
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.25
Consensus pattern (39 bp):
CACACTAAGTGCCATATATAGCCAAAGCTATCCTAATCG
Found at i:46618726 original size:56 final size:56
Alignment explanation
Indices: 46618539--46618731 Score: 280
Period size: 56 Copynumber: 3.4 Consensus size: 56
46618529 TCCCAGACAG
* * *
46618539 GGTCTTACTCGCACACATAAATC-AGAATCACATATCGATACCAACGTATTAAATGT
1 GGTCTTACTCACACACATAAATCGA-AATCACATATCGATGCCAACGTATTAAACGT
* *
46618595 GGTCTTACTCACACACATAAATCAAAATCACGTATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCACACACATAAATCGAAATCACATATCGATGCCAACGTATTAAACGT
* * *
46618651 GGTTTTACTTACACACATATATCGAAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCACACACATAAATCGAAATCACATATCGATGCCAACGTATTAAACGT
* *
46618707 GGTCTTACTCGCACACATATATCGA
1 GGTCTTACTCACACACATAAATCGA
46618732 TGCCATGGTC
Statistics
Matches: 124, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
56 123 0.99
57 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCACACACATAAATCGAAATCACATATCGATGCCAACGTATTAAACGT
Found at i:46634204 original size:39 final size:39
Alignment explanation
Indices: 46634156--46634336 Score: 199
Period size: 39 Copynumber: 4.6 Consensus size: 39
46634146 TACTCGTTCA
*
46634156 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
*
46634195 AATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA-C
*
46634235 AATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCAC
* * * * *
46634273 AAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCAC
*
46634314 AAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
46634337 ACATCATTCG
Statistics
Matches: 121, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
38 3 0.02
39 63 0.52
40 46 0.38
41 9 0.07
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
Found at i:46634278 original size:79 final size:80
Alignment explanation
Indices: 46634156--46634337 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
46634146 TACTCGTTCA
* *
46634156 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTC-GGATCTTAACCCGGA
* *
46634219 TTTAGTAAC-TCGCACC
65 TATAGTAACTTAGCA-C
**
46634235 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCAC-AATGCCTTCGGATCTTAACCCGGA
* *
46634298 TATGGTCACTTAGCAC
65 TATAGTAACTTAGCAC
*
46634314 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
46634338 CATCATTCGA
Statistics
Matches: 89, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 25 0.28
79 49 0.55
80 15 0.17
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:46641873 original size:40 final size:40
Alignment explanation
Indices: 46641836--46642019 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 40
46641826 GCTACTCGTT
* *
46641836 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
* *
46641876 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCACA
* *
46641916 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCACA
* * * * *
46641955 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAACTCA-CA
*
46641996 CAAA-GCCTTCAGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
46642020 ACATCATTCG
Statistics
Matches: 121, Mismatches: 15, Indels: 16
0.80 0.10 0.11
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 76 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
Found at i:46642004 original size:79 final size:80
Alignment explanation
Indices: 46641836--46642020 Score: 189
Period size: 79 Copynumber: 2.3 Consensus size: 80
46641826 GCTACTCGTT
* * * *
46641836 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGG-CTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCG
*
46641900 GATTTAGTAACTCACAC
64 GATATAGTAACTCACAC
* **
46641917 CAATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGG
* * *
46641980 ATATGGTCACTTAGCA-
65 ATATAGTAACTCA-CAC
*
46641996 CAAAGCCTTCAGGACTTAGCCCGGA
1 CAAAGCCTTC-GGGCTTAGCCCGGA
46642021 CATCATTCGA
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 56 0.64
80 25 0.29
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTCACAC
Found at i:46645090 original size:21 final size:21
Alignment explanation
Indices: 46645061--46645130 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
46645051 CTTATACATC
46645061 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
* * *
46645082 ATGAGCTCAGATGTCACATATATC-
1 ATGAACTCAGA--CCACA-A-CTCA
46645106 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
46645127 ATGA
1 ATGA
46645131 GTTCAGATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
20 2 0.05
21 15 0.39
22 4 0.11
23 4 0.11
24 11 0.29
25 2 0.05
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (21 bp):
ATGAACTCAGACCACAACTCA
Found at i:46652534 original size:43 final size:41
Alignment explanation
Indices: 46652478--46652641 Score: 136
Period size: 43 Copynumber: 3.9 Consensus size: 41
46652468 AGCTCATACA
* ** *
46652478 ATGCCATATCCCAGGTATGGTCTTACATGTTATC-ATATATCG
1 ATGCCATGTCCCAGACATGGTCTTACATGTAATCAATA-AT-G
* * *
46652520 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCGAATAATG
1 ATGCCA-TGTCCCAGACATGGTCTTACATGTAATC-AATAATG
46652563 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATACA--
1 ATGCC-ATGTCCCAGACATGGTCTTACATGTAAT--CAATA-ATG
** *
46652606 ATGCCAATGTCCTGGACATGGTCTTACGTGTAATCA
1 ATGCC-ATGTCCCAGACATGGTCTTACATGTAATCA
46652642 CATCTCGGTA
Statistics
Matches: 102, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
41 2 0.02
42 6 0.06
43 82 0.80
44 7 0.07
45 5 0.05
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (41 bp):
ATGCCATGTCCCAGACATGGTCTTACATGTAATCAATAATG
Found at i:46658720 original size:18 final size:17
Alignment explanation
Indices: 46658690--46658731 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
46658680 TTACATTTCT
*
46658690 CACATGAAAATCCATTAA
1 CACAT-AAAATCCATCAA
46658708 CACATAAACATCCATCAA
1 CACATAAA-ATCCATCAA
46658726 -ACATAA
1 CACATAA
46658732 TCTCATTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.52, C:0.26, G:0.02, T:0.19
Consensus pattern (17 bp):
CACATAAAATCCATCAA
Found at i:46660218 original size:43 final size:43
Alignment explanation
Indices: 46660152--46660324 Score: 167
Period size: 43 Copynumber: 4.0 Consensus size: 43
46660142 AGCTCATACA
* * * *
46660152 ATGCCA-TATCCCAAATATGGTCTTTCATGTTATCACATATCG
1 ATGCCACTATCCCAGACATGGTCTTACATGTAATCACATATCG
* *
46660194 ATGCCACTATCCCAGACA-GAGTCTTACACT-AAATCGA-ATAACG
1 ATGCCACTATCCCAGACATG-GTCTTACA-TGTAATC-ACATATCG
* * ** *
46660237 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACA-ATCCA
1 ATGCCACTATCCCAGACATGGTCTTACATGTAATCACATAT-CG
*
46660280 ATGCCACTATCCCAGACATGGTCTTGCATGTAATCACATATCG
1 ATGCCACTATCCCAGACATGGTCTTACATGTAATCACATATCG
46660323 AT
1 AT
46660325 AACCTAATGT
Statistics
Matches: 104, Mismatches: 18, Indels: 17
0.75 0.13 0.12
Matches are distributed among these distances:
42 9 0.09
43 90 0.87
44 5 0.05
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.27
Consensus pattern (43 bp):
ATGCCACTATCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:46664823 original size:10 final size:10
Alignment explanation
Indices: 46664808--46664847 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
46664798 TCGTCCCACC
46664808 CTCTCATTTT
1 CTCTCATTTT
46664818 CTCTCATTTT
1 CTCTCATTTT
46664828 CT-TCAATTTTT
1 CTCTC-A-TTTT
46664839 CTCTCATTT
1 CTCTCATTT
46664848 CTTCCTCACT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 2 0.07
10 16 0.59
11 7 0.26
12 2 0.07
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (10 bp):
CTCTCATTTT
Found at i:46666672 original size:48 final size:46
Alignment explanation
Indices: 46666620--46666730 Score: 132
Period size: 47 Copynumber: 2.3 Consensus size: 46
46666610 TCTAAATTTT
* * *
46666620 AGACACAATTATGATATTTGAAGACATATTAAAATGCTGCACTAAATA
1 AGACACAATTAT-AAACTT-AAGACACATTAAAATGCTGCACTAAATA
* * *
46666668 AGACACAATTAATAAACTTAAGACACATTAAAATTCTGTATTAAATA
1 AGACACAATT-ATAAACTTAAGACACATTAAAATGCTGCACTAAATA
46666715 AGACACAATTAATAAA
1 AGACACAATT-ATAAA
46666731 ACTAAATCAA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
47 40 0.71
48 14 0.25
49 2 0.04
ACGTcount: A:0.50, C:0.13, G:0.09, T:0.28
Consensus pattern (46 bp):
AGACACAATTATAAACTTAAGACACATTAAAATGCTGCACTAAATA
Found at i:46666698 original size:47 final size:47
Alignment explanation
Indices: 46666640--46666730 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 47
46666630 ATGATATTTG
*
46666640 AAGACATATTAAAATGCTGCACTAAATAAGACACAATTAATAAACTT
1 AAGACACATTAAAATGCTGCACTAAATAAGACACAATTAATAAACTT
* * *
46666687 AAGACACATTAAAATTCTGTATTAAATAAGACACAATTAATAAA
1 AAGACACATTAAAATGCTGCACTAAATAAGACACAATTAATAAA
46666731 ACTAAATCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.26
Consensus pattern (47 bp):
AAGACACATTAAAATGCTGCACTAAATAAGACACAATTAATAAACTT
Found at i:46669790 original size:13 final size:13
Alignment explanation
Indices: 46669767--46669806 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
46669757 AACTCGTTCA
46669767 TTTTCACCTCAAT
1 TTTTCACCTCAAT
46669780 TTTTC-CTCTC-A-
1 TTTTCAC-CTCAAT
46669791 TTTTCACCTCAAT
1 TTTTCACCTCAAT
46669804 TTT
1 TTT
46669807 CCCTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
11 8 0.35
12 4 0.17
13 11 0.48
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTTCACCTCAAT
Found at i:46677803 original size:41 final size:41
Alignment explanation
Indices: 46677739--46677861 Score: 201
Period size: 41 Copynumber: 3.0 Consensus size: 41
46677729 TAAAAGCCAC
* *
46677739 CGGTGGATCCACGGTCATTAAGCAACCATGCGATCCTTAAT
1 CGGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAAT
* *
46677780 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATTCTCAAT
1 CGGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAAT
*
46677821 CTGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAAT
46677862 TTCTTCCTCT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (41 bp):
CGGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAAT
Found at i:46678184 original size:54 final size:53
Alignment explanation
Indices: 46678099--46678431 Score: 283
Period size: 54 Copynumber: 6.2 Consensus size: 53
46678089 TTTCACCCTA
* * *
46678099 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGCAAAC
1 CAAGGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTCAGTAATTTTGCAAAC
* * * * * * *
46678153 CAAGGGTATTTTTGTAATTTTCCAAATCAAGGATATTTTAATAATTTTCCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTCAGTAATTTTGCAAAC
* * * * * ***
46678207 CATGAGTATTTTGGTAATTTTACGAAACGATGGTATTTC-GATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTAC-AAACAAGGGTATTTCAG-TAATTTTGCAAAC
** * * * ** *
46678261 CAAGGGTATTTCAGTAATTTTATAAATTAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTCAGTAATTTTGCAAAC
* * * *
46678315 CAAGGGTATTTTGGTAATTTTACAAACCAGGGTATTTTAGTAATTTTGCTAAT
1 CAAGGGTATTTTGGTAATTTTACAAACAAGGGTATTTCAGTAATTTTGCAAAC
* ** *
46678368 CGAGGGTATTTTGGTAATTTTGTAAACTAAGGGTA-TTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC-AAGGGTATTTCAGTAATTTTGCAAAC
*
46678421 CAAAGGTATTT
1 CAAGGGTATTT
46678432 CAGTAATTCT
Statistics
Matches: 218, Mismatches: 56, Indels: 11
0.76 0.20 0.04
Matches are distributed among these distances:
53 70 0.32
54 144 0.66
55 4 0.02
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (53 bp):
CAAGGGTATTTTGGTAATTTTACAAACAAGGGTATTTCAGTAATTTTGCAAAC
Found at i:46678242 original size:81 final size:80
Alignment explanation
Indices: 46678099--46678439 Score: 287
Period size: 81 Copynumber: 4.2 Consensus size: 80
46678089 TTTCACCCTA
* * * * * ** *
46678099 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGCAAACCAAGGGTATTT
1 CAAGGGTATTTTAGTAATTTTACAAATC-AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
* *
46678164 TTGTAATTTTCCAAAT
65 TCGTAATTTTACAAAT
* * * * * *
46678180 CAAGGATATTTTAATAATTTTCCAAATCATGAGTATTTTGGTAATTTTACGAAA-CGATGGTA-T
1 CAAGGGTATTTTAGTAATTTTACAAATCA-GGGTATTTTGGTAATTTTAC-AAACCAAGGGTATT
**
46678243 TTCGATAATTTTACAGGT
64 TTCG-TAATTTTACAAAT
* * *
46678261 CAAGGGTATTTCAGTAATTTTATAAATTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTAGTAATTTTACAAATCA-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
*
46678326 TGGTAATTTTACAAA-
65 TCGTAATTTTACAAAT
* * * ** *
46678341 CCAGGGTATTTTAGTAATTTTGCTAATCGAGGGTATTTTGGTAATTTTGTAAACTAAGGGTA--T
1 CAAGGGTATTTTAGTAATTTTACAAATC-AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
** *
46678404 TCAGTAATTTTGTAAAC
65 TC-GTAATTTTACAAAT
* *
46678421 CAAAGGTATTTCAGTAATT
1 CAAGGGTATTTTAGTAATT
46678440 CTACCCTACA
Statistics
Matches: 206, Mismatches: 46, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
78 2 0.01
79 11 0.05
80 75 0.36
81 111 0.54
82 7 0.03
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (80 bp):
CAAGGGTATTTTAGTAATTTTACAAATCAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
CGTAATTTTACAAAT
Found at i:46678378 original size:27 final size:27
Alignment explanation
Indices: 46678099--46678439 Score: 251
Period size: 27 Copynumber: 12.7 Consensus size: 27
46678089 TTTCACCCTA
* * * * *
46678099 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAT
* * *
46678126 CAAGGGTATTTCAGTAATTTTGCAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAT
* *
46678153 CAAGGGTATTTTTGTAATTTTCCAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
* * *
46678180 CAAGGATATTTTAATAATTTTCCAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
* * *
46678207 CATGAGTATTTTGGTAATTTTACGAAA-
1 CAAGGGTATTTTAGTAATTTTAC-AAAT
* * * **
46678234 CGATGGTA-TTTCGATAATTTTACAGGT
1 CAAGGGTATTTTAG-TAATTTTACAAAT
* *
46678261 CAAGGGTATTTCAGTAATTTTATAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
* * * *
46678288 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAT
*
46678315 CAAGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTAGTAATTTTACAAAT
* * *
46678341 CCAGGGTATTTTAGTAATTTTGCTAAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
* * **
46678368 CGAGGGTATTTTGGTAATTTTGTAAA-
1 CAAGGGTATTTTAGTAATTTTACAAAT
* ** *
46678394 CTAAGGGTA-TTCAGTAATTTTGTAAAC
1 C-AAGGGTATTTTAGTAATTTTACAAAT
* *
46678421 CAAAGGTATTTCAGTAATT
1 CAAGGGTATTTTAGTAATT
46678440 CTACCCTACA
Statistics
Matches: 253, Mismatches: 53, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
26 49 0.19
27 198 0.78
28 6 0.02
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAT
Found at i:46678502 original size:27 final size:27
Alignment explanation
Indices: 46678425--46678504 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 27
46678415 GTAAACCAAA
*
46678425 GGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTATAGG
* *
46678452 GGCATTTCAATAATTCTACCCTATAGG
1 GGTATTTCAGTAATTCTACCCTATAGG
* *
46678479 GGTATTTCAGTAATCCTAGCCTATAG
1 GGTATTTCAGTAATTCTACCCTATAG
46678505 ATATGAGATT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (27 bp):
GGTATTTCAGTAATTCTACCCTATAGG
Found at i:46681788 original size:16 final size:16
Alignment explanation
Indices: 46681767--46681819 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
46681757 ATGAATCGCT
*
46681767 ATTATCAATCCACATG
1 ATTATCAATCCATATG
46681783 ATTATCAATCCATATG
1 ATTATCAATCCATATG
46681799 ATTATCAATCCATATG
1 ATTATCAATCCATATG
46681815 ATTAT
1 ATTAT
46681820 ATTTAAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (16 bp):
ATTATCAATCCATATG
Found at i:46688002 original size:39 final size:40
Alignment explanation
Indices: 46687881--46688103 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
46687871 GCTCCTCGTT
* *
46687881 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
46687921 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
46687961 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
46688000 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
46688039 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
46688080 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46688104 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 88 0.54
40 63 0.38
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:46688087 original size:78 final size:79
Alignment explanation
Indices: 46687881--46688103 Score: 244
Period size: 79 Copynumber: 2.8 Consensus size: 79
46687871 GCTCCTCGTT
* * * *
46687881 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTAGCACAAATGCCTTCGGGACTTAGCCC
* *
46687944 AGATTTAGTAACTCGCA
63 GGAATTAGTAACTCGCA
*
46687961 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCACAAATGCCTTCGGGACTTAGCCCGGA
*
46688025 ATTAGTATCTCGCA
66 ATTAGTAACTCGCA
* *
46688039 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCAC-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TAGCACAAATGCCTTCGGGACTTAGCC
46688100 CGGA
62 CGGA
46688104 CATCATTCAA
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 45 0.35
79 58 0.46
80 24 0.19
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:46695948 original size:39 final size:39
Alignment explanation
Indices: 46695831--46696092 Score: 320
Period size: 39 Copynumber: 6.6 Consensus size: 39
46695821 GCTCCTCGTT
* *
46695831 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
46695871 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
46695911 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
46695950 CAAATGCCTTCGGGCTTAGCCCGGAATTATTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
46695989 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
46696028 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
46696069 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
46696093 CATCATTCAA
Statistics
Matches: 202, Mismatches: 13, Indels: 15
0.88 0.06 0.07
Matches are distributed among these distances:
39 130 0.64
40 61 0.30
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:46698305 original size:6 final size:6
Alignment explanation
Indices: 46698293--46698442 Score: 76
Period size: 6 Copynumber: 24.3 Consensus size: 6
46698283 AAGAAATATT
* * *
46698293 ATCAGA ATTAGA ATCAGA ATCAGA ATCAGA ATTA-A GTGACAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * * *
46698342 ATCAGA ATTA-A TATCAGGTA A-CCGA ATCAAA ATCAGA ATCAGT GTCAGGTA
1 ATCAGA ATCAGA -ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* * * *
46698393 A-CAGA ATCAAA ATTAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
46698441 AT
1 AT
46698443 GTGAATACAA
Statistics
Matches: 106, Mismatches: 24, Indels: 28
0.67 0.15 0.18
Matches are distributed among these distances:
5 9 0.08
6 84 0.79
7 8 0.08
8 4 0.04
9 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:46698338 original size:31 final size:31
Alignment explanation
Indices: 46698302--46698442 Score: 167
Period size: 31 Copynumber: 4.5 Consensus size: 31
46698292 TATCAGAATT
* * * *
46698302 AGAATCAGAATCAGAATCAGAATTAAGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
* *
46698333 AGAATCAGAATCAGAATTA-ATATCAGGTAAC
1 AGAATCAAAATCAGAATCAGA-ATCAGGTAAC
* **
46698364 CGAATCAAAATCAGAATCAGTGTCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
* *
46698395 AGAATCAAAATTAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
46698426 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
46698443 GTGAATACAA
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
30 1 0.01
31 94 0.99
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATCAGGTAAC
Found at i:46698640 original size:27 final size:26
Alignment explanation
Indices: 46698562--46698642 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 26
46698552 AGCATGGCTG
*
46698562 CCAGAACAGATATTGTGGCAGAGCCA
1 CCAGAACAGATATTGTGGCAAAGCCA
* *
46698588 CCAGAACAAATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAAAGCCA
* *
46698615 CCAGAATCAGATAATGTAGCAAAGCCA
1 CCAGAA-CAGATATTGTGGCAAAGCCA
46698642 C
1 C
46698643 TTAACAGAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 11 0.23
27 31 0.66
28 5 0.11
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAAAGCCA
Found at i:46698833 original size:22 final size:22
Alignment explanation
Indices: 46698801--46698860 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
46698791 TAAATACGTT
*
46698801 TGGCACGAAGCCATAGTCAAGA
1 TGGCACAAAGCCATAGTCAAGA
* * * *
46698823 TGGCACAAAGCCATATTTAGGT
1 TGGCACAAAGCCATAGTCAAGA
*
46698845 TGGCACAGAGCCATAG
1 TGGCACAAAGCCATAG
46698861 ATAACGGGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.18
Consensus pattern (22 bp):
TGGCACAAAGCCATAGTCAAGA
Found at i:46699245 original size:27 final size:27
Alignment explanation
Indices: 46699207--46699616 Score: 518
Period size: 27 Copynumber: 15.3 Consensus size: 27
46699197 GGGCAAAAAG
* * * * *
46699207 GGTAATTTTACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
46699234 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
46699261 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
46699288 GGTAATTCTATCCTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
46699314 AGTAATTCTA-CCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
46699340 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
46699367 GGTATTTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
46699394 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
46699421 GGTATTTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
46699448 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
46699475 AGTAATTTTACCCTACAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** **
46699502 AATAATTCTACATTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
46699529 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
46699556 GGTAATTTTACTCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
46699583 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
46699610 GGTAATT
1 GGTAATT
46699617 TTATAAATTG
Statistics
Matches: 331, Mismatches: 50, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
25 5 0.02
26 34 0.10
27 292 0.88
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:46699630 original size:27 final size:26
Alignment explanation
Indices: 46699600--46699830 Score: 164
Period size: 27 Copynumber: 8.7 Consensus size: 26
46699590 CTACCCTACA
*
46699600 AGGGTATTTCGGTAATTTTATAAATTG
1 AGGGTATTTCGGTAATTTTA-AAATCG
* * *
46699627 AGGGTATTTCAGTAATTTTACAATCA
1 AGGGTATTTCGGTAATTTTAAAATCG
* *
46699653 ACGGTATTTCGTTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTA-AAATCG
* * *
46699680 AGGATATTTGGGTAATTTTATAAACCG
1 AGGGTATTTCGGTAATTTTA-AAATCG
* *
46699707 GGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCGGTAATTTTA-AAATCG
** *
46699734 AGGGTATTTTAGTAATTTTACAATCG
1 AGGGTATTTCGGTAATTTTAAAATCG
* ** *
46699760 ACGACATTTCGGTAATTTTATAAACCG
1 AGGGTATTTCGGTAATTTTA-AAATCG
*
46699787 -GGTGTACTTT-GGTAATTTTACAA-CTG
1 AGG-GTA-TTTCGGTAATTTTAAAATC-G
* *
46699813 GGGGTATTTCAGTAATTT
1 AGGGTATTTCGGTAATTT
46699831 GGTAAACTAA
Statistics
Matches: 159, Mismatches: 36, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
25 4 0.03
26 56 0.35
27 93 0.58
28 6 0.04
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (26 bp):
AGGGTATTTCGGTAATTTTAAAATCG
Found at i:46699631 original size:54 final size:53
Alignment explanation
Indices: 46699208--46699673 Score: 355
Period size: 54 Copynumber: 8.7 Consensus size: 53
46699198 GGCAAAAAGG
* * * * * * *
46699208 GTAATTTTACCCCATAAGGGTATCTCAGTAATTCTACCCTACAG-GGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTTTA--CTACAGAGGGTATTTCA
* *
46699262 GTATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTAC--AGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATT-T-TACTACAGAGGGTATTTCA
* * * *
46699315 GTAATTCTA-CCTATAGGGGTATTTCGAT-ATTTCTACCCTACA-AGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTT-TA--CTACAGAGGGTATTTCA
* * * ** * *
46699368 GTATTTCTATCCTACAGGGGTATTTCAATAATTCTACCCTACAG-GGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTTTA--CTACAGAGGGTATTTCA
* * * *
46699422 GTATTTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAG-GGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTTTA--CTACAGAGGGTATTTCA
* ** * *
46699476 GTAATTTTACCCTAC-AGGGATATTTCAATAATTCTACATTACAG-GGGTATTTCG
1 GTAATTCTACCCTACAAGGG-TATTTCGGTAATTTTAC--TACAGAGGGTATTTCA
*
46699530 GTAATTCTACCCTACAGGGGTATTTCGGTAATTTTACTCTACA-AGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTTTA--CTACAGAGGGTATTTCA
*
46699584 GTAATTCTACCCTACAAGGGTATTTCGGTAATTTTA-TAAATTGAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTTTACTACA--GAGGGTATTTCA
* ** * *
46699638 GTAATTTTACAAT-CAACGGTATTTCGTTAATTTTAC
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTTTAC
46699674 AAATCGAGGA
Statistics
Matches: 347, Mismatches: 45, Indels: 40
0.80 0.10 0.09
Matches are distributed among these distances:
50 2 0.01
51 6 0.02
52 21 0.06
53 58 0.17
54 252 0.73
55 6 0.02
56 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (53 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTTTACTACAGAGGGTATTTCA
Found at i:46699668 original size:26 final size:26
Alignment explanation
Indices: 46699223--46699757 Score: 171
Period size: 27 Copynumber: 19.9 Consensus size: 26
46699213 TTTACCCCAT
* * **
46699223 AAGGGTATCTCAGTAATTCTACCCTAC
1 AAGGGTATTTC-GTAATTTTACAATAC
* **
46699250 AGGGGTATTTCGGT-ATTTCTACCCTAC
1 AAGGGTATTTC-GTAATTT-TACAATAC
* *
46699277 AAGGGTATTTCGGTAATTCTATC-CTAC
1 AAGGGTATTTC-GTAATTTTA-CAATAC
* * *
46699304 -AGGGTATTTCAGTAATTCTAC-CTAT
1 AAGGGTATTTC-GTAATTTTACAATAC
* **
46699329 AGGGGTATTTCG-ATATTTCTACCCTAC
1 AAGGGTATTTCGTA-ATTT-TACAATAC
*
46699356 AAGGGTATTTCGGT-ATTTCTATC-CTAC
1 AAGGGTATTTC-GTAATTT-TA-CAATAC
* * * **
46699383 AGGGGTATTTCAATAATTCTACCCTAC
1 AAGGGTATTTC-GTAATTTTACAATAC
* **
46699410 AGGGGTATTTCGGT-ATTTCTACCCTAC
1 AAGGGTATTTC-GTAATTT-TACAATAC
* * * **
46699437 AGGGGTATTTTGGTAATTCTACCCTAC
1 AAGGGTA-TTTCGTAATTTTACAATAC
* **
46699464 AGGGGTATTTCAGTAATTTTACCCTAC
1 AAGGGTATTTC-GTAATTTTACAATAC
* * *
46699491 -AGGGATATTTCAATAATTCTACATTAC
1 AAGGG-TATTTC-GTAATTTTACAATAC
* * **
46699518 AGGGGTATTTCGGTAATTCTACCCTAC
1 AAGGGTATTTC-GTAATTTTACAATAC
* **
46699545 AGGGGTATTTCGGTAATTTTACTCTAC
1 AAGGGTATTTC-GTAATTTTACAATAC
* **
46699572 AAGGGTATTTCAGTAATTCTACCCTAC
1 AAGGGTATTTC-GTAATTTTACAATAC
* *
46699599 AAGGGTATTTCGGTAATTTTATAA-ATT
1 AAGGGTATTTC-GTAATTTTACAATA-C
*
46699626 GAGGGTATTTCAGTAATTTTACAAT-C
1 AAGGGTATTTC-GTAATTTTACAATAC
*
46699652 AACGGTATTTCGTTAATTTTACAA-ATC
1 AAGGGTATTTCG-TAATTTTACAATA-C
* * * *
46699679 GAGGATATTTGGGTAATTTTATAA-ACC
1 AAGGGTATTT-CGTAATTTTACAATA-C
** *
46699706 GGGGGTACTTTGGTAATTTTACAAGT-C
1 AAGGGTA-TTTCGTAATTTTACAA-TAC
* *
46699733 GAGGGTATTTTAGTAATTTTACAAT
1 AAGGGTA-TTTCGTAATTTTACAAT
46699758 CGACGACATT
Statistics
Matches: 418, Mismatches: 63, Indels: 55
0.78 0.12 0.10
Matches are distributed among these distances:
24 1 0.00
25 9 0.02
26 66 0.16
27 320 0.77
28 22 0.05
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (26 bp):
AAGGGTATTTCGTAATTTTACAATAC
Found at i:46699697 original size:80 final size:80
Alignment explanation
Indices: 46699604--46699809 Score: 249
Period size: 80 Copynumber: 2.6 Consensus size: 80
46699594 CCTACAAGGG
** *
46699604 TATTTCGGTAATTTTATAAATTGAGGGTA-TTTCAGTAATTTTACAA-TCAACGGTA-TTTCGTT
1 TATTTCGGTAATTTTATAAACCGAGGGTACTTT-AGTAATTTTACAAGTCAACGGTATTTTAG-T
*
46699666 AATTTTACAAATCGAGGA
64 AATTTTAC-AATCGACGA
* * * * *
46699684 TATTTGGGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAA
1 TATTTCGGTAATTTTATAAACCGAGGGTACTTTAGTAATTTTACAAGTCAACGGTATTTTAGTAA
46699749 TTTTACAATCGACGA
66 TTTTACAATCGACGA
* *
46699764 CATTTCGGTAATTTTATAAACCG-GGTGTACTTTGGTAATTTTACAA
1 TATTTCGGTAATTTTATAAACCGAGG-GTACTTTAGTAATTTTACAA
46699810 CTGGGGGTAT
Statistics
Matches: 111, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
79 2 0.02
80 86 0.77
81 19 0.17
82 4 0.04
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (80 bp):
TATTTCGGTAATTTTATAAACCGAGGGTACTTTAGTAATTTTACAAGTCAACGGTATTTTAGTAA
TTTTACAATCGACGA
Found at i:46699768 original size:26 final size:27
Alignment explanation
Indices: 46699718--46699779 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
46699708 GGGTACTTTG
* ** *
46699718 GTAATTTTACAAGTCGAGGGTATTTTA
1 GTAATTTTACAAGTCGACGACATTTCA
*
46699745 GTAATTTTACAA-TCGACGACATTTCG
1 GTAATTTTACAAGTCGACGACATTTCA
46699771 GTAATTTTA
1 GTAATTTTA
46699780 TAAACCGGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 18 0.60
27 12 0.40
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAGTCGACGACATTTCA
Found at i:46699822 original size:53 final size:53
Alignment explanation
Indices: 46699547--46699830 Score: 218
Period size: 53 Copynumber: 5.3 Consensus size: 53
46699537 TACCCTACAG
** * * ** *
46699547 GGGTATTTCGGTAATTTTAC-TCTACAAGGGTATTTCAGTAATTCTACCCTACAA
1 GGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTCAGTAATTTTACAAT-CGA
* * *
46699601 GGGTATTTCGGTAATTTTATAAATTGAGGGTATTTCAGTAATTTTACAATCAA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGA
* * * ** * * *
46699654 CGGTATTTCGTTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAACCGG
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTA-CAATCGA
* *
46699708 GGGTACTTT-GGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAATCGA
1 GGGTA-TTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGA
* ** * * * *
46699761 CGACATTTCGGTAATTTTATAAACCG-GGTGTACTTT-GGTAATTTTACAA-CTGG
1 GGGTATTTCGGTAATTTTACAAATCGAGG-GTA-TTTCAGTAATTTTACAATC-GA
*
46699814 GGGTATTTCAGTAATTT
1 GGGTATTTCGGTAATTT
46699831 GGTAAACTAA
Statistics
Matches: 183, Mismatches: 40, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
52 6 0.03
53 91 0.50
54 82 0.45
55 4 0.02
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (53 bp):
GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGA
Found at i:46700824 original size:31 final size:31
Alignment explanation
Indices: 46700786--46700854 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
46700776 ACCAAATTTT
46700786 GTCTAAACAAGAAATTGAAATAATGTTCATA
1 GTCTAAACAAGAAATTGAAATAATGTTCATA
*
46700817 GTCTAAACAAGAAATTGAAATAATGTTCTTA
1 GTCTAAACAAGAAATTGAAATAATGTTCATA
46700848 GTC-AAAC
1 GTCTAAAC
46700855 TGGGCACAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 4 0.11
31 33 0.89
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (31 bp):
GTCTAAACAAGAAATTGAAATAATGTTCATA
Found at i:46709478 original size:13 final size:13
Alignment explanation
Indices: 46709460--46709485 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46709450 GATTATCAGC
46709460 TACTTGATTTTCA
1 TACTTGATTTTCA
46709473 TACTTGATTTTCA
1 TACTTGATTTTCA
46709486 ACTCCCCTTA
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:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (13 bp):
TACTTGATTTTCA
Found at i:46719767 original size:22 final size:22
Alignment explanation
Indices: 46719735--46719782 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
46719725 ACACGGCCAA
*
46719735 GGCCATCATTTT-GGGCTTATTG
1 GGCCATCATTTTAGGG-TTAGTG
*
46719757 GGCCATTATTTTAGGGTTAGTG
1 GGCCATCATTTTAGGGTTAGTG
46719779 GGCC
1 GGCC
46719783 CACATGGGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.15, C:0.17, G:0.31, T:0.38
Consensus pattern (22 bp):
GGCCATCATTTTAGGGTTAGTG
Found at i:46722076 original size:39 final size:39
Alignment explanation
Indices: 46722012--46722291 Score: 309
Period size: 39 Copynumber: 7.2 Consensus size: 39
46722002 AAGCACATAA
* * *
46722012 GTGCAATCAAGGGTACCGAAGTACAACAGGGGCACGTAT
1 GTGCGATCAGGGGTACCAAAGTACAACAGGGGCACGTAT
* *
46722051 GTTCGATCAGGGGTACCAAAGTACAATA-GGGCACGTAT
1 GTGCGATCAGGGGTACCAAAGTACAACAGGGGCACGTAT
** *
46722089 GTATGATCAGGGGTA--ATAAGTGCAACAGGGGCACGTAT
1 GTGCGATCAGGGGTACCA-AAGTACAACAGGGGCACGTAT
*
46722127 GTGCGATCAGGGGTACCAAAGTACAACCA-GGGCAAGTAT
1 GTGCGATCAGGGGTACCAAAGTACAA-CAGGGGCACGTAT
* * * ** *
46722166 GTGCAATCAAGGGTACCGAAGTA-AACTAGGGATATGTAT
1 GTGCGATCAGGGGTACCAAAGTACAAC-AGGGGCACGTAT
46722205 GTGCGATCAGGGGTACCAAAGTACAACAGGGGCACGTAT
1 GTGCGATCAGGGGTACCAAAGTACAACAGGGGCACGTAT
* *** *
46722244 GTGCGATCAGGGATACTGTAGTACAACAGGGACACGTAT
1 GTGCGATCAGGGGTACCAAAGTACAACAGGGGCACGTAT
*
46722283 GTGCAATCA
1 GTGCGATCA
46722292 AGTATAATTA
Statistics
Matches: 202, Mismatches: 31, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
36 1 0.00
37 9 0.04
38 49 0.24
39 137 0.68
40 6 0.03
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.19
Consensus pattern (39 bp):
GTGCGATCAGGGGTACCAAAGTACAACAGGGGCACGTAT
Found at i:46722223 original size:78 final size:77
Alignment explanation
Indices: 46722012--46722291 Score: 341
Period size: 78 Copynumber: 3.6 Consensus size: 77
46722002 AAGCACATAA
* *
46722012 GTGCAATCAAGGGTACCGAAGTACAACAGGGGCACGTATGTTCGATCAGGGGTACCAAAGTACAA
1 GTGCAATCAAGGGTACCGAAGTACAACAGGGACACGTATGTGCGATCAGGGGTACCAAAGTACAA
*
46722077 TAGGGCACGTAT
66 CAGGGCACGTAT
*** * ** * *
46722089 GTATGATCAGGGGTA-ATAAGTGCAACAGGGGCACGTATGTGCGATCAGGGGTACCAAAGTACAA
1 GTGCAATCAAGGGTACCGAAGTACAACAGGGACACGTATGTGCGATCAGGGGTACCAAAGTACAA
*
46722153 CCAGGGCAAGTAT
66 -CAGGGCACGTAT
* *
46722166 GTGCAATCAAGGGTACCGAAGTA-AACTAGGGATATGTATGTGCGATCAGGGGTACCAAAGTACA
1 GTGCAATCAAGGGTACCGAAGTACAAC-AGGGACACGTATGTGCGATCAGGGGTACCAAAGTACA
46722230 ACAGGGGCACGTAT
65 ACA-GGGCACGTAT
* * * *
46722244 GTGCGATC-AGGGATACTGTAGTACAACAGGGACACGTATGTGCAATCA
1 GTGCAATCAAGGG-TACCGAAGTACAACAGGGACACGTATGTGCGATCA
46722292 AGTATAATTA
Statistics
Matches: 170, Mismatches: 27, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
76 45 0.26
77 41 0.24
78 81 0.48
79 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.19
Consensus pattern (77 bp):
GTGCAATCAAGGGTACCGAAGTACAACAGGGACACGTATGTGCGATCAGGGGTACCAAAGTACAA
CAGGGCACGTAT
Found at i:46737745 original size:51 final size:50
Alignment explanation
Indices: 46737677--46737834 Score: 235
Period size: 51 Copynumber: 3.1 Consensus size: 50
46737667 ATCACATTTA
46737677 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTG
* *
46737728 TGACTTGTCACTGATCAGATAAGTGTAGCTGAGACTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAG-CTACCACTTATCACTTG
* * * *
46737779 TCACTTGTCACTAATCAAATAAGTGTAGGTGAGGCTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTG
46737830 TCACT
1 TCACT
46737835 GATCAGAAGT
Statistics
Matches: 97, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
50 2 0.02
51 94 0.97
52 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (50 bp):
TCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTG
Found at i:46739553 original size:37 final size:37
Alignment explanation
Indices: 46739503--46739618 Score: 196
Period size: 37 Copynumber: 3.1 Consensus size: 37
46739493 TTATTACGAA
* * * *
46739503 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
46739540 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
46739577 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
46739614 GTCTT
1 GTCTT
46739619 TAGAGCTCGG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 75 1.00
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
Found at i:46739809 original size:47 final size:47
Alignment explanation
Indices: 46739737--46740055 Score: 469
Period size: 47 Copynumber: 6.7 Consensus size: 47
46739727 CCCTTCGGGA
* * * * * * *
46739737 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46739784 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46739831 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46739878 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46739925 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46739972 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCTTTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
46740021 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
46740056 AGAATCCTAA
Statistics
Matches: 254, Mismatches: 15, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 209 0.82
49 44 0.17
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46747673 original size:27 final size:27
Alignment explanation
Indices: 46747635--46747813 Score: 166
Period size: 27 Copynumber: 6.6 Consensus size: 27
46747625 TAAATTGTAC
46747635 AGCACTAAGTGTGCGGTTTGACTATGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *** *
46747662 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGGTTTGACTATGT
** *
46747688 ATGCACTAAGTGTGCGAATTGA-TCATGC
1 A-GCACTAAGTGTGCGGTTTGACT-ATGT
*
46747716 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
* * *
46747744 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *
46747771 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
*
46747798 AGCACTGAGTGTGCGG
1 AGCACTAAGTGTGCGG
46747814 GCTCAATATA
Statistics
Matches: 127, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.02
27 103 0.81
28 21 0.17
29 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGTTTGACTATGT
Found at i:46747803 original size:82 final size:81
Alignment explanation
Indices: 46747632--46747813 Score: 240
Period size: 82 Copynumber: 2.2 Consensus size: 81
46747622 GATTAAATTG
* *
46747632 TACAGCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
46747697 GTGTGCGAATTGATCA
66 GTGTGCGAATTGATCA
* * ** *
46747713 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* *
46747777 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGATCA
* *
46747795 TATAGCACTGAGTGTGCGG
1 TACAGCACTAAGTGTGCGG
46747814 GCTCAATATA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
81 18 0.21
82 68 0.79
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGATCA
Found at i:46755878 original size:27 final size:27
Alignment explanation
Indices: 46755840--46756018 Score: 166
Period size: 27 Copynumber: 6.6 Consensus size: 27
46755830 TAAATTGTAC
46755840 AGCACTAAGTGTGCGGTTTGACTATGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *** *
46755867 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGGTTTGACTATGT
** *
46755893 ATGCACTAAGTGTGCGAATTGA-TCATGC
1 A-GCACTAAGTGTGCGGTTTGACT-ATGT
*
46755921 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
* * *
46755949 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *
46755976 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
*
46756003 AGCACTGAGTGTGCGG
1 AGCACTAAGTGTGCGG
46756019 GCTCAATATA
Statistics
Matches: 127, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.02
27 103 0.81
28 21 0.17
29 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGTTTGACTATGT
Found at i:46756008 original size:82 final size:81
Alignment explanation
Indices: 46755837--46756018 Score: 240
Period size: 82 Copynumber: 2.2 Consensus size: 81
46755827 GATTAAATTG
* *
46755837 TACAGCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
46755902 GTGTGCGAATTGATCA
66 GTGTGCGAATTGATCA
* * ** *
46755918 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* *
46755982 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGATCA
* *
46756000 TATAGCACTGAGTGTGCGG
1 TACAGCACTAAGTGTGCGG
46756019 GCTCAATATA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
81 18 0.21
82 68 0.79
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGATCA
Found at i:46760820 original size:15 final size:16
Alignment explanation
Indices: 46760800--46760833 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
46760790 AAAATTAAAT
*
46760800 AATTAA-CTAGATGCA
1 AATTAACCTAAATGCA
46760815 AATTAACCTAAATGCA
1 AATTAACCTAAATGCA
46760831 AAT
1 AAT
46760834 GAGATGAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (16 bp):
AATTAACCTAAATGCA
Found at i:46765067 original size:81 final size:81
Alignment explanation
Indices: 46764955--46765112 Score: 280
Period size: 81 Copynumber: 2.0 Consensus size: 81
46764945 TCGAACCTAG
46764955 TCTTTTCAAAGGTATTTGATTTTTGATCTTATTACTCCAAAGAAGTTTAACGAGACTGTTATTAG
1 TCTTTTCAAAGGTATTTGATTTTTGATCTTATTACTCCAAAGAAGTTTAACGAGACTGTTATTAG
46765020 TTTGTCCCAAACTTAC
66 TTTGTCCCAAACTTAC
* * *
46765036 TCTTTTTAAAGGTATTTGATTTTTGATCTTATTACTCTAAAGAAGTTTAATGAGACTGTTATTAG
1 TCTTTTCAAAGGTATTTGATTTTTGATCTTATTACTCCAAAGAAGTTTAACGAGACTGTTATTAG
*
46765101 TTTTTCCCAAAC
66 TTTGTCCCAAAC
46765113 AAATCAAAAC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.44
Consensus pattern (81 bp):
TCTTTTCAAAGGTATTTGATTTTTGATCTTATTACTCCAAAGAAGTTTAACGAGACTGTTATTAG
TTTGTCCCAAACTTAC
Found at i:46766553 original size:13 final size:13
Alignment explanation
Indices: 46766535--46766560 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46766525 TTTTTCATGC
46766535 CAACTCTTAAATT
1 CAACTCTTAAATT
46766548 CAACTCTTAAATT
1 CAACTCTTAAATT
46766561 AATCAGCACG
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:0.23, G:0.00, T:0.38
Consensus pattern (13 bp):
CAACTCTTAAATT
Found at i:46770524 original size:42 final size:42
Alignment explanation
Indices: 46770472--46770556 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
46770462 ACTAATATAG
46770472 ATTAGCTATCAATAAGGCAAAAAAGAAAAAGTAACATAGATT
1 ATTAGCTATCAATAAGGCAAAAAAGAAAAAGTAACATAGATT
46770514 ATTAGCTATCAATAAGGCAAAAAAGAAAAAGTAACATAGATT
1 ATTAGCTATCAATAAGGCAAAAAAGAAAAAGTAACATAGATT
46770556 A
1 A
46770557 GTTCCTTTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.55, C:0.09, G:0.14, T:0.21
Consensus pattern (42 bp):
ATTAGCTATCAATAAGGCAAAAAAGAAAAAGTAACATAGATT
Found at i:46774134 original size:40 final size:40
Alignment explanation
Indices: 46774077--46774160 Score: 141
Period size: 40 Copynumber: 2.1 Consensus size: 40
46774067 TCAAGATCAG
*
46774077 TTGGAGTGTAACACTCTACACTCGACTTGATCGTCAGGTC
1 TTGGAGTGTAACACTCTACACCCGACTTGATCGTCAGGTC
* *
46774117 TTGGAGTGTAACTCTCTACACCCGACTTGATCGTCGGGTC
1 TTGGAGTGTAACACTCTACACCCGACTTGATCGTCAGGTC
46774157 TTGG
1 TTGG
46774161 TATGGAGTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (40 bp):
TTGGAGTGTAACACTCTACACCCGACTTGATCGTCAGGTC
Found at i:46786460 original size:58 final size:57
Alignment explanation
Indices: 46786396--46786518 Score: 156
Period size: 57 Copynumber: 2.1 Consensus size: 57
46786386 ATAGAAAAGG
* * **
46786396 TGAAAATGGAGAAATAAAAAAAATTTGGAAATGATTATGGTTTTCTCCAAATTGAAAA
1 TGAAAATGGAGAAAT-AAAAAAATTTGGAAATAAATATGGTTTTCTCCAAAACGAAAA
** ** *
46786454 TGAAAATGGAGAAATGGAATCATTTGGAAATAAATGTGGTTTTCTCCAAAACGAAAA
1 TGAAAATGGAGAAATAAAAAAATTTGGAAATAAATATGGTTTTCTCCAAAACGAAAA
46786511 TGAAAATG
1 TGAAAATG
46786519 ACTTAGAAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
57 41 0.73
58 15 0.27
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.28
Consensus pattern (57 bp):
TGAAAATGGAGAAATAAAAAAATTTGGAAATAAATATGGTTTTCTCCAAAACGAAAA
Found at i:46788065 original size:70 final size:69
Alignment explanation
Indices: 46787953--46788092 Score: 226
Period size: 70 Copynumber: 2.0 Consensus size: 69
46787943 AAATTTCAAG
* *
46787953 CTTAAACCAAAATTTTTTTCATAAAAACATTCATTTCACAACATTCTAATGTTGTTTAAAACAAA
1 CTTAAACCAAAATTTTTTTCATAAAAACATTCATTTCACAACATTATAATATTGTTTAAAACAAA
46788018 TCGA
66 TCGA
* * *
46788022 CTTAAACCAAAATTTTCTTTTATAAAAGCATTCATTTCACAACATTATAATATTGTTTAAAAGAA
1 CTTAAACCAAAATTTT-TTTCATAAAAACATTCATTTCACAACATTATAATATTGTTTAAAACAA
46788087 ATCGA
65 ATCGA
46788092 C
1 C
46788093 CAAGTTTGGA
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
69 16 0.25
70 49 0.75
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.36
Consensus pattern (69 bp):
CTTAAACCAAAATTTTTTTCATAAAAACATTCATTTCACAACATTATAATATTGTTTAAAACAAA
TCGA
Found at i:46790270 original size:21 final size:21
Alignment explanation
Indices: 46790220--46790271 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 21
46790210 CATCTTGGCA
*
46790220 CACAAAGTGCA-A-CCTAGCG
1 CACAAAGAGCATATCCTAGCG
46790239 CAC-AA-AGCATATCCTAGCG
1 CACAAAGAGCATATCCTAGCG
46790258 CACAAAGAGCATAT
1 CACAAAGAGCATAT
46790272 TGGTGCATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 3 0.11
18 3 0.11
19 13 0.46
20 2 0.07
21 7 0.25
ACGTcount: A:0.40, C:0.29, G:0.17, T:0.13
Consensus pattern (21 bp):
CACAAAGAGCATATCCTAGCG
Found at i:46792006 original size:23 final size:22
Alignment explanation
Indices: 46791976--46792019 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
46791966 TCTCAATTCA
*
46791976 TAAATAAATTCATACGAAAACT
1 TAAATAAAATCATACGAAAACT
*
46791998 TAAACTAAAATCATACGTAAAC
1 TAAA-TAAAATCATACGAAAAC
46792020 ATACGATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.25
Consensus pattern (22 bp):
TAAATAAAATCATACGAAAACT
Found at i:46792487 original size:13 final size:13
Alignment explanation
Indices: 46792471--46792499 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
46792461 CAAAGTAAAC
46792471 ATACCTGAATTTG
1 ATACCTGAATTTG
46792484 ATACCTGAATTTG
1 ATACCTGAATTTG
46792497 ATA
1 ATA
46792500 TGATTTCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (13 bp):
ATACCTGAATTTG
Found at i:46792698 original size:42 final size:43
Alignment explanation
Indices: 46792590--46792698 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 43
46792580 AACATATACA
*
46792590 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAACATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAACATCG
* * * * *
46792633 ATGCCACTGTCCCAAACAGGGTCTTACATG-AATTCAGATAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAA-TCAAACATCG
46792675 ATGCCAATGTCCCAGACATGGTCT
1 ATGCCAATGTCCCAGACATGGTCT
46792699 CACACGCAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
42 24 0.43
43 32 0.57
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAACATCG
Found at i:46795400 original size:6 final size:6
Alignment explanation
Indices: 46795391--46795549 Score: 58
Period size: 6 Copynumber: 24.5 Consensus size: 6
46795381 TAAGTCTAAG
* *
46795391 AAAATA AAAATAA AACAACTA AAAGA-A AAATTAA AAAATA AAAATA AAAAGA
1 AAAATA AAAAT-A AA-AA-TA AAA-ATA AAAAT-A AAAATA AAAATA AAAATA
46795443 ATAACACTAA GAAAATGGA TAAAAGTA AAAAT- AAAAT- -AAATA AAAATA
1 A-AA-A-T-A -AAAAT--A -AAAA-TA AAAATA AAAATA AAAATA AAAATA
* * * * *
46795491 ATAGTA AGTAAATA AAAATA AGGAATA AAAATA ATAA-A AAAATA ATAATA
1 AAAATA A--AAATA AAAATA A-AAATA AAAATA AAAATA AAAATA AAAATA
*
46795541 ATAATA AAA
1 AAAATA AAA
46795550 GAAAAAGGGT
Statistics
Matches: 118, Mismatches: 16, Indels: 38
0.69 0.09 0.22
Matches are distributed among these distances:
4 4 0.03
5 9 0.08
6 60 0.51
7 20 0.17
8 13 0.11
9 7 0.06
10 4 0.03
11 1 0.01
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:46795414 original size:20 final size:20
Alignment explanation
Indices: 46795391--46795440 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
46795381 TAAGTCTAAG
46795391 AAAATAAAAA-TAAAACAACT-
1 AAAATAAAAATTAAAA-AA-TA
*
46795411 AAAAGAAAAATTAAAAAATA
1 AAAATAAAAATTAAAAAATA
46795431 AAAATAAAAA
1 AAAATAAAAA
46795441 GAATAACACT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 20 0.77
21 5 0.19
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (20 bp):
AAAATAAAAATTAAAAAATA
Found at i:46795511 original size:30 final size:33
Alignment explanation
Indices: 46795465--46795526 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
46795455 AAATGGATAA
46795465 AAGTAAAAATAAAAT-A-AATAAAAATAATAGT
1 AAGTAAAAATAAAATAAGAATAAAAATAATAGT
*
46795496 AAGTAAATA-AAAATAAGGAATAAAAATAATA
1 AAGTAAAAATAAAATAA-GAATAAAAATAATA
46795527 AAAAAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 5 0.19
31 9 0.33
33 13 0.48
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (33 bp):
AAGTAAAAATAAAATAAGAATAAAAATAATAGT
Found at i:46795543 original size:20 final size:20
Alignment explanation
Indices: 46795472--46795549 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
46795462 TAAAAGTAAA
*
46795472 AATAA-AATAA-ATAAAAAT
1 AATAATAATAATAAAAAAAT
* *
46795490 AATAGTAAGTAAATAAAAATAAGG
1 AATAATAA-T-AATAAAAA-AA-T
*
46795514 AATAAAAATAATAAAAAAAT
1 AATAATAATAATAAAAAAAT
46795534 AATAATAATAATAAAA
1 AATAATAATAATAAAA
46795550 GAAAAAGGGT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
18 4 0.09
19 2 0.04
20 16 0.34
21 4 0.09
22 12 0.26
23 3 0.06
24 6 0.13
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (20 bp):
AATAATAATAATAAAAAAAT
Found at i:46798321 original size:50 final size:51
Alignment explanation
Indices: 46798244--46798372 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
46798234 GACCATGGCA
46798244 ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAA-TG
* *
46798295 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATG
* *
46798345 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCAGCTAC
46798373 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATG
Found at i:46798386 original size:31 final size:31
Alignment explanation
Indices: 46798348--46798558 Score: 334
Period size: 31 Copynumber: 6.8 Consensus size: 31
46798338 ACAAATGACA
*
46798348 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
46798379 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
46798410 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
*
46798441 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
46798472 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
46798503 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
46798534 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
46798559 AAGTGACAAG
Statistics
Matches: 171, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
30 2 0.01
31 168 0.98
32 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:46798646 original size:47 final size:46
Alignment explanation
Indices: 46798576--46798740 Score: 153
Period size: 47 Copynumber: 3.7 Consensus size: 46
46798566 AAGTGATTTC
* *
46798576 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * * *
46798622 CTGTATAAGACCATATCTGGGATATCGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* *
46798669 CGTGTAAGACCATAGT-TGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATA-TCTGGGATATGGCATCGGTGAGATATATG-ATA
* * * *
46798711 TGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
46798741 ATTATGTGAA
Statistics
Matches: 102, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
41 7 0.07
42 29 0.28
46 25 0.25
47 41 0.40
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:46798731 original size:42 final size:43
Alignment explanation
Indices: 46798670--46798784 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
46798660 TATGTGATTC
*
46798670 GTGTAAGACCATAGTTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
* *
46798712 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
**
46798754 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGTTGGGCTATGGCATCGA
46798785 GAAAAAAAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.02
42 63 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
Found at i:46804850 original size:40 final size:40
Alignment explanation
Indices: 46804752--46805014 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
46804742 TCCTCGTTCA
* * * * *
46804752 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
46804791 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
46804831 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
46804871 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
46804911 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
46804951 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
46804991 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
46805015 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:46805023 original size:41 final size:41
Alignment explanation
Indices: 46804946--46805023 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
46804936 TTAGTATCTC
* * *
46804946 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
46804987 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
46805024 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:46821035 original size:44 final size:44
Alignment explanation
Indices: 46820919--46821040 Score: 158
Period size: 43 Copynumber: 2.8 Consensus size: 44
46820909 TATCGAAATG
*
46820919 TGATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * * * *
46820963 TGATA-TCGGGTTTTGAGCTTAGTAGGCTATGATGCTGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
46821006 T-ATTATTCGAGCTTTGAGCCTAGCAGGCTATAATG
1 TGA-TATTCGGGCTTTGAGCCTAGCAGGCTATAATG
46821041 TCGATGAATG
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 1 0.02
43 35 0.54
44 29 0.45
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.31
Consensus pattern (44 bp):
TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:46821379 original size:38 final size:38
Alignment explanation
Indices: 46821354--46821553 Score: 292
Period size: 38 Copynumber: 5.3 Consensus size: 38
46821344 ATGCTTGAAT
* *
46821354 TATATCCGGGTTAAATCCTGCAGGCTTCGTGTTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
46821392 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
*
46821430 TATATCCGGGTTAAATCCCGCAAGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* * * *
46821468 TATATCTGAGTTAATTCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* * * *
46821506 TATATCCGGGTTAAATCCCGCAGGCCTAGTGATGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
*
46821544 TATATTCGGG
1 TATATCCGGG
46821554 CCTTTGAGCC
Statistics
Matches: 147, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 147 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
Found at i:46821596 original size:45 final size:45
Alignment explanation
Indices: 46821546--46821669 Score: 178
Period size: 45 Copynumber: 2.8 Consensus size: 45
46821536 GATGGTATTA
* *
46821546 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGCTGAGACAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGCTGAGACAC
* * * *
46821591 TATTCGGGACTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGCTGAGACAC
46821636 TATTC-GGCCTTTCGAGCCTAGCAGGCTATAATGC
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGC
46821670 AGATGAAATG
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
44 6 0.09
45 64 0.91
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGCTGAGACAC
Found at i:46829859 original size:38 final size:38
Alignment explanation
Indices: 46829808--46830196 Score: 645
Period size: 38 Copynumber: 10.3 Consensus size: 38
46829798 ATATTTGATA
*
46829808 TATATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
46829846 TATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
46829884 TATATCCGGGTTAAAT-CCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
46829921 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
46829959 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
46829997 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
46830035 TATATCCGGGTTAAATCCCGCAAGCTTTGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
46830073 TATATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
46830111 TATATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
46830149 TATATCTGGGTTAAATCCCGTAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
46830187 TATATTCGGG
1 TATATCCGGG
46830197 CCTTTGAGCC
Statistics
Matches: 327, Mismatches: 23, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
37 36 0.11
38 291 0.89
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:46831706 original size:45 final size:44
Alignment explanation
Indices: 46831591--46831724 Score: 177
Period size: 45 Copynumber: 3.1 Consensus size: 44
46831581 TATCGAAATG
46831591 TGATATTCGGGCTTCTG-GCC-AGCAGGCTATAATGCCGGTGAAA
1 TGATATTCGGGCTT-TGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
46831634 TGATA-TCGGGCTTTGAGCTTAGTAGGCTATGATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
46831677 T-ATTATTCGAGGCTTTGAGCCTAGCAGGCTATAATGCCAGTGAAA
1 TGA-TATTCG-GGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
46831722 TGA
1 TGA
46831725 AATGTTATGT
Statistics
Matches: 78, Mismatches: 7, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
41 2 0.03
42 11 0.14
43 29 0.37
44 3 0.04
45 32 0.41
46 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (44 bp):
TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:46832055 original size:38 final size:38
Alignment explanation
Indices: 46832021--46832168 Score: 244
Period size: 38 Copynumber: 3.9 Consensus size: 38
46832011 GTAGGCTATA
46832021 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCG
*
46832059 TGCTGGTAATATATCTGGGTTAAATCCCGCAGGCTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
*
46832097 TGCTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
* *
46832135 TGATGGTATTATATCCGGGTTAAATCCCGCAGGC
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGC
46832169 CTAGCGATGG
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
38 101 0.98
39 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.30
Consensus pattern (38 bp):
TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:46832178 original size:38 final size:38
Alignment explanation
Indices: 46832028--46832191 Score: 238
Period size: 38 Copynumber: 4.3 Consensus size: 38
46832018 ATATGCTGGA
*
46832028 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGATGGT
* * *
46832066 AATATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGATGGT
* *
46832104 AATATATCCGGGTTAATTCCCGCAGGCTTCGTGATGGT
1 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGATGGT
* * *
46832142 ATTATATCCGGGTTAAATCCCGCAGGCCTAGCGATGGT
1 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGATGGT
*
46832180 ATTATATTCGGG
1 ATTATATCCGGG
46832192 CCTTTGAGCC
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 115 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (38 bp):
ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGATGGT
Found at i:46832234 original size:45 final size:45
Alignment explanation
Indices: 46832184--46832313 Score: 190
Period size: 45 Copynumber: 2.9 Consensus size: 45
46832174 GATGGTATTA
*
46832184 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCAATGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAATGAGACAC
* ** *
46832229 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAATGAGACAC
*
46832274 TATTC-GGCCTTTCGAGCCTAGGAGGCTATAATGCCAATGA
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCAATGA
46832314 AATGATAATC
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
44 7 0.09
45 68 0.91
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAATGAGACAC
Found at i:46841261 original size:20 final size:20
Alignment explanation
Indices: 46841249--46841286 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
46841239 TATAATCGAG
46841249 AATCCATTTATATAACCAGT
1 AATCCATTTATATAACCAGT
*
46841269 AATCCATCTATATAACCA
1 AATCCATTTATATAACCA
46841287 TTAACAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.24, G:0.03, T:0.32
Consensus pattern (20 bp):
AATCCATTTATATAACCAGT
Found at i:46841468 original size:24 final size:24
Alignment explanation
Indices: 46841435--46841487 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
46841425 GTTGATGAAT
46841435 AGTAAGCTCT-ATCGAGCTG-GAAAC
1 AGTAAGCTCTGA-CGAGCTGAG-AAC
*
46841459 AGTAATCTCTGACGAGCTGAGAAC
1 AGTAAGCTCTGACGAGCTGAGAAC
46841483 AGTAA
1 AGTAA
46841488 ACCCTTACGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (24 bp):
AGTAAGCTCTGACGAGCTGAGAAC
Found at i:46841497 original size:24 final size:24
Alignment explanation
Indices: 46841447--46841500 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
46841437 TAAGCTCTAT
* *
46841447 CGAGCTGGAAACAGTAATCTCTGA
1 CGAGCTGGAAACAGTAAACCCTGA
*
46841471 CGAGCT-GAGAACAGTAAACCCTTA
1 CGAGCTGGA-AACAGTAAACCCTGA
46841495 CGAGCT
1 CGAGCT
46841501 AATATATCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (24 bp):
CGAGCTGGAAACAGTAAACCCTGA
Found at i:46860030 original size:13 final size:13
Alignment explanation
Indices: 46860012--46860037 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46860002 ATTTAAAACA
46860012 ATTTTTAGAAAAT
1 ATTTTTAGAAAAT
46860025 ATTTTTAGAAAAT
1 ATTTTTAGAAAAT
46860038 TTACCAAACA
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:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
ATTTTTAGAAAAT
Found at i:46860054 original size:32 final size:34
Alignment explanation
Indices: 46860018--46860092 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 34
46860008 AACAATTTTT
*
46860018 AGAAAATATTTTTAGA-AAATTTA-CCAAACACC
1 AGAAAATATTTTTACATAAATTTATCCAAACACC
* *
46860050 AGAAAATA-TTTTACATAGATTTATCCAAACACT
1 AGAAAATATTTTTACATAAATTTATCCAAACACC
46860083 AGAAAATATT
1 AGAAAATATT
46860093 AACTTTTTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 6 0.16
32 14 0.38
33 16 0.43
34 1 0.03
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.31
Consensus pattern (34 bp):
AGAAAATATTTTTACATAAATTTATCCAAACACC
Found at i:46860640 original size:36 final size:37
Alignment explanation
Indices: 46860598--46860686 Score: 112
Period size: 36 Copynumber: 2.4 Consensus size: 37
46860588 CCTTTTACTT
* *
46860598 TCTTTTTTTCATTTTTAC-CTTTTTTAACTTTTGTCC
1 TCTTTTTTTTATTTTTACTCTTTTTTAAATTTTGTCC
*
46860634 -CTTTTTTCTT-TTTTTACTTTTTTTTAAATTTTGTCC
1 TCTTTTTT-TTATTTTTACTCTTTTTTAAATTTTGTCC
46860670 TCTTTTTTTTAATTTTT
1 TCTTTTTTTT-ATTTTT
46860687 TTCTTTATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
35 14 0.31
36 19 0.42
37 7 0.16
38 5 0.11
ACGTcount: A:0.11, C:0.15, G:0.02, T:0.72
Consensus pattern (37 bp):
TCTTTTTTTTATTTTTACTCTTTTTTAAATTTTGTCC
Found at i:46860772 original size:23 final size:20
Alignment explanation
Indices: 46860734--46860796 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 20
46860724 TAATTTTAAA
* *
46860734 AAATTTGAAATGTATATTTG
1 AAATTTTAAATATATATTTG
*
46860754 AAATGTTTTATAATATATATTTTT
1 AAA--TTTTA-AATATATA-TTTG
46860778 AAATTTTAAATATATATTT
1 AAATTTTAAATATATATTT
46860797 TTGAAATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 6 0.17
21 8 0.22
22 9 0.25
23 7 0.19
24 6 0.17
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.52
Consensus pattern (20 bp):
AAATTTTAAATATATATTTG
Found at i:46860789 original size:21 final size:23
Alignment explanation
Indices: 46860750--46860804 Score: 78
Period size: 21 Copynumber: 2.4 Consensus size: 23
46860740 GAAATGTATA
46860750 TTTGAAATGTTTTATAATATATATT
1 TTTGAAA--TTTTATAATATATATT
46860775 TTT-AAATTTTA-AATATATATT
1 TTTGAAATTTTATAATATATATT
46860796 TTTGAAATT
1 TTTGAAATT
46860805 ATTTTTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 13 0.45
22 10 0.34
24 3 0.10
25 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (23 bp):
TTTGAAATTTTATAATATATATT
Found at i:46860798 original size:22 final size:22
Alignment explanation
Indices: 46860746--46860804 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
46860736 ATTTGAAATG
46860746 TATA-TTTGAAATGTTTTATAATA
1 TATATTTTGAAA--TTTTATAATA
*
46860769 TATATTTTTAAATTTTA-AATA
1 TATATTTTGAAATTTTATAATA
46860790 TATATTTTTGAAATT
1 TATA-TTTTGAAATT
46860805 ATTTTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 8 0.25
22 14 0.44
23 4 0.12
24 6 0.19
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (22 bp):
TATATTTTGAAATTTTATAATA
Found at i:46860820 original size:35 final size:32
Alignment explanation
Indices: 46860759--46860836 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 32
46860749 ATTTGAAATG
46860759 TTTTATAATATATATTTTTAAATTTTAAATATATAT
1 TTTTA-AAT-TAT-TTTTTAAATTTTAAATATAT-T
46860795 TTTTGAAATTATTTTTTAAAATTTTAAATATATT
1 TTTT-AAATTATTTTTT-AAATTTTAAATATATT
46860829 TTTTAAAT
1 TTTTAAAT
46860837 ATTAAATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
33 4 0.10
34 10 0.25
35 18 0.45
36 7 0.17
37 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (32 bp):
TTTTAAATTATTTTTTAAATTTTAAATATATT
Found at i:46860826 original size:33 final size:34
Alignment explanation
Indices: 46860773--46860836 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 34
46860763 ATAATATATA
46860773 TTTTTAAATTTTAAATATATATTTTTGAAATTAT
1 TTTTTAAATTTTAAATATATATTTTTGAAATTAT
46860807 TTTTTAAAATTTTAAATATAT-TTTTT-AAAT
1 TTTTT-AAATTTTAAATATATATTTTTGAAAT
46860837 ATTAAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
33 4 0.14
34 10 0.34
35 15 0.52
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (34 bp):
TTTTTAAATTTTAAATATATATTTTTGAAATTAT
Found at i:46860830 original size:20 final size:19
Alignment explanation
Indices: 46860768--46860851 Score: 79
Period size: 20 Copynumber: 4.5 Consensus size: 19
46860758 GTTTTATAAT
46860768 ATATATTTTTAAATTTTAA
1 ATATATTTTTAAATTTTAA
* *
46860787 ATATA-TATT---TTTGAA
1 ATATATTTTTAAATTTTAA
46860802 AT-TATTTTTTAAAATTTTAA
1 ATATA-TTTTT-AAATTTTAA
*
46860822 ATATATTTTTTAAATATTAA
1 ATATA-TTTTTAAATTTTAA
46860842 ATATATTTTT
1 ATATATTTTT
46860852 TAATAATATA
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
14 2 0.04
15 7 0.13
16 3 0.06
18 3 0.06
19 10 0.19
20 20 0.38
21 8 0.15
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (19 bp):
ATATATTTTTAAATTTTAA
Found at i:46860854 original size:13 final size:13
Alignment explanation
Indices: 46860781--46860838 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
46860771 TATTTTTAAA
46860781 TTTTAAATATATAT
1 TTTTAAATATAT-T
46860795 TTTTGAAAT-TATT
1 TTTT-AAATATATT
46860808 TTTT-AA-A-A--
1 TTTTAAATATATT
46860816 TTTTAAATATATT
1 TTTTAAATATATT
46860829 TTTTAAATAT
1 TTTTAAATAT
46860839 TAAATATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 15
0.71 0.00 0.29
Matches are distributed among these distances:
8 4 0.11
9 2 0.05
10 2 0.05
11 3 0.08
13 15 0.41
14 7 0.19
15 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TTTTAAATATATT
Found at i:46860859 original size:22 final size:21
Alignment explanation
Indices: 46860800--46860860 Score: 90
Period size: 20 Copynumber: 3.0 Consensus size: 21
46860790 TATATTTTTG
*
46860800 AAAT-TATTTTTTAAAATTTT
1 AAATATATTTTTTAAAATATT
46860820 AAATATATTTTTT-AAATATT
1 AAATATATTTTTTAAAATATT
46860840 AAATATATTTTTTAATAATAT
1 AAATATATTTTTTAA-AATAT
46860861 AAAACATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
20 23 0.62
21 9 0.24
22 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AAATATATTTTTTAAAATATT
Found at i:46860958 original size:21 final size:21
Alignment explanation
Indices: 46860919--46860981 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 21
46860909 TTTTATAATA
*
46860919 TTTTAAATATTTTTTAATTTG
1 TTTTAAATATTTTTAAATTTG
46860940 TTTTATAATA-TTTTAAATTATG
1 TTTTA-AATATTTTTAAATT-TG
46860962 ATTTTTAAATTATTTTTAAA
1 --TTTTAAA-TATTTTTAAA
46860982 GATATTCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
21 13 0.37
22 6 0.17
23 2 0.06
24 7 0.20
25 7 0.20
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TTTTAAATATTTTTAAATTTG
Found at i:46861042 original size:19 final size:19
Alignment explanation
Indices: 46861018--46861140 Score: 62
Period size: 19 Copynumber: 6.4 Consensus size: 19
46861008 TATTTAAAAA
46861018 TTAAAAAATAATATTTTAT
1 TTAAAAAATAATATTTTAT
*
46861037 TTAAAAAAGTGAA-ATTTGAATTAA
1 TTAAAAAA-T-AATA-TT---TTAT
46861061 TTAGAAAAA-AATA-TTT-T
1 TTA-AAAAATAATATTTTAT
*
46861078 TTAAAAAAT-ATTTATTTAT
1 TTAAAAAATAATAT-TTTAT
* *
46861097 TAAAAAAATGA-A-TTTAT
1 TTAAAAAATAATATTTTAT
* *
46861114 TTAAAAAATATATATTTAAA
1 TTAAAAAATA-ATATTTTAT
46861134 TTAAAAA
1 TTAAAAA
46861141 TTAAAAATAT
Statistics
Matches: 79, Mismatches: 9, Indels: 31
0.66 0.08 0.26
Matches are distributed among these distances:
16 7 0.09
17 16 0.20
18 6 0.08
19 18 0.23
20 13 0.16
21 5 0.06
22 2 0.03
23 1 0.01
24 6 0.08
25 5 0.06
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (19 bp):
TTAAAAAATAATATTTTAT
Found at i:46861085 original size:14 final size:15
Alignment explanation
Indices: 46861066--46861133 Score: 66
Period size: 14 Copynumber: 4.2 Consensus size: 15
46861056 ATTAATTAGA
46861066 AAAAAATATTT-TTT
1 AAAAAATATTTATTT
46861080 AAAAAATATTTATTTATT
1 AAAAAATATTTA--T-TT
46861098 AAAAAAATGAATTTATTT
1 -AAAAAAT--ATTTATTT
*
46861116 AAAAAATATATATTT
1 AAAAAATATTTATTT
46861131 AAA
1 AAA
46861134 TTAAAAATTA
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
14 11 0.24
15 10 0.22
17 8 0.17
18 4 0.09
19 8 0.17
21 5 0.11
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (15 bp):
AAAAAATATTTATTT
Done.