Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 154 of 325
Found at i:47041883 original size:56 final size:56
Alignment explanation
Indices: 47041795--47041942 Score: 242
Period size: 56 Copynumber: 2.6 Consensus size: 56
47041785 TCCAACTTGT
*
47041795 GATATCTGATTCCGATATATGTGTGCGAGTAAGACCACATTTAATACGCTGGCATC
1 GATATGTGATTCCGATATATGTGTGCGAGTAAGACCACATTTAATACGCTGGCATC
* * * *
47041851 GATATGTGATTTCGATATATGTGTGCGTGTAAGACCACGTTTAATACGTTGGCATC
1 GATATGTGATTCCGATATATGTGTGCGAGTAAGACCACATTTAATACGCTGGCATC
*
47041907 GATATGTGATTCCGATATATGTGTACGAGTAAGACC
1 GATATGTGATTCCGATATATGTGTGCGAGTAAGACC
47041943 CTATATGAGA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 84 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (56 bp):
GATATGTGATTCCGATATATGTGTGCGAGTAAGACCACATTTAATACGCTGGCATC
Found at i:47041960 original size:56 final size:56
Alignment explanation
Indices: 47041795--47041973 Score: 222
Period size: 56 Copynumber: 3.2 Consensus size: 56
47041785 TCCAACTTGT
*
47041795 GATATCTGATTCCGATATATGTGTGCGAGTAAGACCAC-ATTTAATACGCTGGCATC
1 GATATGTGATTCCGATATATGTGTGCGAGTAAGACCACTA-TTAATACGCTGGCATC
* * *
47041851 GATATGTGATTTCGATATATGTGTGCGTGTAAGACCACGT-TTAATACGTTGGCATC
1 GATATGTGATTCCGATATATGTGTGCGAGTAAGACCAC-TATTAATACGCTGGCATC
* * *
47041907 GATATGTGATTCCGATATATGTGTACGAGTAAGACC-CTATATGAGACAG-TGGCATC
1 GATATGTGATTCCGATATATGTGTGCGAGTAAGACCACTAT-TAATAC-GCTGGCATC
*
47041963 GTTATGTGATT
1 GATATGTGATT
47041974 ACATGTAAGA
Statistics
Matches: 108, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.01
55 2 0.02
56 104 0.96
57 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (56 bp):
GATATGTGATTCCGATATATGTGTGCGAGTAAGACCACTATTAATACGCTGGCATC
Found at i:47043597 original size:33 final size:33
Alignment explanation
Indices: 47043559--47043630 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
47043549 GATTCTTGTG
*
47043559 TAAATATATTTGATGATTGAAATTATGATCATT
1 TAAATATATTTGATGATTGAAATGATGATCATT
47043592 TAAATATATTTGATGATTGAAATGATGATCATT
1 TAAATATATTTGATGATTGAAATGATGATCATT
*
47043625 TGAATA
1 TAAATA
47043631 GTAAAAAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.40, C:0.03, G:0.14, T:0.43
Consensus pattern (33 bp):
TAAATATATTTGATGATTGAAATGATGATCATT
Found at i:47043614 original size:18 final size:18
Alignment explanation
Indices: 47043560--47043614 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
47043550 ATTCTTGTGT
47043560 AAATATATTTGATGATTG
1 AAATATATTTGATGATTG
* *
47043578 AAAT-TA--TGATCATTT
1 AAATATATTTGATGATTG
47043593 AAATATATTTGATGATTG
1 AAATATATTTGATGATTG
47043611 AAAT
1 AAAT
47043615 GATGATCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 11 0.37
16 2 0.07
17 2 0.07
18 15 0.50
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.44
Consensus pattern (18 bp):
AAATATATTTGATGATTG
Found at i:47048833 original size:15 final size:15
Alignment explanation
Indices: 47048813--47048843 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
47048803 TTTTACTTAG
*
47048813 TAGTTTTATTTAATT
1 TAGTTTAATTTAATT
47048828 TAGTTTAATTTAATT
1 TAGTTTAATTTAATT
47048843 T
1 T
47048844 TTATAGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TAGTTTAATTTAATT
Found at i:47063805 original size:20 final size:20
Alignment explanation
Indices: 47063780--47063820 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
47063770 TAAACCATGG
47063780 ATCTCTATCAAACTTATTGA
1 ATCTCTATCAAACTTATTGA
*
47063800 ATCTCTATCAAACTTGTTGA
1 ATCTCTATCAAACTTATTGA
47063820 A
1 A
47063821 AACTAACACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (20 bp):
ATCTCTATCAAACTTATTGA
Found at i:47067227 original size:24 final size:24
Alignment explanation
Indices: 47067195--47067265 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
47067185 CTATCATGAG
47067195 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
47067219 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
47067243 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
47067266 GGAAATCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:47067277 original size:48 final size:48
Alignment explanation
Indices: 47067195--47067288 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
47067185 CTATCATGAG
** * *
47067195 AGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGAT-AAGGGAT
1 AGGATTTAGGAGCAGATAAGGGA-AGGATCTAGGAGCTGATCAAGGGAT
47067243 AGGATTTAGGAGCAGATAAGGG-AGGAAATCTAGGAGCTGATCAAGG
1 AGGATTTAGGAGCAGATAAGGGAAGG--ATCTAGGAGCTGATCAAGG
47067289 AACAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
46 3 0.08
48 32 0.82
49 4 0.10
ACGTcount: A:0.35, C:0.04, G:0.37, T:0.23
Consensus pattern (48 bp):
AGGATTTAGGAGCAGATAAGGGAAGGATCTAGGAGCTGATCAAGGGAT
Found at i:47069374 original size:29 final size:29
Alignment explanation
Indices: 47069341--47069500 Score: 241
Period size: 29 Copynumber: 5.6 Consensus size: 29
47069331 GTGACGAGAT
47069341 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
47069370 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
47069399 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
47069428 TGGCACTATGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** *
47069457 TGGCTCTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
47069486 CGGCACT-GGTGTGCG
1 TGGCACTAAGTGTGCG
47069501 AGTTCGAGGG
Statistics
Matches: 119, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 6 0.05
29 113 0.95
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:47077178 original size:29 final size:29
Alignment explanation
Indices: 47077145--47077238 Score: 188
Period size: 29 Copynumber: 3.2 Consensus size: 29
47077135 GTGACGAGAT
47077145 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
47077174 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
47077203 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
47077232 TGGCACT
1 TGGCACT
47077239 GTGTGCAAAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:47077251 original size:29 final size:28
Alignment explanation
Indices: 47077145--47077276 Score: 167
Period size: 29 Copynumber: 4.5 Consensus size: 28
47077135 GTGACGAGAT
47077145 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACT-AGTGTGCGTGCTGGAAATATA
47077174 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACT-AGTGTGCGTGCTGGAAATATA
47077203 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACT-AGTGTGCGTGCTGGAAATATA
* *
47077232 TGGCACT-GTGTGCAAATGCTGGAAAAATA
1 TGGCACTAGTGTGC--GTGCTGGAAATATA
* *
47077261 CGGCACTGGGTGTGCG
1 TGGCACT-AGTGTGCG
47077277 AGCTCGAAGG
Statistics
Matches: 95, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
27 6 0.06
29 83 0.87
31 6 0.06
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.26
Consensus pattern (28 bp):
TGGCACTAGTGTGCGTGCTGGAAATATA
Found at i:47077252 original size:58 final size:56
Alignment explanation
Indices: 47077145--47077301 Score: 188
Period size: 58 Copynumber: 2.7 Consensus size: 56
47077135 GTGACGAGAT
* *
47077145 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACT--GTGTGCATGCTGGAAAAATA
47077203 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTGTGTGCAAATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTGTGTGC--ATGCTGGAAAAATA
* ** * * ***
47077261 CGGCACTGGGTGTGCGAGCTCGAAGGGTATGGCACTGTGTG
1 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTGTGTG
47077302 TGCGGGCTTA
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
56 6 0.07
58 81 0.93
ACGTcount: A:0.25, C:0.15, G:0.34, T:0.25
Consensus pattern (56 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTGTGTGCATGCTGGAAAAATA
Found at i:47087404 original size:70 final size:71
Alignment explanation
Indices: 47087319--47087481 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
47087309 CGATTTGTCT
47087319 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTA-
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
47087383 CTTTCA
66 CTTTCA
47087389 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
47087454 CTTTCA
66 CTTTCA
47087460 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
47087482 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 64 0.70
71 28 0.30
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:47087519 original size:71 final size:69
Alignment explanation
Indices: 47087319--47087515 Score: 247
Period size: 70 Copynumber: 2.8 Consensus size: 69
47087309 CGATTTGTCT
* * * *
47087319 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAC
47087384 TTTCA
65 TTTCA
* * * *
47087389 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTA-
47087454 CTTTCA
64 CTTTCA
* *
47087460 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
47087516 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 65 0.55
71 31 0.26
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (69 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTACT
TTCA
Found at i:47094751 original size:71 final size:71
Alignment explanation
Indices: 47094665--47094828 Score: 301
Period size: 71 Copynumber: 2.3 Consensus size: 71
47094655 CGATTTGTCT
*
47094665 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
47094730 CTTTCA
66 CTTTCA
*
47094736 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
47094801 CTTTCA
66 CTTTCA
*
47094807 CGTAGCTCTCTTGTTTACATGG
1 CGTAGCTCTCTTGTCTACATGG
47094829 GATACATCTC
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 90 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
CTTTCA
Found at i:47094866 original size:71 final size:70
Alignment explanation
Indices: 47094665--47094862 Score: 240
Period size: 71 Copynumber: 2.8 Consensus size: 70
47094655 CGATTTGTCT
* * * *
47094665 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCAACCTAGCTACATTTAC
47094730 CTTTCA
65 CTTTCA
* * * * *
47094736 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCAACCTAGCTACATTTAC
47094801 CTTTCA
65 CTTTCA
* * *
47094807 CGTAGCTCTCTTGTTTACATGG-GATACAT-C-TCGTATCACGCATGTAACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCAACCTAGCTAC
47094863 TACAGGGTGT
Statistics
Matches: 117, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 93 0.79
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCAACCTAGCTACATTTACC
TTTCA
Found at i:47098078 original size:24 final size:24
Alignment explanation
Indices: 47098048--47098140 Score: 89
Period size: 24 Copynumber: 3.9 Consensus size: 24
47098038 TGGCTATCCG
* *
47098048 GAGCTTCCCGTTATGGCTCTTTTT
1 GAGCTTCCCGATATGGCTCTTTGT
* *
47098072 GAGCTTCCCAATA-GGCTATTTGT
1 GAGCTTCCCGATATGGCTCTTTGT
* *
47098095 GAGCTTCCTGATATGGTTCTTTGT
1 GAGCTTCCCGATATGGCTCTTTGT
* **
47098119 GAACTTCTTGATTATGGCTCTT
1 GAGCTTCCCGA-TATGGCTCTT
47098141 ATGAGTTTCC
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
23 19 0.34
24 28 0.50
25 9 0.16
ACGTcount: A:0.15, C:0.20, G:0.22, T:0.43
Consensus pattern (24 bp):
GAGCTTCCCGATATGGCTCTTTGT
Found at i:47098097 original size:23 final size:24
Alignment explanation
Indices: 47098026--47098125 Score: 69
Period size: 23 Copynumber: 4.2 Consensus size: 24
47098016 CTCACTTGAA
**
47098026 CTTCCCTATATATGGCTATCCG-GAG
1 CTTCCC-A-ATATGGCTATTTGTGAG
** * *
47098051 CTTCCCGTTATGGCTCTTTTTGAG
1 CTTCCCAATATGGCTATTTGTGAG
47098075 CTTCCCAATA-GGCTATTTGTGAG
1 CTTCCCAATATGGCTATTTGTGAG
** * * *
47098098 CTTCCTGATATGGTTCTTTGTGAA
1 CTTCCCAATATGGCTATTTGTGAG
47098122 CTTC
1 CTTC
47098126 TTGATTATGG
Statistics
Matches: 58, Mismatches: 15, Indels: 5
0.74 0.19 0.06
Matches are distributed among these distances:
23 27 0.47
24 25 0.43
25 6 0.10
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (24 bp):
CTTCCCAATATGGCTATTTGTGAG
Found at i:47098140 original size:25 final size:24
Alignment explanation
Indices: 47098059--47098140 Score: 76
Period size: 23 Copynumber: 3.4 Consensus size: 24
47098049 AGCTTCCCGT
* * **
47098059 TATGGCTCTTTTTGAGCTTCCCAA
1 TATGGCTCTTTGTGAACTTCCTGA
* *
47098083 TA-GGCTATTTGTGAGCTTCCTGA
1 TATGGCTCTTTGTGAACTTCCTGA
* *
47098106 TATGGTTCTTTGTGAACTTCTTGA
1 TATGGCTCTTTGTGAACTTCCTGA
47098130 TTATGGCTCTT
1 -TATGGCTCTT
47098141 ATGAGTTTCC
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
23 19 0.40
24 19 0.40
25 9 0.19
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (24 bp):
TATGGCTCTTTGTGAACTTCCTGA
Found at i:47101847 original size:69 final size:67
Alignment explanation
Indices: 47101737--47101878 Score: 243
Period size: 69 Copynumber: 2.1 Consensus size: 67
47101727 AATGGTTCAG
47101737 GTAC-ATGTGAAGTTAAATGCTCATGAAAAAGGTAAGTGTAGTACTTGAGGTGATAATA-GAATT
1 GTACGATGTGAAGTTAAATGCTCATGAAAAAGGTAAGTGTAGTACTTGAGGTGATAATATGAATT
47101800 AT
66 AT
47101802 GTACGATGTGAAGTTAAATTGCTCATGAAAGTAAGGTAAGTGTAGTACTTGAGGTGATAATATGA
1 GTACGATGTGAAGTTAAA-TGCTCATGAAA--AAGGTAAGTGTAGTACTTGAGGTGATAATATGA
47101867 ATTAT
63 ATTAT
47101872 GTACGAT
1 GTACGAT
47101879 AAAAGGGTGA
Statistics
Matches: 72, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
65 4 0.06
66 13 0.18
67 11 0.15
69 30 0.42
70 14 0.19
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (67 bp):
GTACGATGTGAAGTTAAATGCTCATGAAAAAGGTAAGTGTAGTACTTGAGGTGATAATATGAATT
AT
Found at i:47107196 original size:21 final size:22
Alignment explanation
Indices: 47107159--47107206 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
47107149 CTCGTTAACA
* *
47107159 AATTTGTTCATTTTTTAGAGGC
1 AATTTGTTCAATTTTTAGAGAC
*
47107181 AATTTGTT-AATTTTTATAGAC
1 AATTTGTTCAATTTTTAGAGAC
47107202 AATTT
1 AATTT
47107207 ATTTTTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.52
Consensus pattern (22 bp):
AATTTGTTCAATTTTTAGAGAC
Found at i:47110036 original size:42 final size:42
Alignment explanation
Indices: 47109977--47110063 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
47109967 AAAAACAACT
*
47109977 TTTTGACCTTGCCCTTGATGCAATGGAGATGATAGGGATGAG
1 TTTTGACCTTGCCCTTGATACAATGGAGATGATAGGGATGAG
47110019 TTTTGACCTTGCCCTTGATACAATGGAGATGATAGGGATGAG
1 TTTTGACCTTGCCCTTGATACAATGGAGATGATAGGGATGAG
47110061 TTT
1 TTT
47110064 GTTTTAGTTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (42 bp):
TTTTGACCTTGCCCTTGATACAATGGAGATGATAGGGATGAG
Found at i:47111530 original size:25 final size:25
Alignment explanation
Indices: 47111501--47111550 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
47111491 ATAGTAAGAG
*
47111501 ATAGAATAAAAATTATGAAAAGTAA
1 ATAGAATAAAAAATATGAAAAGTAA
47111526 ATAGAATAAAAAATATGAAAAGTAA
1 ATAGAATAAAAAATATGAAAAGTAA
47111551 GTAAAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (25 bp):
ATAGAATAAAAAATATGAAAAGTAA
Found at i:47111554 original size:29 final size:27
Alignment explanation
Indices: 47111493--47111555 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
47111483 ATATTTGCAT
* *
47111493 AGTAAG-AGATAGAATAAAAATTATGA
1 AGTAAGTAAATAGAATAAAAAATATGA
47111519 A--AAGTAAATAGAATAAAAAATATGAAA
1 AGTAAGTAAATAGAATAAAAAATATG--A
47111546 AGTAAGTAAA
1 AGTAAGTAAA
47111556 ATATAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
24 3 0.10
25 17 0.57
26 1 0.03
27 2 0.07
29 7 0.23
ACGTcount: A:0.63, C:0.00, G:0.16, T:0.21
Consensus pattern (27 bp):
AGTAAGTAAATAGAATAAAAAATATGA
Found at i:47111558 original size:25 final size:25
Alignment explanation
Indices: 47111505--47111558 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
47111495 TAAGAGATAG
* *
47111505 AATAAAAATTATGAAAAGTAAATAG
1 AATAAAAAATATGAAAAGTAAATAA
*
47111530 AATAAAAAATATGAAAAGTAAGTAA
1 AATAAAAAATATGAAAAGTAAATAA
47111555 AATA
1 AATA
47111559 TAAATAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (25 bp):
AATAAAAAATATGAAAAGTAAATAA
Found at i:47114093 original size:22 final size:22
Alignment explanation
Indices: 47114068--47114112 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
47114058 TATTCTAGTG
47114068 TAATTTATACATTTTAATTTTA
1 TAATTTATACATTTTAATTTTA
47114090 TAATTTATACATTTTAATTTTA
1 TAATTTATACATTTTAATTTTA
47114112 T
1 T
47114113 TATAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TAATTTATACATTTTAATTTTA
Found at i:47114263 original size:21 final size:21
Alignment explanation
Indices: 47114238--47114277 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
47114228 CATTTAGTAT
47114238 TTTTAATATGATGTATTTACA
1 TTTTAATATGATGTATTTACA
*
47114259 TTTTAATATGATGTCTTTA
1 TTTTAATATGATGTATTTA
47114278 AGTGTTTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (21 bp):
TTTTAATATGATGTATTTACA
Found at i:47114876 original size:22 final size:22
Alignment explanation
Indices: 47114850--47114902 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
47114840 AAATTGTAGC
* *
47114850 AAAATAGGAAGAAAACAACAAG
1 AAAATAGCAAGAAAACAACAAA
* * *
47114872 AAAATATCAATAAAATAACAAA
1 AAAATAGCAAGAAAACAACAAA
47114894 AAAATAGCA
1 AAAATAGCA
47114903 TATTTTTTTG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.11
Consensus pattern (22 bp):
AAAATAGCAAGAAAACAACAAA
Found at i:47115211 original size:15 final size:15
Alignment explanation
Indices: 47115187--47115224 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
47115177 ATATAGTAAA
*
47115187 ATATTAAAAATATAT
1 ATATTAAAAAAATAT
*
47115202 ATATTTAAAAAATAT
1 ATATTAAAAAAATAT
47115217 ATATTAAA
1 ATATTAAA
47115225 GGTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATATTAAAAAAATAT
Found at i:47121335 original size:46 final size:48
Alignment explanation
Indices: 47121285--47121699 Score: 291
Period size: 46 Copynumber: 8.8 Consensus size: 48
47121275 TTATTTGTGT
* *
47121285 GCCAGTGTAAGA-CATGTCTGGGACAT-ACATTGGCCACATTATGA-GA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACATTATGATGA
47121331 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG--CATTGA-GATGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATT-ATGATGA
* * *
47121377 GGGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGC-C-TCGA-GATGTAA
1 --GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAT-TATGATG--A
* * * *
47121425 GCCAGTGTAAGA-AATGTCTGGGACAT-GCATTGGCTAC--GA-GATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACATTATGATGA
* * * *
47121469 GTCAGTGTAAAACCATGTCTGGGACATGGCATCGG--CATGTATAGAGGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAT-TAT-GATGA
* *
47121517 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAATATG-TGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-ATTATGAT--GA
* * * * *
47121567 GCTAGTGTAAGACCATGTCTGGGACATGACGTCGGCCTCGATTTTGATG-
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CAC-ATTATGATGA
* * *
47121616 GTCAATGTAAGACCATGTCTGGGACATGGCAT-TG-AC-TTGATGGATGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATT-AT-GATGA
* *
47121663 GCCAGTGTAAAACCATGTCTGGGACATGGCGTCGGCA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
47121700 TTATACCCTA
Statistics
Matches: 298, Mismatches: 40, Indels: 59
0.75 0.10 0.15
Matches are distributed among these distances:
43 1 0.00
44 12 0.04
45 20 0.07
46 76 0.26
47 56 0.19
48 58 0.19
49 29 0.10
50 37 0.12
51 8 0.03
52 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.24
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATTATGATGA
Found at i:47123384 original size:56 final size:56
Alignment explanation
Indices: 47123206--47123353 Score: 260
Period size: 56 Copynumber: 2.6 Consensus size: 56
47123196 TCCAACTTGT
47123206 GATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATC
1 GATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATC
* * *
47123262 AATATGTGATTTCGATATATGTGTGCGTGTAAGACCACGTTTAATACGTTGGCATC
1 GATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATC
*
47123318 GATATGTGATTCCGATATATGTGTACGAGTAAGACC
1 GATATGTGATTCCGATATATGTGTGCGAGTAAGACC
47123354 TTGTATTAGA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 85 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (56 bp):
GATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATC
Found at i:47125014 original size:15 final size:15
Alignment explanation
Indices: 47124996--47125043 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
47124986 TTGATGATTG
47124996 AAATTATGATCATTT
1 AAATTATGATCATTT
* *
47125011 AAATATATTTGATGATTG
1 AAAT-TA--TGATCATTT
47125029 AAATTATGATCATTT
1 AAATTATGATCATTT
47125044 GAATAGTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
15 11 0.42
16 2 0.08
17 2 0.08
18 11 0.42
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (15 bp):
AAATTATGATCATTT
Found at i:47125022 original size:33 final size:33
Alignment explanation
Indices: 47124980--47125048 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
47124970 TCTTGTGTAT
47124980 ATATATTTGATGATTGAAATTATGATCATTTAA
1 ATATATTTGATGATTGAAATTATGATCATTTAA
*
47125013 ATATATTTGATGATTGAAATTATGATCATTTGA
1 ATATATTTGATGATTGAAATTATGATCATTTAA
47125046 ATA
1 ATA
47125049 GTAAAAAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (33 bp):
ATATATTTGATGATTGAAATTATGATCATTTAA
Found at i:47125032 original size:18 final size:18
Alignment explanation
Indices: 47124980--47125032 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
47124970 TCTTGTGTAT
47124980 ATATATTTGATGATTGAA
1 ATATATTTGATGATTGAA
* *
47124998 AT-TA--TGATCATTTAA
1 ATATATTTGATGATTGAA
47125013 ATATATTTGATGATTGAA
1 ATATATTTGATGATTGAA
47125031 AT
1 AT
47125033 TATGATCATT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 11 0.39
16 2 0.07
17 2 0.07
18 13 0.46
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (18 bp):
ATATATTTGATGATTGAA
Found at i:47130248 original size:15 final size:15
Alignment explanation
Indices: 47130228--47130258 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
47130218 TTTTACTTAG
*
47130228 TAGTTTTATTTAATT
1 TAGTTTAATTTAATT
47130243 TAGTTTAATTTAATT
1 TAGTTTAATTTAATT
47130258 T
1 T
47130259 TTATAGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TAGTTTAATTTAATT
Found at i:47151236 original size:42 final size:43
Alignment explanation
Indices: 47151184--47151291 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 43
47151174 TTGATGCCAC
* * *
47151184 TGTCCCAGACAGGGTCTTATACG-AAATCAGATA-CGATGACAA
1 TGTCCCAGACAGGGTCTTACACGTAAAACA-AAAGCGATGACAA
* *
47151226 TGTCCCAGACATGGTCTTACACGTAAAACAAAAGTCGATGCCAA
1 TGTCCCAGACAGGGTCTTACACGTAAAACAAAAG-CGATGACAA
47151270 TGTCCCAGAC-GTGGTCTTACAC
1 TGTCCCAGACAG-GGTCTTACAC
47151292 AATATCACAT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
42 23 0.41
43 5 0.09
44 28 0.50
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (43 bp):
TGTCCCAGACAGGGTCTTACACGTAAAACAAAAGCGATGACAA
Found at i:47151278 original size:44 final size:43
Alignment explanation
Indices: 47151134--47151291 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
47151124 AGCATATACA
* * * * *
47151134 ATGCCAACGTCCCAGACGTGGTATTACATGT-AATCAAACATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAA-ATCG
* * * *
47151177 ATGCCACTGTCCCAGACAGGGTCTTATACG-AAATC-AGATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAAAT-CG
* *
47151219 ATGACAATGTCCCAGACATGGTCTTACACGTAAAACAAAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAAA-TCG
*
47151263 ATGCCAATGTCCCAGACGTGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
47151292 AATATCACAT
Statistics
Matches: 93, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
41 2 0.02
42 28 0.30
43 31 0.33
44 31 0.33
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAAATCG
Found at i:47154549 original size:40 final size:41
Alignment explanation
Indices: 47154465--47154606 Score: 134
Period size: 40 Copynumber: 3.5 Consensus size: 41
47154455 ACATTCAAAT
* * * * *
47154465 GCCTTCGGGACATAGCCCGG-TTACAGTAAC-TCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATT-TAGTCACTTAGCACGAAA
* * *
47154505 GCCTTCGGGACTCAACCCGGATTTAGT-AGCTT-GCTCGAAA
1 GCCTTCGGGACTTAGCCCGGATTTAGTCA-CTTAGCACGAAA
*
47154545 GCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCAC-AAA
1 GCCTTCGGGA-CTTAGCCCGGATTTAGTCACTTAGCACGAAA
47154585 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
47154607 ATCATTCGAA
Statistics
Matches: 84, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
39 4 0.05
40 70 0.83
41 10 0.12
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATTTAGTCACTTAGCACGAAA
Found at i:47157167 original size:15 final size:15
Alignment explanation
Indices: 47157121--47157167 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
47157111 GAAAACCGAG
*
47157121 TAAAGAAATCCAAGA
1 TAAAGAAATCCAAAA
* * *
47157136 TAGAGAAACCCAGAA
1 TAAAGAAATCCAAAA
47157151 TAAAGAAATCCAAAA
1 TAAAGAAATCCAAAA
47157166 TA
1 TA
47157168 CGATACTATG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.60, C:0.15, G:0.13, T:0.13
Consensus pattern (15 bp):
TAAAGAAATCCAAAA
Found at i:47164391 original size:42 final size:42
Alignment explanation
Indices: 47164278--47164447 Score: 135
Period size: 43 Copynumber: 4.0 Consensus size: 42
47164268 CGGAAAGCAT
* * * *
47164278 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
* * * * *
47164320 ACATCAATGCCACTGTCCTAGACAGGGTCTTACACGAAATCAG
1 ATA-CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
* * *
47164363 ATACGATGCCAATGTCCCAGATATGGTCTTACACGTAAAACAA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACG-AAATCAA
* ** * * *
47164406 A-AGTCGATGCCAACATCCTAAACATGGTCTTACACGATATCA
1 ATA--CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
47164448 CATATCGAAA
Statistics
Matches: 100, Mismatches: 24, Indels: 7
0.76 0.18 0.05
Matches are distributed among these distances:
42 30 0.30
43 43 0.43
44 27 0.27
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (42 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
Found at i:47167749 original size:38 final size:38
Alignment explanation
Indices: 47167693--47167772 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
47167683 GATGTGTATC
* * * *
47167693 CGGGTTAAATCCCGCAGGCTTCGTGCTAGTATTATATT
1 CGGGATAAATCCCACAGGCCTAGTGCTAGTATTATATT
*
47167731 CGGGATAAATCCCACAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCACAGGCCTAGTGCTAGTATTATATT
47167769 CGGG
1 CGGG
47167773 CCTTCGTGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (38 bp):
CGGGATAAATCCCACAGGCCTAGTGCTAGTATTATATT
Found at i:47167823 original size:27 final size:27
Alignment explanation
Indices: 47167786--47167852 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
47167776 TCGTGCCTAG
47167786 CAGG-CTTCGTGCCGGTGATGTGTATT
1 CAGGCCTTCGTGCCGGTGATGTGTATT
47167812 CAGGCCTTCGTGCCGGTGATGTGTATT
1 CAGGCCTTCGTGCCGGTGATGTGTATT
47167839 CAGGCCTTCGTGCC
1 CAGGCCTTCGTGCC
47167853 TAGCAGGCGT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 4 0.10
27 36 0.90
ACGTcount: A:0.10, C:0.25, G:0.33, T:0.31
Consensus pattern (27 bp):
CAGGCCTTCGTGCCGGTGATGTGTATT
Found at i:47168257 original size:45 final size:45
Alignment explanation
Indices: 47168189--47168323 Score: 118
Period size: 45 Copynumber: 3.1 Consensus size: 45
47168179 TTGATTTGAT
* * * *
47168189 TATTCGAGCCTTT-GAGCTTAGCAGACTATAATGCCAGTGAGAT-A
1 TATTCG-GGCTTTCGAGCCTAGCAGACTATAATACCAGTGAAATGA
* *
47168233 CTATTCGGGCTTTCGAGCCTAGCAGGCTATAATACCGGTGAAATGA
1 -TATTCGGGCTTTCGAGCCTAGCAGACTATAATACCAGTGAAATGA
* * * * *
47168279 TA-TCGGGC-CTCGAGCCTAGCAGGC-GTAATGCCGGTGAAATGA
1 TATTCGGGCTTTCGAGCCTAGCAGACTATAATACCAGTGAAATGA
47168321 TAT
1 TAT
47168324 GTTACGTGAA
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
42 18 0.23
43 15 0.19
44 11 0.14
45 33 0.42
46 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (45 bp):
TATTCGGGCTTTCGAGCCTAGCAGACTATAATACCAGTGAAATGA
Found at i:47168650 original size:443 final size:442
Alignment explanation
Indices: 47167841--47168758 Score: 1692
Period size: 443 Copynumber: 2.1 Consensus size: 442
47167831 TGTGTATTCA
* * *
47167841 GGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGAAATGATATGTTCTTGAATTCGGTGTTCCTTGT
1 GGCC-TCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATGTTCGTGAATTCGGTGTTCCTTAT
47167906 AAGATAAGGGTTTAGCCGAATGTTAAAGATGAAATGATAGTGTATTGTATCATGCTTATATGGCC
65 AAGATAAGGGTTTAGCCGAATGTTAAAGATGAAATGATAGTGTATTGTATCATGCTTATATGGCC
47167971 TAATGACAAGTATAACATGTTGGTAAATATACAATGTGCTTTCATAATCGAACGATAAGTTTGAA
130 TAATGACAAGTATAACATGTTGGTAAATATACAATGTGCTTTCATAATCGAACGATAAGTTTGAA
47168036 ATGAATGTGAGTAAAATGTTATGCATAAGCTATCAAATGCTAAGTGTGAAAATGAGATGAAAGAA
195 ATGAATGTGAGTAAAATGTTATGCATAAGCTATCAAATGCTAAGTGTGAAAATGAGATGAAAGAA
*
47168101 AAGTGTTTGAGATGTATAATTACATACGTTCGAATGATGTTAGTACTTAATTGATATGAATATGT
260 AAGTGTTTGAAATGTATAATTACATACGTTCGAATGATGTTAGTACTTAATTGATATGAATATGT
47168166 TATATGGAACTTGTTGATTTGATTATTCGAGCCTTTGAGCTTAGCAGACTATAATGCCAGTGAGA
325 TATATGGAACTTGTTGATTTGATTATTCGAGCCTTTGAGCTTAGCAGACTATAATGCCAGTGAGA
*
47168231 TACTATTCGGGCTTTCGAGCCTAGCAGGCTATAATACCGGTGAAATGATATCG
390 TACTATTCGGGATTTCGAGCCTAGCAGGCTATAATACCGGTGAAATGATATCG
47168284 GGCCTCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATGTTACGTGAATTCGGTGTTCCTTAT
1 GGCCTCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATGTT-CGTGAATTCGGTGTTCCTTAT
47168349 AAGATAAGGGTTTAGCCGAATGTTAAAGATGAAATGATAGTGTATTGTATCATGCTTATATGGCC
65 AAGATAAGGGTTTAGCCGAATGTTAAAGATGAAATGATAGTGTATTGTATCATGCTTATATGGCC
* * *
47168414 TAATGGCAAGTATAACATGTTGGTAAATATGCAATGTGCTTTTATAATCGAACGATAAGTTTGAA
130 TAATGACAAGTATAACATGTTGGTAAATATACAATGTGCTTTCATAATCGAACGATAAGTTTGAA
* *
47168479 ATGAATGTGAGTGAAATGTTATGCCTAAGCTATCAAATGCTAAGTGTGAAAATGAGATGAAAGAA
195 ATGAATGTGAGTAAAATGTTATGCATAAGCTATCAAATGCTAAGTGTGAAAATGAGATGAAAGAA
47168544 AAGTGTTTGAAATGTATAATTACATACGTTCGAATGATGTTAGTACTTAATTGATATGAATATGT
260 AAGTGTTTGAAATGTATAATTACATACGTTCGAATGATGTTAGTACTTAATTGATATGAATATGT
47168609 TATATGGAACTTGTTGATTTGATTATTCGAGCCTTTGAGCTTAGCAGACTATAATGCCAGTGAGA
325 TATATGGAACTTGTTGATTTGATTATTCGAGCCTTTGAGCTTAGCAGACTATAATGCCAGTGAGA
* *
47168674 TACTATTCGGGATTTCGAGCCTAGCAGGCTATAATGCTGGTGAAATGATATCG
390 TACTATTCGGGATTTCGAGCCTAGCAGGCTATAATACCGGTGAAATGATATCG
* *
47168727 GGCCTCGAGCCTAGCAGGAGAAATGCCGGTGA
1 GGCCTCGAGCCTAGCAGGCGTAATGCCGGTGA
47168759 TTTGAGAAAA
Statistics
Matches: 460, Mismatches: 14, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
442 38 0.08
443 422 0.92
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (442 bp):
GGCCTCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATGTTCGTGAATTCGGTGTTCCTTATA
AGATAAGGGTTTAGCCGAATGTTAAAGATGAAATGATAGTGTATTGTATCATGCTTATATGGCCT
AATGACAAGTATAACATGTTGGTAAATATACAATGTGCTTTCATAATCGAACGATAAGTTTGAAA
TGAATGTGAGTAAAATGTTATGCATAAGCTATCAAATGCTAAGTGTGAAAATGAGATGAAAGAAA
AGTGTTTGAAATGTATAATTACATACGTTCGAATGATGTTAGTACTTAATTGATATGAATATGTT
ATATGGAACTTGTTGATTTGATTATTCGAGCCTTTGAGCTTAGCAGACTATAATGCCAGTGAGAT
ACTATTCGGGATTTCGAGCCTAGCAGGCTATAATACCGGTGAAATGATATCG
Found at i:47170007 original size:44 final size:46
Alignment explanation
Indices: 47169956--47170058 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 46
47169946 TCGGGGACAT
* *
47169956 GGCATCGGCTC-GACT-T-GTGCTAAGCGTAAGACCTATCCGGGATA
1 GGCATCGGCACAGACTATAGTGCT-AGCGTAAGACCTATCCGGAATA
* *
47170000 GGCATCGGCACAGCCTAGTGAGTGCTAGTGTAAGACCTATCCGGAATA
1 GGCATCGGCACAGACTA-T-AGTGCTAGCGTAAGACCTATCCGGAATA
*
47170048 GGCATCAGCAC
1 GGCATCGGCAC
47170059 GGGCAGAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
44 10 0.20
45 3 0.06
47 1 0.02
48 30 0.61
49 5 0.10
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.20
Consensus pattern (46 bp):
GGCATCGGCACAGACTATAGTGCTAGCGTAAGACCTATCCGGAATA
Found at i:47170082 original size:48 final size:48
Alignment explanation
Indices: 47169982--47170084 Score: 120
Period size: 48 Copynumber: 2.1 Consensus size: 48
47169972 GTGCTAAGCG
* * * *
47169982 TAAGACCTATCCGGGATAGGCATCGGCACAGCCTAGTGAGTGCTAGTG
1 TAAGACCTATCCGGAATAGGCATCAGCACAGCCTAGTGAGAGCTAGTA
* *
47170030 TAAGACCTATCCGGAATAGGCATCAGCACGGGC-AGAAT-AGAGCTAGTA
1 TAAGACCTATCCGGAATAGGCATCAGCACAGCCTAG--TGAGAGCTAGTA
47170078 TAAGACC
1 TAAGACC
47170085 ATAGTTGGAC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 2 0.04
48 44 0.94
49 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.18
Consensus pattern (48 bp):
TAAGACCTATCCGGAATAGGCATCAGCACAGCCTAGTGAGAGCTAGTA
Found at i:47179928 original size:19 final size:19
Alignment explanation
Indices: 47179904--47179972 Score: 111
Period size: 19 Copynumber: 3.6 Consensus size: 19
47179894 CGGGTAAGGG
47179904 ACACGGGCGTGTCCCAAGC
1 ACACGGGCGTGTCCCAAGC
*
47179923 ACACGGGTGTGTCCCAAGC
1 ACACGGGCGTGTCCCAAGC
* *
47179942 ACATGGGCATGTCCCAAGC
1 ACACGGGCGTGTCCCAAGC
47179961 ACACGGGCGTGT
1 ACACGGGCGTGT
47179973 GAGTCTTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.22, C:0.32, G:0.32, T:0.14
Consensus pattern (19 bp):
ACACGGGCGTGTCCCAAGC
Found at i:47185367 original size:27 final size:27
Alignment explanation
Indices: 47185315--47185369 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
47185305 TACTATTCTG
* *
47185315 GTGGCTTTGCCACGTATTCTGATATTA
1 GTGGCTATGCCACGTATTCCGATATTA
*
47185342 GTGGCTATGCCACGT-TTACCGCTATTA
1 GTGGCTATGCCACGTATT-CCGATATTA
47185369 G
1 G
47185370 CAGCTTTGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (27 bp):
GTGGCTATGCCACGTATTCCGATATTA
Found at i:47185577 original size:33 final size:33
Alignment explanation
Indices: 47185539--47185601 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
47185529 ATAGGCTCAC
* * *
47185539 ACTGTTACTGCATAGGGCTTAGGCCCAGACTGT
1 ACTGTTAATGAATAGGGCTCAGGCCCAGACTGT
*
47185572 ACTGTTAATGAATAGGGCTCAGGCCTAGAC
1 ACTGTTAATGAATAGGGCTCAGGCCCAGAC
47185602 CATTACTGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (33 bp):
ACTGTTAATGAATAGGGCTCAGGCCCAGACTGT
Found at i:47188024 original size:40 final size:40
Alignment explanation
Indices: 47187979--47188144 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
47187969 CGGAATATAA
47187979 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
47188019 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
47188059 CCGGATATAGCCATTAGCACAATTGCCTTTGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
47188099 CCGGATATAATTTCCAGCATAATTGTCTTC-GG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
47188137 CCGGATAT
1 CCGGATAT
47188145 CATTCAATTC
Statistics
Matches: 100, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
38 13 0.13
39 3 0.03
40 84 0.84
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:47195037 original size:29 final size:29
Alignment explanation
Indices: 47194998--47195072 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
47194988 GGTTGAGAGA
* *
47194998 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
* *
47195027 ATGGCACTAAGTGTGAGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
47195056 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
47195073 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:47195113 original size:2 final size:2
Alignment explanation
Indices: 47195108--47195139 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
47195098 GCGAACCCAC
47195108 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
47195140 TTTCTATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47204807 original size:30 final size:30
Alignment explanation
Indices: 47204773--47204831 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
47204763 TCCTTAACTC
47204773 AAACTTTGGAAAATTTACAATTTTGCCCCA
1 AAACTTTGGAAAATTTACAATTTTGCCCCA
* * * *
47204803 AAACTTTTGCATATTTACACTTTTGCCCC
1 AAACTTTGGAAAATTTACAATTTTGCCCC
47204832 TAGGCTCGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (30 bp):
AAACTTTGGAAAATTTACAATTTTGCCCCA
Found at i:47213609 original size:40 final size:39
Alignment explanation
Indices: 47213444--47213627 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
47213434 AAATTGAATG
* * *
47213444 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
47213484 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
47213524 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
47213564 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
47213603 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
47213628 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:47213652 original size:80 final size:81
Alignment explanation
Indices: 47213484--47213672 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
47213474 GCTGGAAATT
* * * *
47213484 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
47213549 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
47213565 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
47213628 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
47213644 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
47213673 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:47222807 original size:40 final size:39
Alignment explanation
Indices: 47222642--47222825 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
47222632 AAATTGAATG
* * *
47222642 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
47222682 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
47222722 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
47222762 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
47222801 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
47222826 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:47222808 original size:80 final size:80
Alignment explanation
Indices: 47222686--47222834 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
47222676 GAAATTATAA
* * * *
47222686 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
47222751 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
47222766 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
47222830 GTGCG
65 GTGCG
47222835 GGTTACCATA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:47222850 original size:80 final size:81
Alignment explanation
Indices: 47222682--47222853 Score: 179
Period size: 80 Copynumber: 2.1 Consensus size: 81
47222672 GCTGGAAATT
* * * *
47222682 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
47222747 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
47222763 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
47222826 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
47222842 ATAACCGGGCTA
1 ATAACCGGGCTA
47222854 TGTCCGAAGG
Statistics
Matches: 73, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
79 2 0.03
80 71 0.97
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:47224738 original size:35 final size:36
Alignment explanation
Indices: 47224698--47224776 Score: 115
Period size: 35 Copynumber: 2.2 Consensus size: 36
47224688 GCGGGTTTTA
* *
47224698 ACCCGGATAAAATCTCCACACGTGGTCAT-GGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATCGGTCTT
*
47224733 ACCCGGACAGAATCTCCACACGTAGTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATC-GGTCTT
47224770 ACCCGGA
1 ACCCGGA
47224777 ATATATTTCC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
35 26 0.67
37 13 0.33
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.22
Consensus pattern (36 bp):
ACCCGGACAAAATCTCCACACGTAGTCATCGGTCTT
Found at i:47224962 original size:48 final size:48
Alignment explanation
Indices: 47224895--47225016 Score: 165
Period size: 48 Copynumber: 2.5 Consensus size: 48
47224885 CACATTTGAT
* * *
47224895 CATTCGGCTTTA-CAAATATACATCTCTCATACATATTTCATATTAGC
1 CATTCGGCTTTACCACATATACATATCTCATACATATCTCATATTAGC
* *
47224942 CATTTGGCTTTACCACATATACATATCTCATACATGTCTCATATTAGC
1 CATTCGGCTTTACCACATATACATATCTCATACATATCTCATATTAGC
* *
47224990 CATTCGGCTTTAACCACACATATATAT
1 CATTCGGCTTT-ACCACATATACATAT
47225017 ATTTACCTTG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
47 11 0.17
48 41 0.63
49 13 0.20
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (48 bp):
CATTCGGCTTTACCACATATACATATCTCATACATATCTCATATTAGC
Found at i:47228861 original size:40 final size:39
Alignment explanation
Indices: 47228817--47229124 Score: 349
Period size: 40 Copynumber: 7.8 Consensus size: 39
47228807 TACACATCAC
*
47228817 CGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAACA
1 CGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAACA
* *
47228856 TCGGCACGAATACCCTTCGGGATTTAGCCCGGATATAACA
1 -CGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAACA
* *
47228896 CCGGCACGAATGCCCTTCGGGACTTAGCCCGGATACATCA
1 -CGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAACA
* *
47228936 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 C-GGCACGAATGCCCTTCGGGACTTAGCCCGGATATAACA
* *
47228976 CCGGCACGAATGCCCTTCGGGACTTAGCCCGGATACATCA
1 -CGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAACA
* * *
47229016 CTAGCACGAATGCTCTTC-GGACTTAGCCCGGATATATCA
1 C-GGCACGAATGCCCTTCGGGACTTAGCCCGGATATAACA
* * *
47229055 CTAGCACGATTG-CCTTCGGG-CTTAGCCCGGAATTAGTAACT
1 C-GGCACGAATGCCCTTCGGGACTTAGCCCGG-A-TA-TAACA
47229096 C-GCAC-AATTG-CCTTCGGGACTTAGCCCGG
1 CGGCACGAA-TGCCCTTCGGGACTTAGCCCGG
47229125 TTATCATCCG
Statistics
Matches: 237, Mismatches: 22, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
38 15 0.06
39 50 0.21
40 167 0.70
41 5 0.02
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (39 bp):
CGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAACA
Found at i:47228954 original size:80 final size:80
Alignment explanation
Indices: 47228814--47229124 Score: 411
Period size: 80 Copynumber: 3.9 Consensus size: 80
47228804 GAATACACAT
* * * * * *
47228814 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAACA-TCGGCACGAATACCCTTCGGGA
1 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGATACATCACT-AGCACGAATGCTCTTCGGGA
*
47228878 TTTAGCCCGGATATAA
65 CTTAGCCCGGATATAA
47228894 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
47228959 TTAGCCCGGATATAA
66 TTAGCCCGGATATAA
47228974 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GGAC
1 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
*
47229038 TTAGCCCGGATATAT
66 TTAGCCCGGATATAA
** * * * *
47229053 CACTAGCACGATTG-CCTTCGGG-CTTAGCCCGGAATTA-GTAACTCGCAC-AATTGC-CTTCGG
1 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGG-A-TACATCACTAGCACGAA-TGCTCTTCGG
47229113 GACTTAGCCCGG
63 GACTTAGCCCGG
47229125 TTATCATCCG
Statistics
Matches: 212, Mismatches: 14, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
77 16 0.08
78 33 0.16
79 31 0.15
80 131 0.62
81 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.22
Consensus pattern (80 bp):
CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
TTAGCCCGGATATAA
Found at i:47229023 original size:120 final size:118
Alignment explanation
Indices: 47228810--47229124 Score: 415
Period size: 120 Copynumber: 2.7 Consensus size: 118
47228800 GCCCGAATAC
** * *
47228810 ACATCACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAACATCGGCACGAATACCCTTCG
1 ACATCACTAGCACGAATG-CCTTCGGGACTTAGCCCGGATATAACATCGGCACGAATGCCCTTCG
* * *
47228875 GGATTTAGCCCGGATATAACACCGGCACGAATGCCCTTCGGGACTTAGCCCGGAT
65 GGACTTAGCCCGGATACAACACCAGCACGAATGCCCTTC-GGACTTAGCCCGGAT
*
47228930 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCGGCACGAATGCCCTTCG
1 ACATCACTAGCACGAATGC-CTTCGGGACTTAGCCCGGATATAACATCGGCACGAATGCCCTTCG
* * *
47228995 GGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGAT
65 GGACTTAGCCCGGATACAACACCAGCACGAATGCCCTTCGGACTTAGCCCGGAT
* *
47229049 ATATCACTAGCACGATTGCCTTCGGG-CTTAGCCCGGAATTAGTAAC-TC-GCAC-AATTG-CCT
1 ACATCACTAGCACGAATGCCTTCGGGACTTAGCCCGG-A-TA-TAACATCGGCACGAA-TGCCCT
47229109 TCGGGACTTAGCCCGG
62 TCGGGACTTAGCCCGG
47229125 TTATCATCCG
Statistics
Matches: 176, Mismatches: 14, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
117 31 0.18
118 14 0.08
119 36 0.20
120 95 0.54
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.22
Consensus pattern (118 bp):
ACATCACTAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACATCGGCACGAATGCCCTTCGG
GACTTAGCCCGGATACAACACCAGCACGAATGCCCTTCGGACTTAGCCCGGAT
Found at i:47231407 original size:37 final size:37
Alignment explanation
Indices: 47231365--47231445 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
47231355 CGGGGTTTTA
* *
47231365 ACCCGGATAAAATCTCCACACGTGGTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
*
47231402 ACCCGGACAGAATCTCCACACGTAGTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
47231439 ACCCGGA
1 ACCCGGA
47231446 ATATATTTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.21
Consensus pattern (37 bp):
ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
Found at i:47231675 original size:48 final size:48
Alignment explanation
Indices: 47231564--47231685 Score: 181
Period size: 48 Copynumber: 2.5 Consensus size: 48
47231554 CACATTTGAT
* * *
47231564 CATTCGGCTTTACCAAATATACATCTCTCATACATATTTCATATTAGC
1 CATTCGGCTTTACCACATATACATATCTCATACATATCTCATATTAGC
* *
47231612 CATTTGGCTTTACCACATATACATATCTCATACATGTCTCATATTAGC
1 CATTCGGCTTTACCACATATACATATCTCATACATATCTCATATTAGC
* *
47231660 CATTCGGCTTTACCACACATATATAT
1 CATTCGGCTTTACCACATATACATAT
47231686 ATTTACCTTG
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.37
Consensus pattern (48 bp):
CATTCGGCTTTACCACATATACATATCTCATACATATCTCATATTAGC
Found at i:47236471 original size:40 final size:39
Alignment explanation
Indices: 47236427--47236608 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
47236417 GTTCAAAACA
* * ** * *
47236427 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
47236467 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
47236507 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
47236546 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
47236585 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
47236609 CTCGAACATT
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:47236538 original size:39 final size:39
Alignment explanation
Indices: 47236457--47236609 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
47236447 TATGGTAACC
* *
47236457 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
47236497 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
47236536 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
47236575 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
47236610 TCGAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:47244559 original size:40 final size:39
Alignment explanation
Indices: 47244515--47244696 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
47244505 GTTCAAAACA
* * ** * *
47244515 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
47244555 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
47244595 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
47244634 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
47244673 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
47244697 CTCGAACATT
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:47244626 original size:39 final size:39
Alignment explanation
Indices: 47244545--47244697 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
47244535 TATGGTAACC
* *
47244545 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
47244585 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
47244624 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
47244663 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
47244698 TCGAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:47248836 original size:2 final size:2
Alignment explanation
Indices: 47248829--47248853 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
47248819 CGTAACTTGC
47248829 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
47248854 AGCATATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47255455 original size:67 final size:68
Alignment explanation
Indices: 47255320--47255476 Score: 289
Period size: 67 Copynumber: 2.3 Consensus size: 68
47255310 ATACTATATA
47255320 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
47255385 AAT
66 AAT
47255388 GTAGCTAGGTCACATGTGTGATACGGGATGTAT-CCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
47255452 AAT
66 AAT
* *
47255455 GTAGCTAGGTCGCATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
47255477 TCCAAGTGAA
Statistics
Matches: 87, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
67 54 0.62
68 33 0.38
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (68 bp):
GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
AAT
Found at i:47255517 original size:67 final size:64
Alignment explanation
Indices: 47255320--47255540 Score: 203
Period size: 67 Copynumber: 3.3 Consensus size: 64
47255310 ATACTATATA
* * * * * *
47255320 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCGCATGAGTGATAAGGGAAGGA-ACCATGTAGACAAGAGAGCTAC--G-GAGATA
47255385 AAT
62 AAT
* * * * * *
47255388 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCATGTAGACAAGAGAGCTACGTGAGAGATAA
1 GTAGCTAGGTCGCATGAGTGATAAGGGAAGGAACCATGTAGACAAGAGAGCTAC--G-GAGATAA
47255453 AT
63 AT
*
47255455 GTAGCTAGGTCGCATGAGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTAC-GAGATA
1 GTAGCTAGGTCGCATGAGTGA-T--AAGGGAAGGA-ACCATGTAGACAAGAGAGCTACGGAGATA
47255519 AAT
62 AAT
*
47255522 -CAGCTAGGTCGCATGAGTG
1 GTAGCTAGGTCGCATGAGTG
47255541 GTACTAAGTG
Statistics
Matches: 140, Mismatches: 9, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
66 18 0.13
67 62 0.44
68 33 0.24
70 6 0.04
71 21 0.15
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (64 bp):
GTAGCTAGGTCGCATGAGTGATAAGGGAAGGAACCATGTAGACAAGAGAGCTACGGAGATAAAT
Found at i:47258521 original size:45 final size:44
Alignment explanation
Indices: 47258471--47258620 Score: 148
Period size: 45 Copynumber: 3.4 Consensus size: 44
47258461 TATGTGTTCT
*
47258471 CATGTAAGACCACGTCTGGGACGTTGTCATCGATATATGTGGTTA
1 CATGTAAGACCACGTCTGGGACATTG-CATCGATATATGTGGTTA
* * * *
47258516 CATGTAAGACCATGTCTGGGACATCAGCATTG-TAT-T-TGATT-
1 CATGTAAGACCACGTCTGGGACAT-TGCATCGATATATGTGGTTA
* *
47258557 CGTGTAAGACC-CTGTCTGGGACATTGGCATCAATATATGTGGTTA
1 CATGTAAGACCAC-GTCTGGGACATT-GCATCGATATATGTGGTTA
* *
47258602 CGTGTAAGACCATGTCTGG
1 CATGTAAGACCACGTCTGG
47258621 AAATCGGCAT
Statistics
Matches: 85, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
41 25 0.29
42 7 0.08
43 2 0.02
44 7 0.08
45 43 0.51
46 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (44 bp):
CATGTAAGACCACGTCTGGGACATTGCATCGATATATGTGGTTA
Found at i:47258573 original size:41 final size:41
Alignment explanation
Indices: 47258518--47258643 Score: 128
Period size: 41 Copynumber: 3.0 Consensus size: 41
47258508 TGTGGTTACA
47258518 TGTAAGACCATGTCTGGGACATCAGCATTGTATTTGATTCG
1 TGTAAGACCATGTCTGGGACATCAGCATTGTATTTGATTCG
* * * * * *
47258559 TGTAAGACCCTGTCTGGGACATTGGCATCAATATATGTGGTTACG
1 TGTAAGACCATGTCTGGGACA-T--CAGCATTGTATTTGATT-CG
* * *
47258604 TGTAAGACCATGTCT-GGAAATCGGCATCGTATTTGATTCG
1 TGTAAGACCATGTCTGGGACATCAGCATTGTATTTGATTCG
47258644 ATCGAGTTAA
Statistics
Matches: 66, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
40 2 0.03
41 30 0.45
42 1 0.02
43 1 0.02
44 16 0.24
45 16 0.24
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATCAGCATTGTATTTGATTCG
Found at i:47258618 original size:86 final size:85
Alignment explanation
Indices: 47258473--47258643 Score: 254
Period size: 86 Copynumber: 2.0 Consensus size: 85
47258463 TGTGTTCTCA
* * * *
47258473 TGTAAGACCACGTCTGGGACGTTGTCATCGATATATGTGGTTACATGTAAGACCATGTCTGGGAC
1 TGTAAGACCACGTCTGGGACATTGGCATCAATATATGTGGTTACATGTAAGACCATGTCT-GGAA
*
47258538 ATCAGCATTGTATTTGATTCG
65 ATCAGCATCGTATTTGATTCG
*
47258559 TGTAAGACC-CTGTCTGGGACATTGGCATCAATATATGTGGTTACGTGTAAGACCATGTCTGGAA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCAATATATGTGGTTACATGTAAGACCATGTCTGGAA
*
47258623 ATCGGCATCGTATTTGATTCG
65 ATCAGCATCGTATTTGATTCG
47258644 ATCGAGTTAA
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
85 23 0.30
86 54 0.70
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (85 bp):
TGTAAGACCACGTCTGGGACATTGGCATCAATATATGTGGTTACATGTAAGACCATGTCTGGAAA
TCAGCATCGTATTTGATTCG
Found at i:47260939 original size:41 final size:41
Alignment explanation
Indices: 47260894--47261032 Score: 125
Period size: 41 Copynumber: 3.2 Consensus size: 41
47260884 TGTCCCCGAC
47260894 ATGGTCTTACATGGGTTTACATACAGATGCCATATCCCAGT
1 ATGGTCTTACATGGGTTTACATACAGATGCCATATCCCAGT
* * * * * * * * * *
47260935 ATGGTCTTATACGAAGTCTCATGTCGGTGCCGATGCCATGTCCTAGAC
1 ATGGTCTTACATG-GGT-T--T-AC-ATACAGATGCCATATCCCAG-T
47260983 ATGGTCTTACATGGGTTTACATACAGATGCCATATCCCAGT
1 ATGGTCTTACATGGGTTTACATACAGATGCCATATCCCAGT
47261024 ATGGTCTTA
1 ATGGTCTTA
47261033 TAGAAGTCTC
Statistics
Matches: 71, Mismatches: 20, Indels: 14
0.68 0.19 0.13
Matches are distributed among these distances:
41 20 0.28
42 17 0.24
43 2 0.03
44 1 0.01
45 1 0.01
46 2 0.03
47 17 0.24
48 11 0.15
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (41 bp):
ATGGTCTTACATGGGTTTACATACAGATGCCATATCCCAGT
Found at i:47261031 original size:89 final size:88
Alignment explanation
Indices: 47260880--47261079 Score: 355
Period size: 89 Copynumber: 2.3 Consensus size: 88
47260870 AAATGTCAAA
**
47260880 GCCATGTCCCCGACATGGTCTTACATGGGTTTACATACAGATGCCATATCCCAGTATGGTCTTAT
1 GCCATGTCCAAGACATGGTCTTACATGGGTTTACATACAGATGCCATATCCCAGTATGGTCTTAT
47260945 ACGAAGTCTCATGTCGGTGCCGAT
66 A-GAAGTCTCATGTCGGTGCCGAT
*
47260969 GCCATGTCCTAGACATGGTCTTACATGGGTTTACATACAGATGCCATATCCCAGTATGGTCTTAT
1 GCCATGTCCAAGACATGGTCTTACATGGGTTTACATACAGATGCCATATCCCAGTATGGTCTTAT
*
47261034 AGAAGTCTCATGTCGGTGCCTAT
66 AGAAGTCTCATGTCGGTGCCGAT
47261057 GCCATGTCCAAGACATGGTCTTA
1 GCCATGTCCAAGACATGGTCTTA
47261080 TACGGGACCT
Statistics
Matches: 107, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
88 43 0.40
89 64 0.60
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.30
Consensus pattern (88 bp):
GCCATGTCCAAGACATGGTCTTACATGGGTTTACATACAGATGCCATATCCCAGTATGGTCTTAT
AGAAGTCTCATGTCGGTGCCGAT
Found at i:47261117 original size:89 final size:89
Alignment explanation
Indices: 47260880--47261121 Score: 319
Period size: 89 Copynumber: 2.7 Consensus size: 89
47260870 AAATGTCAAA
** * **
47260880 GCCATGTCCCCGACATGGTCTTACATGGGTTTACATACAGATGCCATATCCCAGTATGGTCTTAT
1 GCCATGTCCAAGACATGGTCTTACACGGGCCTACATACAGATGCCATATCCCAGTATGGTCTTAT
47260945 ACGAAGTCTCATGTCGGTGCCGAT
66 ACGAAGTCTCATGTCGGTGCCGAT
* * **
47260969 GCCATGTCCTAGACATGGTCTTACATGGGTTTACATACAGATGCCATATCCCAGTATGGTCTTAT
1 GCCATGTCCAAGACATGGTCTTACACGGGCCTACATACAGATGCCATATCCCAGTATGGTCTTAT
*
47261034 A-GAAGTCTCATGTCGGTGCCTAT
66 ACGAAGTCTCATGTCGGTGCCGAT
* * *
47261057 GCCATGTCCAAGACATGGTCTTATACGGGACCT-CATATC-GATGCCATGTCCCAGACATGGTCT
1 GCCATGTCCAAGACATGGTCTTACACGGG-CCTACATA-CAGATGCCATATCCCAG-TATGGTCT
47261120 TA
63 TA
47261122 CATGAAATCT
Statistics
Matches: 140, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
88 65 0.46
89 75 0.54
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (89 bp):
GCCATGTCCAAGACATGGTCTTACACGGGCCTACATACAGATGCCATATCCCAGTATGGTCTTAT
ACGAAGTCTCATGTCGGTGCCGAT
Found at i:47261134 original size:42 final size:42
Alignment explanation
Indices: 47261055--47261166 Score: 125
Period size: 42 Copynumber: 2.7 Consensus size: 42
47261045 GTCGGTGCCT
* ** *
47261055 ATGCCATGTCCAAGACATGGTCTTATACGGGACCTCATATCG
1 ATGCCATGTCCAAGACATGGTCTTACACGAAACCTCATATCA
* * *
47261097 ATGCCATGTCCCAGACATGGTCTTACATGAAATCTCATATCA
1 ATGCCATGTCCAAGACATGGTCTTACACGAAACCTCATATCA
* * * *
47261139 ACGCCATATCCTAGATATGGTCTTACAC
1 ATGCCATGTCCAAGACATGGTCTTACAC
47261167 TGGCACACAT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGCCATGTCCAAGACATGGTCTTACACGAAACCTCATATCA
Found at i:47263798 original size:46 final size:46
Alignment explanation
Indices: 47263731--47263892 Score: 138
Period size: 46 Copynumber: 3.5 Consensus size: 46
47263721 TGTGTTCTAA
*
47263731 TGTAAAACATGTCTGGGACATGCATCGACCACATTACGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGACCACATTACGAGAGCCAG
* * *
47263777 TGTAAGACATGTCTGGGACATGCAT-TAGCCTCGA--AAGATGCAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGA-CCAC-ATTACGA-G--AGCCAG
* * * *
47263825 TGTAAGACATGTTTAGGACATGCATCG---GCATTGAGACGAGAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGACCACATT---ACGAGAGCCAG
47263871 TGTAAGACATGTCTGGGACATG
1 TGTAAGACATGTCTGGGACATG
47263893 TATCAGCCTC
Statistics
Matches: 93, Mismatches: 12, Indels: 22
0.73 0.09 0.17
Matches are distributed among these distances:
44 1 0.01
45 5 0.05
46 53 0.57
47 1 0.01
48 30 0.32
49 3 0.03
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGACCACATTACGAGAGCCAG
Found at i:47266447 original size:13 final size:13
Alignment explanation
Indices: 47266429--47266455 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47266419 ACAGCCTCTG
47266429 GCCTTGGGCGTGT
1 GCCTTGGGCGTGT
47266442 GCCTTGGGCGTGT
1 GCCTTGGGCGTGT
47266455 G
1 G
47266456 GCCCTAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.22, G:0.48, T:0.30
Consensus pattern (13 bp):
GCCTTGGGCGTGT
Found at i:47273051 original size:48 final size:46
Alignment explanation
Indices: 47272939--47273061 Score: 183
Period size: 46 Copynumber: 2.6 Consensus size: 46
47272929 TACGAGTGAC
* *
47272939 AGTGTAAGACATGTCTGGGACATGCATCGGCATTTAGATAAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGATAAGAGCT
*
47272985 AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGATA-A-GAGCT
*
47273033 AGTGTAAGACCTGTCTGGGACATGGCATC
1 AGTGTAAGACATGTCTGGGACAT-GCATC
47273062 GACACTAATA
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
46 37 0.53
47 1 0.01
48 27 0.39
49 5 0.07
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGATAAGAGCT
Found at i:47273090 original size:49 final size:46
Alignment explanation
Indices: 47272938--47273097 Score: 180
Period size: 46 Copynumber: 3.4 Consensus size: 46
47272928 TTACGAGTGA
* *
47272938 CAGTGTAAGACATGTCTGGGACATGCATCGGCATTTAGATAAGAGC
1 CAGTGTAAGACATGTCTGGGACATGCATCGACACTTAGATAAGAGC
*
47272984 TAGTGTAAGACATGTCTGGGACATGCATC-AGC-CTTGAGATATACGAGC
1 CAGTGTAAGACATGTCTGGGACATGCATCGA-CACTT-AGATA-A-GAGC
* * *
47273032 TAGTGTAAGACCTGTCTGGGACATGGCATCGACACTAATAGATGAGAGC
1 CAGTGTAAGACATGTCTGGGACAT-GCATCGACACT--TAGATAAGAGC
*
47273081 CAGTGTAAGACCTGTCT
1 CAGTGTAAGACATGTCT
47273098 AAGACACGAC
Statistics
Matches: 99, Mismatches: 6, Indels: 15
0.82 0.05 0.12
Matches are distributed among these distances:
45 2 0.02
46 34 0.34
47 1 0.01
48 27 0.27
49 26 0.26
50 4 0.04
51 4 0.04
52 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGACACTTAGATAAGAGC
Found at i:47273687 original size:13 final size:13
Alignment explanation
Indices: 47273665--47273697 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
47273655 AAGGGCTTGT
47273665 TTAT-TAAACTAA
1 TTATCTAAACTAA
47273677 TTATCTAAACTAA
1 TTATCTAAACTAA
*
47273690 TTAACTAA
1 TTATCTAA
47273698 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:47276618 original size:6 final size:6
Alignment explanation
Indices: 47276599--47276639 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
47276589 CTTTATAACC
*
47276599 AAAAAT AAACAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
47276640 ATAAGAGGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:47281722 original size:40 final size:39
Alignment explanation
Indices: 47281596--47281740 Score: 137
Period size: 40 Copynumber: 3.6 Consensus size: 39
47281586 TGCTGGAAAT
* * * * *
47281596 TATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
* * * *
47281635 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTC-G
* *
47281676 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
* * *
47281715 TGATATCCGGGTTAAGTCCCGTAGGC
1 T-ATATCCGGGCTAAGACCCGAAGGC
47281741 CTTGGTGCGG
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 1 0.01
40 84 0.99
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
Found at i:47281723 original size:80 final size:80
Alignment explanation
Indices: 47281601--47281749 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
47281591 GAAATTATAA
* * * *
47281601 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
47281666 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
47281681 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
47281745 GTGCG
65 GTGCG
47281750 GGTTACCATA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:47281765 original size:80 final size:81
Alignment explanation
Indices: 47281597--47281778 Score: 181
Period size: 80 Copynumber: 2.3 Consensus size: 81
47281587 GCTGGAAATT
* * * *
47281597 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
47281662 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
47281678 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
47281741 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* *
47281757 ATAACCGGGCTATGTCCCGAAG
1 ATAACCGGGCTAAGACCCGAAG
47281779 ACGATTGATC
Statistics
Matches: 81, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
79 2 0.02
80 79 0.98
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:47284589 original size:17 final size:17
Alignment explanation
Indices: 47284567--47284600 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
47284557 ACAAGTAATA
*
47284567 ACTTAGGTATATTTTGT
1 ACTTAGGAATATTTTGT
47284584 ACTTAGGAATATTTTGT
1 ACTTAGGAATATTTTGT
47284601 TGCATTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.18, T:0.50
Consensus pattern (17 bp):
ACTTAGGAATATTTTGT
Found at i:47285647 original size:19 final size:19
Alignment explanation
Indices: 47285623--47285686 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
47285613 TTCTTAGTTG
47285623 ATTATTTGTTCATTTATAT
1 ATTATTTGTTCATTTATAT
*
47285642 ATTATTAG--CATTCT-TAGTT
1 ATTATTTGTTCATT-TATA--T
47285661 GATTATTTGTTCATTTATAT
1 -ATTATTTGTTCATTTATAT
47285681 ATTATT
1 ATTATT
47285687 CATGCAATAG
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
17 6 0.17
18 1 0.03
19 14 0.39
20 8 0.22
21 1 0.03
22 6 0.17
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (19 bp):
ATTATTTGTTCATTTATAT
Found at i:47285651 original size:39 final size:39
Alignment explanation
Indices: 47285607--47285686 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
47285597 TGTCTTTGCC
47285607 TTAGCATTCTTAGTTGATTATTTGTTCATTTATATATTA
1 TTAGCATTCTTAGTTGATTATTTGTTCATTTATATATTA
47285646 TTAGCATTCTTAGTTGATTATTTGTTCATTTATATATTA
1 TTAGCATTCTTAGTTGATTATTTGTTCATTTATATATTA
47285685 TT
1 TT
47285687 CATGCAATAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.25, C:0.07, G:0.10, T:0.57
Consensus pattern (39 bp):
TTAGCATTCTTAGTTGATTATTTGTTCATTTATATATTA
Found at i:47290377 original size:31 final size:32
Alignment explanation
Indices: 47290332--47290392 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
47290322 CTTAATAATC
*
47290332 ACATACTTTCAGTAAATGGAAATAGTGATCCA
1 ACATACTTTCAGTAAATGGAAACAGTGATCCA
*
47290364 ACATA-TTTTAGTAAATGGAAACAGTGATC
1 ACATACTTTCAGTAAATGGAAACAGTGATC
47290393 AAATCTTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 22 0.81
32 5 0.19
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (32 bp):
ACATACTTTCAGTAAATGGAAACAGTGATCCA
Found at i:47295756 original size:27 final size:28
Alignment explanation
Indices: 47295704--47295757 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
47295694 TTTAAGGGTC
* *
47295704 ACATGCCCTTGTGAACAGGCCGTGTGAG
1 ACATGCCCGTGTGAACAGGCCATGTGAG
*
47295732 ACATGCCCGTGT-CACAGGCCATGTGA
1 ACATGCCCGTGTGAACAGGCCATGTGA
47295758 AAACTAGGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.22, C:0.28, G:0.30, T:0.20
Consensus pattern (28 bp):
ACATGCCCGTGTGAACAGGCCATGTGAG
Found at i:47297065 original size:43 final size:43
Alignment explanation
Indices: 47297000--47297129 Score: 129
Period size: 43 Copynumber: 3.0 Consensus size: 43
47296990 AACTCGTACA
* * * *
47297000 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCGATGTCCCAGACATGGTCTTACAAGTAATCACATATCG
** * * * *
47297042 ATGCCTCTGTCCCAGACAGGGTCTTACACGAAATCGA-ATAACG
1 ATGCCGATGTCCCAGACATGGTCTTACAAGTAATC-ACATATCG
* *
47297085 ATGTCGATGTCCCAGACATGGTCTTACAAGTAATCACATCTCG
1 ATGCCGATGTCCCAGACATGGTCTTACAAGTAATCACATATCG
47297128 AT
1 AT
47297130 AATCTAATGT
Statistics
Matches: 69, Mismatches: 16, Indels: 5
0.77 0.18 0.06
Matches are distributed among these distances:
42 6 0.09
43 62 0.90
44 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (43 bp):
ATGCCGATGTCCCAGACATGGTCTTACAAGTAATCACATATCG
Found at i:47299445 original size:34 final size:34
Alignment explanation
Indices: 47299402--47299470 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
47299392 ATAGGGGCAA
47299402 TCTTGACACAAAATCCATACTCACTCTATCCCAT
1 TCTTGACACAAAATCCATACTCACTCTATCCCAT
47299436 TCTTGACACAAAATCCATACTCACTCTATCCCAT
1 TCTTGACACAAAATCCATACTCACTCTATCCCAT
47299470 T
1 T
47299471 TCCACTCAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.03, T:0.30
Consensus pattern (34 bp):
TCTTGACACAAAATCCATACTCACTCTATCCCAT
Found at i:47305033 original size:70 final size:71
Alignment explanation
Indices: 47304954--47305116 Score: 301
Period size: 71 Copynumber: 2.3 Consensus size: 71
47304944 CGATTTGTCT
47304954 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAAT-ACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
47305018 CTTTCA
66 CTTTCA
* *
47305024 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
47305089 CTTTCA
66 CTTTCA
47305095 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
47305117 GATACATCTC
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
70 38 0.42
71 52 0.58
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:47305154 original size:71 final size:70
Alignment explanation
Indices: 47304954--47305150 Score: 240
Period size: 71 Copynumber: 2.8 Consensus size: 70
47304944 CGATTTGTCT
* * * * *
47304954 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAAT-ACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
47305018 CTTTCA
65 CTTTCA
* * * *
47305024 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
47305089 CTTTCA
65 CTTTCA
* *
47305095 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
47305151 TACAGGGTGT
Statistics
Matches: 117, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 39 0.33
71 55 0.47
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:47307554 original size:43 final size:42
Alignment explanation
Indices: 47307436--47307555 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 42
47307426 TATCACATAT
** * *
47307436 CAATGCCTCTGTCCCAGACAGGGTCTTACATGAAATTGAATAA
1 CAATGCCAATGTCCCAGACATGGTCTTACATG-TATTGAATAA
* * * *
47307479 CGATGCCAATGTCCTATACATGTTCTTACATGTATTCAGAAT-A
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTATT--GAATAA
47307522 CAATGCCAATGTCCCAGACATGGTCTTACATGTA
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTA
47307556 ATCGCATCTC
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 3 0.05
43 56 0.89
44 4 0.06
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (42 bp):
CAATGCCAATGTCCCAGACATGGTCTTACATGTATTGAATAA
Found at i:47309004 original size:73 final size:73
Alignment explanation
Indices: 47308885--47309032 Score: 296
Period size: 73 Copynumber: 2.0 Consensus size: 73
47308875 CACAATATGA
47308885 GATGGATGAGACTGATACCGTCTTAACATGGAAACATGAAAAACATCATGTACTTCACCCAACTC
1 GATGGATGAGACTGATACCGTCTTAACATGGAAACATGAAAAACATCATGTACTTCACCCAACTC
47308950 GATGAATC
66 GATGAATC
47308958 GATGGATGAGACTGATACCGTCTTAACATGGAAACATGAAAAACATCATGTACTTCACCCAACTC
1 GATGGATGAGACTGATACCGTCTTAACATGGAAACATGAAAAACATCATGTACTTCACCCAACTC
47309023 GATGAATC
66 GATGAATC
47309031 GA
1 GA
47309033 ATCCGAGTAT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (73 bp):
GATGGATGAGACTGATACCGTCTTAACATGGAAACATGAAAAACATCATGTACTTCACCCAACTC
GATGAATC
Found at i:47312500 original size:18 final size:20
Alignment explanation
Indices: 47312464--47312510 Score: 71
Period size: 18 Copynumber: 2.5 Consensus size: 20
47312454 TCATGTCATG
47312464 TTTTAAATTTCTATGATTTT
1 TTTTAAATTTCTATGATTTT
*
47312484 TTTTATATTTC-AT-ATTTT
1 TTTTAAATTTCTATGATTTT
47312502 TTTTAAATT
1 TTTTAAATT
47312511 GTTGAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.52
19 2 0.08
20 10 0.40
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTAAATTTCTATGATTTT
Found at i:47313579 original size:21 final size:20
Alignment explanation
Indices: 47313536--47313579 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
47313526 TATTTAAAGA
*
47313536 TTTATCAATATTTCTAAAAT
1 TTTATCAAAATTTCTAAAAT
47313556 TTTATCAAAATATTC-AAGAAT
1 TTTATCAAAAT-TTCTAA-AAT
47313577 TTT
1 TTT
47313580 TCCTATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (20 bp):
TTTATCAAAATTTCTAAAAT
Found at i:47317135 original size:12 final size:12
Alignment explanation
Indices: 47317118--47317143 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47317108 ACATTTTTAT
47317118 TTATTATTAGTA
1 TTATTATTAGTA
47317130 TTATTATTAGTA
1 TTATTATTAGTA
47317142 TT
1 TT
47317144 TTCACAAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (12 bp):
TTATTATTAGTA
Found at i:47319439 original size:49 final size:48
Alignment explanation
Indices: 47319351--47319444 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 48
47319341 TAACACACCA
* *
47319351 AAATTGTGGACAAGCCACAGATATCCCAGACAAGTTGCCAGAATAGAC
1 AAATTGTGGACAAGCCACAGATATCACAGACAAGATGCCAGAATAGAC
* *
47319399 AAATATGTGGACAAGCCACCAGA-ATCACAGATATGATGCCAGAATA
1 AAAT-TGTGGACAAGCCA-CAGATATCACAGACAAGATGCCAGAATA
47319445 TGTGGATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
48 4 0.10
49 32 0.80
50 4 0.10
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.17
Consensus pattern (48 bp):
AAATTGTGGACAAGCCACAGATATCACAGACAAGATGCCAGAATAGAC
Found at i:47320792 original size:20 final size:20
Alignment explanation
Indices: 47320763--47320808 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
47320753 TCACACACCT
*
47320763 TGGGCACATGCCCATGTCCC
1 TGGGCCCATGCCCATGTCCC
47320783 TGGGCCCATGCCCATGTCCC
1 TGGGCCCATGCCCATGTCCC
47320803 TGGGCC
1 TGGGCC
47320809 ATGTCCATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.11, C:0.41, G:0.28, T:0.20
Consensus pattern (20 bp):
TGGGCCCATGCCCATGTCCC
Found at i:47321867 original size:42 final size:42
Alignment explanation
Indices: 47321749--47321911 Score: 154
Period size: 42 Copynumber: 3.9 Consensus size: 42
47321739 TCATACCAAC
* * **
47321749 GCCATATCCAAGATATGGTCTTACATGGGATCTCATATCGAT
1 GCCATATCCCAGACATGGTCTTACATGAAATCTCATATCGAT
* * * *
47321791 GCTTATAGCCCA-ACTATGGTCTTACACG-ATTCTCATATCGAT
1 GC-CATATCCCAGAC-ATGGTCTTACATGAAATCTCATATCGAT
* *
47321833 GCCATGTCCCAGACATGGTCTTACATGAAATCTCATAAT-AAT
1 GCCATATCCCAGACATGGTCTTACATGAAATCTCAT-ATCGAT
* *
47321875 ACCATATCCCAGATATGGTCTTACATGTAAA-CTCATA
1 GCCATATCCCAGACATGGTCTTACATG-AAATCTCATA
47321912 ACCCTAATGT
Statistics
Matches: 99, Mismatches: 16, Indels: 13
0.77 0.12 0.10
Matches are distributed among these distances:
41 19 0.19
42 57 0.58
43 23 0.23
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (42 bp):
GCCATATCCCAGACATGGTCTTACATGAAATCTCATATCGAT
Found at i:47325048 original size:22 final size:21
Alignment explanation
Indices: 47324995--47325039 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
47324985 TATTTGCTAG
47324995 AAAGTTGATTTTTCAAGGCAT
1 AAAGTTGATTTTTCAAGGCAT
47325016 AAAGTTGATTTTTCAAGGCAT
1 AAAGTTGATTTTTCAAGGCAT
47325037 AAA
1 AAA
47325040 CGCTTATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.36
Consensus pattern (21 bp):
AAAGTTGATTTTTCAAGGCAT
Found at i:47327092 original size:63 final size:63
Alignment explanation
Indices: 47326973--47327092 Score: 195
Period size: 63 Copynumber: 1.9 Consensus size: 63
47326963 ACTTACTAAG
* * ** *
47326973 TTAGTTTATTTTTTGTCAGTGAACATTAATTATTCTCTAGAAAAGTTAGTTGAGCTTCAGAAA
1 TTAGTTTATTTTCTGTCAATGAACATTAATTATTCTCTAGAAAAGTTAACTAAGCTTCAGAAA
47327036 TTAGTTTATTTTCTGTCAATGAACATTAATTATTCTCTAGAAAAGTTAACTAAGCTT
1 TTAGTTTATTTTCTGTCAATGAACATTAATTATTCTCTAGAAAAGTTAACTAAGCTT
47327093 TATATTTCTG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (63 bp):
TTAGTTTATTTTCTGTCAATGAACATTAATTATTCTCTAGAAAAGTTAACTAAGCTTCAGAAA
Found at i:47330362 original size:48 final size:46
Alignment explanation
Indices: 47330184--47330402 Score: 205
Period size: 47 Copynumber: 4.7 Consensus size: 46
47330174 ATATACGCGT
* *
47330184 GCCGATGCATGTCCCAGACATGTCTTACACTAGCA--CA-ACTCTTA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATACTC-TG
* * * * * ** *
47330228 GCCGATGCGTGTCCCAGAAACGTCTTACTCTGGCTA-TCTTTGTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATACTC-TG
*
47330275 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCAT-CTCTAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATACTCT-G
* * *
47330321 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACTGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATACTCTG
* *
47330369 GCCGAAGCATGTCCCAGACACGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
47330403 GCACAAATCA
Statistics
Matches: 141, Mismatches: 26, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
44 29 0.21
45 1 0.01
46 23 0.16
47 62 0.44
48 23 0.16
49 3 0.02
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATACTCTG
Found at i:47330394 original size:94 final size:91
Alignment explanation
Indices: 47330184--47330402 Score: 253
Period size: 94 Copynumber: 2.4 Consensus size: 91
47330174 ATATACGCGT
* *
47330184 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCCGATGCGTGTCCCAGAAAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTTAGCCGATGCATGTCCCAGAAAC
* * **
47330249 GTCTTACTCTGGCTATCTTTGTCGAG
66 GTCTTACACTGGCTATCATACTCGAG
* *
47330275 GCCGATGCATGTCCCAGACATGTCTTACACTGGCAC-TCATCTCTATGTCGATGCCATGTCCCAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACAAC-TCT-TA-GCCGATG-CATGTCCCAG
** * *
47330339 ACATGGTCTTACACTGGCTCTCATACT-GTG
62 A-AACGTCTTACACTGGCTATCATACTCGAG
* *
47330369 GCCGAAGCATGTCCCAGACACGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
47330403 GCACAAATCA
Statistics
Matches: 109, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
90 1 0.01
91 38 0.35
92 2 0.02
93 6 0.06
94 44 0.40
95 18 0.17
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.26
Consensus pattern (91 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTTAGCCGATGCATGTCCCAGAAAC
GTCTTACACTGGCTATCATACTCGAG
Found at i:47334217 original size:2 final size:2
Alignment explanation
Indices: 47334207--47334237 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
47334197 ATATATGTTA
47334207 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
47334238 GATGTTGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47346923 original size:47 final size:47
Alignment explanation
Indices: 47346850--47347117 Score: 206
Period size: 47 Copynumber: 5.7 Consensus size: 47
47346840 TGATTTGTGT
* * * *
47346850 GCCAGTGTAAGACGTGTCTGGGACATGCTTCGGCCACCG-TATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAGATGAGA
* *
47346896 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAGAGATGAGA
* * * * *
47346944 GCTAGTGTAAGACATGTCTGGAACATGCATCGGCCTCGACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-AGAGATGAGA
* * * * * ***
47346991 GCCAGAGTAAGACGTGTCTGGGACACGTATCGGCTA-AGAG-T-TCT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAGATGAGA
* * * * *
47347035 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CACAGAGATGAGA
* *
47347083 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
47347118 TAATATAACC
Statistics
Matches: 170, Mismatches: 40, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
44 28 0.16
45 3 0.02
46 19 0.11
47 65 0.38
48 36 0.21
49 13 0.08
50 6 0.04
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAGATGAGA
Found at i:47347014 original size:94 final size:91
Alignment explanation
Indices: 47346848--47347108 Score: 242
Period size: 94 Copynumber: 2.8 Consensus size: 91
47346838 GGTGATTTGT
* * * * *
47346848 GTGCCAGTGTAAGACGTGTCTGGGACATGCTTCGGCCACCGTATGAGAGCCAGTGTAAGACCATG
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGTATGAGAGCCAGAGTAAGACCATG
*
47346913 TCTGGGACATGGCATCGAC-ACAGAGATGA
66 TCTGGGACA-CGCATCGACTA-AGAG-T-A
* *
47346942 GTGCTAGTGTAAGACATGTCTGGAACATGCATCGGCCTCGACAG-A-GATAGCCAGAGTAAGA-C
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACAGTATGAGAGCCAGAGTAAGACC
* * * *
47347004 GTGTCTGGGACACGTATCGGCTAAGAGTT
63 ATGTCTGGGACACGCATCGACTAAGAGTA
* * * * * *
47347033 CTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATATATGAGAGCTAGTGTAAGACCA
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGC-CACA-GTATGAGAGCCAGAGTAAGACCA
*
47347098 TGTCTAGGACA
64 TGTCTGGGACA
47347109 TGGCATCGGT
Statistics
Matches: 136, Mismatches: 23, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
89 2 0.01
90 2 0.01
91 33 0.24
92 14 0.10
93 21 0.15
94 44 0.32
95 15 0.11
96 2 0.01
97 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.22
Consensus pattern (91 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGTATGAGAGCCAGAGTAAGACCATG
TCTGGGACACGCATCGACTAAGAGTA
Found at i:47354439 original size:47 final size:46
Alignment explanation
Indices: 47354366--47354633 Score: 192
Period size: 47 Copynumber: 5.7 Consensus size: 46
47354356 TGATTTGTGT
* * * *
47354366 GCCAGTGTAAGACGTATTTGGGACATGCTTCGGCCACAGTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGTATGAGA
* * ** *
47354412 GCCAATGTAAGACCATGTCTGGGACATGGCATCGG-CACAGAGACAAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAG-TATGAGA
* *
47354460 GCCAGTGTAAGACATGTCTGGAACATGCATCGGCCTC-G-ATAGAGACA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGTAT-GAG--A
* ** * * * *
47354507 GCCAGAGTAAGATGTGTCTTGGACATGTATCGGCTA-AGT-T--GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGTATGAGA
* *
47354549 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACACGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-G--TATGAGA
47354597 GCCAGTGTAAGACCATGTCTGGGACATGGTCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-G-CATCGGC
47354634 AATATATCCC
Statistics
Matches: 167, Mismatches: 35, Indels: 34
0.71 0.15 0.14
Matches are distributed among these distances:
41 1 0.01
42 27 0.16
43 1 0.01
44 2 0.01
45 3 0.02
46 20 0.12
47 61 0.37
48 32 0.19
49 14 0.08
50 1 0.01
51 5 0.03
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGTATGAGA
Found at i:47363352 original size:40 final size:40
Alignment explanation
Indices: 47363308--47363493 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
47363298 GCTACTCATT
*
47363308 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
47363348 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
47363388 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
47363428 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
47363469 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47363494 CATCATTCGA
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 3 0.02
40 118 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:47376864 original size:36 final size:36
Alignment explanation
Indices: 47376817--47376889 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
47376807 TTCAAGAGTA
*
47376817 AGAACAGCTGACTCTTGGTTGATTAATTGAAATACC
1 AGAACAACTGACTCTTGGTTGATTAATTGAAATACC
47376853 AGAACAACTGACTCTTGGTTGATTAATTGAAATACC
1 AGAACAACTGACTCTTGGTTGATTAATTGAAATACC
47376889 A
1 A
47376890 TTCTAATTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (36 bp):
AGAACAACTGACTCTTGGTTGATTAATTGAAATACC
Found at i:47377149 original size:35 final size:35
Alignment explanation
Indices: 47377103--47377172 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
47377093 TGTAGATTTT
47377103 TCTTGGTGATTCATCCATGGAAATATATTAATTAA
1 TCTTGGTGATTCATCCATGGAAATATATTAATTAA
47377138 TCTTGGTGATTCATCCATGGAAATATATTAATTAA
1 TCTTGGTGATTCATCCATGGAAATATATTAATTAA
47377173 AAAGATGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (35 bp):
TCTTGGTGATTCATCCATGGAAATATATTAATTAA
Found at i:47377529 original size:21 final size:21
Alignment explanation
Indices: 47377493--47377548 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
47377483 TAAGGACTAA
47377493 AATG-AAAA-GTTGGAAAATTT
1 AATGAAAAATGTT-GAAAATTT
47377513 AATGAAAAATGTTG-AAATTT
1 AATGAAAAATGTTGAAAATTT
* *
47377533 TATGAAAAATGCTGAA
1 AATGAAAAATGTTGAA
47377549 GTTTTATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 22 0.71
21 6 0.19
22 3 0.10
ACGTcount: A:0.50, C:0.02, G:0.18, T:0.30
Consensus pattern (21 bp):
AATGAAAAATGTTGAAAATTT
Found at i:47377530 original size:20 final size:20
Alignment explanation
Indices: 47377507--47377558 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
47377497 AAAAGTTGGA
* *
47377507 AAATTTAATGAAAAATGTTG
1 AAATTTTATGAAAAATGCTG
47377527 AAATTTTATGAAAAATGCTG
1 AAATTTTATGAAAAATGCTG
*
47377547 AAGTTTTATGAA
1 AAATTTTATGAA
47377559 TACATGTGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.46, C:0.02, G:0.15, T:0.37
Consensus pattern (20 bp):
AAATTTTATGAAAAATGCTG
Found at i:47385399 original size:22 final size:22
Alignment explanation
Indices: 47385362--47385427 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
47385352 AATATATCAC
47385362 CTCATAAAG-GCTTACTGTTCAG
1 CTCA-AAAGAGCTTACTGTTCAG
** * *
47385384 CTCGTATGAGCTTACTGTTTTAG
1 CTCAAAAGAGCTTACTG-TTCAG
47385407 CTCAAAAGAGCTTACTGTTCA
1 CTCAAAAGAGCTTACTGTTCA
47385428 TCAGCGCAAG
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
21 2 0.06
22 14 0.41
23 18 0.53
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (22 bp):
CTCAAAAGAGCTTACTGTTCAG
Found at i:47395674 original size:40 final size:40
Alignment explanation
Indices: 47395531--47395710 Score: 204
Period size: 40 Copynumber: 4.5 Consensus size: 40
47395521 GATATCTGGG
* * * * *
47395531 CTAAGTCTCGAAGGCTTTTGTGCTAAGTGACTATATCCGGA
1 CTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGA
*
47395572 CTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCCGGA
1 CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGA
* *
47395612 CTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGG
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGA
* *
47395651 TTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGG
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGA
* *
47395691 CTATGTCCCAAAGGCATTTG
1 CTAAGTCCCGAAGGCATTTG
47395711 AGTGAGTAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
39 34 0.28
40 65 0.54
41 21 0.17
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
CTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGA
Done.