Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 47 of 279
Found at i:15805125 original size:14 final size:14
Alignment explanation
Indices: 15805106--15805134 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
15805096 TGTACAACTG
15805106 TATGTATGACTTTT
1 TATGTATGACTTTT
15805120 TATGTATGACTTTT
1 TATGTATGACTTTT
15805134 T
1 T
15805135 GTGGGGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.59
Consensus pattern (14 bp):
TATGTATGACTTTT
Found at i:15811806 original size:34 final size:34
Alignment explanation
Indices: 15811763--15811873 Score: 125
Period size: 34 Copynumber: 3.3 Consensus size: 34
15811753 AAATGTATAT
* *
15811763 ATATATATTCACCTTCGGTTATGTCAAACCTTAC
1 ATATATATTCACCTTCGATTATGACAAACCTTAC
* * *
15811797 ATATATATTCACTTTCGATTAT-ACCAAGCTATAC
1 ATATATATTCACCTTCGATTATGACAAACCT-TAC
* * * *
15811831 ATATATAATCACCTTCGATTATGCCAAGCCATAC
1 ATATATATTCACCTTCGATTATGACAAACCTTAC
15811865 ATATATATT
1 ATATATATT
15811874 TATGTACTTC
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
33 5 0.08
34 54 0.87
35 3 0.05
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (34 bp):
ATATATATTCACCTTCGATTATGACAAACCTTAC
Found at i:15818931 original size:34 final size:34
Alignment explanation
Indices: 15818892--15819002 Score: 159
Period size: 34 Copynumber: 3.3 Consensus size: 34
15818882 ATAAATGTAT
* * *
15818892 ATATATATTCACCTTCGGTTATATCAAACCATAC
1 ATATATATTCACCTTCGATTATACCAAGCCATAC
* *
15818926 ATATATATTCACTTTCGATTATACCAAGCTATAC
1 ATATATATTCACCTTCGATTATACCAAGCCATAC
* *
15818960 ATATATAATCACCTTCGATTATGCCAAGCCATAC
1 ATATATATTCACCTTCGATTATACCAAGCCATAC
15818994 ATATATATT
1 ATATATATT
15819003 TATGTACTTC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (34 bp):
ATATATATTCACCTTCGATTATACCAAGCCATAC
Found at i:15820271 original size:30 final size:30
Alignment explanation
Indices: 15820236--15820296 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
15820226 TTGTGGGAGA
15820236 ACACAAGAACGAAATCCTTATAGTAAATCT
1 ACACAAGAACGAAATCCTTATAGTAAATCT
15820266 ACACAAGAACGAAATCCTTATAGTAAATCT
1 ACACAAGAACGAAATCCTTATAGTAAATCT
15820296 A
1 A
15820297 AGGGTAGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.23
Consensus pattern (30 bp):
ACACAAGAACGAAATCCTTATAGTAAATCT
Found at i:15821594 original size:41 final size:42
Alignment explanation
Indices: 15821510--15821594 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 42
15821500 TCTAGTAGGT
* *
15821510 TTAGTGCCGGTGAATTGAATCAGGCCATTGAGCCTAGCAGTC
1 TTAGTGCCGGTGAATTGAATCAAGCCATTGAGCCTAGAAGTC
*
15821552 TTAGTGCCGGTGGAA-TGAATCAAG-CTTTGAGCCTAGAAGTC
1 TTAGTGCCGGT-GAATTGAATCAAGCCATTGAGCCTAGAAGTC
15821593 TT
1 TT
15821595 CGTGTCGATG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
41 17 0.44
42 19 0.49
43 3 0.08
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (42 bp):
TTAGTGCCGGTGAATTGAATCAAGCCATTGAGCCTAGAAGTC
Found at i:15821617 original size:41 final size:41
Alignment explanation
Indices: 15821510--15821624 Score: 108
Period size: 41 Copynumber: 2.8 Consensus size: 41
15821500 TCTAGTAGGT
* * * *
15821510 TTAGTGCCGGT-GAATTGAATCAGGCCATTGAGCCTAGCAGTC
1 TTAGTGCCGATGGAA-TGAATCAAG-CTTTGAGCCTAGAAGTC
*
15821552 TTAGTGCCGGTGGAATGAATCAAGCTTTGAGCCTAGAAGTC
1 TTAGTGCCGATGGAATGAATCAAGCTTTGAGCCTAGAAGTC
* * * *
15821593 TTCGTGTCGATGGATTGTAA-CAAGCTTCGAGC
1 TTAGTGCCGATGGAATG-AATCAAGCTTTGAGC
15821625 TTAGCAAGCT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
41 39 0.62
42 21 0.33
43 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (41 bp):
TTAGTGCCGATGGAATGAATCAAGCTTTGAGCCTAGAAGTC
Found at i:15821694 original size:16 final size:16
Alignment explanation
Indices: 15821673--15821703 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15821663 TTGTATGGAA
15821673 AATGTGAAAACTAAAC
1 AATGTGAAAACTAAAC
15821689 AATGTGAAAACTAAA
1 AATGTGAAAACTAAA
15821704 TAAATATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.10, G:0.13, T:0.19
Consensus pattern (16 bp):
AATGTGAAAACTAAAC
Found at i:15826633 original size:12 final size:12
Alignment explanation
Indices: 15826616--15826642 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15826606 ATTCCGAAGT
15826616 ATATATATATAC
1 ATATATATATAC
15826628 ATATATATATAC
1 ATATATATATAC
15826640 ATA
1 ATA
15826643 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:15827157 original size:27 final size:27
Alignment explanation
Indices: 15827126--15827303 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
15827116 TAAATTGTAC
*
15827126 AGCACTAAGTGTCCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
15827153 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15827179 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
15827207 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
15827235 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15827262 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
15827289 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
15827304 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:15827240 original size:82 final size:81
Alignment explanation
Indices: 15827127--15827282 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
15827117 AAATTGTACA
* *
15827127 GCACTAAGTGTCCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTCCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
15827191 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
15827208 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTCCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
15827273 TGCGAGTTGA
65 TGCGAATTGA
15827283 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTCCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:15827294 original size:82 final size:81
Alignment explanation
Indices: 15827123--15827303 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
15827113 GATTAAATTG
* * *
15827123 TACAGCACTAAGTGTCCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
15827188 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
15827204 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
15827268 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
15827286 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
15827304 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:15835628 original size:21 final size:21
Alignment explanation
Indices: 15835572--15835628 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
15835562 CATTTTTTCT
* *
15835572 TCCTAAATTCTCAATTTTCAA
1 TCCTCAATCCTCAATTTTCAA
**
15835593 TTTTCAATCTC-CAATTTTCAA
1 TCCTCAATC-CTCAATTTTCAA
15835614 TCCTCAATCCTCAAT
1 TCCTCAATCCTCAAT
15835629 CTATAAATTG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.42
Consensus pattern (21 bp):
TCCTCAATCCTCAATTTTCAA
Found at i:15836185 original size:15 final size:15
Alignment explanation
Indices: 15836165--15836194 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
15836155 TTTTTTTAAG
15836165 TTTATTCTCTTCAAT
1 TTTATTCTCTTCAAT
15836180 TTTATTCTCTTCAAT
1 TTTATTCTCTTCAAT
15836195 CCTCAACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTATTCTCTTCAAT
Found at i:15838034 original size:93 final size:93
Alignment explanation
Indices: 15837915--15838086 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
15837905 CGCCCATAAG
* *
15837915 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCACAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
15837980 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
15838008 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
15838073 ACGAGCTCGGATGC
66 ACGAGCTCGGATGC
15838087 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.19
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:15838083 original size:46 final size:46
Alignment explanation
Indices: 15837908--15838083 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
15837898 TGTAACCCGC
* *
15837908 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
15837954 CCACAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
15838000 ACATCTCTCGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
15838047 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
15838084 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 66 0.61
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.32, G:0.20, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:15844338 original size:13 final size:13
Alignment explanation
Indices: 15844320--15844344 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15844310 GTCCTCTCTA
15844320 CAAGCATCAAACT
1 CAAGCATCAAACT
15844333 CAAGCATCAAAC
1 CAAGCATCAAAC
15844345 CAAAACATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.32, G:0.08, T:0.12
Consensus pattern (13 bp):
CAAGCATCAAACT
Found at i:15848331 original size:40 final size:40
Alignment explanation
Indices: 15848287--15848382 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
15848277 ACTGTGTTCG
15848287 GCACTAAGTGTGCGATTTGAAATAACTTCGACTATA-AATA
1 GCACTAAGTGTGCGATTTGAAATAACTTCGACTATATAA-A
* * * * *
15848327 GCACTAAGTGTGCAGA-TTGGAATAGCTTTGGCTATATAAG
1 GCACTAAGTGTGC-GATTTGAAATAACTTCGACTATATAAA
15848367 GCACTAAGTGTGCGAT
1 GCACTAAGTGTGCGAT
15848383 ACCGAGATAG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
39 2 0.04
40 42 0.88
41 4 0.08
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (40 bp):
GCACTAAGTGTGCGATTTGAAATAACTTCGACTATATAAA
Found at i:15849761 original size:15 final size:16
Alignment explanation
Indices: 15849727--15849763 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
15849717 GAAGGGACTT
15849727 TGTATGA-ATGTTTGA
1 TGTATGATATGTTTGA
15849742 T-TATGATATG-TTGA
1 TGTATGATATGTTTGA
15849756 TGTATGAT
1 TGTATGAT
15849764 TTTTATTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (16 bp):
TGTATGATATGTTTGA
Found at i:15853294 original size:38 final size:38
Alignment explanation
Indices: 15853243--15853317 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
15853233 GTATTCAGGT
* *
15853243 TAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGA
1 TAAATCCCGCAGGCCTAGTGCTGGTATTATATCCGGGA
*
15853281 TAAATCCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 TAAATCCCGCAGGCCTAGTGCTGGTATTATATCCGGG
15853318 CCTTCGTGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (38 bp):
TAAATCCCGCAGGCCTAGTGCTGGTATTATATCCGGGA
Found at i:15853370 original size:43 final size:42
Alignment explanation
Indices: 15853310--15853434 Score: 169
Period size: 43 Copynumber: 2.9 Consensus size: 42
15853300 GCTGGTATTA
*
15853310 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCAGGCCTTCGTGCCTAGCAGGCTTA-TGCCGGTGATGTG
* * *
15853353 TATTTAGGCCTTCGTGCCTAGCAAGCTTCATGCCGATGATGTG
1 TATTCAGGCCTTCGTGCCTAGCAGGCTT-ATGCCGGTGATGTG
* *
15853396 TATTCGGGCCTTCGTGCCTAGCAGGCATAATGCCGGTGA
1 TATTCAGGCCTTCGTGCCTAGCAGGC-TTATGCCGGTGA
15853435 AATGATATGT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
43 69 0.97
44 2 0.03
ACGTcount: A:0.16, C:0.24, G:0.30, T:0.30
Consensus pattern (42 bp):
TATTCAGGCCTTCGTGCCTAGCAGGCTTATGCCGGTGATGTG
Found at i:15853825 original size:45 final size:43
Alignment explanation
Indices: 15853751--15853877 Score: 127
Period size: 45 Copynumber: 2.9 Consensus size: 43
15853741 TTGACTTGAT
* * **
15853751 TATTTGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCC-TTGAGCCTAGCAGGCTATAATGCCGGTGAGA-AC
15853796 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGT--GAAC
1 TATTCGGGCCTT-GAGCCTAGCAGGCTATAATGCCGGTGAGAAC
*
15853838 TGATATCGGGCCTTGAGCCT-GACAGGCGA-AATGCCGGTGA
1 T-AT-TCGGGCCTTGAGCCTAG-CAGGCTATAATGCCGGTGA
15853878 TTTGAGAAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
42 13 0.18
43 16 0.23
44 11 0.15
45 31 0.44
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (43 bp):
TATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGAGAAC
Found at i:15858302 original size:69 final size:70
Alignment explanation
Indices: 15858170--15858302 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 70
15858160 TAGTTTATTA
* * * * *
15858170 CTAATTAATTTGCTGCTATAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTATAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
15858235 CTTAG
66 CTTAG
*
15858240 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTATAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
15858303 GTTATGTGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
69 35 0.61
70 22 0.39
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTATAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:15859745 original size:47 final size:47
Alignment explanation
Indices: 15859689--15859905 Score: 317
Period size: 47 Copynumber: 4.6 Consensus size: 47
15859679 TATTTGAATA
* * *
15859689 AATGTGAAAGTGTATATATGTGATAAGGCCTAAAGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
15859736 ATTGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
15859783 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
15859832 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
15859879 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
15859906 TCCCGAAGGG
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
47 108 0.71
49 45 0.29
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:15859815 original size:96 final size:96
Alignment explanation
Indices: 15859689--15859905 Score: 352
Period size: 96 Copynumber: 2.3 Consensus size: 96
15859679 TATTTGAATA
*
15859689 AATGTGAAAGTG--TATATATGTGATAAGGCCTAAAGGCCGATGTGATGATTGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAAAGGCCGATGTGATGAATGTGAAAGTGTATA
*
15859752 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAACGTGATG
*
15859783 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAAAGGCCGATGTGATGAATGTGAAAGTGTATA
* *
15859848 TATGTGATAGGGCCGAGTGGCCAACGTGATG
66 TATGTGATAAGGCCGAATGGCCAACGTGATG
*
15859879 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
15859906 TCCCGAAGGG
Statistics
Matches: 115, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
94 22 0.19
95 1 0.01
96 92 0.80
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAAAGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCGAATGGCCAACGTGATG
Found at i:15866310 original size:19 final size:19
Alignment explanation
Indices: 15866268--15866310 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
15866258 CACATATACA
*
15866268 TTCAACTAGTTCATATAAC
1 TTCATCTAGTTCATATAAC
15866287 TTCATCTAGTTCATATAAC
1 TTCATCTAGTTCATATAAC
15866306 TTCAT
1 TTCAT
15866311 ATTACCACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.42
Consensus pattern (19 bp):
TTCATCTAGTTCATATAAC
Found at i:15866543 original size:43 final size:43
Alignment explanation
Indices: 15866490--15866592 Score: 122
Period size: 41 Copynumber: 2.4 Consensus size: 43
15866480 GCCATATCCT
* *
15866490 AGATATGGTCTTACATGTTA-TCATATAACGATGCCACTGTCCC
1 AGATATGGTCTTACATGTTAGTCATAT-ACGATGCCAATGTCAC
* * *
15866533 AGATAGGGTCTTATACG--AGTCATATACGATGCCAATGTCAC
1 AGATATGGTCTTACATGTTAGTCATATACGATGCCAATGTCAC
*
15866574 AGACATGGTCTTACATGTT
1 AGATATGGTCTTACATGTT
15866593 TTATCACTTC
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
41 28 0.58
42 6 0.12
43 14 0.29
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (43 bp):
AGATATGGTCTTACATGTTAGTCATATACGATGCCAATGTCAC
Found at i:15867802 original size:131 final size:131
Alignment explanation
Indices: 15867564--15867825 Score: 461
Period size: 131 Copynumber: 2.0 Consensus size: 131
15867554 CATATTAACC
* *
15867564 TTAATATTTAAATTACAAAACACATAATGGTTGTCCATTACTGTACTTTAGCTTTAATAGTGGCC
1 TTAATATTTAAATTACAAAACACATAATGGTTGTCCATTACCGTACATTAGCTTTAATAGTGGCC
* *
15867629 TAATTTCACTTTAAGGACTTAACAATTAAATAATCATCGCAAATTAGTACTTTAACAAATAGAAT
66 TAATTTCACTTTAAGGACTTAACAATTAAATAACCATAGCAAATTAGTACTTTAACAAATAGAAT
15867694 G
131 G
* *
15867695 TTAATATTTAAATTACAAAACACGTAATGGTTGTCCATTACCGTCCATTAGCTTTAATAGTGGCC
1 TTAATATTTAAATTACAAAACACATAATGGTTGTCCATTACCGTACATTAGCTTTAATAGTGGCC
*
15867760 TAATTTCGCTTTAAGGACTTAACAATTAAATAACCATAGCAAATTAGTACTTTAACAAATAGAAT
66 TAATTTCACTTTAAGGACTTAACAATTAAATAACCATAGCAAATTAGTACTTTAACAAATAGAAT
15867825 G
131 G
15867826 CCACTTTTAT
Statistics
Matches: 124, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
131 124 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (131 bp):
TTAATATTTAAATTACAAAACACATAATGGTTGTCCATTACCGTACATTAGCTTTAATAGTGGCC
TAATTTCACTTTAAGGACTTAACAATTAAATAACCATAGCAAATTAGTACTTTAACAAATAGAAT
G
Found at i:15873473 original size:41 final size:42
Alignment explanation
Indices: 15873405--15873483 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 42
15873395 TTACATGTTA
* * *
15873405 TCATATATCAATGCCACTTTCCGAGACAGGGTCTTACACGAG
1 TCATATATCAATGCCAATGTCCGAGACAGGGTATTACACGAG
* * *
15873447 TCATATA-CAATGCTAATGTCCTAGACATGGTATTACA
1 TCATATATCAATGCCAATGTCCGAGACAGGGTATTACA
15873484 TGAATTCACA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
41 24 0.77
42 7 0.23
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (42 bp):
TCATATATCAATGCCAATGTCCGAGACAGGGTATTACACGAG
Found at i:15875569 original size:271 final size:271
Alignment explanation
Indices: 15875076--15875616 Score: 985
Period size: 271 Copynumber: 2.0 Consensus size: 271
15875066 TGAATTTAAA
*
15875076 ATTAACTCATTTATTTATCAAATCACTCAATTTAGTCCACAAACACATAGATGGGCATTTTTACA
1 ATTAACTCATTTATTTATAAAATCACTCAATTTAGTCCACAAACACATAGATGGGCATTTTTACA
15875141 CTTTAGCCCCTAAAGTTCCACATTTTTATAATTTAATCCTTATTTCACAAAAACACAAATTACAC
66 CTTTAGCCCCTAAAGTTCCACATTTTTATAATTTAATCCTTATTTCACAAAAACACAAATTACAC
* ** *
15875206 CAAATTTGACAAAACCCATGCTTGGCCAAATTTACTATTGGTCCCTAATAGCCCATATTTCACAT
131 CAAATTTGACAAAACCCATGCTTGGCCAAATTTAATAGAGGTCCCTAACAGCCCATATTTCACAT
* *
15875271 TTATTTCACATTTCAACTGCTTAATTTGTACTTTTCACAATTTAATCCCTAAATAGTATTTTTAC
196 TTATTTCACATTTCAACTACATAATTTGTACTTTTCACAATTTAATCCCTAAATAGTATTTTTAC
15875336 TAAAAATCACC
261 TAAAAATCACC
**
15875347 ATTAACTCATTTATTTATAAAATCACTCAATTTAGTCCACAAACACATATTTGGGCATTTTTACA
1 ATTAACTCATTTATTTATAAAATCACTCAATTTAGTCCACAAACACATAGATGGGCATTTTTACA
15875412 CTTTAGCCCCTAAAGTTCCACATTTTTATAATTTAATCCTTATTTCACAAAAACACAAATTACAC
66 CTTTAGCCCCTAAAGTTCCACATTTTTATAATTTAATCCTTATTTCACAAAAACACAAATTACAC
15875477 CAAATTTGACAAAACCCATGCTTGGCCAAATTTAATAGAGGTCCCTAACAGCCCATATTTCACAT
131 CAAATTTGACAAAACCCATGCTTGGCCAAATTTAATAGAGGTCCCTAACAGCCCATATTTCACAT
15875542 TTATTTCACATTTCAA-TCACATAATTTGTACTTTTCACAATTTAATCCCTAAATAGTATTTTTA
196 TTATTTCACATTTCAACT-ACATAATTTGTACTTTTCACAATTTAATCCCTAAATAGTATTTTTA
15875606 CTAAAAATCAC
260 CTAAAAATCAC
15875617 TTAACAAAAT
Statistics
Matches: 260, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
270 1 0.00
271 259 1.00
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.36
Consensus pattern (271 bp):
ATTAACTCATTTATTTATAAAATCACTCAATTTAGTCCACAAACACATAGATGGGCATTTTTACA
CTTTAGCCCCTAAAGTTCCACATTTTTATAATTTAATCCTTATTTCACAAAAACACAAATTACAC
CAAATTTGACAAAACCCATGCTTGGCCAAATTTAATAGAGGTCCCTAACAGCCCATATTTCACAT
TTATTTCACATTTCAACTACATAATTTGTACTTTTCACAATTTAATCCCTAAATAGTATTTTTAC
TAAAAATCACC
Found at i:15879381 original size:32 final size:32
Alignment explanation
Indices: 15879345--15879476 Score: 99
Period size: 32 Copynumber: 4.1 Consensus size: 32
15879335 TAAAATAAGG
* *
15879345 TTTTATGTTCCTTAAAAATTAGAAAAAAAAAA
1 TTTTAGGTCCCTTAAAAATTAGAAAAAAAAAA
* *
15879377 TTTTAGGTCCCTTAAAAATTGGTAAAAAAAAA
1 TTTTAGGTCCCTTAAAAATTAGAAAAAAAAAA
* * * *
15879409 -TTTA-GACCCTTAAAAGCTAAAAAAAGAAAAAA
1 TTTTAGGTCCCTTAAAA-ATTAGAAAA-AAAAAA
** * * *
15879441 TTTGGGGGTCCCTTAAAAACT-GAAAAACAATA
1 TTT-TAGGTCCCTTAAAAATTAGAAAAAAAAAA
15879473 TTTT
1 TTTT
15879477 GAACTCTTTT
Statistics
Matches: 75, Mismatches: 20, Indels: 11
0.71 0.19 0.10
Matches are distributed among these distances:
30 10 0.13
31 8 0.11
32 41 0.55
33 6 0.08
35 10 0.13
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (32 bp):
TTTTAGGTCCCTTAAAAATTAGAAAAAAAAAA
Found at i:15879873 original size:19 final size:19
Alignment explanation
Indices: 15879851--15879915 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
15879841 AGTTAAAATT
*
15879851 TTATAAAATACTAAAAAAA
1 TTATAAAATACTATAAAAA
*
15879870 TTATATAA-ACTTATAAAAA
1 TTATAAAATAC-TATAAAAA
* *
15879889 TCAT-AAATATGTATAAAAA
1 TTATAAAATA-CTATAAAAA
15879908 TTATAAAA
1 TTATAAAA
15879916 CATCCTAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
18 4 0.11
19 29 0.81
20 3 0.08
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (19 bp):
TTATAAAATACTATAAAAA
Found at i:15879903 original size:29 final size:28
Alignment explanation
Indices: 15879869--15879998 Score: 97
Period size: 28 Copynumber: 4.6 Consensus size: 28
15879859 TACTAAAAAA
*
15879869 ATTATATAAACTTATAAAA-ATCATAAAT
1 ATTATA-AAAATTATAAAACATCATAAAT
*
15879897 ATGTATAAAAATTATAAAACATCCTAAAT
1 AT-TATAAAAATTATAAAACATCATAAAT
* * *
15879926 ATTATAAAAA-AATAAAA-TTTATAAAT
1 ATTATAAAAATTATAAAACATCATAAAT
* * * *
15879952 -TTATAAAACGAATAGAAAAAATCATAAAA
1 ATTATAAAA--ATTATAAAACATCATAAAT
15879981 ACTTATAATAAATTATAA
1 A-TTATAA-AAATTATAA
15879999 TGAATTATAA
Statistics
Matches: 80, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
25 8 0.10
26 6 0.08
27 7 0.09
28 26 0.32
29 20 0.25
30 5 0.06
31 6 0.08
32 2 0.03
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (28 bp):
ATTATAAAAATTATAAAACATCATAAAT
Found at i:15879931 original size:28 final size:27
Alignment explanation
Indices: 15879869--15879998 Score: 102
Period size: 29 Copynumber: 4.6 Consensus size: 27
15879859 TACTAAAAAA
*
15879869 ATTATATAAACTTATAAAAATCATAAAT
1 ATTATA-AAAATTATAAAAATCATAAAT
*
15879897 ATGTATAAAAATTATAAAACATCCTAAAT
1 AT-TATAAAAATTATAAAA-ATCATAAAT
* * *
15879926 ATTATAAAAA-AATAAAATTTATAAAT
1 ATTATAAAAATTATAAAAATCATAAAT
* * *
15879952 -TTATAAAACGAATAGAAAAAATCATAAAA
1 ATTATAAAA--ATTA-TAAAAATCATAAAT
15879981 ACTTATAATAAATTATAA
1 A-TTATAA-AAATTATAA
15879999 TGAATTATAA
Statistics
Matches: 80, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
25 8 0.10
26 6 0.08
27 7 0.09
28 22 0.28
29 26 0.32
30 3 0.04
31 6 0.08
32 2 0.03
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (27 bp):
ATTATAAAAATTATAAAAATCATAAAT
Found at i:15879988 original size:10 final size:10
Alignment explanation
Indices: 15879970--15880019 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
15879960 CGAATAGAAA
*
15879970 AAATCATAA-
1 AAATTATAAT
15879979 AAACTTATAAT
1 AAA-TTATAAT
15879990 AAATTATAAT
1 AAATTATAAT
* *
15880000 GAATTATAAA
1 AAATTATAAT
15880010 AAATTATAAT
1 AAATTATAAT
15880020 TTTTAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 3 0.09
10 28 0.82
11 3 0.09
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (10 bp):
AAATTATAAT
Found at i:15879998 original size:20 final size:20
Alignment explanation
Indices: 15879967--15880019 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
15879957 AAACGAATAG
*
15879967 AAAAAATCATAA-AAACTTAT
1 AAAAAATTATAATAAA-TTAT
* *
15879987 AATAAATTATAATGAATTAT
1 AAAAAATTATAATAAATTAT
15880007 AAAAAATTATAAT
1 AAAAAATTATAAT
15880020 TTTTAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAAAATTATAATAAATTAT
Found at i:15880472 original size:29 final size:27
Alignment explanation
Indices: 15880372--15880596 Score: 122
Period size: 29 Copynumber: 8.0 Consensus size: 27
15880362 TAAAAATGAC
* *
15880372 ATTTTTAT-AGTTTTATAATTTTTTAT
1 ATTTTTATAATTTTTATAAGTTTTTAT
* *
15880398 AATTTATTAGAATTTATTAT-AGCTTTTTGT
1 -ATTT-TTATAATTT-TTATAAG-TTTTTAT
* * *
15880428 ACTTTTATAGTATTTATAAGTTTTTAT
1 ATTTTTATAATTTTTATAAGTTTTTAT
*
15880455 GATTTTATATAATTTTTATAAGTTCATT-T
1 -ATTTT-TATAATTTTTATAAGTT-TTTAT
* *
15880484 -TTTTTAAAATATTTT-TAATATTTTTATT
1 ATTTTTATAAT-TTTTATAA-GTTTTTA-T
*
15880512 ATTTTCATAATTTATTATAA-TTTATTAT
1 ATTTTTATAATTT-TTATAAGTTT-TTAT
*
15880540 AAGTTTTTATAATATTTATAAG-TTTTAT
1 -A-TTTTTATAATTTTTATAAGTTTTTAT
* * * *
15880568 ATTGGTTATAACTTTTATAACTTTATAT
1 ATT-TTTATAATTTTTATAAGTTTTTAT
15880596 A
1 A
15880597 AGTTTTTAAT
Statistics
Matches: 152, Mismatches: 25, Indels: 41
0.70 0.11 0.19
Matches are distributed among these distances:
26 12 0.08
27 38 0.25
28 32 0.21
29 45 0.30
30 25 0.16
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (27 bp):
ATTTTTATAATTTTTATAAGTTTTTAT
Found at i:15880475 original size:9 final size:9
Alignment explanation
Indices: 15880372--15880604 Score: 116
Period size: 10 Copynumber: 24.8 Consensus size: 9
15880362 TAAAAATGAC
15880372 ATTTTTAT-
1 ATTTTTATA
*
15880380 AGTTTTATA
1 ATTTTTATA
15880389 ATTTTTTATA
1 A-TTTTTATA
*
15880399 ATTTATTAGA
1 ATTT-TTATA
15880409 ATTTATTATA
1 ATTT-TTATA
* *
15880419 GCTTTTTGT-
1 -ATTTTTATA
*
15880428 ACTTTTATA
1 ATTTTTATA
* *
15880437 GTATTTATA
1 ATTTTTATA
*
15880446 AGTTTTTATG
1 A-TTTTTATA
15880456 ATTTTATATA
1 ATTTT-TATA
15880466 ATTTTTATA
1 ATTTTTATA
* * *
15880475 A-GTTCATT
1 ATTTTTATA
* *
15880483 TTTTTTAAA
1 ATTTTTATA
15880492 ATATTTT-TAA
1 AT-TTTTAT-A
*
15880502 TATTTTTATT
1 -ATTTTTATA
*
15880512 ATTTTCATA
1 ATTTTTATA
15880521 ATTTATTATA
1 ATTT-TTATA
15880531 ATTTATTATA
1 ATTT-TTATA
15880541 AGTTTTTATA
1 A-TTTTTATA
*
15880551 ATATTTATA
1 ATTTTTATA
*
15880560 AGTTTTAT-
1 ATTTTTATA
*
15880568 ATTGGTTATA
1 ATT-TTTATA
*
15880578 ACTTTTATA
1 ATTTTTATA
*
15880587 ACTTTATATA
1 A-TTTTTATA
15880597 AGTTTTTA
1 A-TTTTTA
15880605 ATATGAACAT
Statistics
Matches: 167, Mismatches: 41, Indels: 32
0.70 0.17 0.13
Matches are distributed among these distances:
8 18 0.11
9 57 0.34
10 83 0.50
11 9 0.05
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.60
Consensus pattern (9 bp):
ATTTTTATA
Found at i:15880568 original size:18 final size:18
Alignment explanation
Indices: 15880526--15880608 Score: 71
Period size: 18 Copynumber: 4.5 Consensus size: 18
15880516 TCATAATTTA
*
15880526 TTATAATTTATTATAAGTTT
1 TTATAATAT-TTATAAG-TT
15880546 TTATAATATTTATAAGTT
1 TTATAATATTTATAAGTT
* ** *
15880564 TTATATTGGTTATAACTT
1 TTATAATATTTATAAGTT
15880582 TTATAACT-TTATATAAGTT
1 TTATAA-TATT-TATAAGTT
15880601 TT-TAATAT
1 TTATAATAT
15880609 GAACATTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.02
18 26 0.50
19 17 0.33
20 8 0.15
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (18 bp):
TTATAATATTTATAAGTT
Found at i:15880597 original size:122 final size:122
Alignment explanation
Indices: 15880372--15880600 Score: 272
Period size: 122 Copynumber: 1.9 Consensus size: 122
15880362 TAAAAATGAC
* * *
15880372 ATTTTTATAGTTTTATAATTTTTTATAATTTATTAGAATTTATTATAGCTTTTTGTACTTTTATA
1 ATTTTTATAGTTTTATAATTTTTCATAATTTATTAGAATTTATTATAGCTTTTTATAATTTTATA
* * *
15880437 GTATTTATAAGTTTTTATGATTTTATATAATTTTTATAAGTTCATTTTTTTTAAAAT
66 GTATTTATAAGTTGTTATAATTTTATATAATTTATATAAGTTCATTTTTTTTAAAAT
* * *
15880494 ATTTTTAATATTTTTATTA-TTTTCATAATTTATTATAATTTATTATAAG-TTTTTATAATATTT
1 ATTTTT-ATAGTTTTATAATTTTTCATAATTTATTAGAATTTATTAT-AGCTTTTTATAAT-TTT
*
15880557 ATAAGT-TTTAT-A-TTGGTTATAACTTTTATA-ACTTTATATAAGTT
63 AT-AGTATTTATAAGTT-GTTATAA-TTTTATATAATTTATATAAGTT
15880601 TTTAATATGA
Statistics
Matches: 91, Mismatches: 10, Indels: 12
0.81 0.09 0.11
Matches are distributed among these distances:
121 2 0.02
122 57 0.63
123 29 0.32
124 3 0.03
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.60
Consensus pattern (122 bp):
ATTTTTATAGTTTTATAATTTTTCATAATTTATTAGAATTTATTATAGCTTTTTATAATTTTATA
GTATTTATAAGTTGTTATAATTTTATATAATTTATATAAGTTCATTTTTTTTAAAAT
Found at i:15880842 original size:26 final size:25
Alignment explanation
Indices: 15880784--15880842 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
15880774 TATAAGTTTT
*
15880784 TTTTATTTTATATATCTTTTATAAG
1 TTTTATTTTAAATATCTTTTATAAG
*
15880809 TTTATATTTTAAAATAT-TTTTAATATG
1 TTT-TATTTT-AAATATCTTTT-ATAAG
15880836 TTTTATT
1 TTTTATT
15880843 ATTTTTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 3 0.10
26 14 0.48
27 12 0.41
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (25 bp):
TTTTATTTTAAATATCTTTTATAAG
Found at i:15880880 original size:10 final size:9
Alignment explanation
Indices: 15880753--15880950 Score: 113
Period size: 9 Copynumber: 21.4 Consensus size: 9
15880743 TATTAGAGCT
15880753 TTTTTAT-A
1 TTTTTATAA
*
15880761 CTTTTATAA
1 TTTTTATAA
*
15880770 TATTTATAA
1 TTTTTATAA
* *
15880779 GTTTTTTTTA
1 -TTTTTATAA
15880789 -TTTTATATA
1 TTTTTATA-A
15880798 TCTTTTATAA
1 T-TTTTATAA
*
15880808 -GTTTAT-A
1 TTTTTATAA
* *
15880815 TTTTAAAATA
1 TTTTTATA-A
15880825 TTTTTA-ATA
1 TTTTTATA-A
*
15880834 TGTTTTATTA
1 T-TTTTATAA
15880844 TTTTTATAA
1 TTTTTATAA
*
15880853 TTTATTAGAA
1 TTT-TTATAA
15880863 TTTATTATAAA
1 TTT-TTAT-AA
15880874 TTTTTATAA
1 TTTTTATAA
*
15880883 TATTTATAA
1 TTTTTATAA
*
15880892 GTTTTAT-A
1 TTTTTATAA
15880900 TTTTTATAAA
1 TTTTTAT-AA
*
15880910 TTTATATAA
1 TTTTTATAA
15880919 GTTTTTA-ATA
1 -TTTTTATA-A
*
15880929 TTTTTATGA
1 TTTTTATAA
*
15880938 TTTTTATGA
1 TTTTTATAA
15880947 TTTT
1 TTTT
15880951 ATTAGAAAAT
Statistics
Matches: 149, Mismatches: 24, Indels: 33
0.72 0.12 0.16
Matches are distributed among these distances:
7 1 0.01
8 26 0.17
9 61 0.41
10 49 0.33
11 12 0.08
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:15880951 original size:46 final size:47
Alignment explanation
Indices: 15880824--15880957 Score: 139
Period size: 46 Copynumber: 2.8 Consensus size: 47
15880814 ATTTTAAAAT
* *
15880824 ATTTTTAATATGTTTTATTATTTTTATAATTTATTAGAATTTATTATAA
1 ATTTTTAATAT-TTTTATAATTTTTATATTTTA-TAGAATTTATTATAA
* *
15880873 ATTTTT-ATAATATTTATAAGTTTTATATTTTTATA-AATTTA-TATAA
1 ATTTTTAAT-ATTTTTATAATTTTTATA-TTTTATAGAATTTATTATAA
* *
15880919 GTTTTTAATATTTTTATGATTTTTATGATTTTATTAGAA
1 ATTTTTAATATTTTTATAATTTTTAT-ATTTTA-TAGAA
15880958 AATAAAATAT
Statistics
Matches: 71, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
46 29 0.41
47 11 0.15
48 19 0.27
49 12 0.17
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.60
Consensus pattern (47 bp):
ATTTTTAATATTTTTATAATTTTTATATTTTATAGAATTTATTATAA
Found at i:15881375 original size:15 final size:15
Alignment explanation
Indices: 15881355--15881399 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
15881345 TTGTTTCAAA
**
15881355 ATATTTTATCTTTTT
1 ATATTTTATAATTTT
15881370 ATATTTTATAATTTT
1 ATATTTTATAATTTT
*
15881385 ATAATTTATATATTT
1 ATATTTTATA-ATTT
15881400 CTCAAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
ATATTTTATAATTTT
Found at i:15893102 original size:43 final size:42
Alignment explanation
Indices: 15893055--15893210 Score: 172
Period size: 43 Copynumber: 3.7 Consensus size: 42
15893045 TATCCCAAAT
* * *
15893055 ATGGTCTTACATGTTATCTCATATCGATGCCAATAGCCCAG-C
1 ATGGTCTTACACGTAATCACATATCGATGCCAAT-GCCCAGAC
* *
15893097 TATGGTCTTACACGAAATCACATAACGATGCCAATGTCCCAGAC
1 -ATGGTCTTACACGTAATCACATATCGATGCCAATG-CCCAGAC
* * *
15893141 ATGGTTTTACACGTAATCACA-ATAGAATGCCAATGTCCAGAC
1 ATGGTCTTACACGTAATCACATATCG-ATGCCAATGCCCAGAC
* *
15893183 ATGGTCTTACATGTAATCACATCTCGAT
1 ATGGTCTTACACGTAATCACATATCGAT
15893211 AATCCTAATG
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
42 30 0.32
43 64 0.67
44 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACGTAATCACATATCGATGCCAATGCCCAGAC
Found at i:15897522 original size:32 final size:32
Alignment explanation
Indices: 15897486--15897617 Score: 99
Period size: 32 Copynumber: 4.1 Consensus size: 32
15897476 TAAAATAAGG
* *
15897486 TTTTATGTTCCTTAAAAATTAGAAAAAAAAAA
1 TTTTAGGTCCCTTAAAAATTAGAAAAAAAAAA
* *
15897518 TTTTAGGTCCCTTAAAAATTGGTAAAAAAAAA
1 TTTTAGGTCCCTTAAAAATTAGAAAAAAAAAA
* * * *
15897550 -TTTA-GACCCTTAAAAGCTAAAAAAAGAAAAAA
1 TTTTAGGTCCCTTAAAA-ATTAGAAAA-AAAAAA
** * * *
15897582 TTTGGGGGTCCCTTAAAAACT-GAAAAACAATA
1 TTT-TAGGTCCCTTAAAAATTAGAAAAAAAAAA
15897614 TTTT
1 TTTT
15897618 GAACTCTTTT
Statistics
Matches: 75, Mismatches: 20, Indels: 11
0.71 0.19 0.10
Matches are distributed among these distances:
30 10 0.13
31 8 0.11
32 41 0.55
33 6 0.08
35 10 0.13
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (32 bp):
TTTTAGGTCCCTTAAAAATTAGAAAAAAAAAA
Found at i:15898014 original size:19 final size:19
Alignment explanation
Indices: 15897992--15898056 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
15897982 AGTTAAAATT
*
15897992 TTATAAAATACTAAAAAAA
1 TTATAAAATACTATAAAAA
*
15898011 TTATATAA-ACTTATAAAAA
1 TTATAAAATAC-TATAAAAA
* *
15898030 TCAT-AAATATGTATAAAAA
1 TTATAAAATA-CTATAAAAA
15898049 TTATAAAA
1 TTATAAAA
15898057 CATCCTAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
18 4 0.11
19 29 0.81
20 3 0.08
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (19 bp):
TTATAAAATACTATAAAAA
Found at i:15898044 original size:29 final size:28
Alignment explanation
Indices: 15898010--15898139 Score: 97
Period size: 28 Copynumber: 4.6 Consensus size: 28
15898000 TACTAAAAAA
*
15898010 ATTATATAAACTTATAAAA-ATCATAAAT
1 ATTATA-AAAATTATAAAACATCATAAAT
*
15898038 ATGTATAAAAATTATAAAACATCCTAAAT
1 AT-TATAAAAATTATAAAACATCATAAAT
* * *
15898067 ATTATAAAAA-AATAAAA-TTTATAAAT
1 ATTATAAAAATTATAAAACATCATAAAT
* * * *
15898093 -TTATAAAACGAATAGAAAAAATCATAAAA
1 ATTATAAAA--ATTATAAAACATCATAAAT
15898122 ACTTATAATAAATTATAA
1 A-TTATAA-AAATTATAA
15898140 TGAATTATAA
Statistics
Matches: 80, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
25 8 0.10
26 6 0.08
27 7 0.09
28 26 0.32
29 20 0.25
30 5 0.06
31 6 0.08
32 2 0.03
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (28 bp):
ATTATAAAAATTATAAAACATCATAAAT
Found at i:15898072 original size:28 final size:27
Alignment explanation
Indices: 15898010--15898139 Score: 102
Period size: 29 Copynumber: 4.6 Consensus size: 27
15898000 TACTAAAAAA
*
15898010 ATTATATAAACTTATAAAAATCATAAAT
1 ATTATA-AAAATTATAAAAATCATAAAT
*
15898038 ATGTATAAAAATTATAAAACATCCTAAAT
1 AT-TATAAAAATTATAAAA-ATCATAAAT
* * *
15898067 ATTATAAAAA-AATAAAATTTATAAAT
1 ATTATAAAAATTATAAAAATCATAAAT
* * *
15898093 -TTATAAAACGAATAGAAAAAATCATAAAA
1 ATTATAAAA--ATTA-TAAAAATCATAAAT
15898122 ACTTATAATAAATTATAA
1 A-TTATAA-AAATTATAA
15898140 TGAATTATAA
Statistics
Matches: 80, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
25 8 0.10
26 6 0.08
27 7 0.09
28 22 0.28
29 26 0.32
30 3 0.04
31 6 0.08
32 2 0.03
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (27 bp):
ATTATAAAAATTATAAAAATCATAAAT
Found at i:15898129 original size:10 final size:10
Alignment explanation
Indices: 15898111--15898160 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
15898101 CGAATAGAAA
*
15898111 AAATCATAA-
1 AAATTATAAT
15898120 AAACTTATAAT
1 AAA-TTATAAT
15898131 AAATTATAAT
1 AAATTATAAT
* *
15898141 GAATTATAAA
1 AAATTATAAT
15898151 AAATTATAAT
1 AAATTATAAT
15898161 TTTTAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 3 0.09
10 28 0.82
11 3 0.09
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (10 bp):
AAATTATAAT
Found at i:15898139 original size:20 final size:20
Alignment explanation
Indices: 15898108--15898160 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
15898098 AAACGAATAG
*
15898108 AAAAAATCATAA-AAACTTAT
1 AAAAAATTATAATAAA-TTAT
* *
15898128 AATAAATTATAATGAATTAT
1 AAAAAATTATAATAAATTAT
15898148 AAAAAATTATAAT
1 AAAAAATTATAAT
15898161 TTTTAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAAAATTATAATAAATTAT
Found at i:15898613 original size:29 final size:27
Alignment explanation
Indices: 15898513--15898737 Score: 122
Period size: 29 Copynumber: 8.0 Consensus size: 27
15898503 TAAAAATGAC
* *
15898513 ATTTTTAT-AGTTTTATAATTTTTTAT
1 ATTTTTATAATTTTTATAAGTTTTTAT
* *
15898539 AATTTATTAGAATTTATTAT-AGCTTTTTGT
1 -ATTT-TTATAATTT-TTATAAG-TTTTTAT
* * *
15898569 ACTTTTATAGTATTTATAAGTTTTTAT
1 ATTTTTATAATTTTTATAAGTTTTTAT
*
15898596 GATTTTATATAATTTTTATAAGTTCATT-T
1 -ATTTT-TATAATTTTTATAAGTT-TTTAT
* *
15898625 -TTTTTAAAATATTTT-TAATATTTTTATT
1 ATTTTTATAAT-TTTTATAA-GTTTTTA-T
*
15898653 ATTTTCATAATTTATTATAA-TTTATTAT
1 ATTTTTATAATTT-TTATAAGTTT-TTAT
*
15898681 AAGTTTTTATAATATTTATAAG-TTTTAT
1 -A-TTTTTATAATTTTTATAAGTTTTTAT
* * * *
15898709 ATTGGTTATAACTTTTATAACTTTATAT
1 ATT-TTTATAATTTTTATAAGTTTTTAT
15898737 A
1 A
15898738 AGTTTTTAAT
Statistics
Matches: 152, Mismatches: 25, Indels: 41
0.70 0.11 0.19
Matches are distributed among these distances:
26 12 0.08
27 38 0.25
28 32 0.21
29 45 0.30
30 25 0.16
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (27 bp):
ATTTTTATAATTTTTATAAGTTTTTAT
Found at i:15898616 original size:9 final size:9
Alignment explanation
Indices: 15898513--15898745 Score: 116
Period size: 10 Copynumber: 24.8 Consensus size: 9
15898503 TAAAAATGAC
15898513 ATTTTTAT-
1 ATTTTTATA
*
15898521 AGTTTTATA
1 ATTTTTATA
15898530 ATTTTTTATA
1 A-TTTTTATA
*
15898540 ATTTATTAGA
1 ATTT-TTATA
15898550 ATTTATTATA
1 ATTT-TTATA
* *
15898560 GCTTTTTGT-
1 -ATTTTTATA
*
15898569 ACTTTTATA
1 ATTTTTATA
* *
15898578 GTATTTATA
1 ATTTTTATA
*
15898587 AGTTTTTATG
1 A-TTTTTATA
15898597 ATTTTATATA
1 ATTTT-TATA
15898607 ATTTTTATA
1 ATTTTTATA
* * *
15898616 A-GTTCATT
1 ATTTTTATA
* *
15898624 TTTTTTAAA
1 ATTTTTATA
15898633 ATATTTT-TAA
1 AT-TTTTAT-A
*
15898643 TATTTTTATT
1 -ATTTTTATA
*
15898653 ATTTTCATA
1 ATTTTTATA
15898662 ATTTATTATA
1 ATTT-TTATA
15898672 ATTTATTATA
1 ATTT-TTATA
15898682 AGTTTTTATA
1 A-TTTTTATA
*
15898692 ATATTTATA
1 ATTTTTATA
*
15898701 AGTTTTAT-
1 ATTTTTATA
*
15898709 ATTGGTTATA
1 ATT-TTTATA
*
15898719 ACTTTTATA
1 ATTTTTATA
*
15898728 ACTTTATATA
1 A-TTTTTATA
15898738 AGTTTTTA
1 A-TTTTTA
15898746 ATATGAACAT
Statistics
Matches: 167, Mismatches: 41, Indels: 32
0.70 0.17 0.13
Matches are distributed among these distances:
8 18 0.11
9 57 0.34
10 83 0.50
11 9 0.05
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.60
Consensus pattern (9 bp):
ATTTTTATA
Found at i:15898709 original size:18 final size:18
Alignment explanation
Indices: 15898667--15898749 Score: 71
Period size: 18 Copynumber: 4.5 Consensus size: 18
15898657 TCATAATTTA
*
15898667 TTATAATTTATTATAAGTTT
1 TTATAATAT-TTATAAG-TT
15898687 TTATAATATTTATAAGTT
1 TTATAATATTTATAAGTT
* ** *
15898705 TTATATTGGTTATAACTT
1 TTATAATATTTATAAGTT
15898723 TTATAACT-TTATATAAGTT
1 TTATAA-TATT-TATAAGTT
15898742 TT-TAATAT
1 TTATAATAT
15898750 GAACATTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.02
18 26 0.50
19 17 0.33
20 8 0.15
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (18 bp):
TTATAATATTTATAAGTT
Found at i:15898738 original size:122 final size:122
Alignment explanation
Indices: 15898513--15898741 Score: 272
Period size: 122 Copynumber: 1.9 Consensus size: 122
15898503 TAAAAATGAC
* * *
15898513 ATTTTTATAGTTTTATAATTTTTTATAATTTATTAGAATTTATTATAGCTTTTTGTACTTTTATA
1 ATTTTTATAGTTTTATAATTTTTCATAATTTATTAGAATTTATTATAGCTTTTTATAATTTTATA
* * *
15898578 GTATTTATAAGTTTTTATGATTTTATATAATTTTTATAAGTTCATTTTTTTTAAAAT
66 GTATTTATAAGTTGTTATAATTTTATATAATTTATATAAGTTCATTTTTTTTAAAAT
* * *
15898635 ATTTTTAATATTTTTATTA-TTTTCATAATTTATTATAATTTATTATAAG-TTTTTATAATATTT
1 ATTTTT-ATAGTTTTATAATTTTTCATAATTTATTAGAATTTATTAT-AGCTTTTTATAAT-TTT
*
15898698 ATAAGT-TTTAT-A-TTGGTTATAACTTTTATA-ACTTTATATAAGTT
63 AT-AGTATTTATAAGTT-GTTATAA-TTTTATATAATTTATATAAGTT
15898742 TTTAATATGA
Statistics
Matches: 91, Mismatches: 10, Indels: 12
0.81 0.09 0.11
Matches are distributed among these distances:
121 2 0.02
122 57 0.63
123 29 0.32
124 3 0.03
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.60
Consensus pattern (122 bp):
ATTTTTATAGTTTTATAATTTTTCATAATTTATTAGAATTTATTATAGCTTTTTATAATTTTATA
GTATTTATAAGTTGTTATAATTTTATATAATTTATATAAGTTCATTTTTTTTAAAAT
Found at i:15898983 original size:26 final size:25
Alignment explanation
Indices: 15898925--15898983 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
15898915 TATAAGTTTT
*
15898925 TTTTATTTTATATATCTTTTATAAG
1 TTTTATTTTAAATATCTTTTATAAG
*
15898950 TTTATATTTTAAAATAT-TTTTAATATG
1 TTT-TATTTT-AAATATCTTTT-ATAAG
15898977 TTTTATT
1 TTTTATT
15898984 ATTTTTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 3 0.10
26 14 0.48
27 12 0.41
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (25 bp):
TTTTATTTTAAATATCTTTTATAAG
Found at i:15899021 original size:10 final size:9
Alignment explanation
Indices: 15898894--15899091 Score: 113
Period size: 9 Copynumber: 21.4 Consensus size: 9
15898884 TATTAGAGCT
15898894 TTTTTAT-A
1 TTTTTATAA
*
15898902 CTTTTATAA
1 TTTTTATAA
*
15898911 TATTTATAA
1 TTTTTATAA
* *
15898920 GTTTTTTTTA
1 -TTTTTATAA
15898930 -TTTTATATA
1 TTTTTATA-A
15898939 TCTTTTATAA
1 T-TTTTATAA
*
15898949 -GTTTAT-A
1 TTTTTATAA
* *
15898956 TTTTAAAATA
1 TTTTTATA-A
15898966 TTTTTA-ATA
1 TTTTTATA-A
*
15898975 TGTTTTATTA
1 T-TTTTATAA
15898985 TTTTTATAA
1 TTTTTATAA
*
15898994 TTTATTAGAA
1 TTT-TTATAA
15899004 TTTATTATAAA
1 TTT-TTAT-AA
15899015 TTTTTATAA
1 TTTTTATAA
*
15899024 TATTTATAA
1 TTTTTATAA
*
15899033 GTTTTAT-A
1 TTTTTATAA
15899041 TTTTTATAAA
1 TTTTTAT-AA
*
15899051 TTTATATAA
1 TTTTTATAA
15899060 GTTTTTA-ATA
1 -TTTTTATA-A
*
15899070 TTTTTATGA
1 TTTTTATAA
*
15899079 TTTTTATGA
1 TTTTTATAA
15899088 TTTT
1 TTTT
15899092 ATTAGAAAAT
Statistics
Matches: 149, Mismatches: 24, Indels: 33
0.72 0.12 0.16
Matches are distributed among these distances:
7 1 0.01
8 26 0.17
9 61 0.41
10 49 0.33
11 12 0.08
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:15899092 original size:46 final size:47
Alignment explanation
Indices: 15898965--15899098 Score: 139
Period size: 46 Copynumber: 2.8 Consensus size: 47
15898955 ATTTTAAAAT
* *
15898965 ATTTTTAATATGTTTTATTATTTTTATAATTTATTAGAATTTATTATAA
1 ATTTTTAATAT-TTTTATAATTTTTATATTTTA-TAGAATTTATTATAA
* *
15899014 ATTTTT-ATAATATTTATAAGTTTTATATTTTTATA-AATTTA-TATAA
1 ATTTTTAAT-ATTTTTATAATTTTTATA-TTTTATAGAATTTATTATAA
* *
15899060 GTTTTTAATATTTTTATGATTTTTATGATTTTATTAGAA
1 ATTTTTAATATTTTTATAATTTTTAT-ATTTTA-TAGAA
15899099 AATAAAATAT
Statistics
Matches: 71, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
46 29 0.41
47 11 0.15
48 19 0.27
49 12 0.17
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.60
Consensus pattern (47 bp):
ATTTTTAATATTTTTATAATTTTTATATTTTATAGAATTTATTATAA
Found at i:15899516 original size:15 final size:15
Alignment explanation
Indices: 15899496--15899540 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
15899486 TTGTTTCAAA
**
15899496 ATATTTTATCTTTTT
1 ATATTTTATAATTTT
15899511 ATATTTTATAATTTT
1 ATATTTTATAATTTT
*
15899526 ATAATTTATATATTT
1 ATATTTTATA-ATTT
15899541 CTCAAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
ATATTTTATAATTTT
Found at i:15910374 original size:26 final size:26
Alignment explanation
Indices: 15910345--15910400 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
15910335 CGCATTATTA
15910345 TTCATTCAGCCACTAAACTCTTCGAT
1 TTCATTCAGCCACTAAACTCTTCGAT
* *
15910371 TTCATTCAGCCACTGAACTCTTTGAT
1 TTCATTCAGCCACTAAACTCTTCGAT
15910397 TTCA
1 TTCA
15910401 CACTTTTGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.25, C:0.29, G:0.09, T:0.38
Consensus pattern (26 bp):
TTCATTCAGCCACTAAACTCTTCGAT
Found at i:15914654 original size:20 final size:19
Alignment explanation
Indices: 15914627--15914668 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
15914617 CTTTCCAAAT
15914627 TTTCTTACTTT-CATTTGCA
1 TTTCTTACTTTCCA-TTGCA
15914646 TTTCATTACTTTCCATTGCA
1 TTTC-TTACTTTCCATTGCA
15914666 TTT
1 TTT
15914669 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 15 0.71
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTCTTACTTTCCATTGCA
Found at i:15916965 original size:27 final size:27
Alignment explanation
Indices: 15916935--15917040 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
15916925 GGCTGCTAGA
* *
15916935 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
*
15916962 ACAGATAATCGTGGCAGAACCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
*
15916989 ACAGATATATGTGGCAAAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
*
15917017 -CAGATAATTGTGGCATAGCCACCA
1 ACAGATAA-TGTGGCAGAGCCACCA
15917041 AGACGCTTCC
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.01
27 52 0.75
28 16 0.23
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.17
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:15917021 original size:54 final size:54
Alignment explanation
Indices: 15916932--15917040 Score: 148
Period size: 54 Copynumber: 2.0 Consensus size: 54
15916922 CATGGCTGCT
* *
15916932 AGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCACC
1 AGAACAGATAATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAACCACC
* * * *
15916986 AGAACAGATATATGTGGCAAAGCCACCAGAT-CAGATAATTGTGGCATAGCCACC
1 AGAACAGATA-ATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAACCACC
15917040 A
1 A
15917041 AGACGCTTCC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
54 31 0.65
55 17 0.35
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (54 bp):
AGAACAGATAATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAACCACC
Found at i:15918485 original size:24 final size:24
Alignment explanation
Indices: 15918458--15918508 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
15918448 CTAGATTTCC
** *
15918458 TCCCTTATCTTCTTCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
15918482 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
15918506 TCC
1 TCC
15918509 TGACAGACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.37, G:0.00, T:0.39
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:15920362 original size:30 final size:30
Alignment explanation
Indices: 15920326--15920392 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
15920316 TGTCTAGCCT
15920326 GTGTGCCCTTCGAAGTGGCCACACATGCCC
1 GTGTGCCCTTCGAAGTGGCCACACATGCCC
15920356 GTGTGCCCTTCGAAGTGGCCACACATGCCC
1 GTGTGCCCTTCGAAGTGGCCACACATGCCC
*
15920386 TTGTGCC
1 GTGTGCC
15920393 AGGCAATGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.15, C:0.36, G:0.27, T:0.22
Consensus pattern (30 bp):
GTGTGCCCTTCGAAGTGGCCACACATGCCC
Found at i:15926088 original size:190 final size:189
Alignment explanation
Indices: 15925683--15926096 Score: 542
Period size: 189 Copynumber: 2.2 Consensus size: 189
15925673 CTTGCTAATA
* ** * * * *
15925683 TAAGATCACAACCTAAGTTCATTCAATTTAACATCATGAACAACCTTTTCTGATTTAGTTGATTC
1 TAAGATCGCAACCTAAGTTCATTTGATTTAACATCATAAACAACCTTCTCTGAGTTAATTGATTC
** *
15925748 AACATCGTTGCTCCAAACGGCTCGTTGATTTAAGATTACAACCTAAGCTCATCAATTTAACATCA
66 AACATCACTGCTCCAAACGGCTCGTTGATTTAAGATCACAACCTAAGCTCATCAATTTAACATCA
* * ** *
15925813 TCAACAATTTTCTCTGAGTTAGTTGATTTAACATTGCTGGTCCAAATGGCTTAATGATT
131 TCAACAATTTTCTCTAAGTTAGCTGATTTAACATCACTGGTCCAAATGGCTCAATGATT
* *
15925872 TAAGATCGCAGCCTAAGCTT-ATTTGATTTAACATCATAAACAATCTTCTCTGAGTTAATTGATT
1 TAAGATCGCAACCTAAG-TTCATTTGATTTAACATCATAAACAACCTTCTCTGAGTTAATTGATT
* * * * * *
15925936 TAACATCACTGCTCCAAACGGCTCTTTGATTTAAGATCGCAACCTAAGTTCATTCGATTTAACTT
65 CAACATCACTGCTCCAAACGGCTCGTTGATTTAAGATCACAACCTAAGCTCA-TCAATTTAACAT
* * * **
15926001 CATGAACAATTTTCTCTAAGTTAGCTGATTTAACATCATTGTTCCAAATGGCTCGCTGATT
129 CATCAACAATTTTCTCTAAGTTAGCTGATTTAACATCACTGGTCCAAATGGCTCAATGATT
*
15926062 TAATATCGCAACCTAAGTTCATTTGATTTAACATC
1 TAAGATCGCAACCTAAGTTCATTTGATTTAACATC
15926097 TTGAATAACT
Statistics
Matches: 192, Mismatches: 30, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
189 99 0.52
190 93 0.48
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (189 bp):
TAAGATCGCAACCTAAGTTCATTTGATTTAACATCATAAACAACCTTCTCTGAGTTAATTGATTC
AACATCACTGCTCCAAACGGCTCGTTGATTTAAGATCACAACCTAAGCTCATCAATTTAACATCA
TCAACAATTTTCTCTAAGTTAGCTGATTTAACATCACTGGTCCAAATGGCTCAATGATT
Found at i:15926110 original size:95 final size:95
Alignment explanation
Indices: 15925683--15926126 Score: 482
Period size: 95 Copynumber: 4.7 Consensus size: 95
15925673 CTTGCTAATA
* * *
15925683 TAAGATCACAACCTAAGTTCATTCAATTTAACATCATGAACAACCTTT-TCTGATTTAGTTGATT
1 TAAGATCGCAACCTAAGTTCATTCGATTTAACATCATGAACAA-CTTTCTCTGAGTTAGTTGATT
* **
15925747 CAACATCGTTGCTCCAAACGGCTCGTTGATT
65 TAACATCACTGCTCCAAACGGCTCGTTGATT
** * * * *
15925778 TAAGATTACAACCTAAGCTCA-TCAATTTAACATCATCAACAATTTTCTCTGAGTTAGTTGATTT
1 TAAGATCGCAACCTAAGTTCATTCGATTTAACATCATGAACAACTTTCTCTGAGTTAGTTGATTT
** * * ***
15925842 AACATTGCTGGTCCAAATGGCTTAATGATT
66 AACATCACTGCTCCAAACGGCTCGTTGATT
* * * *
15925872 TAAGATCGCAGCCTAAGCTT-ATTTGATTTAACATCATAAACAA-TCTTCTCTGAGTTAATTGAT
1 TAAGATCGCAACCTAAG-TTCATTCGATTTAACATCATGAACAACT-TTCTCTGAGTTAGTTGAT
*
15925935 TTAACATCACTGCTCCAAACGGCTCTTTGATT
64 TTAACATCACTGCTCCAAACGGCTCGTTGATT
* * * *
15925967 TAAGATCGCAACCTAAGTTCATTCGATTTAACTTCATGAACAATTTTCTCTAAGTTAGCTGATTT
1 TAAGATCGCAACCTAAGTTCATTCGATTTAACATCATGAACAACTTTCTCTGAGTTAGTTGATTT
* * * *
15926032 AACATCATTGTTCCAAATGGCTCGCTGATT
66 AACATCACTGCTCCAAACGGCTCGTTGATT
* * * * * **
15926062 TAATATCGCAACCTAAGTTCATTTGATTTAACATCTTGAATAACTTTCTTTGAAATAGTTGATTT
1 TAAGATCGCAACCTAAGTTCATTCGATTTAACATCATGAACAACTTTCTCTGAGTTAGTTGATTT
15926127 GCTATCACTA
Statistics
Matches: 292, Mismatches: 51, Indels: 12
0.82 0.14 0.03
Matches are distributed among these distances:
93 3 0.01
94 76 0.26
95 212 0.73
96 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (95 bp):
TAAGATCGCAACCTAAGTTCATTCGATTTAACATCATGAACAACTTTCTCTGAGTTAGTTGATTT
AACATCACTGCTCCAAACGGCTCGTTGATT
Found at i:15926126 original size:190 final size:189
Alignment explanation
Indices: 15925683--15926126 Score: 543
Period size: 190 Copynumber: 2.3 Consensus size: 189
15925673 CTTGCTAATA
* ** *
15925683 TAAGATCACAACCTAAGTTCATTCAATTTAACATCATGAACAACCTTT-TCTGATTTAGTTGATT
1 TAAGATCGCAACCTAAGTTCATTTGATTTAACATCATGAACAA-CTTTCTCTGAATTAGTTGATT
* ** *
15925747 CAACATCGTTGCTCCAAACGGCTCGTTGATTTAAGATTACAACCTAAGCTCATCAATTTAACATC
65 TAACATCACTGCTCCAAACGGCTCGTTGATTTAAGATCACAACCTAAGCTCATCAATTTAACATC
* * ** *
15925812 ATCAACAATTTTCTCTGAGTTAGTTGATTTAACATTGCTGGTCCAAATGGCTTAATGATT
130 ATCAACAATTTTCTCTAAGTTAGCTGATTTAACATCACTGGTCCAAATGGCTCAATGATT
* * * *
15925872 TAAGATCGCAGCCTAAGCTT-ATTTGATTTAACATCATAAACAA-TCTTCTCTGAGTTAATTGAT
1 TAAGATCGCAACCTAAG-TTCATTTGATTTAACATCATGAACAACT-TTCTCTGAATTAGTTGAT
* * * * *
15925935 TTAACATCACTGCTCCAAACGGCTCTTTGATTTAAGATCGCAACCTAAGTTCATTCGATTTAACT
64 TTAACATCACTGCTCCAAACGGCTCGTTGATTTAAGATCACAACCTAAGCTCA-TCAATTTAACA
* * * **
15926000 TCATGAACAATTTTCTCTAAGTTAGCTGATTTAACATCATTGTTCCAAATGGCTCGCTGATT
128 TCATCAACAATTTTCTCTAAGTTAGCTGATTTAACATCACTGGTCCAAATGGCTCAATGATT
* * * * *
15926062 TAATATCGCAACCTAAGTTCATTTGATTTAACATCTTGAATAACTTTCTTTGAAATAGTTGATTT
1 TAAGATCGCAACCTAAGTTCATTTGATTTAACATCATGAACAACTTTCTCTGAATTAGTTGATTT
15926127 GCTATCACTA
Statistics
Matches: 214, Mismatches: 35, Indels: 11
0.82 0.13 0.04
Matches are distributed among these distances:
187 1 0.00
188 2 0.01
189 96 0.45
190 114 0.53
191 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (189 bp):
TAAGATCGCAACCTAAGTTCATTTGATTTAACATCATGAACAACTTTCTCTGAATTAGTTGATTT
AACATCACTGCTCCAAACGGCTCGTTGATTTAAGATCACAACCTAAGCTCATCAATTTAACATCA
TCAACAATTTTCTCTAAGTTAGCTGATTTAACATCACTGGTCCAAATGGCTCAATGATT
Found at i:15932679 original size:14 final size:14
Alignment explanation
Indices: 15932660--15932697 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
15932650 CCAGAAAAGT
15932660 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
15932674 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
15932688 AAAACATTTT
1 AAATCATTTT
15932698 ACTGCCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:15935765 original size:60 final size:60
Alignment explanation
Indices: 15935689--15935826 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 60
15935679 GTGTTAACTG
* *
15935689 GGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGT-ATCAGAGTATATTA
1 GGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCA-C-GA-TATATTA
* * *
15935750 GGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCACGATATATTG
1 GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCACGATATATTA
*
15935810 GGCCTTGCCCATATCAA
1 GGCCTAGCCCATATCAA
15935827 CACAGTTGGG
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
60 52 0.78
61 10 0.15
62 4 0.06
63 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (60 bp):
GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCACGATATATTA
Found at i:15935787 original size:28 final size:27
Alignment explanation
Indices: 15935686--15935787 Score: 71
Period size: 28 Copynumber: 3.5 Consensus size: 27
15935676 TTAGTGTTAA
* *
15935686 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
15935714 CTGGGCCATAGCCCCT-TACAGTATCAGAGTAT
1 CTGGGCC-TAGCCCATAT-CAGTATC--A--AT
* *
15935746 ATTAGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
15935774 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
15935788 TATTACAAGT
Statistics
Matches: 57, Mismatches: 9, Indels: 16
0.70 0.11 0.20
Matches are distributed among these distances:
27 6 0.11
28 27 0.47
30 2 0.04
32 16 0.28
33 6 0.11
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:15937741 original size:40 final size:40
Alignment explanation
Indices: 15937652--15937832 Score: 181
Period size: 40 Copynumber: 4.5 Consensus size: 40
15937642 CTCGTTCAAG
* **
15937652 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAA
* *
15937691 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAA
* * * *
15937731 GGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAA
* * * * *
15937771 TGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA
1 TGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAA
15937812 -GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAGCCCGGA
15937833 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
39 32 0.27
40 75 0.64
41 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAA
Found at i:15945067 original size:47 final size:47
Alignment explanation
Indices: 15945014--15945428 Score: 704
Period size: 47 Copynumber: 8.7 Consensus size: 47
15945004 TTAGGATTCT
15945014 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
15945061 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
15945110 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
15945157 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
15945204 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
15945251 ATGTGATGAATGTGAAAGTGTGTATATATGTGATAGGGCCTAATGGCCG
1 ATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCG
15945300 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
15945347 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
15945394 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
15945429 TCCCGAAGGG
Statistics
Matches: 350, Mismatches: 14, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
47 258 0.74
49 92 0.26
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:15945076 original size:96 final size:94
Alignment explanation
Indices: 15945014--15945428 Score: 555
Period size: 96 Copynumber: 4.4 Consensus size: 94
15945004 TTAGGATTCT
15945014 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
15945079 TGTATATATA-TGTGATAA-GGCTTAATGGCCG
66 TGTATATATATTGTGATAAGGGC---AT-GCCG
15945110 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
15945175 TG--TATATA-TGTGATAAGGCCTAATGGCCG
66 TGTATATATATTGTGATAAGGGC--AT-GCCG
15945204 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
15945269 TGTGTATATA-TGTGAT-AGGGCCTAATGGCCG
66 TGTATATATATTGTGATAAGGG-C--AT-GCCG
15945300 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
15945365 TG--TATATA-TGTGA-CAGGGCCGAGTGGCCA
66 TGTATATATATTGTGATAAGGG-C-A-T-GCCG
* * *
15945394 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
15945429 TCCCGAAGGG
Statistics
Matches: 306, Mismatches: 7, Indels: 14
0.94 0.02 0.04
Matches are distributed among these distances:
93 1 0.00
94 144 0.47
95 5 0.02
96 156 0.51
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.30
Consensus pattern (94 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATATTGTGATAAGGGCATGCCG
Found at i:15945162 original size:143 final size:141
Alignment explanation
Indices: 15945014--15945428 Score: 704
Period size: 143 Copynumber: 2.9 Consensus size: 141
15945004 TTAGGATTCT
15945014 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
15945079 TGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
66 TG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
15945144 GGCCTAATGGCCG
129 GGCCTAATGGCCG
15945157 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
15945222 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTATATATGTGATAA
15945287 GGCCTAATGGCCG
129 GGCCTAATGGCCG
15945300 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * * * * *
15945365 TGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
15945429 TCCCGAAGGG
Statistics
Matches: 259, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
141 59 0.23
143 200 0.77
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.30
Consensus pattern (141 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATGGCCG
Found at i:15945337 original size:190 final size:190
Alignment explanation
Indices: 15945014--15945428 Score: 731
Period size: 190 Copynumber: 2.2 Consensus size: 190
15945004 TTAGGATTCT
15945014 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
15945079 TGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
66 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * *
15945144 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
131 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCA
15945204 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
15945269 TGTGTATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
66 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
15945334 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
131 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCA
* * *
15945394 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
15945429 TCCCGAAGGG
Statistics
Matches: 214, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
190 214 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.30
Consensus pattern (190 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCA
Found at i:15949378 original size:13 final size:13
Alignment explanation
Indices: 15949360--15949390 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
15949350 TTCAAACTAC
*
15949360 TTTTTATTTTTCT
1 TTTTTATTTTTAT
15949373 TTTTTATTTTTAT
1 TTTTTATTTTTAT
15949386 TTTTT
1 TTTTT
15949391 CGCAGATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:15954080 original size:173 final size:174
Alignment explanation
Indices: 15953788--15954127 Score: 466
Period size: 173 Copynumber: 2.0 Consensus size: 174
15953778 CTTAGGCTAG
* * * * *
15953788 ATAATAAAAAGACAGTCATTACTAGTACTTTTATTTCCCTTGGGTTCGACAATCCAGTCTTGCTA
1 ATAATAAAAAGAAAGTAATTACTAGTACTCTTAGTTCCCTTGGGTTCGACAATCCAGTCTTGCCA
* *
15953853 AAACTATACTATTGTTCGATAGATACAATTGCCTACATCGCGATAATAGTTAGTTTCAAGAACAA
66 AAACTATACTACTATTCGATAGATACAATTGCCTACATCGCGATAATAGTTAGTTTCAAGAACAA
15953918 TTAATTATAAATATTTAAAACCTATCACGAA-ATCACGCGATCA
131 TTAATTATAAATATTTAAAACCTATCACGAATATCACGCGATCA
* * * **
15953961 ATAATAAAAGGAAAGTAATTACTAGTACTCTTGGTTCCTTTGGGTTCGACAATCTGGTCTTGCCA
1 ATAATAAAAAGAAAGTAATTACTAGTACTCTTAGTTCCCTTGGGTTCGACAATCCAGTCTTGCCA
* * * * * * * *
15954026 AAGCTATACTACTATTCGATAGGTACACTTGCCTTCATCGTGATAATTGTTAGTTTTAGGAACAA
66 AAACTATACTACTATTCGATAGATACAATTGCCTACATCGCGATAATAGTTAGTTTCAAGAACAA
* * *
15954091 TTAATTATAAATTTTTAAAACCTGTCGCGAATATCAC
131 TTAATTATAAATATTTAAAACCTATCACGAATATCAC
15954128 ATATAAGGGC
Statistics
Matches: 143, Mismatches: 23, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
173 138 0.97
174 5 0.03
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (174 bp):
ATAATAAAAAGAAAGTAATTACTAGTACTCTTAGTTCCCTTGGGTTCGACAATCCAGTCTTGCCA
AAACTATACTACTATTCGATAGATACAATTGCCTACATCGCGATAATAGTTAGTTTCAAGAACAA
TTAATTATAAATATTTAAAACCTATCACGAATATCACGCGATCA
Found at i:15956518 original size:32 final size:32
Alignment explanation
Indices: 15956477--15956541 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
15956467 TGAAACTCAA
*
15956477 TCTCTTTCCTTTTTAAATCAGCATATGACTTT
1 TCTCTTTCCTTTTCAAATCAGCATATGACTTT
**
15956509 TCTCTTTCCTTTTCAAATTGGCATATGACTTT
1 TCTCTTTCCTTTTCAAATCAGCATATGACTTT
15956541 T
1 T
15956542 GCCTATCCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.20, C:0.22, G:0.08, T:0.51
Consensus pattern (32 bp):
TCTCTTTCCTTTTCAAATCAGCATATGACTTT
Found at i:15960067 original size:194 final size:194
Alignment explanation
Indices: 15959738--15960125 Score: 776
Period size: 194 Copynumber: 2.0 Consensus size: 194
15959728 AACAACATAA
15959738 CCGGTAAAAATACCTAATGTTCATAAGTACATGATAAAGTGGGAATTTAATGCTGCCAGAGAAGG
1 CCGGTAAAAATACCTAATGTTCATAAGTACATGATAAAGTGGGAATTTAATGCTGCCAGAGAAGG
15959803 GAAAAATGTTCAGTGTGTCATAAAACATAATAAAAATGGATAAATTTTAATATCTGAGCCTAGGG
66 GAAAAATGTTCAGTGTGTCATAAAACATAATAAAAATGGATAAATTTTAATATCTGAGCCTAGGG
15959868 GTAAAATTGTAATTCTACAAAGGTTTAGGGGAAAAATTGTAATTTTTCCAAAGTTTGAGTTAAG
131 GTAAAATTGTAATTCTACAAAGGTTTAGGGGAAAAATTGTAATTTTTCCAAAGTTTGAGTTAAG
15959932 CCGGTAAAAATACCTAATGTTCATAAGTACATGATAAAGTGGGAATTTAATGCTGCCAGAGAAGG
1 CCGGTAAAAATACCTAATGTTCATAAGTACATGATAAAGTGGGAATTTAATGCTGCCAGAGAAGG
15959997 GAAAAATGTTCAGTGTGTCATAAAACATAATAAAAATGGATAAATTTTAATATCTGAGCCTAGGG
66 GAAAAATGTTCAGTGTGTCATAAAACATAATAAAAATGGATAAATTTTAATATCTGAGCCTAGGG
15960062 GTAAAATTGTAATTCTACAAAGGTTTAGGGGAAAAATTGTAATTTTTCCAAAGTTTGAGTTAAG
131 GTAAAATTGTAATTCTACAAAGGTTTAGGGGAAAAATTGTAATTTTTCCAAAGTTTGAGTTAAG
15960126 GAATTTTTTG
Statistics
Matches: 194, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
194 194 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.30
Consensus pattern (194 bp):
CCGGTAAAAATACCTAATGTTCATAAGTACATGATAAAGTGGGAATTTAATGCTGCCAGAGAAGG
GAAAAATGTTCAGTGTGTCATAAAACATAATAAAAATGGATAAATTTTAATATCTGAGCCTAGGG
GTAAAATTGTAATTCTACAAAGGTTTAGGGGAAAAATTGTAATTTTTCCAAAGTTTGAGTTAAG
Found at i:15960861 original size:47 final size:45
Alignment explanation
Indices: 15960740--15961021 Score: 145
Period size: 47 Copynumber: 6.1 Consensus size: 45
15960730 GGAATTGACG
* *
15960740 GTTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAA
1 GTTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGACAA
** * * *
15960785 GGCAAGGATCCCGTGTAAGACCATGTCAAGACATGGCATCGACATT
1 GTTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGACA-A
* ** ** *
15960831 GATTAAGGACT-CCATGTAAGACCATATCAAGATGTAACATTGGCACTAA
1 G-TTAAGGA-TACCATGTAAGACCATGTCAAGACATGGCA-TCG-AC-AA
** *** * *
15960880 CATAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTCG-TAA
1 GTTAAGGATACCATGTAAGACCATGTCAAG-ACATGGCA--TCGACAA
** *** * **
15960927 GACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAA
1 GTTAAGGATACCATGTAAGACCATGTCAAG-ACATGGCA-TCGACAA
* * * * * *
15960974 GATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAA
1 GTTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGACAA
15961019 GTT
1 GTT
15961022 CTATAAGGCA
Statistics
Matches: 184, Mismatches: 43, Indels: 20
0.74 0.17 0.08
Matches are distributed among these distances:
45 46 0.25
46 11 0.06
47 93 0.51
48 25 0.14
49 5 0.03
50 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.24
Consensus pattern (45 bp):
GTTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGACAA
Found at i:15961107 original size:55 final size:53
Alignment explanation
Indices: 15960977--15961171 Score: 194
Period size: 54 Copynumber: 3.6 Consensus size: 53
15960967 TTGGTAAGAT
* * * * * *
15960977 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGATGAGTTC-ATAAGGA
* * *
15961031 AAGAAAATCATGTAAGACCATGTCAAGACATGGAATTGATGAGTTACTATAAGGTA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGATGAGTT-C-ATAAGG-A
* * * * * * *
15961087 AAGG-TCCCATGTAAGGCCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGATGAGTTCATAAGGA
*
15961139 AAGGATACCACGTAAGACCATGTCAAGACATGG
1 AAGGATACCATGTAAGACCATGTCAAGACATGG
15961172 CAATGGTAAG
Statistics
Matches: 116, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
52 4 0.03
53 29 0.25
54 40 0.34
55 40 0.34
56 3 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGATGAGTTCATAAGGA
Found at i:15961203 original size:108 final size:108
Alignment explanation
Indices: 15960985--15961208 Score: 283
Period size: 108 Copynumber: 2.1 Consensus size: 108
15960975 ATAAGGATAT
* *
15960985 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGAAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGAAAACCACGTAAGACC
* * *
15961050 ATGTCAAGACATGGAATTGATGAGTTACTATAAGGTAAAGGTCC
66 ATGTCAAGACATGGAATTGATAAGTTAC-AAAAGGAAAAGGTCC
* * * * *
15961094 CATGTAAGGCCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGAAAACCACGTAAGACC
*
15961158 ATGTCAAGACATGGCAA-TGGTAAGTTGA-AAAAGGAAAAGGTTCC
66 ATGTCAAGACATGG-AATTGATAAGTT-ACAAAAGGAAAAGG-TCC
*
15961202 CAAGTAA
1 CATGTAA
15961209 TCCAAAGAGT
Statistics
Matches: 100, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
107 10 0.10
108 52 0.52
109 38 0.38
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (108 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGAAAACCACGTAAGACC
ATGTCAAGACATGGAATTGATAAGTTACAAAAGGAAAAGGTCC
Found at i:15965213 original size:39 final size:39
Alignment explanation
Indices: 15965159--15965235 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
15965149 GAATCCGATA
15965159 CCTGAAATTTTAGAGAGTTAAAGTTGATTTTCAAGTATC
1 CCTGAAATTTTAGAGAGTTAAAGTTGATTTTCAAGTATC
15965198 CCTGAAATTTTAGAGAGTTAAAGTTGATTTTCAAGTAT
1 CCTGAAATTTTAGAGAGTTAAAGTTGATTTTCAAGTAT
15965236 TTCAGAAGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (39 bp):
CCTGAAATTTTAGAGAGTTAAAGTTGATTTTCAAGTATC
Found at i:15967676 original size:47 final size:47
Alignment explanation
Indices: 15967617--15967738 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
15967607 GCATTGGCAC
15967617 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
*
15967664 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
* * *
15967711 TAAGATAAGGATATCATGTAAGAACATG
1 TAAGACAAGGATACCATGTAAGACCATG
15967739 CCAAGGCATG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
Found at i:15967841 original size:55 final size:55
Alignment explanation
Indices: 15967717--15967913 Score: 240
Period size: 55 Copynumber: 3.6 Consensus size: 55
15967707 TTGGTAAGAT
* * * *
15967717 AAGGATATCATGTAAGAACATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC-
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCA
* * *
15967771 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGCA
* * *
15967827 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGG-A
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCA
** *
15967879 AAGGATACCACATAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
15967914 ATGGTAAGTT
Statistics
Matches: 124, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 5 0.04
53 31 0.25
54 41 0.33
55 43 0.35
56 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.21
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCA
Found at i:15967900 original size:53 final size:54
Alignment explanation
Indices: 15967717--15967934 Score: 233
Period size: 54 Copynumber: 4.0 Consensus size: 54
15967707 TTGGTAAGAT
* * * *
15967717 AAGGATATCATGTAAGAACATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGA
* * * *
15967771 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGG-A
* * * *
15967827 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGA
** * * * * *
15967879 AAGGATACCACATAAGACCATGTCAAGACATGGCAATGGTAAGTTCAAAAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGA
15967933 AA
1 AA
15967935 AGGTTCTCGA
Statistics
Matches: 140, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
52 5 0.04
53 40 0.29
54 49 0.35
55 42 0.30
56 4 0.03
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGA
Found at i:15968783 original size:40 final size:41
Alignment explanation
Indices: 15968697--15968785 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 41
15968687 TGGCGTTTTT
* * *
15968697 CTAAAAACAAAGCAATAGCGGCATTTTTTGCTAAAACACCG
1 CTAAAAACAAAGCAATAGCGGCAGTTTTCGCTAAAACACCA
* * * *
15968738 CTAAAAATATAGCAATAGCGGC-GTTTTCGGTAAAACGCCA
1 CTAAAAACAAAGCAATAGCGGCAGTTTTCGCTAAAACACCA
15968778 CTAAAAAC
1 CTAAAAAC
15968786 GCGCTTTCGG
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 20 0.50
41 20 0.50
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (41 bp):
CTAAAAACAAAGCAATAGCGGCAGTTTTCGCTAAAACACCA
Found at i:15968831 original size:41 final size:41
Alignment explanation
Indices: 15968786--15968893 Score: 162
Period size: 41 Copynumber: 2.6 Consensus size: 41
15968776 CACTAAAAAC
15968786 GCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCATTAGCG
1 GCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCATTAGCG
* *
15968827 GCGCTTTCGGTAAAACGCTGCTAAATACCAGAGCATTAGCG
1 GCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCATTAGCG
* * * *
15968868 GCGCTTTTGCTAAAACACCGTTAAAA
1 GCGCTTTCGGTAAAACGCCGCTAAAA
15968894 GTCATATAAC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.21
Consensus pattern (41 bp):
GCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCATTAGCG
Found at i:15969216 original size:7 final size:7
Alignment explanation
Indices: 15969205--15969292 Score: 54
Period size: 7 Copynumber: 12.3 Consensus size: 7
15969195 TTAAGGTGTA
15969205 AGGGTTT
1 AGGGTTT
*
15969212 -GGGGTT
1 AGGGTTT
*
15969218 AGGGGTTA
1 A-GGGTTT
15969226 AGGGTTT
1 AGGGTTT
15969233 AGGGTTT
1 AGGGTTT
*
15969240 AGAGTTT
1 AGGGTTT
*
15969247 AGTGTTT
1 AGGGTTT
**
15969254 ATTGTTT
1 AGGGTTT
*
15969261 ATGGG-AT
1 A-GGGTTT
*
15969268 AGGGGTTA
1 A-GGGTTT
15969276 AGAGGTTT
1 AG-GGTTT
15969284 AGGGTTT
1 AGGGTTT
15969291 AG
1 AG
15969293 ATTAATTAGT
Statistics
Matches: 62, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
6 5 0.08
7 44 0.71
8 13 0.21
ACGTcount: A:0.19, C:0.00, G:0.41, T:0.40
Consensus pattern (7 bp):
AGGGTTT
Found at i:15971276 original size:26 final size:26
Alignment explanation
Indices: 15971223--15971318 Score: 158
Period size: 26 Copynumber: 3.7 Consensus size: 26
15971213 CTCTTTTAAT
* *
15971223 AACTGGGTCAAAAGCCC-TTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
15971248 AACTGGGGCATAAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
15971274 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
15971300 AACTGGGGCATAAGCCCTT
1 AACTGGGGCATAAGCCCTT
15971319 CTAACTGGGC
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 15 0.23
26 51 0.77
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:15971334 original size:20 final size:21
Alignment explanation
Indices: 15971222--15971338 Score: 65
Period size: 26 Copynumber: 5.0 Consensus size: 21
15971212 CCTCTTTTAA
*
15971222 TAACTGGGTCAAAAGCCCTTTC
1 TAACTGGGGCAAAAGCCC-TTC
*
15971244 GGTAAACTGGGGCATAAGCCCTTTTC
1 --T-AACTGGGGCAAAAGCCC--TTC
*
15971270 GATAAACTGGGGCATAAGCCCTTTTC
1 --T-AACTGGGGCAAAAGCCC--TTC
*
15971296 GGTAAACTGGGGCATAAGCCCTTC
1 --T-AACTGGGGCAAAAGCCCTTC
15971320 TAACT-GGGCAAAAGCCCTT
1 TAACTGGGGCAAAAGCCCTT
15971339 TTGCACTTCC
Statistics
Matches: 86, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
20 13 0.15
21 4 0.05
22 1 0.01
24 4 0.05
25 15 0.17
26 49 0.57
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (21 bp):
TAACTGGGGCAAAAGCCCTTC
Found at i:15971436 original size:20 final size:20
Alignment explanation
Indices: 15971390--15971436 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
15971380 TTATGAATAC
15971390 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
15971410 ATTATGTGCGTATCATATCA-
1 ATCATGTGCATATCATA-CAT
15971430 ATCATGT
1 ATCATGT
15971437 ATATCAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:15971500 original size:25 final size:25
Alignment explanation
Indices: 15971472--15971519 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
15971462 ATAAGTAAAC
* * *
15971472 CCTAGGGGTATAACGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
15971497 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
15971520 CATAATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:16001801 original size:27 final size:27
Alignment explanation
Indices: 16001771--16001862 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
16001761 ATTACCAAAG
* * *
16001771 TACCCTCGATTTATAGAATCACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
16001798 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
**
16001825 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
16001852 TACCCTCGATT
1 TACCCTCGATT
16001863 GTGAAATTAC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:16001924 original size:27 final size:27
Alignment explanation
Indices: 16001894--16001993 Score: 123
Period size: 27 Copynumber: 3.7 Consensus size: 27
16001884 TATAGGGTAG
16001894 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
16001921 AATTACCAAAATACTACC-GGTTTATGA
1 AATTACCAAAATAC-CCCTAGTTTGTAA
*
16001948 AATTACCAAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
16001975 AATTACCAAAATACCCCTA
1 AATTACCAAAATACCCCTA
16001994 ATTTACACAA
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
25 2 0.03
27 52 0.87
28 6 0.10
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:16002069 original size:27 final size:27
Alignment explanation
Indices: 16001995--16002080 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
16001985 ATACCCCTAA
* * *
16001995 TTTACACAATTATAGAAATACCCTTGAC
1 TTTACAAAATTATAGAAATACCATTG-G
16002023 TTT-CTAAAAATTATAGAAATACCATTGG
1 TTTAC--AAAATTATAGAAATACCATTGG
*
16002051 TTTACAAAATTACTA-AAATACCCTTGG
1 TTTACAAAATTA-TAGAAATACCATTGG
16002078 TTT
1 TTT
16002081 GTAGATTTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
27 22 0.44
28 8 0.16
29 20 0.40
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCATTGG
Found at i:16003047 original size:25 final size:24
Alignment explanation
Indices: 16003009--16003078 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
16002999 AGGAAGTGCT
* *
16003009 AAAAAGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
* * *
16003033 GAAAAGGGCTTTGCCCTAATTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
16003058 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
16003079 ATTAAAAGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:16003091 original size:24 final size:23
Alignment explanation
Indices: 16003034--16003105 Score: 63
Period size: 25 Copynumber: 3.0 Consensus size: 23
16003024 CAGTTTACCG
* * *
16003034 AAAAGGGCTTTGCCCTAATTTATC
1 AAAAGGGCTTTGCCC-CAGTTATT
16003058 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATT
**
16003082 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
16003106 ATGATAAAGC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 4 0.10
24 14 0.35
25 22 0.55
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATT
Found at i:16003291 original size:42 final size:42
Alignment explanation
Indices: 16003226--16003317 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
16003216 TAGTCTCCCC
* *
16003226 AAATGGGCTTGCATACATTCATTGACATCACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGAAATCACATGTGATATTG
* *
16003268 AGATGGGCTTGCATACATCCATTGAAATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGAAATCACATGTGATATTG
16003310 AAATGGGC
1 AAATGGGC
16003318 CTAAGAGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.32
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGAAATCACATGTGATATTG
Found at i:16003382 original size:31 final size:31
Alignment explanation
Indices: 16003341--16003424 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
16003331 CGTTTACAGT
16003341 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
16003372 AAAGGTTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
16003403 AAAGGCTTCGGCCTAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
16003425 TCAAGACAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:16006523 original size:31 final size:31
Alignment explanation
Indices: 16006488--16006550 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
16006478 AAAGGGTTAG
*
16006488 TCACACCTGAACCAGAACCAAGGCAAGAAAC
1 TCACACCTAAACCAGAACCAAGGCAAGAAAC
16006519 TCACACCTAAACCAGAACCAAGGCAAGAAAC
1 TCACACCTAAACCAGAACCAAGGCAAGAAAC
16006550 T
1 T
16006551 GAGATAAGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.46, C:0.32, G:0.14, T:0.08
Consensus pattern (31 bp):
TCACACCTAAACCAGAACCAAGGCAAGAAAC
Found at i:16013808 original size:27 final size:27
Alignment explanation
Indices: 16013761--16013864 Score: 106
Period size: 27 Copynumber: 3.9 Consensus size: 27
16013751 CTGCCAAAAC
* * *
16013761 AGATAA-TGTGACAGAGTCACCAGAAT
1 AGATAATTGTGGCAAAGCCACCAGAAT
* *
16013787 AGTTAATTGTGGCAAAGCCACCAGAAC
1 AGATAATTGTGGCAAAGCCACCAGAAT
*
16013814 AGAT-ATATGTGGCAGAGCCACCAG-AT
1 AGATAAT-TGTGGCAAAGCCACCAGAAT
*
16013840 CAGATAATTGTGGCATAGCCACCAG
1 -AGATAATTGTGGCAAAGCCACCAG
16013865 GACGCTTCCT
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 8 0.12
27 55 0.85
28 2 0.03
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (27 bp):
AGATAATTGTGGCAAAGCCACCAGAAT
Found at i:16013848 original size:54 final size:53
Alignment explanation
Indices: 16013758--16013864 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 53
16013748 TGGCTGCCAA
* *
16013758 AACAGATAATGTGACAGAGTCACCAGAATAGTTAATTGTGGCAAAGCCACCAG
1 AACAGATAATGTGACAGAGCCACCAGAATAGATAATTGTGGCAAAGCCACCAG
* *
16013811 AACAGATATATGTGGCAGAGCCACCAG-ATCAGATAATTGTGGCATAGCCACCAG
1 AACAGATA-ATGTGACAGAGCCACCAGAAT-AGATAATTGTGGCAAAGCCACCAG
16013865 GACGCTTCCT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
53 10 0.21
54 38 0.79
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (53 bp):
AACAGATAATGTGACAGAGCCACCAGAATAGATAATTGTGGCAAAGCCACCAG
Found at i:16015905 original size:47 final size:47
Alignment explanation
Indices: 16015830--16016323 Score: 848
Period size: 47 Copynumber: 10.5 Consensus size: 47
16015820 TTCGGGACTC
* * * * * * * *
16015830 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCT
1 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
*
16015877 GTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
16015924 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
16015971 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
16016018 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
16016065 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
16016112 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
16016159 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
*
16016206 ATCACATATATACACTTTCACATTCAT--CATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
* *
16016251 ATCACATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
16016300 ATCACATATATACACTTTCACATT
1 ATCACATATATACACTTTCACATT
16016324 TATTCAAATA
Statistics
Matches: 431, Mismatches: 12, Indels: 8
0.96 0.03 0.02
Matches are distributed among these distances:
45 22 0.05
47 387 0.90
49 22 0.05
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
Found at i:16017843 original size:42 final size:42
Alignment explanation
Indices: 16017770--16017854 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
16017760 AATTTGCTTC
* *
16017770 TTCCCTTTTCTACTACAGCCTTTTCCCACCTTGTTAGATAAA
1 TTCCCTTTTCTACTACAACCTTCTCCCACCTTGTTAGATAAA
* *
16017812 TTCCCTTTTCTACTACAACCTTCTCCTACCTTGTTAGCTAAA
1 TTCCCTTTTCTACTACAACCTTCTCCCACCTTGTTAGATAAA
16017854 T
1 T
16017855 ACAATCAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.21, C:0.32, G:0.06, T:0.41
Consensus pattern (42 bp):
TTCCCTTTTCTACTACAACCTTCTCCCACCTTGTTAGATAAA
Found at i:16021715 original size:48 final size:48
Alignment explanation
Indices: 16021659--16021759 Score: 148
Period size: 48 Copynumber: 2.1 Consensus size: 48
16021649 CATTAGGGTT
* * *
16021659 ATATGAGATCCCATGTAACACCATGTCTGGGAAATGGCATTGGTATCA
1 ATATGAGATCCCATGTAACACCATATCTGGGAAATCGCATTGGCATCA
* * *
16021707 ATATGAGATCCCATGTAAGACCATATCTGGGATATCGCATTGGCATCG
1 ATATGAGATCCCATGTAACACCATATCTGGGAAATCGCATTGGCATCA
16021755 ATATG
1 ATATG
16021760 TTATTTCGTG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (48 bp):
ATATGAGATCCCATGTAACACCATATCTGGGAAATCGCATTGGCATCA
Found at i:16024669 original size:55 final size:53
Alignment explanation
Indices: 16024527--16024735 Score: 188
Period size: 54 Copynumber: 3.9 Consensus size: 53
16024517 TTTTCCATTT
* * * *
16024527 TGAACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTA
1 TGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * *
16024580 TGAACTCACCAATGCCATGCCATGGCATGGTCTTACATAGG-A-CCTTTTCCTTA
1 TGAACTCACCAATGCCATGTCTTGACATGGTCTTACAT-GGTATCC-TTGCCTTA
* * * * *
16024633 TAGTAACTCATCAATGCCATGTCTTGACATGTTCTTACATGATTTACTTGCCTTA
1 T-G-AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * * * *
16024688 TAGAACTTATCAATGCCATGCCTTGGCTTGGTCTTACATGATATCCTT
1 T-GAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
16024736 ATCTTACCAA
Statistics
Matches: 126, Mismatches: 24, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
52 2 0.02
53 40 0.32
54 42 0.33
55 41 0.33
56 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (53 bp):
TGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
Found at i:16024723 original size:54 final size:53
Alignment explanation
Indices: 16024541--16024729 Score: 186
Period size: 55 Copynumber: 3.5 Consensus size: 53
16024531 CTTACCATTT
* * * * * *
16024541 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATG
1 CCATGCCTTGGCATGGTCTTACATGAT-TTCTTGCCTTATAGAACTCATCAATG
* *
16024594 CCATGCCATGGCATGGTCTTACATAGGACCTT-TT-CCTTATAGTAACTCATCAATG
1 CCATGCCTTGGCATGGTCTTACAT--GA-TTTCTTGCCTTATAG-AACTCATCAATG
* * * *
16024649 CCATGTCTTGACATGTTCTTACATGATTTACTTGCCTTATAGAACTTATCAATG
1 CCATGCCTTGGCATGGTCTTACATGATTT-CTTGCCTTATAGAACTCATCAATG
*
16024703 CCATGCCTTGGCTTGGTCTTACATGAT
1 CCATGCCTTGGCATGGTCTTACATGAT
16024730 ATCCTTATCT
Statistics
Matches: 110, Mismatches: 18, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
52 2 0.02
53 28 0.25
54 39 0.35
55 41 0.37
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (53 bp):
CCATGCCTTGGCATGGTCTTACATGATTTCTTGCCTTATAGAACTCATCAATG
Found at i:16024785 original size:44 final size:44
Alignment explanation
Indices: 16024724--16025580 Score: 1621
Period size: 44 Copynumber: 19.4 Consensus size: 44
16024714 CTTGGTCTTA
* *
16024724 CATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTC
1 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
16024768 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
1 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
16024812 TTACATGGTATCCTTG---TACCAAATGCCATGTTCCAAACATGGTC
1 ---CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
16024856 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
1 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
16024900 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
1 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
16024944 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
1 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
16024988 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
1 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
16025032 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
1 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
16025076 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
1 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
16025120 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
1 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
16025164 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
1 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
16025208 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
1 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
16025252 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
1 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
16025296 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
1 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
16025340 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
1 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
16025384 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
1 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
16025428 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
1 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
16025472 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
1 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
16025516 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
1 CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
16025560 TTACATGGTATCCTTGTCTTA
1 ---CATGGTATCCTTGTCTTA
16025581 GTGCCAATGC
Statistics
Matches: 802, Mismatches: 2, Indels: 15
0.98 0.00 0.02
Matches are distributed among these distances:
41 13 0.02
44 758 0.95
47 31 0.04
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (44 bp):
CATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTC
Found at i:16025669 original size:47 final size:48
Alignment explanation
Indices: 16025552--16025671 Score: 111
Period size: 47 Copynumber: 2.5 Consensus size: 48
16025542 CATGTTCCAA
* *
16025552 ACATGGTCTTACATGGTATCCTT-GTCTTAGTGCCAATGCCACATCTTG
1 ACATGGTCTTACATGGTATCCTTAATC-TAATGCCAATGCCACATCTTG
** * * * * **
16025600 ATGTGGTGTTACATAG-AGTCCTTAATC-AATGTCGATGCCATGTCTTG
1 ACATGGTCTTACATGGTA-TCCTTAATCTAATGCCAATGCCACATCTTG
16025647 ACATGGTCTTACATGGTATCCTTAA
1 ACATGGTCTTACATGGTATCCTTAA
16025672 CCGTCAATTC
Statistics
Matches: 55, Mismatches: 14, Indels: 7
0.72 0.18 0.09
Matches are distributed among these distances:
47 35 0.64
48 18 0.33
49 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (48 bp):
ACATGGTCTTACATGGTATCCTTAATCTAATGCCAATGCCACATCTTG
Found at i:16031503 original size:55 final size:54
Alignment explanation
Indices: 16031418--16031553 Score: 193
Period size: 55 Copynumber: 2.5 Consensus size: 54
16031408 CGTGCCTTTA
* *
16031418 TCCCGTGTGCAACACTGACTTTAAAACACAGCCATGGCACACA-CCCATGTGGCC
1 TCCCGTGTACAATACTGACTTTAAAACACAGCCATGGCACA-AGCCCATGTGGCC
* * *
16031472 TGCCCGTGTACAATACTGGCTTTAAAACACAGCTATGGGACAAGCCCATGTGGCC
1 T-CCCGTGTACAATACTGACTTTAAAACACAGCCATGGCACAAGCCCATGTGGCC
16031527 TCACCGTGTACAATACTGACTTTAAAA
1 TC-CCGTGTACAATACTGACTTTAAAA
16031554 TTTTAAGTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
54 3 0.04
55 70 0.96
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (54 bp):
TCCCGTGTACAATACTGACTTTAAAACACAGCCATGGCACAAGCCCATGTGGCC
Found at i:16032589 original size:46 final size:46
Alignment explanation
Indices: 16032453--16032670 Score: 303
Period size: 46 Copynumber: 4.7 Consensus size: 46
16032443 TCATCGTCGA
* * *
16032453 GGCCGATGCATGTCCTAGACATGTCTTACACTGGCACTCAT-CTCT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATAATGT
** *
16032498 ACACCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATAT
1 -GGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATAATGT
* * *
16032547 GGCCGATGCATGTGCCAGACACGTCCTACACTGGCACTCATAATGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATAATGT
* *
16032593 GGTCGATGTATGTCCCAGACATGTCTTACACTGGCACTCATAATGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATAATGT
16032639 GGCCGATGCATGTCCCAGACATGTCTTACACT
1 GGCCGATGCATGTCCCAGACATGTCTTACACT
16032671 AGCAGACAAG
Statistics
Matches: 151, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
46 99 0.66
47 25 0.17
48 25 0.17
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATAATGT
Found at i:16033054 original size:30 final size:30
Alignment explanation
Indices: 16033013--16033070 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
16033003 AAGTTCACAT
* *
16033013 CTTTGGTAAAATGACCATTTTGCCCCTAAA
1 CTTTGGCAAAATGACCATTTTACCCCTAAA
16033043 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
16033071 TGCTCGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAAA
Found at i:16039066 original size:55 final size:55
Alignment explanation
Indices: 16038978--16039096 Score: 157
Period size: 55 Copynumber: 2.2 Consensus size: 55
16038968 TGCAGCACTA
** * *
16038978 ACTTTAAAACACGGCCATGGCACACACTAGTGTGGCTTGCCCATGTACAATACTG
1 ACTTTAAAACACGAACATGGCACACACCAGTGTGGCCTGCCCATGTACAATACTG
** * * *
16039033 ACTTTAAAACACGAACATGGCACATGCCCGTGTGGCCTGGCCGTGTACAATACTG
1 ACTTTAAAACACGAACATGGCACACACCAGTGTGGCCTGCCCATGTACAATACTG
16039088 ACTTTAAAA
1 ACTTTAAAA
16039097 TTTTAAGTGC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (55 bp):
ACTTTAAAACACGAACATGGCACACACCAGTGTGGCCTGCCCATGTACAATACTG
Found at i:16040175 original size:46 final size:46
Alignment explanation
Indices: 16040003--16040933 Score: 1663
Period size: 46 Copynumber: 20.2 Consensus size: 46
16039993 CTCTTAGCCA
* *
16040003 ATGCATGTCCCAGACACGTCTTACACTGGCTGC-CAT--TGTCAAGGCCG
1 ATGCATGTCCCAGACACGTCTTACACTGGC-ACTCATAATGT---GGCTG
* * * * ** *
16040050 ATGCATGTCCCAGACATGTCTTACATTGGCACTCAT-CTCTACACCG
1 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGT-GGCTG
*
16040096 ATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATGTGGCTG
1 ATG-CATGTCCCAGACA-CGTCTTACACTGGCACTCATAATGTGGCTG
*
16040144 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCCG
1 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
16040190 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
1 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
16040236 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
1 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
16040282 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
1 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
16040328 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
1 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
16040374 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
1 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
16040420 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
1 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
16040466 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
1 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
16040512 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
1 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
16040558 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
1 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
16040604 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
1 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
16040650 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
1 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
16040696 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
1 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
16040742 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
1 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
16040788 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
1 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
16040834 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
1 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
*
16040880 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCCG
1 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
16040926 ATGCATGT
1 ATGCATGT
16040934 GTAACACCCC
Statistics
Matches: 862, Mismatches: 17, Indels: 11
0.97 0.02 0.01
Matches are distributed among these distances:
46 778 0.90
47 57 0.07
48 25 0.03
49 2 0.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.26
Consensus pattern (46 bp):
ATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGTGGCTG
Found at i:16042313 original size:27 final size:27
Alignment explanation
Indices: 16042283--16042460 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
16042273 ATATTGAGTC
* * * *
16042283 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
16042310 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16042337 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
16042365 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
16042392 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
16042419 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16042446 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16042461 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:16042422 original size:82 final size:81
Alignment explanation
Indices: 16042304--16042459 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
16042294 TGCTATATAA
* *
16042304 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
16042369 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
16042386 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
16042450 CACTTAGTGC
65 CACTTAGTGC
16042460 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:16050502 original size:27 final size:27
Alignment explanation
Indices: 16050472--16050649 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
16050462 ATATTGAGTC
* * * *
16050472 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
16050499 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16050526 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
16050554 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
16050581 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
16050608 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16050635 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16050650 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:16050611 original size:82 final size:81
Alignment explanation
Indices: 16050493--16050648 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
16050483 TGCTATATAA
* *
16050493 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
16050558 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
16050575 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
16050639 CACTTAGTGC
65 CACTTAGTGC
16050649 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:16054849 original size:54 final size:56
Alignment explanation
Indices: 16054696--16054853 Score: 166
Period size: 55 Copynumber: 2.9 Consensus size: 56
16054686 CGTGGTATCC
* * *
16054696 TTGCCTTAT-G-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATG-GGACCT
1 TTGCCTTATAGCAACTCATCAATGCCATGTCTTGGCATGGTCTTACATGATGACCT
* * ** **
16054749 TTGCCTTATAGTAACTCATAAAT-CCTATGTCTTGAAATGGTCTTACATGATTTCC-
1 TTGCCTTATAGCAACTCATCAATGCC-ATGTCTTGGCATGGTCTTACATGATGACCT
* *
16054804 TTGTCTTATA-CAACTTATCAATGCCATGTCTTGGCATGGTCTTACATGAT
1 TTGCCTTATAGCAACTCATCAATGCCATGTCTTGGCATGGTCTTACATGAT
16054854 ATCTTTATAT
Statistics
Matches: 86, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
53 9 0.10
54 35 0.41
55 40 0.47
56 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (56 bp):
TTGCCTTATAGCAACTCATCAATGCCATGTCTTGGCATGGTCTTACATGATGACCT
Done.