Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 117 of 226
Found at i:36424223 original size:30 final size:30
Alignment explanation
Indices: 36424172--36424453 Score: 196
Period size: 30 Copynumber: 9.3 Consensus size: 30
36424162 ATCGATCTAA
* ** *
36424172 GAAAAAGGATAGCTTTGGCTATCGAACTAT
1 GAAAAGGGATAGCTTCAGCTATCAAACTAT
* *
36424202 GAAAAGGGATAGCTCCAGCTATCAAATTAT
1 GAAAAGGGATAGCTTCAGCTATCAAACTAT
* * * * *
36424232 GAAAAGGGAT-GGTGACGGCCATCAAACAAT
1 GAAAAGGGATAGCT-TCAGCTATCAAACTAT
* * * *
36424262 GAAAAGGGAT-G-GTGACGACCATCAAAATTAT
1 GAAAAGGGATAGCTTCA-G-CTATC-AAACTAT
36424293 GAAAAGGGATAGCTTCAGCTATCAAACTAT
1 GAAAAGGGATAGCTTCAGCTATCAAACTAT
*
36424323 GAAAAGGGATAGCTTCAGCTATCAAATTAT
1 GAAAAGGGATAGCTTCAGCTATCAAACTAT
* * * * * *
36424353 GAAAATGGATGGCTACAACCATCAAACAAT
1 GAAAAGGGATAGCTTCAGCTATCAAACTAT
* * * *
36424383 GAAAAGGGAT-G-GTGATGACCATCAAAATTAT
1 GAAAAGGGATAGCTTCA-G-CTATC-AAACTAT
* * *
36424414 GAAAAGGGATAGCTTCGGCTATCGAATTAT
1 GAAAAGGGATAGCTTCAGCTATCAAACTAT
*
36424444 GGAAAGGGAT
1 GAAAAGGGAT
36424454 GGTATCAACC
Statistics
Matches: 198, Mismatches: 43, Indels: 22
0.75 0.16 0.08
Matches are distributed among these distances:
28 1 0.01
29 4 0.02
30 148 0.75
31 38 0.19
32 4 0.02
33 3 0.02
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (30 bp):
GAAAAGGGATAGCTTCAGCTATCAAACTAT
Found at i:36424355 original size:91 final size:90
Alignment explanation
Indices: 36424199--36424466 Score: 294
Period size: 91 Copynumber: 2.9 Consensus size: 90
36424189 GCTATCGAAC
* * * * **
36424199 TATGAAAAGGGATAGCTCCAGCTATCAAATTATGAAAAGGGAT-GGTGACGGCCATCAAACAATG
1 TATGAAAAGGGATAGCTTCAGCTATCAAATTATGAAAAGGGATAGCT-TCGGCTATCAAATTATG
*
36424263 AAAAGGGATGGTGACGACCATCAAA-A
65 AAAAGGGATGGT-ACAACCATCAAACA
* *
36424289 TTATGAAAAGGGATAGCTTCAGCTATCAAACTATGAAAAGGGATAGCTTCAGCTATCAAATTATG
1 -TATGAAAAGGGATAGCTTCAGCTATCAAATTATGAAAAGGGATAGCTTCGGCTATCAAATTATG
*
36424354 AAAATGGATGGCTACAACCATCAAACA
65 AAAAGGGATGG-TACAACCATCAAACA
* * * *
36424381 -ATGAAAAGGGAT-G-GTGATGACCATCAAAATTATGAAAAGGGATAGCTTCGGCTATCGAATTA
1 TATGAAAAGGGATAGCTTCA-G-CTATC-AAATTATGAAAAGGGATAGCTTCGGCTATCAAATTA
*
36424443 TGGAAAGGGATGGTATCAACCATC
63 TGAAAAGGGATGGTA-CAACCATC
36424467 TTATTATCAC
Statistics
Matches: 152, Mismatches: 18, Indels: 14
0.83 0.10 0.08
Matches are distributed among these distances:
88 2 0.01
89 2 0.01
90 18 0.12
91 126 0.83
92 4 0.03
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (90 bp):
TATGAAAAGGGATAGCTTCAGCTATCAAATTATGAAAAGGGATAGCTTCGGCTATCAAATTATGA
AAAGGGATGGTACAACCATCAAACA
Found at i:36424473 original size:121 final size:121
Alignment explanation
Indices: 36424172--36424453 Score: 449
Period size: 121 Copynumber: 2.3 Consensus size: 121
36424162 ATCGATCTAA
* * *
36424172 GAAAAAGGATAGCTTTGGCTATCGAACTATGAAAAGGGATAGCTCCAGCTATCAAATTATGAAAA
1 GAAAAGGGATAGCTTCGGCTATCGAACTATGAAAAGGGATAGCTTCAGCTATCAAATTATGAAAA
**
36424237 GGGATGGTGACGGCCATCAAACAATGAAAAGGGATGGTGACGACCATCAAAATTAT
66 GGGATGGTGACAACCATCAAACAATGAAAAGGGATGGTGACGACCATCAAAATTAT
* *
36424293 GAAAAGGGATAGCTTCAGCTATCAAACTATGAAAAGGGATAGCTTCAGCTATCAAATTATGAAAA
1 GAAAAGGGATAGCTTCGGCTATCGAACTATGAAAAGGGATAGCTTCAGCTATCAAATTATGAAAA
* *
36424358 TGGATGGCT-ACAACCATCAAACAATGAAAAGGGATGGTGATGACCATCAAAATTAT
66 GGGATGG-TGACAACCATCAAACAATGAAAAGGGATGGTGACGACCATCAAAATTAT
* *
36424414 GAAAAGGGATAGCTTCGGCTATCGAATTATGGAAAGGGAT
1 GAAAAGGGATAGCTTCGGCTATCGAACTATGAAAAGGGAT
36424454 GGTATCAACC
Statistics
Matches: 147, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
121 146 0.99
122 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (121 bp):
GAAAAGGGATAGCTTCGGCTATCGAACTATGAAAAGGGATAGCTTCAGCTATCAAATTATGAAAA
GGGATGGTGACAACCATCAAACAATGAAAAGGGATGGTGACGACCATCAAAATTAT
Found at i:36429132 original size:26 final size:27
Alignment explanation
Indices: 36429080--36429132 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
36429070 TTGAATTTTT
* *
36429080 TAAAGGTTATAAATGTAATTAAGTAAA
1 TAAAGGTTATAAATGTAATAAAATAAA
36429107 TAAAGGTTA-AAAT-TAAATAAAATAAA
1 TAAAGGTTATAAATGT-AATAAAATAAA
36429133 AACTTACTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 1 0.04
26 13 0.57
27 9 0.39
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.30
Consensus pattern (27 bp):
TAAAGGTTATAAATGTAATAAAATAAA
Found at i:36429458 original size:30 final size:31
Alignment explanation
Indices: 36429424--36429484 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 31
36429414 TGAAATTATC
36429424 ATTTAGGGAT-TAAATTGAAAAATAA-GAAAT
1 ATTTAGGG-TGTAAATTGAAAAATAATGAAAT
* **
36429454 ATTTATGGTGTAAATTGTGAAATAATGAAAT
1 ATTTAGGGTGTAAATTGAAAAATAATGAAAT
36429485 GTGTGGGCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 1 0.04
30 20 0.77
31 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.34
Consensus pattern (31 bp):
ATTTAGGGTGTAAATTGAAAAATAATGAAAT
Found at i:36429877 original size:30 final size:30
Alignment explanation
Indices: 36429835--36430090 Score: 141
Period size: 30 Copynumber: 8.4 Consensus size: 30
36429825 ACCATCGATC
* *
36429835 TATGAAAAAGGGATAGCTCTGGCTATTACAT
1 TATG-AAAAGGGATAGCTCTGGCTATCAAAT
* *
36429866 TATGGAAAGGGATAG-TGAC-GAG-AATCAAAAT
1 TATGAAAAGGGATAGCT--CTG-GCTATC-AAAT
* * *
36429897 TATGAAAAGGGATAGCTTTAGCTATCAAAC
1 TATGAAAAGGGATAGCTCTGGCTATCAAAT
*
36429927 TATGGAAAGGGATAGCTCTGGCTATCAAAT
1 TATGAAAAGGGATAGCTCTGGCTATCAAAT
* * * * *
36429957 TATGAAAATGGATGGCTAC-GACTATTAAAC
1 TATGAAAAGGGATAGCT-CTGGCTATCAAAT
* * * * *
36429987 AATGAAAAGGGAT-GGTGAC-GACCATCAAAAC
1 TATGAAAAGGGATAGCT--CTGGCTATC-AAAT
* *
36430018 TATGAAAAGGGATAGCT-TCAGCTATCGAAT
1 TATGAAAAGGGATAGCTCT-GGCTATCAAAT
***
36430048 CCCGAAAAGGGATAGCT-TCGGCTATCAAAT
1 TATGAAAAGGGATAGCTCT-GGCTATCAAAT
*
36430078 TATGCAAAGGGAT
1 TATGAAAAGGGAT
36430091 GGTATCAACC
Statistics
Matches: 172, Mismatches: 40, Indels: 27
0.72 0.17 0.11
Matches are distributed among these distances:
29 3 0.02
30 119 0.69
31 47 0.27
32 3 0.02
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (30 bp):
TATGAAAAGGGATAGCTCTGGCTATCAAAT
Found at i:36430055 original size:91 final size:91
Alignment explanation
Indices: 36429923--36430093 Score: 200
Period size: 91 Copynumber: 1.9 Consensus size: 91
36429913 TTTAGCTATC
* * * * * * *
36429923 AAACTATGGAAAGGGATAGCTCTGGCTATCAAATTATGAAAATGGATGGCTACGACTATTAAACA
1 AAACTATGAAAAGGGATAGCTCTAGCTATCAAATCACGAAAAGGGATAGCTACGACTATCAAACA
36429988 ATGAAAAGGGATGGTGACGACCATCA
66 ATGAAAAGGGATGGTGACGACCATCA
* * * * *
36430014 AAACTATGAAAAGGGATAGCT-TCAGCTATCGAATCCCGAAAAGGGATAGCTTCGGCTATCAAAT
1 AAACTATGAAAAGGGATAGCTCT-AGCTATCAAATCACGAAAAGGGATAGCTACGACTATCAAAC
* *
36430078 TATGCAAAGGGATGGT
65 AATGAAAAGGGATGGT
36430094 ATCAACCATC
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
90 1 0.02
91 64 0.98
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (91 bp):
AAACTATGAAAAGGGATAGCTCTAGCTATCAAATCACGAAAAGGGATAGCTACGACTATCAAACA
ATGAAAAGGGATGGTGACGACCATCA
Found at i:36430071 original size:121 final size:121
Alignment explanation
Indices: 36429871--36430092 Score: 313
Period size: 121 Copynumber: 1.8 Consensus size: 121
36429861 TACATTATGG
* * * * *
36429871 AAAGGGATAGTGACGAGAATCAAAATTATGAAAAGGGATAGCTTTAGCTATCAAACTATGGAAAG
1 AAAGGGATAGTGACGACAATCAAAACTATGAAAAGGGATAGCTTCAGCTATCAAACTACGAAAAG
*
36429936 GGATAGCTCTGGCTATCAAATTATGAAAATGGATGGCTACGACTATTAAACAATGA
66 GGATAGCTCTGGCTATCAAATTATGAAAAGGGATGGCTACGACTATTAAACAATGA
* * * *
36429992 AAAGGGATGGTGACGACCATCAAAACTATGAAAAGGGATAGCTTCAGCTATCGAA-TCCCGAAAA
1 AAAGGGATAGTGACGACAATCAAAACTATGAAAAGGGATAGCTTCAGCTATCAAACT-ACGAAAA
*
36430056 GGGATAGCT-TCGGCTATCAAATTATGCAAAGGGATGG
65 GGGATAGCTCT-GGCTATCAAATTATGAAAAGGGATGG
36430093 TATCAACCAT
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
120 2 0.02
121 86 0.98
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (121 bp):
AAAGGGATAGTGACGACAATCAAAACTATGAAAAGGGATAGCTTCAGCTATCAAACTACGAAAAG
GGATAGCTCTGGCTATCAAATTATGAAAAGGGATGGCTACGACTATTAAACAATGA
Found at i:36453126 original size:348 final size:348
Alignment explanation
Indices: 36452489--36453185 Score: 1331
Period size: 348 Copynumber: 2.0 Consensus size: 348
36452479 ATCTTGGGAC
36452489 TTTACAATAACATATATGTGTTTTTGTTGATTATTATGAATATATAAATAGGAAGTAAATAAGGT
1 TTTACAATAACATATATGTGTTTTTGTTGATTATTATGAATATATAAATAGGAAGTAAATAAGGT
*
36452554 TTCCTATATGACCGAATAGGTAATTAAATGTATCGGTTAAGTATATGTATTTTAGCTATGATATT
66 TTCCTATATGACCGAATAGGTAATTAAATGTATCGGTTAAGTATATGTATTTTAACTATGATATT
*
36452619 TGGGCATGTGAAATAGGTGTAATATTAGTCATTATTTGTGTTCAAGATGATTTAAATTATTATGG
131 TGGGCATGTGAAATAAGTGTAATATTAGTCATTATTTGTGTTCAAGATGATTTAAATTATTATGG
36452684 TCCATACGCATAATCTTGAAATAAATTATAATGGCTAAGTATTTGATAAATTTGGTAATAGTTAA
196 TCCATACGCATAATCTTGAAATAAATTATAATGGCTAAGTATTTGATAAATTTGGTAATAGTTAA
36452749 GCAAACAAAATTGAATAATGGATGTTTAATGCATATTAGGTATGAGATGATTATATGTTCAAATA
261 GCAAACAAAATTGAATAATGGATGTTTAATGCATATTAGGTATGAGATGATTATATGTTCAAATA
36452814 TACTTTGAATATTTTGATTTGGT
326 TACTTTGAATATTTTGATTTGGT
36452837 TTTACAATAACATATATGTGTTTTTGTTGATTATTATGAATATATAAATAGGAAGTAAATAAGGT
1 TTTACAATAACATATATGTGTTTTTGTTGATTATTATGAATATATAAATAGGAAGTAAATAAGGT
36452902 TTCCTATATGACCGAATAGGTAATTAAATGTATCGGTTAAGTATATGTATTTTAACTATGATATT
66 TTCCTATATGACCGAATAGGTAATTAAATGTATCGGTTAAGTATATGTATTTTAACTATGATATT
36452967 TGGGCATGTGAAATAAGTGTAATATTAGTCATTATTTGTGTTCAAGATGATTTAAATTATTATGG
131 TGGGCATGTGAAATAAGTGTAATATTAGTCATTATTTGTGTTCAAGATGATTTAAATTATTATGG
*
36453032 TCCATGCGCATAATCTTGAAATAAATTATAATGGCTAAGTATTTGATAAATTTGGTAATAGTTAA
196 TCCATACGCATAATCTTGAAATAAATTATAATGGCTAAGTATTTGATAAATTTGGTAATAGTTAA
* *
36453097 GCAAACAAAATTGAATAGTGGATGTTTAATGCATATTAGGTATGAGATGATTATATGTTCAAATG
261 GCAAACAAAATTGAATAATGGATGTTTAATGCATATTAGGTATGAGATGATTATATGTTCAAATA
**
36453162 TACTTTGGTTATTTTGATTTGGT
326 TACTTTGAATATTTTGATTTGGT
36453185 T
1 T
36453186 GTAATAGCAT
Statistics
Matches: 342, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
348 342 1.00
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.40
Consensus pattern (348 bp):
TTTACAATAACATATATGTGTTTTTGTTGATTATTATGAATATATAAATAGGAAGTAAATAAGGT
TTCCTATATGACCGAATAGGTAATTAAATGTATCGGTTAAGTATATGTATTTTAACTATGATATT
TGGGCATGTGAAATAAGTGTAATATTAGTCATTATTTGTGTTCAAGATGATTTAAATTATTATGG
TCCATACGCATAATCTTGAAATAAATTATAATGGCTAAGTATTTGATAAATTTGGTAATAGTTAA
GCAAACAAAATTGAATAATGGATGTTTAATGCATATTAGGTATGAGATGATTATATGTTCAAATA
TACTTTGAATATTTTGATTTGGT
Found at i:36453541 original size:10 final size:11
Alignment explanation
Indices: 36453519--36453543 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36453509 TAGAAAATCT
36453519 AAAAATACAAA
1 AAAAATACAAA
36453530 AAAAATACAAA
1 AAAAATACAAA
36453541 AAA
1 AAA
36453544 TAAAAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAATACAAA
Found at i:36457089 original size:22 final size:22
Alignment explanation
Indices: 36457063--36457115 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
36457053 TGGTGGCGGC
36457063 ATGGTGGTGGTGCGACGGTGGT
1 ATGGTGGTGGTGCGACGGTGGT
* ** *
36457085 ATGGTGGTTGTGTTATGGTGGT
1 ATGGTGGTGGTGCGACGGTGGT
36457107 ATGGTGGTG
1 ATGGTGGTG
36457116 TCAAGGAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.09, C:0.04, G:0.51, T:0.36
Consensus pattern (22 bp):
ATGGTGGTGGTGCGACGGTGGT
Found at i:36466906 original size:27 final size:27
Alignment explanation
Indices: 36466836--36467044 Score: 145
Period size: 27 Copynumber: 7.7 Consensus size: 27
36466826 AAAATGAATA
** * *
36466836 TAATACCCCCGTAAGGTAAAATGATTG
1 TAATACCCCTATAGGGTAAAATGATCG
* * * *
36466863 AAAAACCTCC-ATTGGGTAAAATGACCG
1 TAATACC-CCTATAGGGTAAAATGATCG
* *
36466890 TAATGCCCCTATAGGGTAAAATAATC-
1 TAATACCCCTATAGGGTAAAATGATCG
* * *
36466916 AAAAAACCCTCATAGGGTAAAATGATCG
1 TAATACCCCT-ATAGGGTAAAATGATCG
* **
36466944 TAATGCCCCTGCAGGGTAAAATGATCG
1 TAATACCCCTATAGGGTAAAATGATCG
* * *
36466971 TAATACCCCCATAGGTTTAAAA-GATAG
1 TAATACCCCTATAGG-GTAAAATGATCG
* * * *
36466998 AAATACCCCTATAAGGTAAAATGACCA
1 TAATACCCCTATAGGGTAAAATGATCG
* *
36467025 TAATGCCCCTAGAGGGTAAA
1 TAATACCCCTATAGGGTAAA
36467045 TGACTATTTT
Statistics
Matches: 135, Mismatches: 41, Indels: 12
0.72 0.22 0.06
Matches are distributed among these distances:
26 13 0.10
27 109 0.81
28 13 0.10
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (27 bp):
TAATACCCCTATAGGGTAAAATGATCG
Found at i:36466963 original size:81 final size:81
Alignment explanation
Indices: 36466876--36467048 Score: 194
Period size: 81 Copynumber: 2.1 Consensus size: 81
36466866 AACCTCCATT
* * *
36466876 GGGTAAAATGACCGTAATGCCCCTATAGG-GTAAAATAATCA-AAAAA-CCCTCATAGGGTAAAA
1 GGGTAAAATGACCGTAATACCCCCATAGGTGTAAAA-AAT-AGAAAAACCCCT-ATAAGGTAAAA
* *
36466938 TGATCGTAATGCCCCT-GCA
63 TGACCATAATGCCCCTAG-A
* * * *
36466957 GGGTAAAATGATCGTAATACCCCCATAGGTTTAAAAGATAGAAATACCCCTATAAGGTAAAATGA
1 GGGTAAAATGACCGTAATACCCCCATAGGTGTAAAAAATAGAAAAACCCCTATAAGGTAAAATGA
36467022 CCATAATGCCCCTAGA
66 CCATAATGCCCCTAGA
36467038 GGGT-AAATGAC
1 GGGTAAAATGAC
36467049 TATTTTGCCC
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
80 7 0.09
81 61 0.78
82 10 0.13
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (81 bp):
GGGTAAAATGACCGTAATACCCCCATAGGTGTAAAAAATAGAAAAACCCCTATAAGGTAAAATGA
CCATAATGCCCCTAGA
Found at i:36466984 original size:54 final size:54
Alignment explanation
Indices: 36466850--36466985 Score: 173
Period size: 54 Copynumber: 2.5 Consensus size: 54
36466840 ACCCCCGTAA
* * * *
36466850 GGTAAAATGATTGAAAAACCTCCATTGGGTAAAATGACCGTAATGCCCCTATAG
1 GGTAAAATGATCGAAAAACCCCCATAGGGTAAAATGACCGTAATGCCCCTACAG
* * * * *
36466904 GGTAAAATAATCAAAAAACCCTCATAGGGTAAAATGATCGTAATGCCCCTGCAG
1 GGTAAAATGATCGAAAAACCCCCATAGGGTAAAATGACCGTAATGCCCCTACAG
* *
36466958 GGTAAAATGATCGTAATACCCCCATAGG
1 GGTAAAATGATCGAAAAACCCCCATAGG
36466986 TTTAAAAGAT
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (54 bp):
GGTAAAATGATCGAAAAACCCCCATAGGGTAAAATGACCGTAATGCCCCTACAG
Found at i:36467099 original size:50 final size:48
Alignment explanation
Indices: 36467040--36467137 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 48
36467030 CCCCTAGAGG
36467040 GTAAATGACTATTTTGCCCCTCGAGTGTAAACGATTGATTTGTCTGTGAT
1 GTAAATGACTATTTTG-CCCTCGA-TGTAAACGATTGATTTGTCTGTGAT
* * * * * *
36467090 GTAAATGACTGTTTTGTCTTTGATTTAAATGATTGATTTGTCTGTGAT
1 GTAAATGACTATTTTGCCCTCGATGTAAACGATTGATTTGTCTGTGAT
36467138 TGGTATGACT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 23 0.55
49 4 0.10
50 15 0.36
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.44
Consensus pattern (48 bp):
GTAAATGACTATTTTGCCCTCGATGTAAACGATTGATTTGTCTGTGAT
Found at i:36467105 original size:24 final size:24
Alignment explanation
Indices: 36467065--36467175 Score: 100
Period size: 24 Copynumber: 4.6 Consensus size: 24
36467055 GCCCCTCGAG
* *
36467065 TGTAAACGATTGATTTGTCTGTGA
1 TGTAAATGACTGATTTGTCTGTGA
* *
36467089 TGTAAATGACTGTTTTGTCTTTGA
1 TGTAAATGACTGATTTGTCTGTGA
* *
36467113 TTTAAATGATTGATTTGTCTGTGA
1 TGTAAATGACTGATTTGTCTGTGA
*
36467137 TTGGT--ATGACTGATTTGTTTGTGA
1 -T-GTAAATGACTGATTTGTCTGTGA
* **
36467161 TTTGTATGACTGATT
1 TGTAAATGACTGATT
36467176 CTAAGGAAGG
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 67 0.94
25 1 0.01
26 1 0.01
ACGTcount: A:0.22, C:0.06, G:0.23, T:0.49
Consensus pattern (24 bp):
TGTAAATGACTGATTTGTCTGTGA
Found at i:36467146 original size:48 final size:47
Alignment explanation
Indices: 36467067--36467163 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 47
36467057 CCCTCGAGTG
*
36467067 TAAACGATTGATTTGTCTGTGATGTAAATGACTGTTTTGTCTT-TGATT
1 TAAACGATTGATTTGTCTGTGATGT-AATGACTGATTTGT-TTGTGATT
*
36467115 TAAATGATTGATTTGTCTGTGATTGGT-ATGACTGATTTGTTTGTGATT
1 TAAACGATTGATTTGTCTGTGA-T-GTAATGACTGATTTGTTTGTGATT
36467163 T
1 T
36467164 GTATGACTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
47 2 0.05
48 39 0.89
49 1 0.02
50 2 0.05
ACGTcount: A:0.22, C:0.06, G:0.23, T:0.49
Consensus pattern (47 bp):
TAAACGATTGATTTGTCTGTGATGTAATGACTGATTTGTTTGTGATT
Found at i:36467175 original size:48 final size:47
Alignment explanation
Indices: 36467075--36467175 Score: 116
Period size: 48 Copynumber: 2.1 Consensus size: 47
36467065 TGTAAACGAT
* *
36467075 TGATTTGTCTGTGATGTAAATGACTGTTTTGTCTTTGATTTAAATGAT
1 TGATTTGTCTGTGATGT-AATGACTGATTTGTCTTTGATTTAAATGAC
**
36467123 TGATTTGTCTGTGATTGGT-ATGACTGATTTGT-TTGTGATTTGTATGAC
1 TGATTTGTCTGTGA-T-GTAATGACTGATTTGTCTT-TGATTTAAATGAC
36467171 TGATT
1 TGATT
36467176 CTAAGGAAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
47 2 0.04
48 41 0.89
49 1 0.02
50 2 0.04
ACGTcount: A:0.20, C:0.06, G:0.24, T:0.50
Consensus pattern (47 bp):
TGATTTGTCTGTGATGTAATGACTGATTTGTCTTTGATTTAAATGAC
Found at i:36468559 original size:110 final size:111
Alignment explanation
Indices: 36468366--36468587 Score: 374
Period size: 110 Copynumber: 2.0 Consensus size: 111
36468356 TTGTGGAAAC
* * *
36468366 TCCACAAATCATGTGAGCAACATTGTGTAGCTTACATTCCGACCCACAACTCATGTGAGTAGGCC
1 TCCACAAATCATGAGAGCAACATCGTGTAGCTTACATTCCGACCCACAACTCATGTAAGTAGGCC
* *
36468431 CATTTCACAGCTTGTGTGAGCAATAATATGAAGGAAAGGTTA-AAT
66 CATTTCACAGCTTATGTGAGCAACAATATGAAGGAAAGGTTACAAT
* *
36468476 TCCACAACTCATGAGAGCAACATCGTGTAGCTTACATTTCGACCCACAACTCATGTAAGTAGGCC
1 TCCACAAATCATGAGAGCAACATCGTGTAGCTTACATTCCGACCCACAACTCATGTAAGTAGGCC
36468541 CATTTCACAGCTTATGTGAGCAACAATATGAAGGAAAGGTTACAAT
66 CATTTCACAGCTTATGTGAGCAACAATATGAAGGAAAGGTTACAAT
36468587 T
1 T
36468588 ATATGTTTAA
Statistics
Matches: 104, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
110 100 0.96
111 4 0.04
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (111 bp):
TCCACAAATCATGAGAGCAACATCGTGTAGCTTACATTCCGACCCACAACTCATGTAAGTAGGCC
CATTTCACAGCTTATGTGAGCAACAATATGAAGGAAAGGTTACAAT
Found at i:36471997 original size:50 final size:50
Alignment explanation
Indices: 36471933--36472124 Score: 222
Period size: 50 Copynumber: 3.8 Consensus size: 50
36471923 CTATACTACT
* * * **
36471933 AACGCCATATCCCAGATATGGTATTACATGGGAGTTCTCATATCGGTGCC
1 AACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCC
* * *** * * *
36471983 CATGCCATGTCCCAGACATGGTCTTATGGGGGACTTCTTATCTCGGTGCC
1 AACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCC
* * **
36472033 AACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGTT
1 AACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCC
*
36472083 AACGCCATGTCCCAGACATTGTCTTACATGGGACCTCTCATA
1 AACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
36472125 ATCTCAATAA
Statistics
Matches: 119, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 119 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
AACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCC
Found at i:36472549 original size:30 final size:30
Alignment explanation
Indices: 36472515--36472572 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
36472505 TCCTTGACTC
*
36472515 AAACTTTGGGAAAATTACAATTTTGCCCAT
1 AAACTTTGGCAAAATTACAATTTTGCCCAT
* * *
36472545 AAACTTTTGCATAATTACACTTTTGCCC
1 AAACTTTGGCAAAATTACAATTTTGCCC
36472573 CAAAACTCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCAT
Found at i:36487570 original size:26 final size:26
Alignment explanation
Indices: 36487536--36487613 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 26
36487526 AACACACCAA
*
36487536 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCACAGCAAAGCTGCCAGTAATAG
** ** * *
36487562 TATTTCAGCAAAGCTGGTAGTAACAA
1 TATCACAGCAAAGCTGCCAGTAATAG
36487588 TATCACAGCAAAGCTGCCAGT-ATAG
1 TATCACAGCAAAGCTGCCAGTAATAG
36487613 T
1 T
36487614 GTACTTCCTC
Statistics
Matches: 40, Mismatches: 12, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
25 3 0.08
26 37 0.93
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAGTAATAG
Found at i:36513994 original size:50 final size:50
Alignment explanation
Indices: 36513888--36514179 Score: 316
Period size: 50 Copynumber: 5.7 Consensus size: 50
36513878 GGGAATGAGA
*
36513888 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTAAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C-CT-AG---ATGAGAGG
*
36513944 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCTAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGG
*
36513994 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGG
** * * **
36514044 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGG
* * * * * * * * **
36514094 TCCCATGTAAGACCATATCTAGGATATGGCATTCGCA-GTACAAGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGG
* * * *
36514143 TCCCATGTAAGACTATGTTTGGGACATAGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
36514180 TGTTATATTC
Statistics
Matches: 204, Mismatches: 32, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
49 35 0.17
50 129 0.63
53 2 0.01
54 1 0.00
55 1 0.00
56 36 0.18
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGG
Found at i:36520286 original size:50 final size:50
Alignment explanation
Indices: 36520219--36520454 Score: 217
Period size: 50 Copynumber: 4.7 Consensus size: 50
36520209 GGGAATGAGA
* * *
36520219 TCCCATGTAACACCATGTCTGGGACATGGAATTTGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * *
36520269 TCCCATTTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
*** * * * **
36520319 TCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * * **
36520369 TCCCATGTAAGACCATATCTAGGATATGGCATTCGCA--GTACGA-GAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-A-GATGAGAGG
* * *
36520418 TCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
36520455 TGTTGTATTT
Statistics
Matches: 148, Mismatches: 36, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
49 34 0.23
50 114 0.77
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:36527131 original size:22 final size:22
Alignment explanation
Indices: 36527056--36527132 Score: 55
Period size: 22 Copynumber: 3.2 Consensus size: 22
36527046 TGGACAAGCC
*
36527056 ACCAATGATTTGCAGATAAACT
1 ACCACTGATTTGCAGATAAACT
* * * *
36527078 ACCACTGATAACACTTTGTAGACAAGCC
1 ACCACTG-----A-TTTGCAGATAAACT
36527106 ACCACTGATTTGCAGATAAACT
1 ACCACTGATTTGCAGATAAACT
36527128 ACCAC
1 ACCAC
36527133 ATACTTCCAC
Statistics
Matches: 40, Mismatches: 9, Indels: 12
0.66 0.15 0.20
Matches are distributed among these distances:
22 21 0.52
23 1 0.03
27 1 0.03
28 17 0.43
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (22 bp):
ACCACTGATTTGCAGATAAACT
Found at i:36534578 original size:26 final size:23
Alignment explanation
Indices: 36534534--36534589 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 23
36534524 CAAAGGAGAA
36534534 ATAGAAAAAGGAAAGAAAAAAAT
1 ATAGAAAAAGGAAAGAAAAAAAT
*
36534557 ATAGAAGAAAGGGAAAGAAAAAAAG
1 ATAGAA-AAA-GGAAAGAAAAAAAT
36534582 A-AGAAAAA
1 ATAGAAAAA
36534590 AATGAACGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 9 0.30
24 7 0.23
25 14 0.47
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.05
Consensus pattern (23 bp):
ATAGAAAAAGGAAAGAAAAAAAT
Found at i:36534933 original size:17 final size:18
Alignment explanation
Indices: 36534913--36534956 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
36534903 GAAAGGAACG
*
36534913 GAGAAGAAG-AAGAAAAA
1 GAGAAAAAGAAAGAAAAA
36534930 GAGAAAAAGAAAGAAAAA
1 GAGAAAAAGAAAGAAAAA
36534948 GAGGAAAAA
1 GA-GAAAAA
36534957 TAATATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 10 0.42
19 6 0.25
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (18 bp):
GAGAAAAAGAAAGAAAAA
Found at i:36534940 original size:23 final size:23
Alignment explanation
Indices: 36534890--36534949 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
36534880 TTTCGGCCCG
* *
36534890 AAGAAGAAGAAGAGAAAGGAACG
1 AAGAAGAAGAAGAAAAAGGAACA
*
36534913 GAGAAGAAGAAGAAAAAGAGAA-A
1 AAGAAGAAGAAGAAAAAG-GAACA
*
36534936 AAGAAAGAAAAAGA
1 AAG-AAGAAGAAGA
36534950 GGAAAAATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 18 0.60
24 12 0.40
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.00
Consensus pattern (23 bp):
AAGAAGAAGAAGAAAAAGGAACA
Found at i:36536928 original size:12 final size:12
Alignment explanation
Indices: 36536911--36536942 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
36536901 TAGGAAGGTG
36536911 TTATTAGGCATT
1 TTATTAGGCATT
*
36536923 TTATTAGACATT
1 TTATTAGGCATT
36536935 TTATTAGG
1 TTATTAGG
36536943 AAGGTGTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (12 bp):
TTATTAGGCATT
Found at i:36544032 original size:75 final size:75
Alignment explanation
Indices: 36543930--36544464 Score: 524
Period size: 75 Copynumber: 7.0 Consensus size: 75
36543920 AGTTTTTTTT
* * *
36543930 AAATCAACTCATAATGCGATAGGTGAGTTGAGCCACGGATCACACACCGAGGTATTTTCAATTTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGATCACACGCCGAGGTATTTTCAATTTT
36543995 TTTTTTTCAA
66 TTTTTTTCAA
* * * *
36544005 AAATAAACTCATAATGCGAGAGGTGAGTTAAGCCTCGGA-CATATGCCGAGGTATTTTTCAATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGATCACACGCCGAGGTA-TTTTCAATTT
*** *
36544069 CATTTTAAAAAATAATA
65 --TTTT---TTTTCA-A
* *
36544086 ATAATCAACTCATAATGCGAGAGGTGAGTAGAGCCTCAGG--CACACGCCGATGTATTTTTCAAT
1 A-AATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGATCACACGCCGAGGTA-TTTTCAAT
36544149 TTCTGTTTTTTTCAA
63 TT-T-TTTTTTTCAA
* * * * * *
36544164 AAATCAACTCATAATGCGAGAGATGGGTTGAGCCTCGGGTCGCACACTGAGGTATTTTCAATTTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGATCACACGCCGAGGTATTTTCAATTTT
*
36544229 TATTTTTCAA
66 TTTTTTTCAA
* * * *
36544239 AAATCAACTCATAATGAGAGAGGTGAGTTGAGCCTCAGA-CCCATGCCGAGGTATTTTTCAATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGATCACACGCCGAGGTA-TTTTCAATTT
* ***
36544303 CATTTTTAAAAA
65 -TTTTTTTTCAA
* * * * *
36544315 AAATCAACTCATAATACGAGTGGTGAGTTGAGCCTCAGG-TCGCACGCTGAGGTATTTCCAATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGATCACACGCCGAGGTATTTTCAATTT
* *
36544379 ATGTTTTTCAA
65 TTTTTTTTCAA
* * * * *
36544390 AAATCAACTCATAATCCAAGAGGTGAGTTGAGCCTCGGGT-ACACGCTGAGGTATTTTCAATTTC
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGATCACACGCCGAGGTATTTTCAATTTT
*
36544454 TATTTTTCAA
66 TTTTTTTCAA
36544464 A
1 A
36544465 TAAATAATAA
Statistics
Matches: 380, Mismatches: 63, Indels: 35
0.79 0.13 0.07
Matches are distributed among these distances:
74 54 0.14
75 139 0.37
76 51 0.13
77 58 0.15
78 12 0.03
79 2 0.01
80 2 0.01
81 3 0.01
82 57 0.15
83 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (75 bp):
AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGATCACACGCCGAGGTATTTTCAATTTT
TTTTTTTCAA
Found at i:36544377 original size:151 final size:152
Alignment explanation
Indices: 36544088--36544469 Score: 509
Period size: 151 Copynumber: 2.5 Consensus size: 152
36544078 AAATAATAAT
* * *
36544088 AATCAACTCATAATGCGAGAGGTGAGTAGAGCCTCAGGCACACGCCGATGTATTTTTCAATTTCT
1 AATCAACTCATAATGAGAGAGGTGAGTTGAGCCTCAGGCACACGCCGAGGTATTTTTCAATTTCT
* *** * * *
36544153 GTTTTTTTCAAAAATCAACTCATAATGCGAGAGATGGGTTGAGCCTCGGGTCGCACACTGAGGTA
66 ATTTTTAAAAAAAATCAACTCATAATACGAGAGATGAGTTGAGCCTCAGGTCGCACACTGAGGTA
* *
36544218 TTTTCAATTTTTATTTTTCAAA
131 TTTCCAATTTATATTTTTCAAA
* * *
36544240 AATCAACTCATAATGAGAGAGGTGAGTTGAGCCTCAGACCCATGCCGAGGTATTTTTCAATTTC-
1 AATCAACTCATAATGAGAGAGGTGAGTTGAGCCTCAGGCACACGCCGAGGTATTTTTCAATTTCT
* * *
36544304 ATTTTTAAAAAAAATCAACTCATAATACGAGTGGTGAGTTGAGCCTCAGGTCGCACGCTGAGGTA
66 ATTTTTAAAAAAAATCAACTCATAATACGAGAGATGAGTTGAGCCTCAGGTCGCACACTGAGGTA
*
36544369 TTTCCAATTTATGTTTTTCAAA
131 TTTCCAATTTATATTTTTCAAA
* * * *
36544391 AATCAACTCATAATCCA-AGAGGTGAGTTGAGCCTCGGGTACACGCTGAGGTA-TTTTCAATTTC
1 AATCAACTCATAAT-GAGAGAGGTGAGTTGAGCCTCAGGCACACGCCGAGGTATTTTTCAATTTC
* *
36544454 TATTTTTCAAATAAAT
65 TATTTTTAAAAAAAAT
36544470 AATAATAAAT
Statistics
Matches: 200, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
150 11 0.05
151 130 0.65
152 59 0.29
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (152 bp):
AATCAACTCATAATGAGAGAGGTGAGTTGAGCCTCAGGCACACGCCGAGGTATTTTTCAATTTCT
ATTTTTAAAAAAAATCAACTCATAATACGAGAGATGAGTTGAGCCTCAGGTCGCACACTGAGGTA
TTTCCAATTTATATTTTTCAAA
Found at i:36544890 original size:30 final size:28
Alignment explanation
Indices: 36544856--36544911 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
36544846 AATAAATTAC
*
36544856 ATTTTAGCCTCTAAACTTTTTGAAAATTCT
1 ATTTTAGCC-CCAAA-TTTTTGAAAATTCT
*
36544886 ATTTTAGCCCCAAATTTTTTAAAATT
1 ATTTTAGCCCCAAATTTTTGAAAATT
36544912 GCACTTTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.46
29 4 0.17
30 9 0.38
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.46
Consensus pattern (28 bp):
ATTTTAGCCCCAAATTTTTGAAAATTCT
Found at i:36545650 original size:20 final size:23
Alignment explanation
Indices: 36545627--36545672 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 23
36545617 ATAGCAAAAC
36545627 AAGAAAGAA-AAGAA-AG-GGAG
1 AAGAAAGAAGAAGAAGAGAGGAG
*
36545647 AAGAGAGAAGAAGAAGAGAGGAG
1 AAGAAAGAAGAAGAAGAGAGGAG
36545670 AAG
1 AAG
36545673 CAGCAACGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
21 5 0.23
22 2 0.09
23 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (23 bp):
AAGAAAGAAGAAGAAGAGAGGAG
Found at i:36545816 original size:10 final size:9
Alignment explanation
Indices: 36545777--36545833 Score: 60
Period size: 9 Copynumber: 6.2 Consensus size: 9
36545767 GGAGAAGAAG
*
36545777 AAAAAGGAG
1 AAAAAGGAA
*
36545786 AAAAAGAAA
1 AAAAAGGAA
*
36545795 TAAAAAAGAA
1 -AAAAAGGAA
*
36545805 AAAAGGGAA
1 AAAAAGGAA
36545814 AAAAAGGAA
1 AAAAAGGAA
*
36545823 AAAGAGGAA
1 AAAAAGGAA
36545832 AA
1 AA
36545834 TAATATATAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
9 32 0.82
10 7 0.18
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (9 bp):
AAAAAGGAA
Found at i:36545816 original size:17 final size:18
Alignment explanation
Indices: 36545796--36545833 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
36545786 AAAAAGAAAT
36545796 AAAAAAGAAAAAAG-GGA
1 AAAAAAGAAAAAAGAGGA
*
36545813 AAAAAAGGAAAAAGAGGA
1 AAAAAAGAAAAAAGAGGA
36545831 AAA
1 AAA
36545834 TAATATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAAAAGAGGA
Found at i:36545833 original size:26 final size:28
Alignment explanation
Indices: 36545771--36545833 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 28
36545761 AGGAACGGAG
* *
36545771 AAGAAGAAAAAGGAGAAAAAGAAATAAA
1 AAGAGGAAAAAGGAGAAAAAGAAAGAAA
* *
36545799 AA-AGAAAAAAGG-GAAAAA-AAGGAAA
1 AAGAGGAAAAAGGAGAAAAAGAAAGAAA
36545824 AAGAGGAAAA
1 AAGAGGAAAA
36545834 TAATATATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
25 7 0.24
26 12 0.41
27 8 0.28
28 2 0.07
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.02
Consensus pattern (28 bp):
AAGAGGAAAAAGGAGAAAAAGAAAGAAA
Found at i:36548315 original size:21 final size:22
Alignment explanation
Indices: 36548276--36548318 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
36548266 GAAGATGAAA
* *
36548276 TGTTTTATTCTTTCTTTAATTT
1 TGTTTTAATCTTTCATTAATTT
36548298 TGTTTTAAT-TTTCATTAATTT
1 TGTTTTAATCTTTCATTAATTT
36548319 ACAAAATTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.70
Consensus pattern (22 bp):
TGTTTTAATCTTTCATTAATTT
Found at i:36550022 original size:33 final size:33
Alignment explanation
Indices: 36549980--36550127 Score: 112
Period size: 33 Copynumber: 4.4 Consensus size: 33
36549970 GTGGATTCAA
*
36549980 CACTTAGCAACCACCAGTGATTCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
*
36550013 CACTTAGCAACCCCTTTCACATTCAAAGATAT-GGTGGAATCAG
1 CACTTAGCAA---C---CAC---CAATGAT-TCGG-GGAATCAG
36550056 CACTTAGCAACCACCAATGATTCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* *
36550089 CACTTAGCAGCC-CC-----TTGGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
36550116 CACTTAGCAACC
1 CACTTAGCAACC
36550128 CCCTTCACAT
Statistics
Matches: 97, Mismatches: 6, Indels: 30
0.73 0.05 0.23
Matches are distributed among these distances:
27 23 0.24
32 2 0.02
33 30 0.31
34 8 0.08
36 1 0.01
37 3 0.03
39 3 0.03
40 1 0.01
42 7 0.07
43 19 0.20
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.20
Consensus pattern (33 bp):
CACTTAGCAACCACCAATGATTCGGGGAATCAG
Found at i:36550324 original size:27 final size:27
Alignment explanation
Indices: 36550285--36550336 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
36550275 CAATGAGTCA
36550285 GGGAATCAACACTTAGCAACCCCTTGG
1 GGGAATCAACACTTAGCAACCCCTTGG
*
36550312 GGGAATCAGCACTTAGCAACCCCTT
1 GGGAATCAACACTTAGCAACCCCTT
36550337 TTATATTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (27 bp):
GGGAATCAACACTTAGCAACCCCTTGG
Found at i:36550341 original size:103 final size:103
Alignment explanation
Indices: 36550003--36550334 Score: 495
Period size: 103 Copynumber: 3.2 Consensus size: 103
36549993 CCAGTGATTC
* *
36550003 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
* *
36550068 ACCAATGATTCGGGGAATCAGCACTTAGCAGCCCCTTG
66 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
* * *
36550106 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAA-ATACAGTGGGATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
* * *
36550170 AACAATGAATCGGGGAATCAGCCCTTAGCAAACCCTTG
66 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
* * * * *
36550208 GGGGAATCAACACTTAGCAACCCCCTTTATAATCAAAGATACGGTGGAATCAGCACTTAGTAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
* * *
36550273 ACCAATGAGTCAGGGAATCAACACTTAGCAACCCCTTG
66 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
36550311 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
36550335 TTTTATATTT
Statistics
Matches: 203, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
102 89 0.44
103 114 0.56
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:36550694 original size:30 final size:30
Alignment explanation
Indices: 36550660--36550717 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
36550650 TATTCCTCCA
*
36550660 CCCAAATTTTTGA-AAAATTACAATTTTGCC
1 CCCAAACTTTT-ACAAAATTACAATTTTGCC
* *
36550690 CCCAAACTTTTACATAATTACACTTTTG
1 CCCAAACTTTTACAAAATTACAATTTTG
36550718 TCCCTAAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.38
Consensus pattern (30 bp):
CCCAAACTTTTACAAAATTACAATTTTGCC
Found at i:36551454 original size:15 final size:15
Alignment explanation
Indices: 36551434--36551466 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
36551424 TTTTTTCGTG
36551434 AAATTGTAGACCATA
1 AAATTGTAGACCATA
36551449 AAATTGTAGACCATA
1 AAATTGTAGACCATA
36551464 AAA
1 AAA
36551467 ATATAATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (15 bp):
AAATTGTAGACCATA
Found at i:36556197 original size:49 final size:47
Alignment explanation
Indices: 36556097--36556776 Score: 1006
Period size: 47 Copynumber: 14.3 Consensus size: 47
36556087 ATGTGATGTA
36556097 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
36556144 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
36556191 TATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
36556240 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
36556289 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGCATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
36556338 TATATATATGTGATAAGGCCTAAGGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
36556387 CATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
36556434 TATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
36556483 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
36556530 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
36556577 TATATATGTG--AAGGCC-GATGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
36556621 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
36556668 CATATATGTGATGAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * * *
36556715 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAATTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
36556762 TATAAATGTGATAAG
1 TATATATGTGATAAG
36556777 TCCCGAAGGC
Statistics
Matches: 585, Mismatches: 41, Indels: 14
0.91 0.06 0.02
Matches are distributed among these distances:
44 34 0.06
45 6 0.01
46 6 0.01
47 305 0.52
49 234 0.40
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:36556200 original size:96 final size:94
Alignment explanation
Indices: 36556097--36556776 Score: 1006
Period size: 96 Copynumber: 7.2 Consensus size: 94
36556087 ATGTGATGTA
36556097 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
36556162 GAATGGCCAATGTGATGAATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
* *
36556191 TATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAA
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
36556256 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG
62 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
36556289 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGCATGTGAAAGTGTATATATATGTGATAA
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
36556354 GGCCTAAGGGCCGATGTGATGAATGTGAAAGTG
62 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
36556387 CATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
*
36556452 CCTAATGGCCAATGTGATGAATGTGAAAGTG
64 CCTAATGGCCGATGTGATGAATGTGAAAGTG
36556483 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
36556548 TAATGGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
36556577 TATATATGTG--AAGGCC-GATGGCCAACGTGATGGATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
36556639 TAATAGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
* * * * *
36556668 CATATATGTGATGAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
36556733 GAGTGGCCAACGTGATGGATGTGAAATTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
*
36556762 TATAAATGTGATAAG
1 TATATATGTGATAAG
36556777 TCCCGAAGGC
Statistics
Matches: 537, Mismatches: 42, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
91 79 0.15
92 6 0.01
93 5 0.01
94 129 0.24
96 179 0.33
98 139 0.26
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:36559198 original size:40 final size:40
Alignment explanation
Indices: 36558959--36559186 Score: 325
Period size: 40 Copynumber: 5.7 Consensus size: 40
36558949 AGGTCTCGAC
*
36558959 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
36558998 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
36559038 GATGTACCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
36559078 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * *
36559118 AATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTAGT
* * *
36559158 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
36559187 ATCATGCTGG
Statistics
Matches: 169, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 5 0.03
40 162 0.96
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:36559465 original size:58 final size:57
Alignment explanation
Indices: 36559396--36559504 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
36559386 CGAATGATTA
* *
36559396 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
* * *
36559454 GAGGCACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCG
36559505 ATCAGTGGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 26 0.57
58 20 0.43
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
Found at i:36563024 original size:49 final size:49
Alignment explanation
Indices: 36562971--36563565 Score: 930
Period size: 47 Copynumber: 12.4 Consensus size: 49
36562961 TTGTGATGTG
*
36562971 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
*
36563020 AGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
*
36563067 AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
*
36563116 AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
*
36563165 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
*
36563214 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
*
36563263 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
*
36563310 AGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
36563357 AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
* *
36563406 AGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
* *
36563453 AGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
* * * * * *
36563500 AGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
36563547 AGTGTATA-A-ATGTGATAAG
1 AGTGTATATATATGTGATAAG
36563566 TCCCGAAGGC
Statistics
Matches: 519, Mismatches: 21, Indels: 14
0.94 0.04 0.03
Matches are distributed among these distances:
47 274 0.53
48 1 0.00
49 244 0.47
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
Found at i:36563096 original size:96 final size:96
Alignment explanation
Indices: 36562971--36563565 Score: 986
Period size: 96 Copynumber: 6.2 Consensus size: 96
36562961 TTGTGATGTG
36562971 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
36563036 AAGGCCGAATGGCCAATGTGATGAATGTGAA
66 AAGGCCGAATGGCCAATGTGATGAATGTGAA
* *
36563067 AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTG
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTG
36563132 ATAAGGCCGAATGGCCAATGTGATGAATGTGAA
64 ATAAGGCCGAATGGCCAATGTGATGAATGTGAA
36563165 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTG
* *
36563230 ATAAGGCCTAATGGCCGATGTGATGAATGTGAA
64 ATAAGGCCGAATGGCCAATGTGATGAATGTGAA
36563263 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
36563326 AAGGCCGAATGGCCAATGTGATGAATGTGAA
66 AAGGCCGAATGGCCAATGTGATGAATGTGAA
*
36563357 AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGAT
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
* * *
36563422 AAGGCCTAATAGCCGATGTGATGAATGTGAA
66 AAGGCCGAATGGCCAATGTGATGAATGTGAA
* *
36563453 AGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAC
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
* * * *
36563516 AGGGCCGAGTGGCCAACGTGATGGATGTGAA
66 AAGGCCGAATGGCCAATGTGATGAATGTGAA
36563547 AGTGTATA-A-ATGTGATAAG
1 AGTGTATATATATGTGATAAG
36563566 TCCCGAAGGC
Statistics
Matches: 470, Mismatches: 23, Indels: 14
0.93 0.05 0.03
Matches are distributed among these distances:
94 138 0.29
95 1 0.00
96 190 0.40
98 141 0.30
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
AAGGCCGAATGGCCAATGTGATGAATGTGAA
Found at i:36569134 original size:102 final size:103
Alignment explanation
Indices: 36568951--36569255 Score: 407
Period size: 103 Copynumber: 3.0 Consensus size: 103
36568941 CCAGTGATTC
* * * * * * *
36568951 GGGGAATCACCACTTAGTAAGCCCTTTCACATTCAAAGATATGGTGGAAGCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGTAACC
* * *
36569016 ACCAATGATTCAGGGAATCAGCACTTAACAGCCCCTTG
66 ACCAATGAATCGGGGAATCAGCACTTAACAACCCCTTG
* * * *
36569054 GGGGAATCAGCACTTAGCAATCCCCTTCACATTTAAA-ATACAGTGGGATCAGCACTTAGTAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGTAACC
*
36569118 ACCAATGAATCGGGGAATCAGCA-TTGAGCAACCCCTTG
66 ACCAATGAATCGGGGAATCAGCACTT-AACAACCCCTTG
* * *
36569156 GGGGAATCAGCACTTAGCAACCCCCTTTATATTCAAAGATACGGAGGAATCAGCACTTAGTAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGTAACC
* *
36569221 ACCAATGAGTCGGGGAATCAGCACTTAGCAACCCC
66 ACCAATGAATCGGGGAATCAGCACTTAACAACCCC
36569256 CTTTATATTC
Statistics
Matches: 177, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
101 2 0.01
102 86 0.49
103 87 0.49
104 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGTAACC
ACCAATGAATCGGGGAATCAGCACTTAACAACCCCTTG
Found at i:36569242 original size:103 final size:102
Alignment explanation
Indices: 36568951--36569255 Score: 407
Period size: 102 Copynumber: 3.0 Consensus size: 102
36568941 CCAGTGATTC
* * * * * *
36568951 GGGGAATCACCACTTAGTAAGCCCTTTCACATTCAAAGATATGGTGGAAGCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCTTT-ACATTCAAAGATACGGTGGAATCAGCACTTAGTAACC
* * * *
36569016 ACCAATGATTCAGGGAATCAGCACTTAACAGCCCCTTG
65 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
* * * *
36569054 GGGGAATCAGCACTTAGCAATCCCCTTCACATTTAAA-ATACAGTGGGATCAGCACTTAGTAACC
1 GGGGAATCAGCACTTAGCAA-CCCCTTTACATTCAAAGATACGGTGGAATCAGCACTTAGTAACC
36569118 ACCAATGAATCGGGGAATCAGCA-TTGAGCAACCCCTTG
65 ACCAATGAATCGGGGAATCAGCACTT-AGCAACCCCTTG
* *
36569156 GGGGAATCAGCACTTAGCAACCCCCTTTATATTCAAAGATACGGAGGAATCAGCACTTAGTAACC
1 GGGGAATCAGCACTTAGCAA-CCCCTTTACATTCAAAGATACGGTGGAATCAGCACTTAGTAACC
*
36569221 ACCAATGAGTCGGGGAATCAGCACTTAGCAACCCC
65 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCC
36569256 CTTTATATTC
Statistics
Matches: 176, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
101 2 0.01
102 86 0.49
103 81 0.46
104 7 0.04
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCTTTACATTCAAAGATACGGTGGAATCAGCACTTAGTAACCA
CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:36574123 original size:20 final size:20
Alignment explanation
Indices: 36574098--36574136 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
36574088 TACTTTCTTC
36574098 TTTACTTACTCTCTTACTTG
1 TTTACTTACTCTCTTACTTG
*
36574118 TTTACTTACTTTCTTACTT
1 TTTACTTACTCTCTTACTT
36574137 AAATAACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.23, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTACTTACTCTCTTACTTG
Found at i:36574466 original size:50 final size:50
Alignment explanation
Indices: 36574389--36574579 Score: 161
Period size: 50 Copynumber: 3.7 Consensus size: 50
36574379 CCCTGTACTA
* * * * *
36574389 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTAATATCGGTG
1 CCAATGCCATGTCCTAGACATGGTCTTACATGGGACTTCTAATATCGATG
* ** * * *
36574439 CCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGATG
1 CCAATGCCATGTCCTAGACATGGTCTTACATGGGACTTCTAATATCGATG
** * *
36574489 CCAACACCATGTCCCT-GACATGGTCTTACGTGGGACCTCTCATAACCTCAAT-AATG
1 CCAATGCCATGT-CCTAGACATGGTCTTACATGGGA-CT-TC-TAA--T--ATCGATG
36574545 CCAATGCCATGTCCTAGACATGGTCTTACATGGGA
1 CCAATGCCATGTCCTAGACATGGTCTTACATGGGA
36574580 TCTCATCCCC
Statistics
Matches: 110, Mismatches: 22, Indels: 12
0.76 0.15 0.08
Matches are distributed among these distances:
50 66 0.60
51 4 0.04
52 2 0.02
53 2 0.02
55 4 0.04
56 31 0.28
57 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCTAGACATGGTCTTACATGGGACTTCTAATATCGATG
Found at i:36577809 original size:41 final size:41
Alignment explanation
Indices: 36577756--36577976 Score: 390
Period size: 41 Copynumber: 5.4 Consensus size: 41
36577746 AGATTCACTA
*
36577756 GCACTTCA-CCTGCTAGGCTTATAGCCTGATTTAGTTCACCG
1 GCACTT-AGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
*
36577797 ACACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
*
36577838 GCACTTAGCCTGCTAGGCTTATAGCTTGATTCAGTTCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
*
36577879 GCATTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
36577920 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
36577961 GCACTTAGCCTGCTAG
1 GCACTTAGCCTGCTAG
36577977 ACGTAAAGTC
Statistics
Matches: 172, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
40 1 0.01
41 171 0.99
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.30
Consensus pattern (41 bp):
GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
Found at i:36578004 original size:123 final size:123
Alignment explanation
Indices: 36577764--36578004 Score: 367
Period size: 123 Copynumber: 2.0 Consensus size: 123
36577754 TAGCACTTCA
*
36577764 CCTGCTAGGCTTATAGCCTGATTTAGTTCACCGACACTTAGCCTGCTAGGCTTATAGCCTGATTC
1 CCTGCTAGGCTTATAGCCTGATTCAGTTCACCGACACTTAGCCTGCTAGGCTTATAGCCTGATTC
* * * ** **
36577829 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCTTGATTCAGTTCACCGGCATTTAG
66 AGTTCACCGGCACTTAGCCTGCTAGACGTAAAGCTCAAAACAGTTCACCGGCATTTAG
*
36577887 CCTGCTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTC
1 CCTGCTAGGCTTATAGCCTGATTCAGTTCACCGACACTTAGCCTGCTAGGCTTATAGCCTGATTC
* *
36577952 AGTTCACCGGCACTTAGCCTGCTAGACGTAAAG-TCCAAAACATTTCATCGGCA
66 AGTTCACCGGCACTTAGCCTGCTAGACGTAAAGCT-CAAAACAGTTCACCGGCA
36578005 ATTAATCTGG
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
122 1 0.01
123 105 0.99
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (123 bp):
CCTGCTAGGCTTATAGCCTGATTCAGTTCACCGACACTTAGCCTGCTAGGCTTATAGCCTGATTC
AGTTCACCGGCACTTAGCCTGCTAGACGTAAAGCTCAAAACAGTTCACCGGCATTTAG
Found at i:36579707 original size:28 final size:31
Alignment explanation
Indices: 36579675--36579733 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
36579665 TGTTTTGTTT
36579675 TTATTATAATAA-CATTAT-AAT-ATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
* *
36579703 TTATTATTATAACCTTTATAAATAATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
36579734 AACTATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 11 0.42
29 5 0.19
30 3 0.12
31 7 0.27
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (31 bp):
TTATTATAATAACCATTATAAATAATATAAA
Found at i:36580266 original size:24 final size:24
Alignment explanation
Indices: 36580238--36580284 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
36580228 GTCCATACAA
36580238 AGCTTCATAAGGGGCCATCTTCAG
1 AGCTTCATAAGGGGCCATCTTCAG
36580262 AGCTTCATAAGGGGCCATCTTCA
1 AGCTTCATAAGGGGCCATCTTCA
36580285 AACTCGACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (24 bp):
AGCTTCATAAGGGGCCATCTTCAG
Found at i:36583318 original size:13 final size:13
Alignment explanation
Indices: 36583300--36583350 Score: 93
Period size: 13 Copynumber: 3.9 Consensus size: 13
36583290 AGTTCTTCAT
36583300 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
36583313 TGCTTTTCAGAAG
1 TGCTTTTGAGAAG
36583326 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
36583339 TGCTTTTGAGAA
1 TGCTTTTGAGAA
36583351 ATTTAAGTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:36583963 original size:22 final size:21
Alignment explanation
Indices: 36583938--36583981 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
36583928 AAGTATATGA
*
36583938 AAATGATTTGGTTATATTCAAT
1 AAATGATTTGGTTA-ATACAAT
36583960 AAATGATTTGGTTAATACAAT
1 AAATGATTTGGTTAATACAAT
36583981 A
1 A
36583982 CTTATATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (21 bp):
AAATGATTTGGTTAATACAAT
Found at i:36587897 original size:58 final size:58
Alignment explanation
Indices: 36587822--36587951 Score: 242
Period size: 58 Copynumber: 2.2 Consensus size: 58
36587812 CCATCCCAAT
*
36587822 CCAGCCAACACACCACTCCGTATCACCAACACACCATGTGGGGATAAAATCGACCCAC
1 CCAGCCAACACACCACTCCGTACCACCAACACACCATGTGGGGATAAAATCGACCCAC
*
36587880 CCAGTCAACACACCACTCCGTACCACCAACACACCATGTGGGGATAAAATCGACCCAC
1 CCAGCCAACACACCACTCCGTACCACCAACACACCATGTGGGGATAAAATCGACCCAC
36587938 CCAGCCAACACACC
1 CCAGCCAACACACC
36587952 TATATCGCAG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 69 1.00
ACGTcount: A:0.35, C:0.42, G:0.13, T:0.11
Consensus pattern (58 bp):
CCAGCCAACACACCACTCCGTACCACCAACACACCATGTGGGGATAAAATCGACCCAC
Found at i:36588219 original size:27 final size:26
Alignment explanation
Indices: 36588189--36588355 Score: 140
Period size: 27 Copynumber: 6.2 Consensus size: 26
36588179 ATAGTCATTC
*
36588189 TACCCTAAAGGGGTATTTCAGTTATTG
1 TACCCTAAAGGGGTATTTC-GTTATTT
**
36588216 TACCCTATGGGGGTATTTCGGTTATTT
1 TACCCTAAAGGGGTATTTC-GTTATTT
* *
36588243 TACCCT-ATGGGGTATTTCGATCATTT
1 TACCCTAAAGGGGTATTTCG-TTATTT
36588269 TACCCTATAA-GGGTATTTCGTTCATTT
1 TACCCTA-AAGGGGTATTTCGTT-ATTT
* ** *
36588296 TACCTTATGGGGGTATTTCGATCATTT
1 TACCCTAAAGGGGTATTTCG-TTATTT
* ** *
36588323 TATCCTATGGGGGTATTTCGATCATTT
1 TACCCTAAAGGGGTATTTCG-TTATTT
36588350 TACCCT
1 TACCCT
36588356 CTTGAAAGAT
Statistics
Matches: 118, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
25 1 0.01
26 22 0.19
27 93 0.79
28 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (26 bp):
TACCCTAAAGGGGTATTTCGTTATTT
Found at i:36588305 original size:80 final size:81
Alignment explanation
Indices: 36588183--36588355 Score: 253
Period size: 80 Copynumber: 2.1 Consensus size: 81
36588173 GGTACTATAG
* * *
36588183 TCATTCTACCCTAAAGGGGTATTTCAGTTATTGTACCCTATGGGGGTATTTCGGTTATTTTACCC
1 TCATTTTACCCTAAAGGGGTATTTCAGTTATTGTACCCTATGGGGGTATTTCGATCATTTTACCC
36588248 TAT-GGGGTATTTCGA
66 TATGGGGGTATTTCGA
* * *
36588263 TCATTTTACCCTATAA-GGGTATTTC-GTTCATTTTACCTTATGGGGGTATTTCGATCATTTTAT
1 TCATTTTACCCTA-AAGGGGTATTTCAGTT-ATTGTACCCTATGGGGGTATTTCGATCATTTTAC
36588326 CCTATGGGGGTATTTCGA
64 CCTATGGGGGTATTTCGA
36588344 TCATTTTACCCT
1 TCATTTTACCCT
36588356 CTTGAAAGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
79 3 0.04
80 55 0.65
81 26 0.31
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.43
Consensus pattern (81 bp):
TCATTTTACCCTAAAGGGGTATTTCAGTTATTGTACCCTATGGGGGTATTTCGATCATTTTACCC
TATGGGGGTATTTCGA
Found at i:36588330 original size:54 final size:53
Alignment explanation
Indices: 36588183--36588355 Score: 197
Period size: 54 Copynumber: 3.2 Consensus size: 53
36588173 GGTACTATAG
* * * * **
36588183 TCATTCTACCCTAAAGGGGTATTTC-AGTTATTGTACCCTATGGGGGTATTTCGGT
1 TCATTTTACCCT-ATGGGGTATTTCGA-TCATTTTACCCTATAAGGGTATTTC-GT
36588238 T-ATTTTACCCTATGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTCGT
1 TCATTTTACCCTATGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTCGT
* * ** *
36588290 TCATTTTACCTTATGGGGGTATTTCGATCATTTTATCCTATGGGGGTATTTCGA
1 TCATTTTACCCTAT-GGGGTATTTCGATCATTTTACCCTATAAGGGTATTTCGT
36588344 TCATTTTACCCT
1 TCATTTTACCCT
36588356 CTTGAAAGAT
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
52 3 0.03
53 43 0.42
54 56 0.54
55 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.43
Consensus pattern (53 bp):
TCATTTTACCCTATGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTCGT
Found at i:36593209 original size:49 final size:50
Alignment explanation
Indices: 36593137--36593253 Score: 139
Period size: 49 Copynumber: 2.4 Consensus size: 50
36593127 CAAAGTCATG
* * *
36593137 TCCCAGACATGGTTTTACATGGGATGTT-TCCTGTA-CTACCAATGCCATA
1 TCCCAGACATGGTCTTACATGGGA-GTTCTCATATAGCTACCAATGCCATA
* * * * *
36593186 TCCCAGATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATATAGCTACCAATGCCATA
36593236 TCCCAGACATGGTCTTAC
1 TCCCAGACATGGTCTTAC
36593254 GGGGGACCTC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
48 3 0.05
49 27 0.47
50 27 0.47
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGAGTTCTCATATAGCTACCAATGCCATA
Found at i:36593248 original size:50 final size:50
Alignment explanation
Indices: 36593124--36593303 Score: 166
Period size: 50 Copynumber: 3.6 Consensus size: 50
36593114 GATAATAACA
* * * * * *
36593124 TGCCAAAGTCATGTCCCAGACATGGTTTTACATGGGATGTT-TCCTGTA-C
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATAGG
* * *
36593173 TACCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGG
* ** ** * * *
36593223 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGG
* *
36593273 TGCCAACGCCATGTCCCTGACATGGTCTTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC
36593304 GTAGAACCTC
Statistics
Matches: 106, Mismatches: 23, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
48 3 0.03
49 36 0.34
50 67 0.63
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGG
Found at i:36599114 original size:43 final size:42
Alignment explanation
Indices: 36599008--36599133 Score: 130
Period size: 43 Copynumber: 3.0 Consensus size: 42
36598998 GGTGTGATTT
* * *
36599008 CATGTAAGATCATGTCTAGGACATTGGCATCGATATGAGACT-A
1 CATGTAAGACCATGTCTGGGACA-TGGCATCGATATGTGA-TAA
* * *
36599051 CGTGTAAGACCTTGTGTGGGACAGTGGCATCGATATGTGATAA
1 CATGTAAGACCATGTCTGGGACA-TGGCATCGATATGTGATAA
* * *
36599094 CATGTAAGACCATATCTGGGATATGGCATTG-TATGTGATA
1 CATGTAAGACCATGTCTGGGACATGGCATCGATATGTGATA
36599134 TATGTGTTTC
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 9 0.13
42 8 0.12
43 52 0.75
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.29
Consensus pattern (42 bp):
CATGTAAGACCATGTCTGGGACATGGCATCGATATGTGATAA
Found at i:36602641 original size:25 final size:26
Alignment explanation
Indices: 36602607--36602667 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
36602597 GATGAATGTT
* * * *
36602607 AAAATTAAATTAAA-AAACTAATATG
1 AAAATGAAATAAAATAAAATAAAATG
36602632 AAAATGAAATAAAATAAAATAAAATG
1 AAAATGAAATAAAATAAAATAAAATG
36602658 -AAATGAAATA
1 AAAATGAAATA
36602668 GTTTTGCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 22 0.71
26 9 0.29
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.23
Consensus pattern (26 bp):
AAAATGAAATAAAATAAAATAAAATG
Found at i:36606873 original size:19 final size:19
Alignment explanation
Indices: 36606849--36606885 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36606839 TTTATAACTG
*
36606849 AAAAAAAAATGTTGTTATA
1 AAAAAAAAATGTTATTATA
*
36606868 AAAAAATAATGTTATTAT
1 AAAAAAAAATGTTATTAT
36606886 TATGTGCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (19 bp):
AAAAAAAAATGTTATTATA
Found at i:36618185 original size:27 final size:26
Alignment explanation
Indices: 36618155--36618299 Score: 175
Period size: 27 Copynumber: 5.4 Consensus size: 26
36618145 TTACACTGTT
* *
36618155 ATGACTAAAATACCTCCATAGGGTGAA
1 ATGACTGAAATACC-CCATAGGGTAAA
* *
36618182 ATGACCGAAATACCCCCATAGGGTAGA
1 ATGACTGAAATA-CCCCATAGGGTAAA
*
36618209 ATGACCGAAATACCCTCATAGGGTAAA
1 ATGACTGAAATACCC-CATAGGGTAAA
36618236 ATGA-TCGAAATACCCCCATAGGGTAAA
1 ATGACT-GAAATA-CCCCATAGGGTAAA
*
36618263 ATGATTGAAATACCCTCATAGGGTAAA
1 ATGACTGAAATACCC-CATAGGGTAAA
36618290 ATGACTGAAA
1 ATGACTGAAA
36618300 AATGATTGAA
Statistics
Matches: 105, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
26 6 0.06
27 93 0.89
28 6 0.06
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (26 bp):
ATGACTGAAATACCCCATAGGGTAAA
Found at i:36618229 original size:54 final size:54
Alignment explanation
Indices: 36618162--36618413 Score: 227
Period size: 54 Copynumber: 4.5 Consensus size: 54
36618152 GTTATGACTA
* *
36618162 AAATA-CCTCCATAGGGTGAAATGACCGAAATACCCCCATAGGGTAGAATGACCG
1 AAATACCCT-CATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCG
* **
36618216 AAATACCCTCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGATTG
1 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCG
* * * *
36618270 AAATACCCTCATAGGGTAAAATGACTGAAAAATGATTGAAATACCCCCGTAGGGTAAAATGATCA
1 AAATACCCTCATAGGGTAAAATGAC-----------CGAAATACCCCCATAGGGTAAAATGACCG
** * * * ***
36618335 AAATACCCTTGTAGGGTAAAATGATCGAAATATCTCCATAGGGTAAAATGGTTG
1 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCG
*
36618389 AAATACCCCCATAGGGTAAAATGAC
1 AAATACCCTCATAGGGTAAAATGAC
36618414 TATTATAACC
Statistics
Matches: 162, Mismatches: 24, Indels: 24
0.77 0.11 0.11
Matches are distributed among these distances:
54 112 0.69
55 3 0.02
65 47 0.29
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (54 bp):
AAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCG
Found at i:36618328 original size:27 final size:27
Alignment explanation
Indices: 36618298--36618412 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 27
36618288 AAATGACTGA
* *
36618298 AAAATGATTGAAATACCCCCGTAGGGT
1 AAAATGATCGAAATACCCCCATAGGGT
* ***
36618325 AAAATGATCAAAATACCCTTGTAGGGT
1 AAAATGATCGAAATACCCCCATAGGGT
* *
36618352 AAAATGATCGAAATATCTCCATAGGGT
1 AAAATGATCGAAATACCCCCATAGGGT
* *
36618379 AAAATGGTTGAAATACCCCCATAGGGT
1 AAAATGATCGAAATACCCCCATAGGGT
36618406 AAAATGA
1 AAAATGA
36618413 CTATTATAAC
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (27 bp):
AAAATGATCGAAATACCCCCATAGGGT
Found at i:36618339 original size:65 final size:65
Alignment explanation
Indices: 36618233--36618358 Score: 198
Period size: 65 Copynumber: 1.9 Consensus size: 65
36618223 CTCATAGGGT
**
36618233 AAAATGATCGAAATACCCCCATAGGGTAAAATGATTGAAATACCCTCATAGGGTAAAATGACTGA
1 AAAATGATCGAAATACCCCCATAGGGTAAAATGATCAAAATACCCTCATAGGGTAAAATGACTGA
* * **
36618298 AAAATGATTGAAATACCCCCGTAGGGTAAAATGATCAAAATACCCTTGTAGGGTAAAATGA
1 AAAATGATCGAAATACCCCCATAGGGTAAAATGATCAAAATACCCTCATAGGGTAAAATGA
36618359 TCGAAATATC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.22
Consensus pattern (65 bp):
AAAATGATCGAAATACCCCCATAGGGTAAAATGATCAAAATACCCTCATAGGGTAAAATGACTGA
Found at i:36618391 original size:92 final size:92
Alignment explanation
Indices: 36618215--36618384 Score: 252
Period size: 92 Copynumber: 1.8 Consensus size: 92
36618205 TAGAATGACC
* * *
36618215 GAAATACCCTCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGATTGAAATACCCTC
1 GAAATACCCCCATAGGGTAAAATGATCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCTC
36618280 ATAGGGTAAAATGACTGAAAAATGATT
66 ATAGGGTAAAATGACTGAAAAATGATT
* *** *
36618307 GAAATACCCCCGTAGGGTAAAATGATCAAAATACCCTTGTAGGGTAAAATGATCGAAATA-TCTC
1 GAAATACCCCCATAGGGTAAAATGATCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCT-
36618371 CATAGGGTAAAATG
65 CATAGGGTAAAATG
36618385 GTTGAAATAC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
91 2 0.03
92 67 0.97
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.23
Consensus pattern (92 bp):
GAAATACCCCCATAGGGTAAAATGATCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCTC
ATAGGGTAAAATGACTGAAAAATGATT
Found at i:36618391 original size:119 final size:119
Alignment explanation
Indices: 36618188--36618414 Score: 364
Period size: 119 Copynumber: 1.9 Consensus size: 119
36618178 TGAAATGACC
* *
36618188 GAAATACCCCCATAGGGTAGAATGACCGAAATACCCTCATAGGGTAAAATGATCGAAATACCCCC
1 GAAATACCCCCATAGGGTAAAATGACCAAAATACCCTCATAGGGTAAAATGATCGAAATACCCCC
*
36618253 ATAGGGTAAAATGATTGAAATACCCTCATAGGGTAAAATGACTGAAAAATGATT
66 ATAGGGTAAAATGATTGAAATACCCCCATAGGGTAAAATGACTGAAAAATGATT
* * ** * *
36618307 GAAATACCCCCGTAGGGTAAAATGATCAAAATACCCTTGTAGGGTAAAATGATCGAAATATCTCC
1 GAAATACCCCCATAGGGTAAAATGACCAAAATACCCTCATAGGGTAAAATGATCGAAATACCCCC
*
36618372 ATAGGGTAAAATGGTTGAAATACCCCCATAGGGTAAAATGACT
66 ATAGGGTAAAATGATTGAAATACCCCCATAGGGTAAAATGACT
36618415 ATTATAACCC
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
119 98 1.00
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (119 bp):
GAAATACCCCCATAGGGTAAAATGACCAAAATACCCTCATAGGGTAAAATGATCGAAATACCCCC
ATAGGGTAAAATGATTGAAATACCCCCATAGGGTAAAATGACTGAAAAATGATT
Found at i:36623462 original size:18 final size:18
Alignment explanation
Indices: 36623439--36623492 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
36623429 TAGTGTTTAC
36623439 ATTATAGTATTATAGATT
1 ATTATAGTATTATAGATT
36623457 ATTATAG-ATT-TA-ATT
1 ATTATAGTATTATAGATT
* * *
36623472 TTTGTATGTGTTATAGATT
1 ATTATA-GTATTATAGATT
36623491 AT
1 AT
36623493 ACAATATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
15 7 0.25
16 3 0.11
17 5 0.18
18 9 0.32
19 4 0.14
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (18 bp):
ATTATAGTATTATAGATT
Found at i:36626561 original size:53 final size:53
Alignment explanation
Indices: 36626503--36626605 Score: 172
Period size: 53 Copynumber: 1.9 Consensus size: 53
36626493 AAATGCATCT
* *
36626503 TGGCGCACAAAGC-GCATATCGGTTTACAAAGTGCATCCTGGTGCCACAAATCC
1 TGGCGCA-AAAACTGCATATCGGCTTACAAAGTGCATCCTGGTGCCACAAATCC
36626556 TGGCGCAAAAACTGCATATCGGCTTACAAAGTGCATCCTGGTGCCACAAA
1 TGGCGCAAAAACTGCATATCGGCTTACAAAGTGCATCCTGGTGCCACAAA
36626606 CTCAAAAAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 4 0.09
53 43 0.91
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.20
Consensus pattern (53 bp):
TGGCGCAAAAACTGCATATCGGCTTACAAAGTGCATCCTGGTGCCACAAATCC
Found at i:36638278 original size:32 final size:32
Alignment explanation
Indices: 36638227--36638363 Score: 204
Period size: 32 Copynumber: 4.3 Consensus size: 32
36638217 ATGGCTACAG
* *
36638227 GCCATAAGT-ACAGTAATATGATTGGCACAAA
1 GCCATCAGTAACAGTAATATGATCGGCACAAA
* *
36638258 GCCATCAGTAGCAGTGATATGATCGGCACAAA
1 GCCATCAGTAACAGTAATATGATCGGCACAAA
36638290 GCCATCAGTAACAGTAATATGATCGGCACAAA
1 GCCATCAGTAACAGTAATATGATCGGCACAAA
* *
36638322 GCCATCAGTAACGGTAATATGATCGGCCCAAA
1 GCCATCAGTAACAGTAATATGATCGGCACAAA
*
36638354 GCCAACAGTA
1 GCCATCAGTA
36638364 GCATCGTAGC
Statistics
Matches: 96, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
31 8 0.08
32 88 0.92
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (32 bp):
GCCATCAGTAACAGTAATATGATCGGCACAAA
Found at i:36638619 original size:24 final size:24
Alignment explanation
Indices: 36638535--36638616 Score: 128
Period size: 24 Copynumber: 3.4 Consensus size: 24
36638525 CCATGCTCAG
36638535 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* *
36638559 AATCAGTCATACCAATCACAAACA
1 AATCAGTCATACAAATCACAGACA
**
36638583 AATCAGTCATTTAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
36638607 AATCAGTCAT
1 AATCAGTCAT
36638617 TTACCCTATA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.48, C:0.24, G:0.07, T:0.21
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:36638671 original size:27 final size:26
Alignment explanation
Indices: 36638641--36638915 Score: 140
Period size: 27 Copynumber: 10.2 Consensus size: 26
36638631 CATTACGGTT
36638641 ATTTTACCTTACAGGGATATTTCGATC
1 ATTTTACCTTACAGGG-TATTTCGATC
* *** * *
36638668 ATTTAACCCTATGGGGGGTATTACGGTC
1 ATTTTA-CCT-TACAGGGTATTTCGATC
* * * * * *
36638696 TTTTTACCCTACAGGGGCATTACGGTT
1 ATTTTACCTTACA-GGGTATTTCGATC
* ** * *
36638723 ATTTTACCCTATGGGGTTTTTCGGTC
1 ATTTTACCTTACAGGGTATTTCGATC
* * *
36638749 ATTTTACCTTATAGGGGTATTACAATC
1 ATTTTACCTTACA-GGGTATTTCGATC
* * * *
36638776 ATTTTACTTTACAAGGGCATTACAATC
1 ATTTTACCTTAC-AGGGTATTTCGATC
*
36638803 ATTTTACCTTACGAGGGTATTTCGGTC
1 ATTTTACCTTAC-AGGGTATTTCGATC
** *
36638830 ATTTTACCTATTGAGGGTATTTCAATC
1 ATTTTACCT-TACAGGGTATTTCGATC
* * *
36638857 ATTTTACCCATT-GAGGGTATTTCAATG
1 ATTTTA-CC-TTACAGGGTATTTCGATC
*
36638884 ATTTTACCCATT-GAGGGTATTTCGATC
1 ATTTTA-CC-TTACAGGGTATTTCGATC
36638911 ATTTT
1 ATTTT
36638916 TCCCATCGAG
Statistics
Matches: 197, Mismatches: 43, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
26 21 0.11
27 151 0.77
28 20 0.10
29 5 0.03
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (26 bp):
ATTTTACCTTACAGGGTATTTCGATC
Found at i:36638701 original size:55 final size:53
Alignment explanation
Indices: 36638613--36638779 Score: 158
Period size: 53 Copynumber: 3.1 Consensus size: 53
36638603 GACAAATCAG
* * * *
36638613 TCATTT-ACCCTATAAGGGCATTACGGT-TATTTTACCTTACAGGGATATTTCGA
1 TCATTTAACCCTAT-GGGGTATTACGGTCT-TTTTACCTTACAGGGGTATTACGA
* * *
36638666 TCATTTAACCCTATGGGGGGTATTACGGTCTTTTTACCCTACAGGGGCATTACGG
1 TCATTTAACCCTAT--GGGGTATTACGGTCTTTTTACCTTACAGGGGTATTACGA
* * * * * * *
36638721 TTATTTTACCCTATGGGGTTTTTCGGTCATTTTACCTTATAGGGGTATTACAA
1 TCATTTAACCCTATGGGGTATTACGGTCTTTTTACCTTACAGGGGTATTACGA
36638774 TCATTT
1 TCATTT
36638780 TACTTTACAA
Statistics
Matches: 92, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
53 42 0.46
54 7 0.08
55 42 0.46
56 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.40
Consensus pattern (53 bp):
TCATTTAACCCTATGGGGTATTACGGTCTTTTTACCTTACAGGGGTATTACGA
Found at i:36638780 original size:53 final size:54
Alignment explanation
Indices: 36638616--36638864 Score: 180
Period size: 54 Copynumber: 4.6 Consensus size: 54
36638606 AAATCAGTCA
** * * * *
36638616 TTTACCCTATAAGGGCATTACGGTTATTTTACCTTACAGGGATATTTCGATCAT
1 TTTACCCTATGGGGGTATTACGGTCATTTTACCTTACAGGGGTATTACGATCAT
* * * * * *
36638670 TTAACCCTATGGGGGGTATTACGGTCTTTTTACCCTACAGGGGCATTACGGTTAT
1 TTTACCCTAT-GGGGGTATTACGGTCATTTTACCTTACAGGGGTATTACGATCAT
* * * *
36638725 TTTACCCTAT-GGGGTTTTTCGGTCATTTTACCTTATAGGGGTATTACAATCAT
1 TTTACCCTATGGGGGTATTACGGTCATTTTACCTTACAGGGGTATTACGATCAT
** *** * ** * *
36638778 TTTACTTTACAAGGGCATTACAATCATTTTACCTTAC-GAGGGTATTTCGGTCAT
1 TTTACCCTATGGGGGTATTACGGTCATTTTACCTTACAG-GGGTATTACGATCAT
* * **
36638832 TTTA-CCTATTGAGGGTATTTCAATCATTTTACC
1 TTTACCCTA-TGGGGGTATTACGGTCATTTTACC
36638865 CATTGAGGGT
Statistics
Matches: 150, Mismatches: 41, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
53 44 0.29
54 64 0.43
55 42 0.28
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.40
Consensus pattern (54 bp):
TTTACCCTATGGGGGTATTACGGTCATTTTACCTTACAGGGGTATTACGATCAT
Found at i:36638856 original size:54 final size:54
Alignment explanation
Indices: 36638641--36638997 Score: 187
Period size: 54 Copynumber: 6.6 Consensus size: 54
36638631 CATTACGGTT
* * * * *
36638641 ATTTTACCTTAC-AGGGATATTTCGATCATTTAACCCTATGGGGGGTATTACGGTC
1 ATTTTACCTTACGAGGG-TATTTCGATCATTTTA-CCTATTGAGGGTATTTCGATC
* * * * * * * *
36638696 TTTTTACCCTAC-AGGGGCATTACGGTTATTTTACCCTA-TG-GGGTTTTTCGGTC
1 ATTTTACCTTACGA-GGGTATTTCGATCATTTTA-CCTATTGAGGGTATTTCGATC
* * * * * * *
36638749 ATTTTACCTTA-TAGGGGTATTACAATCATTTTA-CT-TTACAAGGGCATTACAATC
1 ATTTTACCTTACGA-GGGTATTTCGATCATTTTACCTATT--GAGGGTATTTCGATC
* *
36638803 ATTTTACCTTACGAGGGTATTTCGGTCATTTTACCTATTGAGGGTATTTCAATC
1 ATTTTACCTTACGAGGGTATTTCGATCATTTTACCTATTGAGGGTATTTCGATC
* * *
36638857 ATTTTACCCATT--GAGGGTATTTCAATGATTTTACCCATTGAGGGTATTTCGATC
1 ATTTTA-CC-TTACGAGGGTATTTCGATCATTTTACCTATTGAGGGTATTTCGATC
* * * * * * * * * * *
36638911 ATTTTTCC-CATCGAGGGTATTTTGGTAATTTTACCCATCGAGAGTATTTTGGTT
1 ATTTTACCTTA-CGAGGGTATTTCGATCATTTTACCTATTGAGGGTATTTCGATC
* * *
36638965 AGTTTACCCGT-CGAGGGTATTTCGATAATTTTA
1 ATTTTA-CCTTACGAGGGTATTTCGATCATTTTA
36638998 TCCATCGAAG
Statistics
Matches: 236, Mismatches: 50, Indels: 33
0.74 0.16 0.10
Matches are distributed among these distances:
51 3 0.01
53 39 0.17
54 153 0.65
55 34 0.14
56 7 0.03
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (54 bp):
ATTTTACCTTACGAGGGTATTTCGATCATTTTACCTATTGAGGGTATTTCGATC
Found at i:36638856 original size:81 final size:80
Alignment explanation
Indices: 36638616--36638865 Score: 279
Period size: 81 Copynumber: 3.1 Consensus size: 80
36638606 AAATCAGTCA
* * *
36638616 TTTACCCTATAAGGGCATTACGGTTATTTTACCTTAC-AGGGATATTTCGATCATTTAACCCTAT
1 TTTACCCTACAAGGGCATTACGGTTATTTTACCTTACGAGGG-TATTTCGGTCATTTTA-CCTAT
* ** *
36638680 GGGGGGTATTACGGTCTT
64 -AGGGGTATTACAATCAT
* * * *
36638698 TTTACCCTACAGGGGCATTACGGTTATTTTACCCTATG-GGGTTTTTCGGTCATTTTACCTTATA
1 TTTACCCTACAAGGGCATTACGGTTATTTTACCTTACGAGGGTATTTCGGTCATTTTACC-TATA
36638762 GGGGTATTACAATCAT
65 GGGGTATTACAATCAT
** ** * *
36638778 TTTACTTTACAAGGGCATTACAATCATTTTACCTTACGAGGGTATTTCGGTCATTTTACCTATTG
1 TTTACCCTACAAGGGCATTACGGTTATTTTACCTTACGAGGGTATTTCGGTCATTTTACCTATAG
*
36638843 AGGGTATTTCAATCAT
66 -GGGTATTACAATCAT
36638859 TTTACCC
1 TTTACCC
36638866 ATTGAGGGTA
Statistics
Matches: 140, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
80 49 0.35
81 55 0.39
82 36 0.26
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (80 bp):
TTTACCCTACAAGGGCATTACGGTTATTTTACCTTACGAGGGTATTTCGGTCATTTTACCTATAG
GGGTATTACAATCAT
Found at i:36638888 original size:81 final size:80
Alignment explanation
Indices: 36638723--36638959 Score: 205
Period size: 81 Copynumber: 2.9 Consensus size: 80
36638713 CATTACGGTT
* * * *
36638723 ATTTTACCCTATG-GGGTTTTTCGGTCATTTTACCTTATAG-GGGTATTACAATCATTTTA--CT
1 ATTTTACCTTA-GAGGGTATTTCGGTCATTTTACC-TATAGAGGGTATTTCAATCATTTTACCCA
* * *
36638784 TTACAAGGGCATTACAATC
64 TT--GAGGGTATTTCAATC
*
36638803 ATTTTACCTTACGAGGGTATTTCGGTCATTTTACCTATTGAGGGTATTTCAATCATTTTACCCAT
1 ATTTTACCTTA-GAGGGTATTTCGGTCATTTTACCTATAGAGGGTATTTCAATCATTTTACCCAT
*
36638868 TGAGGGTATTTCAATG
65 TGAGGGTATTTCAATC
* * * * *** *
36638884 ATTTTACCCATT-GAGGGTATTTCGATCATTTTTCCCATCGAGGGTATTTTGGTAATTTTACCCA
1 ATTTTA-CC-TTAGAGGGTATTTCGGTCATTTTACCTATAGAGGGTATTTCAATCATTTTACCCA
* *
36638948 TCGAGAGTATTT
64 TTGAGGGTATTT
36638960 TGGTTAGTTT
Statistics
Matches: 131, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
80 15 0.11
81 109 0.83
82 2 0.02
83 5 0.04
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.42
Consensus pattern (80 bp):
ATTTTACCTTAGAGGGTATTTCGGTCATTTTACCTATAGAGGGTATTTCAATCATTTTACCCATT
GAGGGTATTTCAATC
Found at i:36638920 original size:27 final size:27
Alignment explanation
Indices: 36638800--36639013 Score: 214
Period size: 27 Copynumber: 7.9 Consensus size: 27
36638790 GGGCATTACA
*
36638800 ATCATTTTA-CCTTACGAGGGTATTTCG
1 ATCATTTTACCCAT-CGAGGGTATTTCG
* * * *
36638827 GTCATTTTACCTATTGAGGGTATTTCA
1 ATCATTTTACCCATCGAGGGTATTTCG
* *
36638854 ATCATTTTACCCATTGAGGGTATTTCA
1 ATCATTTTACCCATCGAGGGTATTTCG
* *
36638881 ATGATTTTACCCATTGAGGGTATTTCG
1 ATCATTTTACCCATCGAGGGTATTTCG
* *
36638908 ATCATTTTTCCCATCGAGGGTATTTTG
1 ATCATTTTACCCATCGAGGGTATTTCG
* * * *
36638935 GTAATTTTACCCATCGAGAGTATTTTG
1 ATCATTTTACCCATCGAGGGTATTTCG
* * * *
36638962 GTTAGTTTACCCGTCGAGGGTATTTCG
1 ATCATTTTACCCATCGAGGGTATTTCG
* * *
36638989 ATAATTTTATCCATCGAAGGTATTT
1 ATCATTTTACCCATCGAGGGTATTT
36639014 TAGTCATTTA
Statistics
Matches: 158, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
27 156 0.99
28 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (27 bp):
ATCATTTTACCCATCGAGGGTATTTCG
Found at i:36645086 original size:32 final size:32
Alignment explanation
Indices: 36644994--36645117 Score: 124
Period size: 32 Copynumber: 3.9 Consensus size: 32
36644984 ATAAGTACAA
** * * *
36644994 TAATATGATTAGCATAAAGCCATCAGTAGCAG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
* * * * *
36645026 TGATAAGATTGGCACACAA-CCATTAGTAATGG
1 TAATATGATCGGCACA-AAGCCATCAGTAACGG
*
36645058 TAATATGATCGGCACAAAGCCATCAGTAACGA
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
*
36645090 TAATATGATCGACACAAAGCCATCAGTA
1 TAATATGATCGGCACAAAGCCATCAGTA
36645118 GCATCACAGC
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
31 2 0.03
32 71 0.95
33 2 0.03
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.23
Consensus pattern (32 bp):
TAATATGATCGGCACAAAGCCATCAGTAACGG
Found at i:36647990 original size:25 final size:25
Alignment explanation
Indices: 36647962--36648009 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
36647952 GAGAACATAA
*
36647962 ATGTGCTAATAATTAGAGAGCACCG
1 ATGTGCTAATAATCAGAGAGCACCG
36647987 ATGTGCTAATAATCAGAGAGCAC
1 ATGTGCTAATAATCAGAGAGCAC
36648010 GCTAAACTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (25 bp):
ATGTGCTAATAATCAGAGAGCACCG
Found at i:36649036 original size:50 final size:50
Alignment explanation
Indices: 36648912--36649238 Score: 356
Period size: 50 Copynumber: 6.6 Consensus size: 50
36648902 GATAATAACA
* ** * * **
36648912 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTA-CAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * **
36648961 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * ** *
36649011 TGCCCATGCCATATCCCAGACATGGTTTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
36649061 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * * * *
36649111 TGCCAATGCCATGTCCCAAACATGGTCTTACATGAGACTTCTAATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
36649161 TGCCAATGCCATGTCCCAGACATGGTCTTACACT-GG--CTCACATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA-TGGGACCTCTCATATCGG
* *
36649209 TGTCGATGCCATGTCCCAGACATGGTCTTA
1 TGCCAATGCCATGTCCCAGACATGGTCTTA
36649239 TACGTGATCG
Statistics
Matches: 237, Mismatches: 39, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
48 34 0.14
49 39 0.16
50 163 0.69
51 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:36649282 original size:42 final size:41
Alignment explanation
Indices: 36649204--36649282 Score: 95
Period size: 42 Copynumber: 1.9 Consensus size: 41
36649194 TGGCTCACAT
* * * * *
36649204 ATCGATGTCGATGCCATGTCCCAGACATGGTCTTATACGTG
1 ATCGATGCCGATACCATATCCCACACATGGTATTATACGTG
*
36649245 ATCGCATGCCGATACCATATCCCACATATGGTATTATA
1 ATCG-ATGCCGATACCATATCCCACACATGGTATTATA
36649283 AGGAAATCAC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
41 4 0.13
42 27 0.87
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (41 bp):
ATCGATGCCGATACCATATCCCACACATGGTATTATACGTG
Found at i:36656547 original size:34 final size:34
Alignment explanation
Indices: 36656504--36656570 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
36656494 TGTAATTGAT
36656504 TATTGAATTGGGAAAGGTATGTTACTTTGGTTGG
1 TATTGAATTGGGAAAGGTATGTTACTTTGGTTGG
36656538 TATTGAATTGGGAAAGGTATGTTACTTTGGTTG
1 TATTGAATTGGGAAAGGTATGTTACTTTGGTTG
36656571 AGTTTCCTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.24, C:0.03, G:0.31, T:0.42
Consensus pattern (34 bp):
TATTGAATTGGGAAAGGTATGTTACTTTGGTTGG
Found at i:36663096 original size:27 final size:27
Alignment explanation
Indices: 36663056--36663465 Score: 421
Period size: 27 Copynumber: 15.3 Consensus size: 27
36663046 AGAGGTCGAT
* * *
36663056 AAATGATCGAAATACCCCAATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
36663083 AAATGACCGTAATACCCCCACAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
** *
36663110 AAATGACCGAAATACCTTCATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
36663137 AAATAACCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
36663164 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
36663191 AAATAACTGAAATACCTCCATAGCGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * ** *
36663218 AAATGAACAAAATACCCTTAAAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* **
36663245 AAATGACCAAAATACCCTTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * ** *
36663272 AAATGATCGAAGTATGCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
36663299 GAATGACCGAAATA-CCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
36663325 GAATGACTGAAATACCCCCATAGGGCA
1 AAATGACCGAAATACCCCCATAGGGTA
*
36663352 AAATGATCGAAATA-CCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* ** *
36663378 GAATGAATGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
**
36663405 AAATGACC-AATATACCCCCATAGAATA
1 AAATGACCGAA-ATACCCCCATAGGGTA
*
36663432 AAATGACCAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
36663459 AAATGAC
1 AAATGAC
36663466 TGTTACACCC
Statistics
Matches: 316, Mismatches: 63, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
26 47 0.15
27 267 0.84
28 2 0.01
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:36663872 original size:28 final size:28
Alignment explanation
Indices: 36663830--36663918 Score: 135
Period size: 28 Copynumber: 3.2 Consensus size: 28
36663820 ACTGTACCGA
*
36663830 TACTGTATTGAGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
*
36663858 TACTGTATTGGGCTAAGGCCCACATTAT
1 TACTGTATTGGGCTAAGGCCCACATTGT
* *
36663886 TACTGTATTGGGTTAAGGCCCACACTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
36663914 T-CTGT
1 TACTGT
36663919 TACTAAATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 4 0.07
28 52 0.93
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACATTGT
Found at i:36668077 original size:18 final size:18
Alignment explanation
Indices: 36668056--36668090 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
36668046 TTTTTCTTTT
36668056 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
36668074 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
36668091 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:36669049 original size:21 final size:20
Alignment explanation
Indices: 36669005--36669052 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
36668995 TTTTTGTCAC
* *
36669005 TTTTTTTTTGATTTTTTTAA
1 TTTTTTTTTGAATTTCTTAA
36669025 TTTTTTTTTCGAATTTCTT-A
1 TTTTTTTTT-GAATTTCTTAA
36669045 TTTTTTTT
1 TTTTTTTT
36669053 AAATCCAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.79
Consensus pattern (20 bp):
TTTTTTTTTGAATTTCTTAA
Found at i:36681409 original size:26 final size:27
Alignment explanation
Indices: 36681380--36681431 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
36681370 AAGCTGTCAG
*
36681380 TAACAATA-ATGTAGCAAAGCTACCAA
1 TAACAATATATGTAGCAAAGCCACCAA
* *
36681406 TAACAGTATATGTGGCAAAGCCACCA
1 TAACAATATATGTAGCAAAGCCACCA
36681432 TGCAGTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.19
Consensus pattern (27 bp):
TAACAATATATGTAGCAAAGCCACCAA
Found at i:36681569 original size:27 final size:27
Alignment explanation
Indices: 36681538--36681650 Score: 154
Period size: 27 Copynumber: 4.2 Consensus size: 27
36681528 TTTTTGGGGT
* *
36681538 ATTTTACCTTTCAGGGGTATTTCGGTC
1 ATTTTACCCTTCAGGGGTAATTCGGTC
*
36681565 ATTTTACCCTTCGGGGGTAATTCGGTC
1 ATTTTACCCTTCAGGGGTAATTCGGTC
* *
36681592 ACTTAACCCTTCAGGGGTAATTCGGTC
1 ATTTTACCCTTCAGGGGTAATTCGGTC
* **
36681619 ATTTTACCCTTCGGGGGTAATTCAATC
1 ATTTTACCCTTCAGGGGTAATTCGGTC
36681646 ATTTT
1 ATTTT
36681651 TCGACCTATC
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (27 bp):
ATTTTACCCTTCAGGGGTAATTCGGTC
Found at i:36683944 original size:27 final size:28
Alignment explanation
Indices: 36683914--36683975 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
36683904 TTATACAGTA
*
36683914 ACAGTAA-AGTGTGGGCCTCAGCCCATT
1 ACAGTAACAGTGTGGGCCTCAGCCCAAT
*
36683941 ACAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTCAGCCCAAT
*
36683969 ATAGTAA
1 ACAGTAA
36683976 TAGTACAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
27 7 0.23
28 24 0.77
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.23
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTCAGCCCAAT
Found at i:36684347 original size:27 final size:27
Alignment explanation
Indices: 36684317--36684375 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
36684307 TATAATAGTT
* **
36684317 ATTTTACCCTTCGGGGGTAATTTGGTC
1 ATTTTACCCTTCGAGGGTAATTCAGTC
36684344 ATTTTACCCTTCGAGGGTAATTCAGTC
1 ATTTTACCCTTCGAGGGTAATTCAGTC
36684371 ATTTT
1 ATTTT
36684376 TTGACCTCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTAATTCAGTC
Found at i:36686663 original size:33 final size:32
Alignment explanation
Indices: 36686626--36686699 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 32
36686616 ATACAACATG
36686626 CAGTAACAGTACAGTGTGGGCCTTAGCCC-A-T
1 CAGT-ACAGTACAGTGTGGGCCTTAGCCCAATT
36686657 ---TACAGTAACAGTGTGGGCCTTAGCCCAATT
1 CAGTACAGT-ACAGTGTGGGCCTTAGCCCAATT
36686687 CAGTTACAGTACA
1 CAG-TACAGTACA
36686700 ATGCAGTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
27 5 0.14
28 20 0.56
29 1 0.03
30 1 0.03
33 3 0.08
34 6 0.17
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (32 bp):
CAGTACAGTACAGTGTGGGCCTTAGCCCAATT
Found at i:36686670 original size:28 final size:28
Alignment explanation
Indices: 36686631--36686696 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
36686621 ACATGCAGTA
36686631 ACAGTACAGTGTGGGCCTTAGCCC-ATT
1 ACAGTACAGTGTGGGCCTTAGCCCAATT
36686658 ACAGTAACAGTGTGGGCCTTAGCCCAATT
1 ACAGT-ACAGTGTGGGCCTTAGCCCAATT
36686687 -CAGTTACAGT
1 ACAG-TACAGT
36686697 ACAATGCAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
27 5 0.14
28 27 0.75
29 4 0.11
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (28 bp):
ACAGTACAGTGTGGGCCTTAGCCCAATT
Found at i:36686981 original size:16 final size:16
Alignment explanation
Indices: 36686962--36687003 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
36686952 ATACTCAGTA
36686962 ACAGTCATAGATATAT
1 ACAGTCATAGATATAT
36686978 ACAGTCATAGATATAT
1 ACAGTCATAGATATAT
36686994 ACA-TCATAGA
1 ACAGTCATAGA
36687004 GCAAATCAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 7 0.27
16 19 0.73
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (16 bp):
ACAGTCATAGATATAT
Found at i:36687120 original size:27 final size:27
Alignment explanation
Indices: 36687049--36687175 Score: 141
Period size: 27 Copynumber: 4.7 Consensus size: 27
36687039 ATATACACTT
36687049 ATTTTACCCTTCGGGGGTATTTC-AGTC
1 ATTTTACCCTTCGGGGGTATTTCGA-TC
* ***
36687076 ATTTTACCTTTTTAGGGTATTTCGATC
1 ATTTTACCCTTCGGGGGTATTTCGATC
* *
36687103 ATTTTACCCTTCGGGGGTATTTTGTTC
1 ATTTTACCCTTCGGGGGTATTTCGATC
* *
36687130 ATTTTACCCTTCGGGGGCAATTT-GGTC
1 ATTTTACCCTTCGGGGG-TATTTCGATC
*
36687157 ATTTTACCCTTCGAGGGTA
1 ATTTTACCCTTCGGGGGTA
36687176 ATTAAGTCAT
Statistics
Matches: 84, Mismatches: 14, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
26 1 0.01
27 78 0.93
28 5 0.06
ACGTcount: A:0.16, C:0.20, G:0.21, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTTCGGGGGTATTTCGATC
Found at i:36687159 original size:54 final size:54
Alignment explanation
Indices: 36687049--36687188 Score: 158
Period size: 54 Copynumber: 2.6 Consensus size: 54
36687039 ATATACACTT
* ** *
36687049 ATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCTTTTTAGGGTATTTCGATC
1 ATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTTCGAGGGAATTTCGATC
* * *
36687103 ATTTTACCCTTCGGGGGTATTT-TGTTCATTTTACCCTTCGGGGGCAATTT-GGTC
1 ATTTTACCCTTCGGGGGTATTTCAG-TCATTTTACCCTTCGAGGG-AATTTCGATC
* * *
36687157 ATTTTACCCTTCGAGGGTAATTAAGTCATTTT
1 ATTTTACCCTTCGGGGGTATTTCAGTCATTTT
36687189 TTGACCTCTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
53 1 0.01
54 67 0.92
55 5 0.07
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (54 bp):
ATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTTCGAGGGAATTTCGATC
Found at i:36689597 original size:28 final size:28
Alignment explanation
Indices: 36689540--36689605 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
36689530 CTATATAGTA
* *
36689540 ACAGT-ACAGTGTGGGCCTTAGCTCATT
1 ACAGTAACAGTGTGGGCCTTACCTCAAT
*
36689567 ACAGTAACAGTGTTGGCCTTAACCT-AAT
1 ACAGTAACAGTGTGGGCCTT-ACCTCAAT
*
36689595 ACAGGAACAGT
1 ACAGTAACAGT
36689606 ACAATGTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 5 0.15
28 25 0.76
29 3 0.09
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTACCTCAAT
Found at i:36689947 original size:27 final size:26
Alignment explanation
Indices: 36689903--36690055 Score: 112
Period size: 27 Copynumber: 5.7 Consensus size: 26
36689893 CTCATAGAGG
* * * *
36689903 TTTTATCCTTCGGGGGTATTTCAGCCA
1 TTTTACCCTTTGGAGGTATTTC-GTCA
*
36689930 TTTTACCCTTTGGAGGTATTTCGATTA
1 TTTTACCCTTTGGAGGTATTTCG-TCA
* * * *
36689957 TTTTATCCTTAGGTGGTATTTTGGTCA
1 TTTTACCCTTTGGAGGTA-TTTCGTCA
* *
36689984 TTTTACCC-TTCGAGGGTAATTCGGTCA
1 TTTTACCCTTTGGA-GGTATTTC-GTCA
*
36690011 TTTTACCCTTT-GAGGGTAATTCGATCA
1 TTTTACCCTTTGGA-GGTATTTCG-TCA
*
36690038 TTTTACCCTTTGGGGGTA
1 TTTTACCCTTTGGAGGTA
36690056 ATTTGGTAAT
Statistics
Matches: 102, Mismatches: 17, Indels: 14
0.77 0.13 0.11
Matches are distributed among these distances:
26 6 0.06
27 89 0.87
28 7 0.07
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.44
Consensus pattern (26 bp):
TTTTACCCTTTGGAGGTATTTCGTCA
Found at i:36689986 original size:54 final size:53
Alignment explanation
Indices: 36689903--36690058 Score: 152
Period size: 54 Copynumber: 2.9 Consensus size: 53
36689893 CTCATAGAGG
* * * * *
36689903 TTTTATCCTTCGGGGGTATTTCAGCCATTTTACCCTTTGGAGGTATTTCGATTA
1 TTTTATCCTT-AGGGGTATTTCGGTCATTTTACCCTTTGGAGGTAATTCGATCA
* * *
36689957 TTTTATCCTTAGGTGGTATTTTGGTCATTTTACCC-TTCGAGGGTAATTCGGTCA
1 TTTTATCCTTAGG-GGTATTTCGGTCATTTTACCCTTTGGA-GGTAATTCGATCA
* * * * *
36690011 TTTTACCCTTTGAGGGTAATTCGATCATTTTACCCTTTGGGGGTAATT
1 TTTTATCCTTAG-GGGTATTTCGGTCATTTTACCCTTTGGAGGTAATT
36690059 TGGTAATTTT
Statistics
Matches: 83, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
53 6 0.07
54 73 0.88
55 4 0.05
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.44
Consensus pattern (53 bp):
TTTTATCCTTAGGGGTATTTCGGTCATTTTACCCTTTGGAGGTAATTCGATCA
Found at i:36690041 original size:81 final size:81
Alignment explanation
Indices: 36689903--36690068 Score: 208
Period size: 81 Copynumber: 2.0 Consensus size: 81
36689893 CTCATAGAGG
* * * * * *
36689903 TTTTATCCTTCGGGGGTATTTCAGCCATTTTACCCTTTGGAGGTATTTCGATTATTTTATCCTTA
1 TTTTACCCTTCGAGGGTAATTCAGCCATTTTACCCTTTGGAGGTAATTCGATCATTTTACCCTTA
* * *
36689968 GGTGGTATTTTGGTCA
66 GGGGGTAATTTGGTAA
* *
36689984 TTTTACCCTTCGAGGGTAATTCGGTCATTTTACCCTTT-GAGGGTAATTCGATCATTTTACCCTT
1 TTTTACCCTTCGAGGGTAATTCAGCCATTTTACCCTTTGGA-GGTAATTCGATCATTTTACCCTT
*
36690048 TGGGGGTAATTTGGTAA
65 AGGGGGTAATTTGGTAA
36690065 TTTT
1 TTTT
36690069 TTAACCTATC
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 2 0.03
81 70 0.97
ACGTcount: A:0.17, C:0.16, G:0.21, T:0.45
Consensus pattern (81 bp):
TTTTACCCTTCGAGGGTAATTCAGCCATTTTACCCTTTGGAGGTAATTCGATCATTTTACCCTTA
GGGGGTAATTTGGTAA
Found at i:36690056 original size:27 final size:27
Alignment explanation
Indices: 36689928--36690058 Score: 145
Period size: 27 Copynumber: 4.9 Consensus size: 27
36689918 GTATTTCAGC
* *
36689928 CATTTTACCCTTTGGAGGTATTTCGAT
1 CATTTTACCCTTTGGGGGTAATTCGAT
* * * * * * *
36689955 TATTTTATCCTTAGGTGGTATTTTGGT
1 CATTTTACCCTTTGGGGGTAATTCGAT
* * *
36689982 CATTTTACCCTTCGAGGGTAATTCGGT
1 CATTTTACCCTTTGGGGGTAATTCGAT
*
36690009 CATTTTACCCTTTGAGGGTAATTCGAT
1 CATTTTACCCTTTGGGGGTAATTCGAT
36690036 CATTTTACCCTTTGGGGGTAATT
1 CATTTTACCCTTTGGGGGTAATT
36690059 TGGTAATTTT
Statistics
Matches: 88, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (27 bp):
CATTTTACCCTTTGGGGGTAATTCGAT
Found at i:36702814 original size:51 final size:51
Alignment explanation
Indices: 36702754--36703089 Score: 376
Period size: 51 Copynumber: 6.6 Consensus size: 51
36702744 GATGAACACG
* * * **
36702754 TGTGTAGTACTGTGTGAAGGCTACTACATGTATCGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATCTTGGTCACA
* * * * *
36702805 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGA-GAAGCTTTGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATC-TTGGTCACA
* * *
36702856 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAAT-TATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATCT-TGGTCACA
* * * *
36702907 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATC-TTGGTCACA
* * * *
36702958 TGTGTAGTACTAGGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATCTTGGTCACA
* * * * *
36703008 TGTGTAGTACTATGTAAAGGCTACTACGTGAACC-ATAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATCTTGGTCACA
36703058 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
36703090 TCGAATGATA
Statistics
Matches: 242, Mismatches: 36, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
50 89 0.37
51 150 0.62
52 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATCTTGGTCACA
Found at i:36702930 original size:102 final size:102
Alignment explanation
Indices: 36702750--36703093 Score: 473
Period size: 102 Copynumber: 3.4 Consensus size: 102
36702740 TATCGATGAA
* * *
36702750 CACGTGTGTAGTACTGTGTGAAGGCTACTACATGTATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATTATGGTCACATGTGTAGTAC
* *
36702815 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
*
36702852 CACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATTATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATTATGGTCACATGTGTAGTAC
36702917 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
* * *
36702954 CACGTGTGTAGTACTAG-GTGAAGGCTACTACGTGAACCG-TAAAACT-TGATCACATGTGTAGT
1 CACGTGTGTAGTACT-GTGTGAAGGCTACTACGTGAATCGAT-AAATTATGGTCACATGTGTAGT
* * * * * *
36703016 ACTATGTAAAGGCTACTACGTGAACC-ATAAAAC-TTGAT
64 ACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCTTTGGT
* *
36703054 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGA
36703094 ATGATAAAAG
Statistics
Matches: 218, Mismatches: 19, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
100 40 0.18
101 42 0.19
102 135 0.62
103 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
Found at i:36704180 original size:19 final size:19
Alignment explanation
Indices: 36704156--36704192 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
36704146 TATATGTATT
36704156 TTTTAAATA-ATATTGATAC
1 TTTTAAA-ACATATTGATAC
36704175 TTTTAAAACATATTGATA
1 TTTTAAAACATATTGATA
36704193 ACAATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (19 bp):
TTTTAAAACATATTGATAC
Found at i:36704666 original size:39 final size:39
Alignment explanation
Indices: 36704622--36704699 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
36704612 TTAGTAAAAA
*
36704622 AAAATCTAAATTTGTATTAAATCGAAATCCGTTTTAACC
1 AAAATCTAAATTTGTATTAAATCGAAATCCATTTTAACC
36704661 AAAATCTAAATTTGTATTAAATCGAAATCCATTTTAACC
1 AAAATCTAAATTTGTATTAAATCGAAATCCATTTTAACC
36704700 TTGGAGGACT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.36
Consensus pattern (39 bp):
AAAATCTAAATTTGTATTAAATCGAAATCCATTTTAACC
Found at i:36705665 original size:15 final size:15
Alignment explanation
Indices: 36705627--36705667 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
36705617 GGGCTTGGTT
*
36705627 TTGGGTTTAGGCTAG
1 TTGGGTTTGGGCTAG
36705642 TTGGGTTTGGGCTAG
1 TTGGGTTTGGGCTAG
36705657 TTGGGTTTGGG
1 TTGGGTTTGGG
36705668 TTAAAGCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.07, C:0.05, G:0.46, T:0.41
Consensus pattern (15 bp):
TTGGGTTTGGGCTAG
Found at i:36706380 original size:142 final size:142
Alignment explanation
Indices: 36706124--36706428 Score: 477
Period size: 142 Copynumber: 2.2 Consensus size: 142
36706114 CTTGGGGAAG
* *
36706124 TAAGATTCCTGGCTTCAATCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
1 TAAGATTTCTGGCTTCAATCTGATGCAATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTT
*
36706189 ATTTTAATCCACTGCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCGGTA
66 ATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCGGTA
*
36706254 ATCTCAATGAGA
131 ATCTCAAGGAGA
* * *
36706266 TAAGATTTTTGGCTTCAATCTGATGCGATCTACTCTACTATAACTTCAGAGAGATGAGATCCTTT
1 TAAGATTTCTGGCTTCAATCTGATGCAATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTT
* * * *
36706331 GTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTATTCCGCTGTA
66 ATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCGGTA
*
36706396 ATCTCAGGGAGA
131 ATCTCAAGGAGA
* *
36706408 TGAGATTTCT-GCTTCAGTCTG
1 TAAGATTTCTGGCTTCAATCTG
36706429 CCCCACTGTG
Statistics
Matches: 148, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
141 10 0.07
142 138 0.93
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (142 bp):
TAAGATTTCTGGCTTCAATCTGATGCAATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTT
ATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCGGTA
ATCTCAAGGAGA
Found at i:36729777 original size:17 final size:16
Alignment explanation
Indices: 36729752--36729786 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
36729742 AACCCTAGTT
* *
36729752 TTTCCCTTTTCTTTTC
1 TTTCCCCTTTCCTTTC
36729768 TTTCCCCTTTCCTTTC
1 TTTCCCCTTTCCTTTC
36729784 TTT
1 TTT
36729787 TTTTTCGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTCCCCTTTCCTTTC
Found at i:36730048 original size:15 final size:16
Alignment explanation
Indices: 36730019--36730061 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
36730009 TTTAAGATAT
36730019 AATAATATA-ATATAA
1 AATAATATATATATAA
*
36730034 TATAATATATA-ATAA
1 AATAATATATATATAA
*
36730049 AATAGTATATATA
1 AATAATATATATA
36730062 AAACATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 21 0.91
16 2 0.09
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
AATAATATATATATAA
Found at i:36737247 original size:15 final size:16
Alignment explanation
Indices: 36737227--36737257 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
36737217 TATAAGCTCG
36737227 ACAAATAA-AATAAAA
1 ACAAATAATAATAAAA
36737242 ACAAATAATAATAAAA
1 ACAAATAATAATAAAA
36737258 GATAATTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.16
Consensus pattern (16 bp):
ACAAATAATAATAAAA
Found at i:36737847 original size:19 final size:19
Alignment explanation
Indices: 36737817--36737853 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
36737807 GTGTGACACT
36737817 TTTTTTTATTTAT-TTTTA
1 TTTTTTTATTTATATTTTA
36737835 TTTTTTTATTTTATATTTT
1 TTTTTTTA-TTTATATTTT
36737854 TTAATTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 5 0.29
20 4 0.24
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTTTATTTATATTTTA
Found at i:36737856 original size:14 final size:14
Alignment explanation
Indices: 36737816--36737855 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
36737806 CGTGTGACAC
*
36737816 TTTTT-TTTATTTA
1 TTTTTATTTTTTTA
36737829 TTTTTATTTTTTTA
1 TTTTTATTTTTTTA
36737843 TTTTATATTTTTT
1 TTTT-TATTTTTT
36737856 AATTAATAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 5 0.21
14 11 0.46
15 8 0.33
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:36746180 original size:41 final size:41
Alignment explanation
Indices: 36746123--36746207 Score: 143
Period size: 41 Copynumber: 2.1 Consensus size: 41
36746113 ATCCAATGAG
* *
36746123 GTACTAAGTGGGCAATTGTCACTAACTGTAACTGCACCGGT
1 GTACTAAGCGGGCAATTGTCACTAACTGTAACTGCACCGAT
*
36746164 GTACTAAGCGGGCAATTGTCCCTAACTGTAACTGCACCGAT
1 GTACTAAGCGGGCAATTGTCACTAACTGTAACTGCACCGAT
36746205 GTA
1 GTA
36746208 GTGGGGTGCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (41 bp):
GTACTAAGCGGGCAATTGTCACTAACTGTAACTGCACCGAT
Found at i:36746698 original size:19 final size:19
Alignment explanation
Indices: 36746676--36746721 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
36746666 TATAATTTTC
* *
36746676 ATTTTAAATTAGTCTCTAA
1 ATTTTAAAATAGTCCCTAA
*
36746695 ATTTTAAAATATTCCCTAA
1 ATTTTAAAATAGTCCCTAA
36746714 ATTATTAA
1 ATT-TTAA
36746722 TGTATATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (19 bp):
ATTTTAAAATAGTCCCTAA
Done.