Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 515 of 770
Found at i:159814463 original size:17 final size:17
Alignment explanation
Indices: 159814441--159814475 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
159814431 TTAGTTTGTC
159814441 CGGCTACTATTTGTTAG
1 CGGCTACTATTTGTTAG
159814458 CGGCTACTATTTGTTAG
1 CGGCTACTATTTGTTAG
159814475 C
1 C
159814476 CTATAAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (17 bp):
CGGCTACTATTTGTTAG
Found at i:159814958 original size:20 final size:20
Alignment explanation
Indices: 159814935--159814982 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
159814925 AGCTACGTCT
159814935 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** **
159814955 AGCTCGTTTCAGCTTGTTTG
1 AGCTCAACTCAGCTCATTTG
159814975 AGCTCAAC
1 AGCTCAAC
159814983 CGAGCTTACT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:159817750 original size:5 final size:5
Alignment explanation
Indices: 159817740--159817795 Score: 62
Period size: 5 Copynumber: 11.0 Consensus size: 5
159817730 ACGATAAAAC
*
159817740 AAAGA AAAGA AAAGA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAGA AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
159817786 AAAGA AAAGA
1 AAAGA AAAGA
159817796 GAGGCAAAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
4 4 0.09
5 30 0.68
6 9 0.20
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:159817765 original size:11 final size:10
Alignment explanation
Indices: 159817740--159817795 Score: 62
Period size: 11 Copynumber: 5.5 Consensus size: 10
159817730 ACGATAAAAC
159817740 AAAGAAAAGA
1 AAAGAAAAGA
159817750 AAAGAAAAGCA
1 AAAGAAAAG-A
*
159817761 AAAGAAGA-A
1 AAAGAAAAGA
159817770 AAAGAAAATGA
1 AAAGAAAA-GA
159817781 AATA-AAAAGA
1 AA-AGAAAAGA
159817791 AAAGA
1 AAAGA
159817796 GAGGCAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 9 0.23
10 14 0.36
11 15 0.38
12 1 0.03
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:159819821 original size:21 final size:20
Alignment explanation
Indices: 159819777--159819825 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
159819767 TCAACTCCCA
* *
159819777 TCAGCTCACTTGAGCTCGAT
1 TCAGCTCGCTTGAGCTAGAT
*
159819797 TCAGCTCGTTTGAGCTAGAAT
1 TCAGCTCGCTTGAGCTAG-AT
159819818 TCAGCTCG
1 TCAGCTCG
159819826 ATCTAGCTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (20 bp):
TCAGCTCGCTTGAGCTAGAT
Found at i:159821194 original size:20 final size:20
Alignment explanation
Indices: 159821171--159821217 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
159821161 AGCTCCGTCC
159821171 AGCTCAATTCAGCTCATTTG
1 AGCTCAATTCAGCTCATTTG
* * *
159821191 AGCTTAGTTCAGCTCGTTTG
1 AGCTCAATTCAGCTCATTTG
159821211 AGCTCAA
1 AGCTCAA
159821218 CCGAGCTTAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (20 bp):
AGCTCAATTCAGCTCATTTG
Found at i:159823204 original size:27 final size:27
Alignment explanation
Indices: 159823136--159823206 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
159823126 CGACTTGTAA
* *
159823136 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
159823163 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
159823190 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
159823207 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:159823213 original size:27 final size:27
Alignment explanation
Indices: 159823190--159823313 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
159823180 CAATTTACAG
159823190 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
159823217 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
159823244 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
159823271 AATTACCAAAATACCCATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
159823298 AATTACTAAAATACCC
1 AATTACCAAAATACCC
159823314 CTGTAGGGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:159823232 original size:54 final size:53
Alignment explanation
Indices: 159823174--159823313 Score: 138
Period size: 54 Copynumber: 2.6 Consensus size: 53
159823164 ATTACCGTTT
159823174 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * *
159823228 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * *
159823282 TACCCATGGTTTGAAAAATTACTAAAATACCC
1 TACCC-TCAATTGTAAAATTACCAAAATACCC
159823314 CTGTAGGGTA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
53 3 0.04
54 64 0.84
55 7 0.09
56 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:159823325 original size:81 final size:81
Alignment explanation
Indices: 159823190--159823342 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
159823180 CAATTTACAG
* **
159823190 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
159823255 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * *
159823271 AATTACCAAAATACCCATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCCATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
159823334 AATACCCTT
64 AATACCCTT
159823343 GTGGGGTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:159823326 original size:27 final size:27
Alignment explanation
Indices: 159823296--159823357 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
159823286 CATGGTTTGA
159823296 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
159823323 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
159823350 AAAATTAC
1 AAAATTAC
159823358 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:159823326 original size:54 final size:54
Alignment explanation
Indices: 159823190--159823340 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 54
159823180 CAATTTACAG
* ** * * *
159823190 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
159823244 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
159823298 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACCC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACCC
159823341 TTGTGGGGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 3 0.04
54 81 0.95
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
Found at i:159824044 original size:27 final size:28
Alignment explanation
Indices: 159823969--159824064 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
159823959 GCGTAGATCA
159823969 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
159823997 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
159824025 CGAAATTA-CCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
159824052 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
159824065 GGGTTTAAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
25 3 0.05
26 2 0.03
27 24 0.38
28 34 0.54
ACGTcount: A:0.46, C:0.25, G:0.08, T:0.21
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:159827344 original size:27 final size:27
Alignment explanation
Indices: 159827276--159827346 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
159827266 CGACTTGTAA
* *
159827276 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
159827303 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
159827330 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
159827347 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:159827353 original size:27 final size:27
Alignment explanation
Indices: 159827330--159827426 Score: 140
Period size: 27 Copynumber: 3.6 Consensus size: 27
159827320 CAATTTACAG
159827330 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
159827357 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
159827384 AATTACTAAAATACCCTTTGTTTTTAA
1 AATTACCAAAATACCCTTGGTTTATAA
159827411 AATTACCAAAATACCC
1 AATTACCAAAATACCC
159827427 CTGTAGGGTA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:159827372 original size:54 final size:53
Alignment explanation
Indices: 159827314--159827426 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 53
159827304 ATTACCGTTT
159827314 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * * *
159827368 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTTTAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
159827422 TACCC
1 TACCC
159827427 CTGTAGGGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
53 3 0.06
54 38 0.76
55 7 0.14
56 2 0.04
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:159827427 original size:54 final size:54
Alignment explanation
Indices: 159827330--159827456 Score: 175
Period size: 54 Copynumber: 2.4 Consensus size: 54
159827320 CAATTTACAG
* **
159827330 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGT-TTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCT-GTAGGGTAA
* * *
159827384 AATTACTAAAATACCCTTTGTTTTTAAAATTACCAAAATACCCCTGTAGGGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGTAGGGTAA
*
159827438 AATTACTGAAATACCCTTG
1 AATTACTAAAATACCCTTG
159827457 TGGGTAAAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
53 2 0.03
54 62 0.97
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGTAGGGTAA
Found at i:159827438 original size:27 final size:26
Alignment explanation
Indices: 159827330--159827471 Score: 113
Period size: 27 Copynumber: 5.3 Consensus size: 26
159827320 CAATTTACAG
* ***
159827330 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCT-GTGGGTAA
* **
159827357 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCT-GTGGGTAA
* * ***
159827384 AATTACTAAAATACCCTTTGTTTTTAA
1 AATTACCAAAATACCC-CTGTGGGTAA
159827411 AATTACCAAAATACCCCTGTAGGGTAA
1 AATTACCAAAATACCCCTGT-GGGTAA
** *
159827438 AATTACTGAAATACCCTTGTGGGTAA
1 AATTACCAAAATACCCCTGTGGGTAA
159827464 AATTACCA
1 AATTACCA
159827472 TTTTGCCCCT
Statistics
Matches: 96, Mismatches: 17, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
26 15 0.16
27 80 0.83
28 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.31
Consensus pattern (26 bp):
AATTACCAAAATACCCCTGTGGGTAA
Found at i:159828155 original size:27 final size:27
Alignment explanation
Indices: 159828087--159828183 Score: 151
Period size: 27 Copynumber: 3.6 Consensus size: 27
159828077 AGCGTAGATC
159828087 ACGAAATTACCCCTAAAGAGCAAAATT
1 ACGAAATTACCCCTAAAGAGCAAAATT
159828114 ACTGAAATTACCCCTAAAGAGCAAAATT
1 AC-GAAATTACCCCTAAAGAGCAAAATT
*
159828142 ACGAAATTACCCCTAAATAGCAAAATT
1 ACGAAATTACCCCTAAAGAGCAAAATT
*
159828169 AC-CAATATACCCCTA
1 ACGAAAT-TACCCCTA
159828184 GGGTTTAAAT
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
26 3 0.05
27 36 0.55
28 27 0.41
ACGTcount: A:0.46, C:0.25, G:0.08, T:0.21
Consensus pattern (27 bp):
ACGAAATTACCCCTAAAGAGCAAAATT
Found at i:159831462 original size:27 final size:27
Alignment explanation
Indices: 159831394--159831464 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
159831384 CGACTTGTAA
* *
159831394 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
159831421 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
159831448 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
159831465 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:159831471 original size:27 final size:27
Alignment explanation
Indices: 159831448--159831571 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
159831438 CAATTTACAG
159831448 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
159831475 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
159831502 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
159831529 AATTACCAAAATACCCATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
159831556 AATTACTAAAATACCC
1 AATTACCAAAATACCC
159831572 CTGTAGGGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:159831490 original size:54 final size:53
Alignment explanation
Indices: 159831432--159831571 Score: 138
Period size: 54 Copynumber: 2.6 Consensus size: 53
159831422 ATTACCGTTT
159831432 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * *
159831486 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * *
159831540 TACCCATGGTTTGAAAAATTACTAAAATACCC
1 TACCC-TCAATTGTAAAATTACCAAAATACCC
159831572 CTGTAGGGTA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
53 3 0.04
54 64 0.84
55 7 0.09
56 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:159831583 original size:81 final size:81
Alignment explanation
Indices: 159831448--159831600 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
159831438 CAATTTACAG
* **
159831448 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
159831513 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * *
159831529 AATTACCAAAATACCCATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCCATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
159831592 AATACCCTT
64 AATACCCTT
159831601 GTGGGTAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:159831584 original size:27 final size:26
Alignment explanation
Indices: 159831472--159831614 Score: 115
Period size: 27 Copynumber: 5.3 Consensus size: 26
159831462 CCTTGGTTTA
* * **
159831472 TAAAATCACCAAAATACCCCTGGTTTG
1 TAAAATTACTAAAATACCCCT-GTGGG
* ***
159831499 TAAAATTACTAAAATACCCTTTGTTTA
1 TAAAATTACTAAAATACCC-CTGTGGG
* * **
159831526 TAAAATTACCAAAATACCCATGGTTTG
1 TAAAATTACTAAAATACCCCT-GTGGG
*
159831553 AAAAATTACTAAAATACCCCTGTAGGG
1 TAAAATTACTAAAATACCCCTGT-GGG
* *
159831580 TAAAATTACTGAAATACCCTTGTGGG
1 TAAAATTACTAAAATACCCCTGTGGG
159831606 TAAAATTAC
1 TAAAATTAC
159831615 CATTTTGCCC
Statistics
Matches: 98, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
26 15 0.15
27 82 0.84
28 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (26 bp):
TAAAATTACTAAAATACCCCTGTGGG
Found at i:159831584 original size:54 final size:54
Alignment explanation
Indices: 159831448--159831598 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 54
159831438 CAATTTACAG
* ** * * *
159831448 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
159831502 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
159831556 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACCC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACCC
159831599 TTGTGGGTAA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 3 0.04
54 81 0.95
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
Found at i:159832267 original size:28 final size:28
Alignment explanation
Indices: 159832234--159832330 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
159832224 GCGTAGATCA
159832234 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
159832262 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
159832290 CGAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
159832318 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
159832331 GGGTTTAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
26 3 0.05
27 8 0.12
28 54 0.83
ACGTcount: A:0.45, C:0.26, G:0.08, T:0.21
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:159838937 original size:16 final size:17
Alignment explanation
Indices: 159838916--159838947 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
159838906 CCATGATTGA
159838916 ATTTCCCA-TATATACC
1 ATTTCCCATTATATACC
159838932 ATTTCCCATTATATAC
1 ATTTCCCATTATATAC
159838948 TATTACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTTCCCATTATATACC
Found at i:159845043 original size:42 final size:42
Alignment explanation
Indices: 159844976--159845095 Score: 156
Period size: 40 Copynumber: 2.9 Consensus size: 42
159844966 ATGTCAAATA
159844976 CTCGAATTCTCGCACACTAAGTGCCAATACATAGCCGAAGCTAT
1 CTCGAA-TCTCGCACACTAAGTGCC-ATACATAGCCGAAGCTAT
** * *
159845020 -TTTAATCTCGCACACTAAATGCCATACATAGCTGAAGCTAT
1 CTCGAATCTCGCACACTAAGTGCCATACATAGCCGAAGCTAT
*
159845061 CTCGAA--TCGTACACTAAGTGCCATACATAGCCGAA
1 CTCGAATCTCGCACACTAAGTGCCATACATAGCCGAA
159845096 TTGTCGTCAA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
40 26 0.39
41 17 0.26
42 20 0.30
43 3 0.05
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (42 bp):
CTCGAATCTCGCACACTAAGTGCCATACATAGCCGAAGCTAT
Found at i:159847957 original size:41 final size:43
Alignment explanation
Indices: 159847850--159848007 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
159847840 ATATCGTACA
* * * * * *
159847850 ATGCCAACATCCCAGACGTGGTCTTACATGCCCTCACAA-ATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGACATCA-AATACCG
* * * *
159847893 ATGGC-ACTCTCCCAAACAGGGTCTTACACGA-ATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGACATCAAATACCG
* *
159847934 ATGCCAATGTCCCAGACATGGTCTTACAC-ATCATCACATACCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGA-CATCAAATACCG
159847977 ATGCCAACGTCCCAGACATGGTCTTACACGA
1 ATGCCAACGTCCCAGACATGGTCTTACACGA
159848008 GAACACATAT
Statistics
Matches: 93, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
40 1 0.01
41 26 0.28
42 14 0.15
43 51 0.55
44 1 0.01
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.21
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGACATCAAATACCG
Found at i:159860275 original size:40 final size:39
Alignment explanation
Indices: 159860230--159860360 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
159860220 CGGAATATAA
159860230 CCGGATATAATCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAT-TGCACAAATGCCTTCGGGTCTTAGC
* *
159860270 CCGGATAGAAT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAT-T-GCACAAATGCCTTCGGGTCTTAGC
* ** * * *
159860310 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCA-TTGCACAAATGCCTTCGGGTCTTAGC
159860350 CCGGATATAAT
1 CCGGATATAAT
159860361 TTCCAGCATA
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 3 0.04
40 69 0.93
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:159860374 original size:40 final size:40
Alignment explanation
Indices: 159860246--159860397 Score: 150
Period size: 40 Copynumber: 3.8 Consensus size: 40
159860236 ATAATCATGT
* *
159860246 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATATC-CA
* ** *
159860286 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCA-CTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATA-ATATCCA
* *
159860326 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATATCCA
* *
159860366 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
159860398 CATTCAATTT
Statistics
Matches: 92, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
39 2 0.02
40 86 0.93
41 4 0.04
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATATCCA
Found at i:159860380 original size:80 final size:80
Alignment explanation
Indices: 159860246--159860395 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
159860236 ATAATCATGT
*
159860246 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGAT-TTAGC
159860310 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
159860326 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTC-GCACGAA-TGCCTTCGGGATTTAG
159860389 CCCGGAT
64 CCCGGAT
159860396 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:159870398 original size:40 final size:40
Alignment explanation
Indices: 159870353--159870519 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
159870343 CGGAATATAA
159870353 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
159870393 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
159870433 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
159870473 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
159870512 CCGGATAT
1 CCGGATAT
159870520 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 14 0.13
40 90 0.87
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:159878357 original size:40 final size:40
Alignment explanation
Indices: 159878312--159878479 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
159878302 CGGAATATAA
159878312 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
159878352 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
159878392 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
159878432 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
159878472 CCGGATAT
1 CCGGATAT
159878480 CATTCAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:159878462 original size:80 final size:80
Alignment explanation
Indices: 159878328--159878477 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
159878318 ATAACCACGT
* *
159878328 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
159878393 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
159878408 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
159878471 CCCGGAT
64 CCCGGAT
159878478 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:159881418 original size:45 final size:45
Alignment explanation
Indices: 159881369--159881490 Score: 190
Period size: 45 Copynumber: 2.7 Consensus size: 45
159881359 CGGGACTGAA
* * *
159881369 TAAGACTATAGCTGAAAGACGTTATGTCATCACGATTTTAACGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTAACGAG
* *
159881414 TAAGACCATAGCTAAAAGACGTTATGGCATCACGATTCTAATGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTAACGAG
*
159881459 TAAGACCATAGCTGAAAGACGCTATGGCATCA
1 TAAGACCATAGCTGAAAGACGTTATGGCATCA
159881491 TGAATTAGAC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (45 bp):
TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTAACGAG
Found at i:159881477 original size:90 final size:90
Alignment explanation
Indices: 159881369--159881534 Score: 219
Period size: 90 Copynumber: 1.8 Consensus size: 90
159881359 CGGGACTGAA
* * * * *
159881369 TAAGACTATAGCTGAAAGACGTTATGTCATCACGATTTTA-ACGAGTAAGACCAT-AGCTAAAAG
1 TAAGACCATAGCTGAAAGACGCTATGGCATCACGA-ATTAGACGAATAAGACCATGA-CTAAAAG
**
159881432 ACGTTATGGCATCACGATTCTAATGAG
64 ACACTATGGCATCACGATTCTAATGAG
* *
159881459 TAAGACCATAGCTGAAAGACGCTATGGCATCATGAATTAGACGAATAAGATCATGACTAAAAGAC
1 TAAGACCATAGCTGAAAGACGCTATGGCATCACGAATTAGACGAATAAGACCATGACTAAAAGAC
159881524 ACTATGGCATC
66 ACTATGGCATC
159881535 CTTCAACCAT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
89 3 0.05
90 61 0.94
91 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (90 bp):
TAAGACCATAGCTGAAAGACGCTATGGCATCACGAATTAGACGAATAAGACCATGACTAAAAGAC
ACTATGGCATCACGATTCTAATGAG
Found at i:159881508 original size:45 final size:44
Alignment explanation
Indices: 159881366--159881534 Score: 178
Period size: 45 Copynumber: 3.8 Consensus size: 44
159881356 TACCGGGACT
* * * *
159881366 GAATAAGACTATAGCTGAAAGACGTTATGTCATCACGATTTTAAC
1 GAATAAGACCATAGCTAAAAGACGCTATGGCATCACGA-TTTAAC
* * *
159881411 GAGTAAGACCATAGCTAAAAGACGTTATGGCATCACGATTCTAAT
1 GAATAAGACCATAGCTAAAAGACGCTATGGCATCACGATT-TAAC
* * * *
159881456 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGAATTAGAC
1 GAATAAGACCATAGCTAAAAGACGCTATGGCATCACGATTTA-AC
* *
159881501 GAATAAGATCAT-GACTAAAAGACACTATGGCATC
1 GAATAAGACCATAG-CTAAAAGACGCTATGGCATC
159881535 CTTCAACCAT
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
44 5 0.05
45 102 0.95
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (44 bp):
GAATAAGACCATAGCTAAAAGACGCTATGGCATCACGATTTAAC
Found at i:159883309 original size:39 final size:40
Alignment explanation
Indices: 159883266--159883432 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
159883256 CGGAATATAA
159883266 CCGGATATAACCACGT-GCACAAATGCCTTC-GGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
159883305 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
159883345 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
159883385 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
159883425 CCGGATAT
1 CCGGATAT
159883433 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 3
0.78 0.19 0.02
Matches are distributed among these distances:
38 1 0.01
39 23 0.23
40 77 0.76
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:159883416 original size:80 final size:79
Alignment explanation
Indices: 159883282--159883430 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
159883272 ATAACCACGT
* *
159883282 GCACAAATGCCTTCGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCCC
1 GCACAAATGCCTTCGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCCC
159883347 GGATGTAGCCACTA
66 GGATGTAGCCACTA
* * * * *
159883361 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTC-GGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
159883424 CCCGGAT
63 CCCGGAT
159883431 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 16 0.27
80 44 0.73
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:159886750 original size:52 final size:53
Alignment explanation
Indices: 159886568--159886770 Score: 174
Period size: 52 Copynumber: 3.8 Consensus size: 53
159886558 AGGGTTTAAG
* * * * * * * *
159886568 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAG
1 GATACCACGCAAGACCATGTCAAGACATGGCAATGGTAAG-TTCATAAGGCAAA
* * ** * * * * *
159886622 GAAATCTTGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGCAAA
1 GATACCACGCAAGACCATGTCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAA
* * * * *
159886677 GATCCCATGTAAGACCATGTCAAGGCATGGCAATGGTGAGTTCATAA-GCAAA
1 GATACCACGCAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
159886729 GATACCACGCAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GATACCACGCAAGACCATGTCAAGACATGGCAATGGTAAGTT
159886771 TAAAAAGGAA
Statistics
Matches: 120, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
52 42 0.35
53 4 0.03
54 34 0.28
55 40 0.33
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.21
Consensus pattern (53 bp):
GATACCACGCAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
Found at i:159888124 original size:21 final size:20
Alignment explanation
Indices: 159888083--159888125 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
159888073 ATTTCCCATG
*
159888083 TTGGCCCATTTTCTCTATTT
1 TTGGCCCATTTTCACTATTT
* *
159888103 TTGGCCCGTTTTTCACTCTTT
1 TTGGCCC-ATTTTCACTATTT
159888124 TT
1 TT
159888126 ACTCTCCTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.07, C:0.26, G:0.12, T:0.56
Consensus pattern (20 bp):
TTGGCCCATTTTCACTATTT
Found at i:159892911 original size:62 final size:62
Alignment explanation
Indices: 159892814--159892939 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 62
159892804 AAAATTTGCC
*
159892814 AAGTGATTGTTTGGATCCTCATCCTGCAAACCATCAAATTGAACAAATTGTTGTATCATTTG
1 AAGTGATTGTTTGGATCCTCATCCTCCAAACCATCAAATTGAACAAATTGTTGTATCATTTG
159892876 AAGTGATTGTTTGGATCCTCATCCTCCAAACCATCAAATTGAACAAATTGTTGTATCATTTG
1 AAGTGATTGTTTGGATCCTCATCCTCCAAACCATCAAATTGAACAAATTGTTGTATCATTTG
159892938 AA
1 AA
159892940 TCGTGTTAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (62 bp):
AAGTGATTGTTTGGATCCTCATCCTCCAAACCATCAAATTGAACAAATTGTTGTATCATTTG
Found at i:159897002 original size:17 final size:17
Alignment explanation
Indices: 159896980--159897012 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
159896970 ATTTCCCTAT
159896980 CAATTCTAA-CCTTTAAC
1 CAATTC-AATCCTTTAAC
159896997 CAATTCAATCCTTTAA
1 CAATTCAATCCTTTAA
159897013 TAAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (17 bp):
CAATTCAATCCTTTAAC
Found at i:159905992 original size:28 final size:28
Alignment explanation
Indices: 159905960--159906058 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
159905950 GCAATAAGCC
*
159905960 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
159905988 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
159906016 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
159906045 CGCACACTTAGTGC
1 CGCACACTTAGTGC
159906059 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:159913663 original size:28 final size:28
Alignment explanation
Indices: 159913631--159913729 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
159913621 GCAATAAGCC
*
159913631 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
159913659 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
159913687 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
159913716 CGCACACTTAGTGC
1 CGCACACTTAGTGC
159913730 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:159916840 original size:24 final size:24
Alignment explanation
Indices: 159916805--159916853 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
159916795 AAAATTTGAT
*
159916805 TTTACTAAATTATCAACTCTATAA
1 TTTACTAAATTAACAACTCTATAA
*
159916829 TTTACTAGATTAACAACTCTATAA
1 TTTACTAAATTAACAACTCTATAA
159916853 T
1 T
159916854 GTGATGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (24 bp):
TTTACTAAATTAACAACTCTATAA
Found at i:159920973 original size:29 final size:29
Alignment explanation
Indices: 159920938--159921012 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
159920928 GGTTGTGAGA
* *
159920938 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
159920967 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
159920996 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
159921013 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:159928879 original size:28 final size:29
Alignment explanation
Indices: 159928812--159928884 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 29
159928802 GTTGTGAGAT
* *
159928812 TGGCACTAAGTGTGCGGGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATACA
*
159928841 TGGCACTAAGTGTGC-AG-TTTAAAGTACA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TACA
159928869 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
159928885 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 5 0.13
28 19 0.49
29 15 0.38
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATACA
Found at i:159931004 original size:23 final size:24
Alignment explanation
Indices: 159930978--159931027 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
159930968 AATCAAAGTC
* *
159930978 AAATATA-TATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
159931001 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
159931025 AAA
1 AAA
159931028 CCTTCTAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.34
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:159943147 original size:14 final size:15
Alignment explanation
Indices: 159943111--159943149 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 15
159943101 AATGATTTTC
159943111 TAAAAATAATCAATTAA
1 TAAAAAT-ATCAATT-A
159943128 TAAAAATATCAATT-
1 TAAAAATATCAATTA
159943142 TAAAAATA
1 TAAAAATA
159943150 GTATCCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.36
16 7 0.32
17 7 0.32
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAAATATCAATTA
Found at i:159947025 original size:43 final size:43
Alignment explanation
Indices: 159946931--159947025 Score: 102
Period size: 43 Copynumber: 2.2 Consensus size: 43
159946921 GTATTGGCAT
** **
159946931 TAAGTGTGCGATACAATTATAGACTTGGCTAATTAATTGGAAC
1 TAAGTGTGCGATACAATTATAGACTTAACTAATTAATCAGAAC
* * * *
159946974 AAATTGTGCGATACAATTATAG-TTTCAACTAATTAATCAGCAC
1 TAAGTGTGCGATACAATTATAGACTT-AACTAATTAATCAGAAC
159947017 TAAGTGTGC
1 TAAGTGTGC
159947026 AAGTTCGTTG
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
42 2 0.05
43 39 0.95
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.33
Consensus pattern (43 bp):
TAAGTGTGCGATACAATTATAGACTTAACTAATTAATCAGAAC
Found at i:159949901 original size:49 final size:49
Alignment explanation
Indices: 159949765--159950118 Score: 563
Period size: 49 Copynumber: 7.3 Consensus size: 49
159949755 CCTTTCGGGA
* * * * * *
159949765 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
159949812 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
159949859 CTTATCACATATATATACACTTTCACATTCATTACACCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
159949908 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
159949959 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
159950008 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
159950057 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
159950106 CTTATCACATATA
1 CTTATCACATATA
159950119 CTATCATGTA
Statistics
Matches: 289, Mismatches: 12, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 46 0.16
49 195 0.67
51 47 0.16
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:159954192 original size:40 final size:40
Alignment explanation
Indices: 159954160--159954550 Score: 624
Period size: 40 Copynumber: 9.8 Consensus size: 40
159954150 CCAGCATGAT
* * * *
159954160 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
159954200 TGCTCTTCGAGG-TTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCG-GGACTTAGCCCGGATACATCACTAGCACGAA
* *
159954240 TGCTCATCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
159954280 TGCTCATCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
159954320 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
159954359 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
159954399 TGCTCATCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
159954439 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
159954479 TGCTCATCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
159954519 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
159954551 CTCAATTCTC
Statistics
Matches: 328, Mismatches: 20, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
39 39 0.12
40 287 0.88
41 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:159954500 original size:199 final size:200
Alignment explanation
Indices: 159954160--159954550 Score: 676
Period size: 199 Copynumber: 2.0 Consensus size: 200
159954150 CCAGCATGAT
* * **
159954160 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGAGGTTTAGCACGGATA
1 TGCTCTTCGGGACCTAGCCCGGATACAACACCAGCACGAATGCTCATCGAGACTTAGCACGGATA
*
159954225 TATCACTAGCACGAATGCTCATCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCATCGA
66 CATCACTAGCACGAATGCTCATCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCATCGA
159954290 GACTTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATACATCACTAGC
131 GACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGC
159954354 ACGAA
196 ACGAA
* * * *
159954359 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCATCGAGACTTAGCCCGGATA
1 TGCTCTTCGGGACCTAGCCCGGATACAACACCAGCACGAATGCTCATCGAGACTTAGCACGGATA
* *
159954424 CATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCATCGA
66 CATCACTAGCACGAATGCTCATCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCATCGA
159954489 GACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
131 GACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
159954551 CTCAATTCTC
Statistics
Matches: 180, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
199 157 0.87
200 23 0.13
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (200 bp):
TGCTCTTCGGGACCTAGCCCGGATACAACACCAGCACGAATGCTCATCGAGACTTAGCACGGATA
CATCACTAGCACGAATGCTCATCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCATCGA
GACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGC
ACGAA
Found at i:159956128 original size:49 final size:49
Alignment explanation
Indices: 159955975--159956278 Score: 474
Period size: 49 Copynumber: 6.3 Consensus size: 49
159955965 GCCTTCGGGA
* * * * * *
159955975 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
159956022 CCTATCAC--ATATATACACTTTCACATTCATCACAT-GGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
159956068 CTTATCACATATATATACACTTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
159956117 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
159956168 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
159956217 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
159956266 CTTATCACATATA
1 CTTATCACATATA
159956279 CTATCATGTA
Statistics
Matches: 241, Mismatches: 9, Indels: 12
0.92 0.03 0.05
Matches are distributed among these distances:
46 17 0.07
47 29 0.12
48 26 0.11
49 121 0.50
51 48 0.20
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:159956190 original size:100 final size:98
Alignment explanation
Indices: 159955975--159956278 Score: 474
Period size: 100 Copynumber: 3.1 Consensus size: 98
159955965 GCCTTCGGGA
* * * * * * *
159955975 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGACCCTATCAC--ATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
159956036 ACACTTTCACATTCATCACAT-GGCCATTCGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
159956068 CTTATCACATATATATACACTTTCACATTCATTACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
159956133 ATACACTTTCACATTCATCACATCGGCCATTAGGC
64 ATACACTTTCACATTCATCACATCGGCCATTAGGC
159956168 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
159956233 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
159956266 CTTATCACATATA
1 CTTATCACATATA
159956279 CTATCATGTA
Statistics
Matches: 194, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
93 10 0.05
94 1 0.01
95 36 0.19
98 54 0.28
99 27 0.14
100 66 0.34
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (98 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
ACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:159956254 original size:149 final size:146
Alignment explanation
Indices: 159955986--159956278 Score: 478
Period size: 149 Copynumber: 2.0 Consensus size: 146
159955976 TTATCACATT
* * *
159955986 TATACACTTTCACATCCATCACGTTGGCCACTCGACCCTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATCCATCACATCGGCCACTAGACCCTATCACATATATACACTTTCACATTCA
* *
159956051 TCACATGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATTACATCGGCCATTAGG
66 TCACATGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG
159956116 CCTTATCACATATATA
131 CCTTATCACATATATA
* * * *
159956132 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 TATACACTTTCACATCCATCACATCGGCCACTAGACCCTATCAC--ATATATACACTTTCACATT
159956197 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
64 CATCACAT-GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
159956262 AGGCCTTATCACATATA
128 AGGCCTTATCACATATA
159956279 CTATCATGTA
Statistics
Matches: 135, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
146 37 0.27
148 27 0.20
149 71 0.53
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (146 bp):
TATACACTTTCACATCCATCACATCGGCCACTAGACCCTATCACATATATACACTTTCACATTCA
TCACATGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG
CCTTATCACATATATA
Found at i:159965992 original size:68 final size:70
Alignment explanation
Indices: 159965920--159966117 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
159965910 ACACCCTGTA
* * * *
159965920 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
159965982 ATAAAT
65 ATAAAT
*
159965988 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
159966053 ATAAAT
65 ATAAAT
*
159966059 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
159966118 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:159966031 original size:41 final size:41
Alignment explanation
Indices: 159965986--159966103 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
159965976 TGAAAGATAA
159965986 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
159966027 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
159966057 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
159966098 ATGTAG
1 ATGTAG
159966104 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:159966043 original size:71 final size:71
Alignment explanation
Indices: 159965954--159966117 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
159965944 GAGATGTATC
159965954 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
159966019 AGGACA
66 AGGACA
159966025 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
159966090 AGGACA
66 AGGACA
159966096 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
159966118 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:159973552 original size:68 final size:70
Alignment explanation
Indices: 159973480--159973677 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
159973470 ACACCCTGTA
* * * *
159973480 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
159973542 ATAAAT
65 ATAAAT
*
159973548 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
159973613 ATAAAT
65 ATAAAT
*
159973619 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
159973678 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:159973591 original size:41 final size:41
Alignment explanation
Indices: 159973546--159973663 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
159973536 TGAAAGATAA
159973546 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
159973587 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
159973617 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
159973658 ATGTAG
1 ATGTAG
159973664 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:159973603 original size:71 final size:71
Alignment explanation
Indices: 159973514--159973677 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
159973504 GAGATGTATC
159973514 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
159973579 AGGACA
66 AGGACA
159973585 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
159973650 AGGACA
66 AGGACA
159973656 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
159973678 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:159978886 original size:29 final size:29
Alignment explanation
Indices: 159978854--159978921 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
159978844 TCAAGCCCGA
* * *
159978854 ACACATAGTGCCATATAGTCCAAACTCGC
1 ACACTTAGTGCCATACAGTACAAACTCGC
* *
159978883 ACACTTAGTGCCATACATTACAAGCTCGC
1 ACACTTAGTGCCATACAGTACAAACTCGC
159978912 ACACTTAGTG
1 ACACTTAGTG
159978922 TCGAAGCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (29 bp):
ACACTTAGTGCCATACAGTACAAACTCGC
Found at i:159991623 original size:40 final size:39
Alignment explanation
Indices: 159991578--159991785 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
159991568 CGGAATACAA
*
159991578 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
159991618 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
159991658 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
159991698 CCGGATGTAGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
159991738 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
159991778 CCGGATAT
1 CCGGATAT
159991786 CATTCAATTG
Statistics
Matches: 143, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
39 4 0.03
40 136 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:159991718 original size:80 final size:81
Alignment explanation
Indices: 159991578--159991783 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 81
159991568 CGGAATACAA
* * *
159991578 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCAC-AAT
*
159991642 -GCCTTCGGGTATTAGC
65 GGCCTTCGGGTATTAAC
* *
159991658 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAT
*
159991721 GGCCTTCGGGTCTTAAC
65 GGCCTTCGGGTATTAAC
** * ** * *
159991738 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
159991784 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
79 3 0.03
80 101 0.94
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAATG
GCCTTCGGGTATTAAC
Found at i:160000537 original size:39 final size:39
Alignment explanation
Indices: 160000456--160000619 Score: 151
Period size: 39 Copynumber: 4.2 Consensus size: 39
160000446 AAATTGAATG
* *
160000456 ATATCCGGGCTAAG-CCCGAAGACAATTATGC--TGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGG---TT
* *
160000495 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGGTT
**
160000534 ATATCCGGGCTAAGACCCGAA-G--ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGC-AGTGGTT
* * *
160000572 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCA-GTGGTT
160000612 ATATCCGG
1 ATATCCGG
160000620 TTATATTCCG
Statistics
Matches: 102, Mismatches: 14, Indels: 17
0.77 0.11 0.13
Matches are distributed among these distances:
36 3 0.03
37 4 0.04
38 25 0.25
39 36 0.35
40 29 0.28
41 2 0.02
42 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGGTT
Found at i:160015442 original size:40 final size:40
Alignment explanation
Indices: 160015357--160015507 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
160015347 AATTGAATGA
* * *
160015357 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
160015397 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
160015438 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
160015477 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
160015508 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:160015521 original size:40 final size:40
Alignment explanation
Indices: 160015394--160015523 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
160015384 ATGCTGGAAA
* * * *
160015394 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
160015434 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
160015474 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
160015514 TTATATCCGG
1 TTATATCCGG
160015524 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:160017008 original size:5 final size:5
Alignment explanation
Indices: 160016998--160017035 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
160016988 CTGTGTGTTC
160016998 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
160017036 CACAGGTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:160020801 original size:40 final size:40
Alignment explanation
Indices: 160020707--160020931 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
160020697 TATTCAAATG
* *
160020707 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * * *
160020748 ATAACCGGACTAAGATCCAAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* *
160020788 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
160020828 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
160020868 ATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
160020908 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
160020932 CTTGTGCAAG
Statistics
Matches: 158, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 129 0.82
41 28 0.18
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:160020887 original size:80 final size:80
Alignment explanation
Indices: 160020707--160020967 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
160020697 TATTCAAATG
* * * * *
160020707 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCAAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
160020772 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
160020788 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
160020853 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * *
160020868 ATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACCATATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
160020933 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
* *
160020947 ATATCC-AGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
160020968 ATTACTTGAG
Statistics
Matches: 154, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
78 13 0.08
79 14 0.09
80 95 0.62
81 32 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:160028964 original size:10 final size:10
Alignment explanation
Indices: 160028945--160029020 Score: 50
Period size: 10 Copynumber: 7.5 Consensus size: 10
160028935 GATACTTAGT
*
160028945 TTAATTTTAA
1 TTAATCTTAA
160028955 TTAATCTTAA
1 TTAATCTTAA
*
160028965 TTAAT-TTAC
1 TTAATCTTAA
* *
160028974 TTAATCATGA
1 TTAATCTTAA
*
160028984 TTAAT-TAAA
1 TTAATCTTAA
160028993 CCTTAATCCTTAA
1 --TTAAT-CTTAA
160029006 TTAA-CTTAA
1 TTAATCTTAA
160029015 GTTAAT
1 -TTAAT
160029021 GACATTTAAG
Statistics
Matches: 50, Mismatches: 9, Indels: 13
0.69 0.12 0.18
Matches are distributed among these distances:
9 14 0.28
10 24 0.48
11 9 0.18
13 3 0.06
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (10 bp):
TTAATCTTAA
Found at i:160033047 original size:27 final size:28
Alignment explanation
Indices: 160033029--160033100 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
160033019 ATAGTGACTC
*
160033029 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATA-TGTCAGCT
* * *
160033058 CGCACACTTAGTGCTATAGA-ATCAAACT
1 CGCACACTTAGTGCTATATATGTC-AGCT
160033086 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
160033101 GTACAATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.05
28 18 0.46
29 19 0.49
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATATGTCAGCT
Found at i:160033122 original size:30 final size:29
Alignment explanation
Indices: 160033028--160033129 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
160033018 TATAGTGACT
* * *
160033028 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
160033057 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
160033085 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
160033115 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
160033130 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:160038637 original size:6 final size:5
Alignment explanation
Indices: 160038607--160038636 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
160038597 ATTTGTGTGT
160038607 TTTTA TTTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTT
160038637 TCTCATAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:160039829 original size:17 final size:17
Alignment explanation
Indices: 160039807--160039839 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
160039797 GATATGATAC
160039807 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
160039824 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
160039840 ACAGGGAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:160039840 original size:18 final size:17
Alignment explanation
Indices: 160039807--160039840 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
160039797 GATATGATAC
*
160039807 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
160039824 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
160039841 CAGGGAAACG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:160040137 original size:23 final size:22
Alignment explanation
Indices: 160040094--160040151 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
160040084 AAAAGGTATC
* *
160040094 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
160040115 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
160040138 TGCATATCATATCT
1 TACAAATCATATCT
160040152 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:160040154 original size:19 final size:19
Alignment explanation
Indices: 160040130--160040166 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
160040120 AATCATATCT
160040130 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
160040149 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
160040167 TGAAGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:160040174 original size:17 final size:19
Alignment explanation
Indices: 160040133--160040174 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
160040123 CATATCTTCT
*
160040133 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
160040152 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
160040169 AAGATT
1 AAGATT
160040175 ATATTTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:160040322 original size:20 final size:20
Alignment explanation
Indices: 160040285--160040323 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
160040275 TTGGACTTCG
**
160040285 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
160040305 TTTTTTTTTTGGACTTATT
1 TTTTTTTTTTGGACTTATT
160040324 TCTAGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.03, G:0.13, T:0.74
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:160040571 original size:45 final size:44
Alignment explanation
Indices: 160040516--160040789 Score: 248
Period size: 45 Copynumber: 6.1 Consensus size: 44
160040506 AGAAGGCGAT
* *
160040516 ATCTGCTATCTTTGATCTGCTCCTCGTCTAATACAGAGATGTCAA
1 ATCTGTTATCTTCGATCTGCTCC-CGTCTAATACAGAGATGTCAA
**
160040561 ATCTGTTATCTTCGATCTGCTACCCGTCTAATACAGAGACATCAA
1 ATCTGTTATCTTCGATCTGCT-CCCGTCTAATACAGAGATGTCAA
* * * * *
160040606 ATTTGCT-TCTTCAATCTGCTCCCCGTATAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCT-CCCGTCTAATACAGAGATGTCAA
* *
160040650 ATCTGTTATCTACGATTTGCTCCCCGTCTAATACAGAGATGTCAA
1 ATCTGTTATCTTCGATCTGCT-CCCGTCTAATACAGAGATGTCAA
* * * * * * * *
160040695 ATTTGTCATCTTGGATCTGCT-TCGATGTAA-ACACATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCG-TCTAATACAGA-G-ATGTCAA
* *
160040740 ATCTGCTATGTCTTCGATCTGCTCCCTATCTAATACAGAGATGTCAA
1 ATCTG-T-TATCTTCGATCTGCTCCC-GTCTAATACAGAGATGTCAA
160040787 ATC
1 ATC
160040790 ATCTTGGATC
Statistics
Matches: 180, Mismatches: 39, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
43 6 0.03
44 41 0.23
45 100 0.56
46 3 0.02
47 20 0.11
48 6 0.03
49 4 0.02
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCCCGTCTAATACAGAGATGTCAA
Found at i:160040651 original size:89 final size:89
Alignment explanation
Indices: 160040530--160040699 Score: 268
Period size: 89 Copynumber: 1.9 Consensus size: 89
160040520 GCTATCTTTG
* * * *
160040530 ATCTGCTCCTCGTCTAATACAGAGATGTCAAATCTGTTATCTTCGATCTGCTACCCGTCTAATAC
1 ATCTGCTCCCCGTATAATACAGAGATGCCAAATCTGTTATCTACGATCTGCTACCCGTCTAATAC
160040595 AGAGACATCAAATTTGCTTCTTCA
66 AGAGACATCAAATTTGCTTCTTCA
* *
160040619 ATCTGCTCCCCGTATAATACAGAGATGCCAAATCTGTTATCTACGATTTGCTCCCCGTCTAATAC
1 ATCTGCTCCCCGTATAATACAGAGATGCCAAATCTGTTATCTACGATCTGCTACCCGTCTAATAC
**
160040684 AGAGATGTCAAATTTG
66 AGAGACATCAAATTTG
160040700 TCATCTTGGA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 73 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (89 bp):
ATCTGCTCCCCGTATAATACAGAGATGCCAAATCTGTTATCTACGATCTGCTACCCGTCTAATAC
AGAGACATCAAATTTGCTTCTTCA
Found at i:160040858 original size:78 final size:78
Alignment explanation
Indices: 160040729--160041023 Score: 403
Period size: 78 Copynumber: 3.8 Consensus size: 78
160040719 ATGTAAACAC
* *
160040729 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTATCTAATACAGAGATGTCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCT
*
160040794 TGGATCTACTTCA
66 TGGATCTGCTTCA
** * *
160040807 ATGAAGGTGCA-ATCTATTATGTCTTCAATCTACTCCCCATCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATC
160040871 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * * * * * *
160040885 ATAAACGTCAAATCTGCTGTGTCTTTGATCTGTTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCT
160040950 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * **
160040963 ATGAAGGTCAGATCTGTTATGTCTTCGATCTGCTCTCCATCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATC
160041024 TGTTTCTTTG
Statistics
Matches: 186, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
77 2 0.01
78 182 0.98
79 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:160041285 original size:77 final size:78
Alignment explanation
Indices: 160041095--160041541 Score: 659
Period size: 78 Copynumber: 5.8 Consensus size: 78
160041085 CATAAACACG
* *
160041095 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTT
*
160041160 GGATCTGTTTCAA
66 GGATCTGCTTCAA
* *
160041173 TGAAGGTCCA-ATCTGCTATGTCTTCTATCTACTCCCCGTCTAACACAGAGATGCCAAATCATCT
1 TGAAGGT-CAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
160041237 TGGATCTG-TTCAA
65 TGGATCTGCTTCAA
* * *
160041250 TGAAGGTCCA-ATCTACTATGTCTTCTATCTACTCCCCGTCTAACACAGAGATGCCAAATCATCT
1 TGAAGGT-CAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
160041314 TGGATCTGCTTCAA
65 TGGATCTGCTTCAA
* *
160041328 TGAAGGTCAGATCTGTTGTGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTT
160041393 GGATCTGCTTCAA
66 GGATCTGCTTCAA
* * * *
160041406 TGAAGGTCAGATCTGTTGTGTCTTC-ATCTGCTCCCCGTCTAATACAGAGATGCCAAATTATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTT
*
160041470 AGATCTGCTTCAA
66 GGATCTGCTTCAA
* * * ** *
160041483 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGCGATGCCAAAT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAAT
160041542 TTGTTTCTTT
Statistics
Matches: 345, Mismatches: 20, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
77 150 0.43
78 193 0.56
79 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (78 bp):
TGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTT
GGATCTGCTTCAA
Found at i:160041377 original size:155 final size:155
Alignment explanation
Indices: 160041095--160041541 Score: 666
Period size: 155 Copynumber: 2.9 Consensus size: 155
160041085 CATAAACACG
*
160041095 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTC-ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
* * *
160041160 GGATCTGTTTCAATGAAGGTCCA-ATCTGCTATGTCTTCTATCTACTCCCCGTCTAACACAGAGA
65 GGATCTGCTTCAATGAAGGT-CAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGA
160041224 TGCCAAATCATCTTGGATCTG-TTCAA
129 TGCCAAATCATCTTGGATCTGCTTCAA
* * *
160041250 TGAAGGTCCA-ATCTACTATGTCTTCTATCTACTCCCCGTCTAACACAGAGATGCCAAATCATCT
1 TGAAGGT-CAGATCTGCTATGTCTTC-ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* *
160041314 TGGATCTGCTTCAATGAAGGTCAGATCTGTTGTGTCTTCGATCTACTCCCCGTCTAATACAGAGA
64 TGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGA
160041379 TGCCAAATCATCTTGGATCTGCTTCAA
129 TGCCAAATCATCTTGGATCTGCTTCAA
* * * *
160041406 TGAAGGTCAGATCTGTTGTGTCTTCATCTGCTCCCCGTCTAATACAGAGATGCCAAATTATCTTA
1 TGAAGGTCAGATCTGCTATGTCTTCATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
* * * ** *
160041471 GATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGCGATG
66 GATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATG
160041536 CCAAAT
131 CCAAAT
160041542 TTGTTTCTTT
Statistics
Matches: 263, Mismatches: 25, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
154 2 0.01
155 235 0.89
156 26 0.10
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (155 bp):
TGAAGGTCAGATCTGCTATGTCTTCATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
GATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATG
CCAAATCATCTTGGATCTGCTTCAA
Found at i:160058810 original size:80 final size:80
Alignment explanation
Indices: 160058726--160058874 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
160058716 TATGGTAACC
* * * *
160058726 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
160058790 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
160058806 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
160058871 CCGG
66 CCGG
160058875 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:160058816 original size:40 final size:38
Alignment explanation
Indices: 160058767--160058874 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
160058757 ATCACGATTT
*
160058767 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
160058807 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
160058847 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
160058875 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:160066899 original size:80 final size:80
Alignment explanation
Indices: 160066815--160066963 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
160066805 TATGGTAACC
* * * *
160066815 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
160066879 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
160066895 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
160066960 CCGG
66 CCGG
160066964 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:160066905 original size:40 final size:38
Alignment explanation
Indices: 160066856--160066963 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
160066846 ATCACGATTT
*
160066856 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
160066896 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
160066936 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
160066964 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:160069673 original size:30 final size:30
Alignment explanation
Indices: 160069637--160069737 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
160069627 GACAAGATTG
* * *
160069637 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
160069667 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
160069695 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
160069724 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
160069738 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:160069749 original size:29 final size:28
Alignment explanation
Indices: 160069666--160069741 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
160069656 AAAATTGTAC
* *
160069666 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
160069694 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
160069723 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
160069742 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:160074005 original size:16 final size:15
Alignment explanation
Indices: 160073986--160074024 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
160073976 TTTAGCCCGT
160073986 ATTTCACAAAAATACA
1 ATTTCACAAAAAT-CA
*
160074002 ATTTACACAAAAATTA
1 ATTT-CACAAAAATCA
160074018 ATTTCAC
1 ATTTCAC
160074025 CCAAGCCTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 9 0.43
17 9 0.43
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (15 bp):
ATTTCACAAAAATCA
Found at i:160078834 original size:43 final size:44
Alignment explanation
Indices: 160078667--160078835 Score: 159
Period size: 43 Copynumber: 3.9 Consensus size: 44
160078657 TAAAGCTCGT
* * * * *
160078667 ACAATGCC-ATATCCCAGATATGCTCTTACATGTTATCAC-AT-
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATC
* * * *
160078708 ATCGATGCCTATGTCCCAGACAGGGTCTTACACGAAATCA-AATC
1 A-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATC
* * *
160078752 ACGATTCCAATGTCCCAGACATGGTCTTACACATAATCACAAT-
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATC
* * *
160078795 ACAATGCTAATGTCTCAGACATGGTGTTACACGTAATCACA
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
160078836 TCTCGGTAAC
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
41 1 0.01
42 6 0.06
43 93 0.89
44 4 0.04
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (44 bp):
ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATC
Found at i:160086639 original size:47 final size:47
Alignment explanation
Indices: 160086585--160086916 Score: 486
Period size: 47 Copynumber: 7.1 Consensus size: 47
160086575 TTAGGATTTT
** * * *
160086585 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
160086632 ATGTGATGAATGTGAACATGCATATATGAGACAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
160086679 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
160086726 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
160086773 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
160086820 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
160086867 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
160086914 ATG
1 ATG
160086917 CGAAATGTGT
Statistics
Matches: 263, Mismatches: 21, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 260 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:160086709 original size:25 final size:25
Alignment explanation
Indices: 160086680--160086757 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
160086670 AAATGGCCAA
160086680 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
* *
160086705 TGTGAT-AAGGCCG-A-ATGGCCA-A--
1 TGTGATGAATG-TGAACAT-G-CATATG
160086727 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
160086752 TGTGAT
1 TGTGAT
160086758 AAGGCCGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 9 0.22
23 8 0.20
24 8 0.20
25 15 0.38
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.29
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCATATG
Found at i:160086732 original size:22 final size:22
Alignment explanation
Indices: 160086705--160086826 Score: 72
Period size: 22 Copynumber: 5.3 Consensus size: 22
160086695 CATGCATATG
160086705 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
160086727 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
160086750 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
* * * *
160086774 TGTGATGAATG-TGAATATGCATATA
1 TGTGAT-AAGGCCGAAT-GGC-CA-A
160086799 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
160086821 TGTGAT
1 TGTGAT
160086827 GAATGTGAAC
Statistics
Matches: 74, Mismatches: 12, Indels: 28
0.65 0.11 0.25
Matches are distributed among these distances:
22 26 0.35
23 14 0.19
24 14 0.19
25 20 0.27
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:160086873 original size:22 final size:22
Alignment explanation
Indices: 160086752--160086873 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
160086742 CATGCATATG
*
160086752 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
* * * *
160086774 TGTGATGAATG-TGAATATGCATATA
1 TGTGAT-AAGGCAGAAT-GGC-CA-A
*
160086799 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
*
160086821 TGTGATGAATGTG-A-ACAT-GCATATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
160086846 TGTGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
160086868 TGTGAT
1 TGTGAT
160086874 GAACGTGGAA
Statistics
Matches: 75, Mismatches: 11, Indels: 28
0.66 0.10 0.25
Matches are distributed among these distances:
22 25 0.33
23 16 0.21
24 15 0.20
25 19 0.25
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:160086946 original size:46 final size:46
Alignment explanation
Indices: 160086890--160087072 Score: 294
Period size: 46 Copynumber: 4.0 Consensus size: 46
160086880 GGAAGTGTAT
* *
160086890 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
160086936 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
160086982 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* * * * **
160087028 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
160087073 TGTATATATA
Statistics
Matches: 129, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 129 1.00
ACGTcount: A:0.34, C:0.09, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:160089036 original size:39 final size:39
Alignment explanation
Indices: 160088918--160089100 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
160088908 TCGTTCAAAC
* * ** * **
160088918 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
160088958 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
160088998 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
160089037 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
160089076 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
160089101 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:160097045 original size:37 final size:39
Alignment explanation
Indices: 160096924--160097101 Score: 204
Period size: 40 Copynumber: 4.6 Consensus size: 39
160096914 TCGTTCAAAC
* * ** * **
160096924 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
160096964 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
160097004 GCCTTCGGGCTTAG-CCGGATATCATAACTCGC-CAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
160097041 GCCTTCGGGCTTAGCCCGG--AT-ATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
160097077 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
160097102 CTCGAACATT
Statistics
Matches: 118, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
35 9 0.08
36 26 0.22
37 19 0.16
38 21 0.18
39 5 0.04
40 38 0.32
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:160097083 original size:36 final size:36
Alignment explanation
Indices: 160096950--160097105 Score: 172
Period size: 36 Copynumber: 4.2 Consensus size: 36
160096940 CCGGTTATGG
* ** *
160096950 TAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATA
1 TAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATA
* *
160096987 TCACAATTTGCACAATTGCCTTCGGGCTTAG-CCGGATATCA
1 T---AACTCGCACAATTGCCTTCGGGCTTAGCCCGG--AT-A
160097028 TAACTCGC-CAATTGCCTTCGGGCTTAGCCCGGATA
1 TAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATA
160097063 TAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATA
1 TAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATA
*
160097099 TCACTCG
1 TAACTCG
160097106 AACATTCATA
Statistics
Matches: 102, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
35 9 0.09
36 35 0.34
37 20 0.20
38 13 0.13
39 4 0.04
40 19 0.19
41 2 0.02
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (36 bp):
TAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATA
Found at i:160102185 original size:30 final size:30
Alignment explanation
Indices: 160102149--160102279 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
160102139 GACAAGATTG
* * * * *
160102149 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
160102179 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
160102207 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
160102237 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
160102266 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
160102280 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:160102240 original size:58 final size:58
Alignment explanation
Indices: 160102149--160102279 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
160102139 GACAAGATTG
* * * * * *
160102149 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
160102207 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
160102266 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
160102280 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:160110132 original size:30 final size:30
Alignment explanation
Indices: 160110096--160110226 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
160110086 GACAAGATTG
* * * * *
160110096 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
160110126 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
160110154 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
160110184 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
160110213 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
160110227 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:160110187 original size:58 final size:58
Alignment explanation
Indices: 160110096--160110226 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
160110086 GACAAGATTG
* * * * * *
160110096 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
160110154 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
160110213 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
160110227 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:160117270 original size:29 final size:29
Alignment explanation
Indices: 160117237--160117368 Score: 219
Period size: 29 Copynumber: 4.6 Consensus size: 29
160117227 CCTTCGAGCT
** * *
160117237 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
160117266 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
160117295 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
160117324 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
160117353 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
160117369 ATCTCGTCAC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 97 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:160117271 original size:58 final size:58
Alignment explanation
Indices: 160117208--160117368 Score: 187
Period size: 58 Copynumber: 2.8 Consensus size: 58
160117198 AATTTAAGCC
* * * * * *
160117208 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * **
160117266 TGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * **
160117324 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCA
160117369 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 91 1.00
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:160117299 original size:87 final size:87
Alignment explanation
Indices: 160117208--160117368 Score: 223
Period size: 87 Copynumber: 1.9 Consensus size: 87
160117198 AATTTAAGCC
* * * * * *
160117208 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCATGCACAC
1 CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
160117273 TTAGTGCCATATATTTCCAGCA
66 TTAGTGCCATATATTTCCAGCA
* * * **
160117295 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
160117360 TTAGTGCCA
66 TTAGTGCCA
160117369 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
87 63 1.00
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (87 bp):
CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
TTAGTGCCATATATTTCCAGCA
Found at i:160125312 original size:29 final size:29
Alignment explanation
Indices: 160125279--160125410 Score: 219
Period size: 29 Copynumber: 4.6 Consensus size: 29
160125269 CCTTCGAGCT
** * *
160125279 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
160125308 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
160125337 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
160125366 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
160125395 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
160125411 ATCTCGTCAC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 97 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:160125313 original size:58 final size:58
Alignment explanation
Indices: 160125250--160125410 Score: 187
Period size: 58 Copynumber: 2.8 Consensus size: 58
160125240 AATTTAAGCC
* * * * * *
160125250 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * **
160125308 TGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * **
160125366 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCA
160125411 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 91 1.00
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:160125341 original size:87 final size:87
Alignment explanation
Indices: 160125250--160125410 Score: 223
Period size: 87 Copynumber: 1.9 Consensus size: 87
160125240 AATTTAAGCC
* * * * * *
160125250 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCATGCACAC
1 CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
160125315 TTAGTGCCATATATTTCCAGCA
66 TTAGTGCCATATATTTCCAGCA
* * * **
160125337 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
160125402 TTAGTGCCA
66 TTAGTGCCA
160125411 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
87 63 1.00
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (87 bp):
CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
TTAGTGCCATATATTTCCAGCA
Found at i:160131515 original size:15 final size:15
Alignment explanation
Indices: 160131458--160131537 Score: 69
Period size: 15 Copynumber: 5.4 Consensus size: 15
160131448 CAAAGATAAC
*
160131458 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
160131472 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
160131487 GAGAAA-CCTGGAATA
1 AAGAAATCC-AGAATA
160131502 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
160131517 AA-AAGATCCAGGATA
1 AAGAA-ATCCAGAATA
160131532 AAGAAA
1 AAGAAA
160131538 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
14 13 0.25
15 35 0.66
16 5 0.09
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:160131546 original size:15 final size:15
Alignment explanation
Indices: 160131469--160131546 Score: 63
Period size: 15 Copynumber: 5.2 Consensus size: 15
160131459 AGAAAACCGA
160131469 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
160131484 ATAGAGAAA-CCTGG
1 ATAAAGAAATCCAAG
160131498 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
*
160131513 AATAAA-AAGATCCAGG
1 -ATAAAGAA-ATCCAAG
*
160131529 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
160131544 ATA
1 ATA
160131547 CGATACTATG
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
14 5 0.10
15 40 0.80
16 5 0.10
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:160136080 original size:57 final size:57
Alignment explanation
Indices: 160135992--160136108 Score: 234
Period size: 57 Copynumber: 2.1 Consensus size: 57
160135982 TAATATCTTA
160135992 AAATAATCCATAGGTAATCATACATTGAGAATTCAACTAAAATAACATAAAAGTTTC
1 AAATAATCCATAGGTAATCATACATTGAGAATTCAACTAAAATAACATAAAAGTTTC
160136049 AAATAATCCATAGGTAATCATACATTGAGAATTCAACTAAAATAACATAAAAGTTTC
1 AAATAATCCATAGGTAATCATACATTGAGAATTCAACTAAAATAACATAAAAGTTTC
160136106 AAA
1 AAA
160136109 CATTCCAAGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.50, C:0.14, G:0.09, T:0.27
Consensus pattern (57 bp):
AAATAATCCATAGGTAATCATACATTGAGAATTCAACTAAAATAACATAAAAGTTTC
Found at i:160138182 original size:40 final size:40
Alignment explanation
Indices: 160138116--160138282 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
160138106 AAATTGAATG
* * *
160138116 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
160138155 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
160138195 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
160138235 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
160138275 ATATCCGG
1 ATATCCGG
160138283 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:160154378 original size:40 final size:39
Alignment explanation
Indices: 160154228--160154380 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
160154218 AAATGTTCGA
* *
160154228 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
160154267 GTGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
160154306 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
160154345 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
160154381 GGTTACCATA
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:160154396 original size:40 final size:39
Alignment explanation
Indices: 160154229--160154411 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
160154219 AATGTTCGAG
* * *
160154229 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
160154268 TGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
160154307 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
160154346 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
160154386 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
160154412 GTTTGAACGA
Statistics
Matches: 128, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 87 0.68
40 41 0.32
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Done.