Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008019.1 Hibiscus syriacus cultivar Beakdansim tig00110487_pilon, whole genome shotgun sequence
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: 368755
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 2 of 2
Found at i:210911 original size:27 final size:27
Alignment explanation
Indices: 210873--210929 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
210863 CGATATAATG
*
210873 ATATAATTATCCTAA-ATAATTGTTATA
1 ATATAATAATCC-AAGATAATTGTTATA
*
210900 ATATAATAATCCAAGCTAATTGTTATA
1 ATATAATAATCCAAGATAATTGTTATA
210927 ATA
1 ATA
210930 CTCTCTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (27 bp):
ATATAATAATCCAAGATAATTGTTATA
Found at i:211037 original size:12 final size:12
Alignment explanation
Indices: 211022--211052 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
211012 TACTCTCAAG
211022 TTTAATTTAAAT
1 TTTAATTTAAAT
211034 TTTAATTTAAAT
1 TTTAATTTAAAT
211046 TTTAATT
1 TTTAATT
211053 GAGTGAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTAATTTAAAT
Found at i:212193 original size:21 final size:21
Alignment explanation
Indices: 212169--212241 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
212159 GGAATAAATT
212169 GCAACGCGAACTTTGACTATC
1 GCAACGCGAACTTTGACTATC
* *
212190 GCAA--CGAA-TTTGTAATAAAGC
1 GCAACGCGAACTTTG-ACT--ATC
212211 GCAACGCGAACTTTGACTATC
1 GCAACGCGAACTTTGACTATC
*
212232 GCAATGCGAA
1 GCAACGCGAA
212242 TATGTAAATC
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
18 4 0.10
19 6 0.15
21 21 0.51
23 6 0.15
24 4 0.10
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (21 bp):
GCAACGCGAACTTTGACTATC
Found at i:212208 original size:42 final size:42
Alignment explanation
Indices: 212149--212235 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 42
212139 TGGACAATCA
**
212149 CAACGAATTTGGAATAAATTGCAACGCGAACTTTGACTATCG
1 CAACGAATTTGGAATAAAGCGCAACGCGAACTTTGACTATCG
*
212191 CAACGAATTTGTAATAAAGCGCAACGCGAACTTTGACTATCG
1 CAACGAATTTGGAATAAAGCGCAACGCGAACTTTGACTATCG
212233 CAA
1 CAA
212236 TGCGAATATG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (42 bp):
CAACGAATTTGGAATAAAGCGCAACGCGAACTTTGACTATCG
Found at i:214188 original size:10 final size:10
Alignment explanation
Indices: 214170--214205 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
214160 AAAATTTCTT
214170 GTTCATGTTC
1 GTTCATGTTC
*
214180 GTTCGTGTTC
1 GTTCATGTTC
214190 GTTCATGTTC
1 GTTCATGTTC
214200 GTTCAT
1 GTTCAT
214206 TTAAATGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.08, C:0.19, G:0.22, T:0.50
Consensus pattern (10 bp):
GTTCATGTTC
Found at i:214502 original size:24 final size:24
Alignment explanation
Indices: 214470--214517 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
214460 GAGATTGAGC
* *
214470 TAAACATAAATAAACGCACATAAA
1 TAAACATAAACAAACGAACATAAA
*
214494 TAAACATAAACGAACGAACATAAA
1 TAAACATAAACAAACGAACATAAA
214518 CGAATGAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.62, C:0.17, G:0.06, T:0.15
Consensus pattern (24 bp):
TAAACATAAACAAACGAACATAAA
Found at i:214513 original size:14 final size:14
Alignment explanation
Indices: 214496--214531 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
214486 CACATAAATA
214496 AACATAAACGAACG
1 AACATAAACGAACG
*
214510 AACATAAACGAATG
1 AACATAAACGAACG
*
214524 AATATAAA
1 AACATAAA
214532 TTACTGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.61, C:0.14, G:0.11, T:0.14
Consensus pattern (14 bp):
AACATAAACGAACG
Found at i:234684 original size:19 final size:20
Alignment explanation
Indices: 234644--234685 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
234634 AAATGATGAC
* *
234644 ATTATTATCTTATAATATTA
1 ATTATTATCTTATAAAAATA
234664 ATTATTAT-TTATAAAAATA
1 ATTATTATCTTATAAAAATA
234683 ATT
1 ATT
234686 TTTAATTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTATTATCTTATAAAAATA
Found at i:237994 original size:141 final size:143
Alignment explanation
Indices: 237812--238149 Score: 439
Period size: 141 Copynumber: 2.4 Consensus size: 143
237802 TGGAGGTGGA
* * * ** *
237812 GACTTGTAAATGTAAGGTGGAGGTGGTGAAT-AGACCAGTGGTGGAGGAGACTTGTAGAAATATG
1 GACTTGTAAATATAA-GAGGAGGTGGAGAATGA-ACTGGTGGTGGTGGAGACTTGTAGAAATATG
* *
237876 GAGGAGGTGGGGAGTGAACTGACGGTGGTGGAGACTTATAAATGTAAGAAGTTGGCGGTGAATAC
64 GAGGAGGTAGGGAGTGAACTGACGGTGGTGGAGACTTATAAATGTAAGAAGGTGGCGGTGAATAC
237941 TTTGGTGGGGGAGGT
129 TTTGGTGGGGGAGGT
* * * * * * *
237956 GAGTTGTATATAT-A-AGTAGGTGGAGAATGAATTGGTGGTGGTGGAGACTTTTAGACATATGGT
1 GACTTGTAAATATAAGAGGAGGTGGAGAATGAACTGGTGGTGGTGGAGACTTGTAGAAATATGGA
* * * *
238019 GGAGGTAGGGAGTGGACTGGCGGTGGTGGAGACTTATAGATGTAAGGAGGTGGCGGTGAATACTT
66 GGAGGTAGGGAGTGAACTGACGGTGGTGGAGACTTATAAATGTAAGAAGGTGGCGGTGAATACTT
238084 TGGTGGGGGAGGT
131 TGGTGGGGGAGGT
* *
238097 GACTTGTAAATATAAGGAGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACTT
1 GACTTGTAAATATAA-GAGGAGGTGGAGAATGAACTGGTGGTGGTGGAGACTT
238150 ATAAATGTAA
Statistics
Matches: 165, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
141 120 0.73
142 2 0.01
143 1 0.01
144 42 0.25
ACGTcount: A:0.26, C:0.06, G:0.43, T:0.26
Consensus pattern (143 bp):
GACTTGTAAATATAAGAGGAGGTGGAGAATGAACTGGTGGTGGTGGAGACTTGTAGAAATATGGA
GGAGGTAGGGAGTGAACTGACGGTGGTGGAGACTTATAAATGTAAGAAGGTGGCGGTGAATACTT
TGGTGGGGGAGGT
Found at i:238119 original size:96 final size:96
Alignment explanation
Indices: 237987--238634 Score: 574
Period size: 96 Copynumber: 6.8 Consensus size: 96
237977 GGAGAATGAA
* * * * * * * * *
237987 TTGGTGGTGGTGGAGACTTTTAGACATATGGTGGAGGTAGGGAGTGGACTGGCGGTGGTGGAGAC
1 TTGGTGGGGGAGGTGACTTATAAACATAAGGAGGAGGTAGGGAGTGAACTGGTGGTGGTGGAGAC
*
238052 TTATAGATGTAAGGAGGTGGCGGTGAATACT
66 TTGTAGATGTAAGGAGGTGGCGGTGAATACT
* * *
238083 TTGGTGGGGGAGGTGACTTGTAAATATAAGGAGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGAC
1 TTGGTGGGGGAGGTGACTTATAAACATAAGGAGGAGGTAGGGAGTGAACTGGTGGTGGTGGAGAC
* * * *
238148 TTATAAATGTAAGGAGGTGGCAGTGAATGCT
66 TTGTAGATGTAAGGAGGTGGCGGTGAATACT
* * *
238179 TTGGTGTGGGAGGTGACTTATAAACATAAGGAGGAGGT-GGTGAGTGAACTGGCGGTGGAGGAGA
1 TTGGTGGGGGAGGTGACTTATAAACATAAGGAGGAGGTAGG-GAGTGAACTGGTGGTGGTGGAGA
* * *
238243 CTTGTAGATATATGGTGGAGGTGGGGAGTG-A-AC-
65 CTTGTAGATGTA---AGGAGGTGGCG-GTGAATACT
* * * ** * * *** * * *
238276 -TGGTGGTGGTGGTGACTTATAGATGTAAGGAGG-TG-ACGGTGAATGCTTTGGTGGGGGAGGTG
1 TTGGTGGGGGAGGTGACTTATAAACATAAGGAGGAGGTA-GG-GAGTGAACTGGTGGTGGTGGAG
* ** * ** * * * *
238338 ACTTGTACACATAAGGAGGAGATGGGGAGTGCA
64 ACTTGTAGATGTAAGGAGGTGGCGGTGAATACT
* * * * * * * *
238371 ATGGCGGTGGAGGAT-ACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGA
1 TTGGTGGGGGAGG-TGACTTATAAACATAAGGAGGAGGTAGGGAGTGAACTGGTGGTGGTGGAGA
* *
238435 CTTATAGAGGTAAGGAGGTGGCGGTGAATACT
65 CTTGTAGATGTAAGGAGGTGGCGGTGAATACT
* * * * * * *
238467 TTGGTGGAGGAGGTGACTTGTAAACATATGGTGGAGATGGGGAATGAACTGGTGGTGGTGGAGAC
1 TTGGTGGGGGAGGTGACTTATAAACATAAGGAGGAGGTAGGGAGTGAACTGGTGGTGGTGGAGAC
*
238532 TTGTAGATGTAAGGAGGTGGCGGTGAATGCT
66 TTGTAGATGTAAGGAGGTGGCGGTGAATACT
* *
238563 TTGGTGGGGGAGGTGACTTATAAACGTAAGGAGGAGGTAGGGAGTGAACTGGTGGTGATGGAGAC
1 TTGGTGGGGGAGGTGACTTATAAACATAAGGAGGAGGTAGGGAGTGAACTGGTGGTGGTGGAGAC
238628 TTGTAGA
66 TTGTAGA
238635 CATATGGTGG
Statistics
Matches: 443, Mismatches: 94, Indels: 30
0.78 0.17 0.05
Matches are distributed among these distances:
92 2 0.00
93 7 0.02
94 1 0.00
95 4 0.01
96 412 0.93
97 4 0.01
98 1 0.00
99 9 0.02
100 3 0.01
ACGTcount: A:0.24, C:0.06, G:0.44, T:0.25
Consensus pattern (96 bp):
TTGGTGGGGGAGGTGACTTATAAACATAAGGAGGAGGTAGGGAGTGAACTGGTGGTGGTGGAGAC
TTGTAGATGTAAGGAGGTGGCGGTGAATACT
Found at i:238239 original size:144 final size:143
Alignment explanation
Indices: 238091--238692 Score: 675
Period size: 144 Copynumber: 4.2 Consensus size: 143
238081 CTTTGGTGGG
* *
238091 GGAGGTGACTTGTAAATATAAGGAGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACTTATAAAT
1 GGAGGAGACTTGTAGATATAAGGAGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACTTATAAAT
* * *
238156 GTAAGGAGGTGGCAGTGAATGCTTTGGTGTGGGAGGTGACTTATAAACATAAGGAGGAGGTGGTG
66 GTAAGGAGGTGGCAGTGAATGCTTTGGTG-GGGAGGTGACTTGTAAACATAAGGAGGAGATGGGG
238221 AGTGAACTGGCGGT
130 AGTGAACTGGCGGT
* * * *
238235 GGAGGAGACTTGTAGATATATGGTGGAGGTGGGGAGTGAACTGGTGGTGGTGGTGACTTATAGAT
1 GGAGGAGACTTGTAGATATAAGGAGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACTTATAAAT
* * *
238300 GTAAGGAGGTGACGGTGAATGCTTTGGTGGGGGAGGTGACTTGTACACATAAGGAGGAGATGGGG
66 GTAAGGAGGTGGCAGTGAATGCTTTGGT-GGGGAGGTGACTTGTAAACATAAGGAGGAGATGGGG
238365 AGTGCAA-TGGCGGT
130 AGTG-AACTGGCGGT
* * * * * *
238379 GGAGGATACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACTTATAGAG
1 GGAGGAGACTTGTAGATATAAGGAGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACTTATAAAT
* * * *
238444 GTAAGGAGGTGGCGGTGAATACTTTGGTGGAGGAGGTGACTTGTAAACATATGGTGGAGATGGGG
66 GTAAGGAGGTGGCAGTGAATGCTTTGGTGG-GGAGGTGACTTGTAAACATAAGGAGGAGATGGGG
* *
238509 AATGAACTGGTGGT
130 AGTGAACTGGCGGT
* * * * * * *** * * * *
238523 GGTGGAGACTTGTAGATGTAAGGAGGTGGCGGTGAATGCTTTGGTGGGGGAGGTGACTTATAAAC
1 GGAGGAGACTTGTAGATATAAGGAGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACTTATAAAT
* * * * *** * * * * * *
238588 GTAAGGAGGAGGTAGGGAGTGAACTGGTGGTGATGGAGACTTGTAGACATATGGTGGAGGTGGGG
66 GTAAGGAGGTGGCAGTGAATGCTTTGGTGGGGA-GGTGACTTGTAAACATAAGGAGGAGATGGGG
*
238653 AGTGGACTGGCGGT
130 AGTGAACTGGCGGT
* *
238667 GGTGGAGACTTATAGATATAAGGAGG
1 GGAGGAGACTTGTAGATATAAGGAGG
238693 TAGCGGTGAA
Statistics
Matches: 394, Mismatches: 59, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
143 6 0.02
144 385 0.98
145 3 0.01
ACGTcount: A:0.25, C:0.06, G:0.44, T:0.24
Consensus pattern (143 bp):
GGAGGAGACTTGTAGATATAAGGAGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACTTATAAAT
GTAAGGAGGTGGCAGTGAATGCTTTGGTGGGGAGGTGACTTGTAAACATAAGGAGGAGATGGGGA
GTGAACTGGCGGT
Found at i:238677 original size:96 final size:94
Alignment explanation
Indices: 237759--238778 Score: 429
Period size: 96 Copynumber: 10.7 Consensus size: 94
237749 TAACCCTTTG
* * * * * * * * **
237759 GAGGTGACTTGTAGATATAAGGAGGAGGTGGCGAGTGCACCGGTGGAGGTGGAGACTTGTAAATG
1 GAGGAGACTTGTAGACATAAGGAGGAGGTGGGGAGTGAACTGGTGGTGGAGGAGACTTATAAACA
* **
237824 TAAGGTGGAGGTGGTGAAT-AGACCAGTGGT
66 TAAGGAGGAGGTGG-GAATGA-ACTGGTGGT
* * ** * *
237854 GGAGGAGACTTGTAGAAATATGGAGGAGGTGGGGAGTGAACTGACGGTGGTGGAGACTTATAAAT
1 -GAGGAGACTTGTAGACATAAGGAGGAGGTGGGGAGTGAACTGGTGGTGGAGGAGACTTATAAAC
* * ** * *
237919 GTAAGAAGTTGGCGGTGAAT--ACTTTGGTGGGG
65 ATAAGGAGGAGGTGG-GAATGAAC--TGGT-GGT
* * * * * * * * * * *
237951 GAGGTGAGTTGTATATAT-A--AGTAGGTGGAGAATGAATTGGTGGTGGTGGAGACTTTTAGACA
1 GAGGAGACTTGTAGACATAAGGAGGAGGTGGGGAGTGAACTGGTGGTGGAGGAGACTTATAAACA
* * * * *
238013 TATGGTGGAGGTAGGGAGTGGACTGGCGGT
66 TAAGGAGGAGGT-GGGAATGAACTGGTGGT
* * ** * * * * * * *
238043 GGTGGAGACTTATAGATGTAAGGAGGTGGCGGTGAAT--ACTTTGGTGGGGGAGGTGACTTGTAA
1 -GAGGAGACTTGTAGACATAAGGAGGAGGTGGGGAGTGAAC--TGGTGGTGGAGGAGACTTATAA
* *
238106 ATATAAGGAGGAGGTGGGGAGTGAACTGGTGGT
63 ACATAAGGAGGAGGT-GGGAATGAACTGGTGGT
* * * * *
238139 GGTGGAGACTTATA-A-AT--GTAAGGAGGT-GGCAGTGAATGCTTTGGT-GTGGGAGGTGACTT
1 -GAGGAGACTTGTAGACATAAG-GAGGAGGTGGGGAGTGAA--C--TGGTGGT-GGAGGAGACTT
* *
238198 ATAAACATAAGGAGGAGGTGGTGAGTGAACTGGCGGT
59 ATAAACATAAGGAGGAGGTGG-GAATGAACTGGTGGT
* * * * * * *
238235 GGAGGAGACTTGTAGATATATGGTGGAGGTGGGGAGTGAACTGGTGGTGGTGGTGACTTATAGAT
1 -GAGGAGACTTGTAGACATAAGGAGGAGGTGGGGAGTGAACTGGTGGTGGAGGAGACTTATAAAC
* * ** *** *
238300 GTAAGGAGGTGACGGTGAATGCTTTGGTGGGG
65 ATAAGGAGGAGGTGG-GAATGAACTGGT-GGT
* * * * * * *
238332 GAGGTGACTTGTACACATAAGGAGGAGATGGGGAGTGCAA-TGGCGGTGGAGGATACTTGTAGAC
1 GAGGAGACTTGTAGACATAAGGAGGAGGTGGGGAGTG-AACTGGTGGTGGAGGAGACTTATAAAC
* * *
238396 ATATGGTGGAGGTGGGGAGTGAACTGGTGGT
65 ATAAGGAGGAGGT-GGGAATGAACTGGTGGT
* * ** * * * * * * *
238427 GGTGGAGACTTATAGAGGTAAGGAGGTGGCGGTGAAT--ACTTTGGTGGAGGAGGTGACTTGTAA
1 -GAGGAGACTTGTAGACATAAGGAGGAGGTGGGGAGTGAAC--TGGTGGTGGAGGAGACTTATAA
* * *
238490 ACATATGGTGGAGATGGGGAATGAACTGGTGGT
63 ACATAAGGAGGAGGT-GGGAATGAACTGGTGGT
* ** * * * * *** * *
238523 GGTGGAGACTTGTAGATGTAAGGAGGTGGCGGTGAATGCTTTGGTGGGGGAGGTGACTTATAAAC
1 -GAGGAGACTTGTAGACATAAGGAGGAGGTGGGGAGTGAACTGGTGGTGGAGGAGACTTATAAAC
* *
238588 GTAAGGAGGAGGTAGGGAGTGAACTGGTGGT
65 ATAAGGAGGAGGT-GGGAATGAACTGGTGGT
* * * * * * *
238619 GATGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGCGGTGGTGGAGACTTATAGAT
1 GA-GGAGACTTGTAGACATAAGGAGGAGGTGGGGAGTGAACTGGTGGTGGAGGAGACTTATAAAC
* * ** *
238684 ATAAGGAGGTAGCG-GTGAATTATTTGGTGGGG
65 ATAAGGAGG-AG-GTGGGAATGAACTGGT-GGT
* * * *
238716 GAGGTGACTTGTAAAGATAAGGAGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACTTATAAA
1 GAGGAGACTTGTAGACATAAGGAGGAGGTGGGGAGTGAACTGGTGGTGGAGGAGACTTATAAA
238779 TGTAAGGTGG
Statistics
Matches: 707, Mismatches: 179, Indels: 76
0.73 0.19 0.08
Matches are distributed among these distances:
92 6 0.01
93 63 0.09
94 8 0.01
95 9 0.01
96 585 0.83
97 17 0.02
98 4 0.01
99 6 0.01
100 9 0.01
ACGTcount: A:0.25, C:0.06, G:0.44, T:0.25
Consensus pattern (94 bp):
GAGGAGACTTGTAGACATAAGGAGGAGGTGGGGAGTGAACTGGTGGTGGAGGAGACTTATAAACA
TAAGGAGGAGGTGGGAATGAACTGGTGGT
Found at i:238693 original size:144 final size:144
Alignment explanation
Indices: 238481--238778 Score: 454
Period size: 144 Copynumber: 2.1 Consensus size: 144
238471 TGGAGGAGGT
* * *
238481 GACTTGTAAACATATGGTGGAGATGGGGAATGAACTGGTGGTGGTGGAGACTTGTAGATGTAAGG
1 GACTTGTAAACATATGGTGGAGATGGGGAATGAACTGGCGGTGGTGGAGACTTATAGATATAAGG
* *
238546 AGGTGGCGGTGAATGCTTTGGTGGGGGAGGTGACTTATAAACG-TAAGGAGGAGGTAGGGAGTGA
66 AGGTAGCGGTGAATGATTTGGTGGGGGAGGTGACTTATAAA-GATAAGGAGGAGGTAGGGAGTGA
238610 ACTGGTGGTGATGGA
130 ACTGGTGGTGATGGA
* * * *
238625 GACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGCGGTGGTGGAGACTTATAGATATAAGG
1 GACTTGTAAACATATGGTGGAGATGGGGAATGAACTGGCGGTGGTGGAGACTTATAGATATAAGG
* * *
238690 AGGTAGCGGTGAATTATTTGGTGGGGGAGGTGACTTGTAAAGATAAGGAGGAGGTGGGGAGTGAA
66 AGGTAGCGGTGAATGATTTGGTGGGGGAGGTGACTTATAAAGATAAGGAGGAGGTAGGGAGTGAA
*
238755 CTGGTGGTGGTGGA
131 CTGGTGGTGATGGA
*
238769 GACTTATAAA
1 GACTTGTAAA
238779 TGTAAGGTGG
Statistics
Matches: 138, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
143 1 0.01
144 137 0.99
ACGTcount: A:0.26, C:0.06, G:0.44, T:0.24
Consensus pattern (144 bp):
GACTTGTAAACATATGGTGGAGATGGGGAATGAACTGGCGGTGGTGGAGACTTATAGATATAAGG
AGGTAGCGGTGAATGATTTGGTGGGGGAGGTGACTTATAAAGATAAGGAGGAGGTAGGGAGTGAA
CTGGTGGTGATGGA
Found at i:238808 original size:48 final size:47
Alignment explanation
Indices: 237776--238839 Score: 326
Period size: 48 Copynumber: 22.2 Consensus size: 47
237766 CTTGTAGATA
* * * * * * *
237776 TAAGGAGGAGGTGGCGAGTGCACCGGTGGAGGTGGAGACTTGTAAATG
1 TAAGGAGGAGGCGGTGAATG-ACTGGTGGTGGTGGAGACTTATAAACG
* * ** * * *
237824 TAAGGTGGAGGTGGTGAATAGACCAGTGGTGGAGGAGACTTGTAGAA-A
1 TAAGGAGGAGGCGGTGAAT-GACTGGTGGTGGTGGAGACTTATA-AACG
* * * * ** *
237872 TATGGAGGAGGTGGGGAGTGAACTGACGGTGGTGGAGACTTATAAATG
1 TAAGGAGGAGGCGGTGAATG-ACTGGTGGTGGTGGAGACTTATAAACG
* ** * * * * * *
237920 TAAGAAGTTGGCGGTGAAT-ACTTTGGTGGGGGAGGTGAGTTGTATA--
1 TAAGGAGGAGGCGGTGAATGAC--TGGTGGTGGTGGAGACTTATAAACG
* * * * * * *
237966 TATA--AGTAGGTGGAGAATGAATTGGTGGTGGTGGAGACTTTTAGACA
1 TA-AGGAGGAGGCGGTGAATG-ACTGGTGGTGGTGGAGACTTATAAACG
* * * * * * *
238013 TATGGTGGAGGTAGG-GAGTGGACTGGCGGTGGTGGAGACTTATAGATG
1 TAAGGAGGAGG-CGGTGAAT-GACTGGTGGTGGTGGAGACTTATAAACG
* * * * * **
238061 TAAGGAGGTGGCGGTGAAT-ACTTTGGTGGGGGAGGTGACTTGTAAATA
1 TAAGGAGGAGGCGGTGAATGAC--TGGTGGTGGTGGAGACTTATAAACG
* * * *
238109 TAAGGAGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACTTATAAATG
1 TAAGGAGGAGGCGGTGAATG-ACTGGTGGTGGTGGAGACTTATAAACG
* * * * *
238157 TAAGGAGGTGGCAGTGAATG-CTTTGGT-GTGGGAGGTGACTTATAAACA
1 TAAGGAGGAGGCGGTGAATGAC--TGGTGGT-GGTGGAGACTTATAAACG
* * * * * * **
238205 TAAGGAGGAGGTGGTGAGTGAACTGGCGGTGGAGGAGACTTGTAGATA
1 TAAGGAGGAGGCGGTGAATG-ACTGGTGGTGGTGGAGACTTATAAACG
* * * * * * * *
238253 TATGGTGGAGGTGGGGAGTGAACTGGTGGTGGTGGTGACTTATAGATG
1 TAAGGAGGAGGCGGTGAATG-ACTGGTGGTGGTGGAGACTTATAAACG
* * * * * * * *
238301 TAAGGAGGTGACGGTGAATG-CTTTGGTGGGGGAGGTGACTTGTACACA
1 TAAGGAGGAGGCGGTGAATGAC--TGGTGGTGGTGGAGACTTATAAACG
** * * * * * * * * *
238349 TAAGGAGGAGATGGGGAGTGCAATGGCGGTGGAGGATACTTGTAGACA
1 TAAGGAGGAGGCGGTGAATG-ACTGGTGGTGGTGGAGACTTATAAACG
* * * * * * *
238397 TATGGTGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACTTATAGAGG
1 TAAGGAGGAGGCGGTGAATG-ACTGGTGGTGGTGGAGACTTATAAACG
* * * * * *
238445 TAAGGAGGTGGCGGTGAAT-ACTTTGGTGGAGGAGGTGACTTGTAAACA
1 TAAGGAGGAGGCGGTGAATGAC--TGGTGGTGGTGGAGACTTATAAACG
* * ** * * * *
238493 TATGGTGGAGATGGGGAATGAACTGGTGGTGGTGGAGACTTGTAGATG
1 TAAGGAGGAGGCGGTGAATG-ACTGGTGGTGGTGGAGACTTATAAACG
* * * *
238541 TAAGGAGGTGGCGGTGAATG-CTTTGGTGGGGGAGGTGACTTATAAACG
1 TAAGGAGGAGGCGGTGAATGAC--TGGTGGTGGTGGAGACTTATAAACG
* * * * * *
238589 TAAGGAGGAGGTAGG-GAGTGAACTGGTGGTGATGGAGACTTGTAGACA
1 TAAGGAGGAGG-CGGTGAATG-ACTGGTGGTGGTGGAGACTTATAAACG
* * * * * * * **
238637 TATGGTGGAGGTGGGGAGTGGACTGGCGGTGGTGGAGACTTATAGATA
1 TAAGGAGGAGGCGGTGAAT-GACTGGTGGTGGTGGAGACTTATAAACG
* * * * * *
238685 TAAGGAGGTA-GCGGTGAATTATTTGGTGGGGGAGGTGACTTGTAAA-G
1 TAAGGAGG-AGGCGGTGAATGA-CTGGTGGTGGTGGAGACTTATAAACG
* * * *
238732 ATAAGGAGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACTTATAAATG
1 -TAAGGAGGAGGCGGTGAATG-ACTGGTGGTGGTGGAGACTTATAAACG
* * * * *
238781 TAAGGTGGCGGCGGTGAAT-ACTTTGGTGGGGGAGGTGACTTATAAACG
1 TAAGGAGGAGGCGGTGAATGAC--TGGTGGTGGTGGAGACTTATAAACG
*
238829 TAAGGGGGAGG
1 TAAGGAGGAGG
238840 TGAGGAGTGA
Statistics
Matches: 745, Mismatches: 222, Indels: 98
0.70 0.21 0.09
Matches are distributed among these distances:
45 28 0.04
46 13 0.02
47 15 0.02
48 669 0.90
49 14 0.02
50 6 0.01
ACGTcount: A:0.25, C:0.06, G:0.44, T:0.24
Consensus pattern (47 bp):
TAAGGAGGAGGCGGTGAATGACTGGTGGTGGTGGAGACTTATAAACG
Found at i:238821 original size:144 final size:143
Alignment explanation
Indices: 238481--238824 Score: 377
Period size: 144 Copynumber: 2.4 Consensus size: 143
238471 TGGAGGAGGT
* * ** * * * * *
238481 GACTTGTAAACATATGGTGGAGATGGGGAATGAACTGGTGGTGGTGGAGACTTGTAGATGTAAGG
1 GACTTATAAACATAAGGTGGAGGCGGGGAATG-ACTGGCGGGGGAGGAGACTTATAGATATAAGG
* *
238546 AGGTGGCGGTGAATGCTTTGGTGGGGGAGGTGACTTATAAACGTAAGGAGGAGGTAGGGAGTGAA
65 AGGTAGCGGTGAATGATTTGGTGGGGGAGGTGACTTATAAACGTAAGGAGGAGGTAGGGAGTGAA
238611 CTGGTGGTGATGGA
130 CTGGTGGTGATGGA
* * * * * * *
238625 GACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGCGGTGGTGGAGACTTATAGATATAAGG
1 GACTTATAAACATAAGGTGGAGGCGGGGAAT-GACTGGCGGGGGAGGAGACTTATAGATATAAGG
* * *
238690 AGGTAGCGGTGAATTATTTGGTGGGGGAGGTGACTTGTAAA-GATAAGGAGGAGGTGGGGAGTGA
65 AGGTAGCGGTGAATGATTTGGTGGGGGAGGTGACTTATAAACG-TAAGGAGGAGGTAGGGAGTGA
*
238754 ACTGGTGGTGGTGGA
129 ACTGGTGGTGATGGA
** * * * *
238769 GACTTATAAATGTAAGGTGGCGGCGGTGAAT-ACTTTGGTGGGGGAGGTGACTTATA
1 GACTTATAAACATAAGGTGGAGGCGGGGAATGAC--TGGCGGGGGAGGAGACTTATA
238825 AACGTAAGGG
Statistics
Matches: 171, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
142 2 0.01
143 1 0.01
144 167 0.98
145 1 0.01
ACGTcount: A:0.25, C:0.06, G:0.44, T:0.25
Consensus pattern (143 bp):
GACTTATAAACATAAGGTGGAGGCGGGGAATGACTGGCGGGGGAGGAGACTTATAGATATAAGGA
GGTAGCGGTGAATGATTTGGTGGGGGAGGTGACTTATAAACGTAAGGAGGAGGTAGGGAGTGAAC
TGGTGGTGATGGA
Found at i:238859 original size:96 final size:96
Alignment explanation
Indices: 238664--238860 Score: 272
Period size: 96 Copynumber: 2.1 Consensus size: 96
238654 GTGGACTGGC
* * *
238664 GGTGGTGGAGACTTATAGATATAAGGAGGTAGCGGTGAATTATTTGGTGGGGGAGGTGACTTGTA
1 GGTGGTGGAGACTTATAAATATAAGGAGGCAGCGGTGAATTATTTGGTGGGGGAGGTGACTTATA
* **
238729 AAGATAAGGAGGAGGTGGGGAGTGAACTGGT
66 AAGATAAGGAGGAGGTGAGGAGTGAACTAAT
* * *
238760 GGTGGTGGAGACTTATAAATGTAAGGTGGCGGCGGTGAA-TACTTTGGTGGGGGAGGTGACTTAT
1 GGTGGTGGAGACTTATAAATATAAGGAGGCAGCGGTGAATTA-TTTGGTGGGGGAGGTGACTTAT
*
238824 AAACG-TAAGGGGGAGGTGAGGAGTGAACTAAT
65 AAA-GATAAGGAGGAGGTGAGGAGTGAACTAAT
238856 GGTGG
1 GGTGG
238861 AGGTGGGGAG
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
95 2 0.02
96 86 0.97
97 1 0.01
ACGTcount: A:0.26, C:0.06, G:0.44, T:0.24
Consensus pattern (96 bp):
GGTGGTGGAGACTTATAAATATAAGGAGGCAGCGGTGAATTATTTGGTGGGGGAGGTGACTTATA
AAGATAAGGAGGAGGTGAGGAGTGAACTAAT
Found at i:238890 original size:24 final size:24
Alignment explanation
Indices: 238835--238890 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
238825 AACGTAAGGG
*
238835 GGAGGTGAGGAGTGAACTAATGGT
1 GGAGGTGGGGAGTGAACTAATGGT
*
238859 GGAGGTGGGGAGTGAACTAGTGGT
1 GGAGGTGGGGAGTGAACTAATGGT
*
238883 GGTGGTGG
1 GGAGGTGG
238891 TGACTTATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.21, C:0.04, G:0.54, T:0.21
Consensus pattern (24 bp):
GGAGGTGGGGAGTGAACTAATGGT
Found at i:238893 original size:96 final size:95
Alignment explanation
Indices: 238643--238866 Score: 236
Period size: 96 Copynumber: 2.3 Consensus size: 95
238633 GACATATGGT
* * * * * * * * **
238643 GGAGGTGGGGAGTGGACTGGCGGTGGTGGAGACTTATAGATATAAGGAGGTAGCGGTGAATTATT
1 GGAGGTGAGGAGTGAACTGGTGGAGGTGGAGACTGATAAATGT-AGGTGGCGGCGGTGAATTATT
*
238708 TGGTGGGGGAGGTGACTTGTAAAGATAAGGA
65 TGGTGGGGGAGGTGACTTATAAAGATAAGGA
* * *
238739 GGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACTTATAAATGTAAGGTGGCGGCGGTGAA-TACT
1 GGAGGTGAGGAGTGAACTGGTGGAGGTGGAGACTGATAAATGT-AGGTGGCGGCGGTGAATTA-T
*
238803 TTGGTGGGGGAGGTGACTTATAAACG-TAAGGG
64 TTGGTGGGGGAGGTGACTTATAAA-GATAAGGA
238835 GGAGGTGAGGAGTGAACTAATGGTGGAGGTGG
1 GGAGGTGAGGAGTGAAC---TGGTGGAGGTGG
238867 GGAGTGAACT
Statistics
Matches: 112, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
95 2 0.02
96 98 0.88
97 1 0.01
99 11 0.10
ACGTcount: A:0.25, C:0.06, G:0.46, T:0.23
Consensus pattern (95 bp):
GGAGGTGAGGAGTGAACTGGTGGAGGTGGAGACTGATAAATGTAGGTGGCGGCGGTGAATTATTT
GGTGGGGGAGGTGACTTATAAAGATAAGGA
Found at i:238912 original size:48 final size:45
Alignment explanation
Indices: 238860--239869 Score: 209
Period size: 48 Copynumber: 21.0 Consensus size: 45
238850 ACTAATGGTG
*
238860 GAGGTGGGGAGTGAACTAGTGGTGGTGGTGGTGACTTATAGATGTAAA
1 GAGGTGGGGAGTGAAC---TGGTGGTGGAGGTGACTTATAGATGTAAA
* * *
238908 GAGGT-GGCAGTGAATGCTTTGGTGGTGGAGGTGACTTATAAACGTAAGGA
1 GAGGTGGGGAGTGAA--C--TGGTGGTGGAGGTGACTTATAGATGTAA--A
* * * * **
238958 GGTGGTGGGGAGTGAACTGGCGGTGGAGGAGACTTGTAGA-GATATGGTG
1 -GAGGTGGGGAGTGAACTGGTGGTGGAGGTGACTTATAGATG-TA---AA
* *
239007 GAGGTGGGGAGTGAACTGGTGGTGGTGGTGACTTATAGATGTAAG
1 GAGGTGGGGAGTGAACTGGTGGTGGAGGTGACTTATAGATGTAAA
* * * * * **
239052 GAGGTGGTG-GT-AAATGCTTTAGCCGTGGAGGTGACTTGTAAACATAAGGA
1 GAGGTGGGGAGTGAACTG--GT-G--GTGGAGGTGACTTATAGATGTAA--A
* * * * * ***
239102 GGAGGTGGGGAGTGCACTGGTGGTGGTGGAGACTTGTAGACATATGGTG
1 -GAGGTGGGGAGTGAACTGGTGGTGGAGGTGACTTATAG--ATGT-AAA
* * * *
239151 GAGGTGGGGAGTGAACTGGCGGTGGTGGTGACATATAGATGTAAG
1 GAGGTGGGGAGTGAACTGGTGGTGGAGGTGACTTATAGATGTAAA
* * * * *
239196 GAGGTGGTG-GTGAATGCTTTGGCGGGGGAGGTGACTTATAAACGTAAGGA
1 GAGGTGGGGAGTGAA--C--TGGTGGTGGAGGTGACTTATAGATGTAA--A
* * * * * * ***
239246 GGAGGTGGGGAGTGCATTGGTGGTGGTGGAGACTTGTAGACATATGGTG
1 -GAGGTGGGGAGTGAACTGGTGGTGGAGGTGACTTATAG--ATGT-AAA
* * * * *
239295 GAGTTGGTGAGTGAATTGGCGGTGGTGGTGACTTATAGATGTAAGGA
1 GAGGTGGGGAGTGAACTGGTGGTGGAGGTGACTTATAGATGTAA--A
* * * *** * * * * * *
239342 GACGGTTGTGAATGCTTTGGCGGGGGAGGTGACTTATAAATATGAG
1 GA-GGTGGGGAGTGAACTGGTGGTGGAGGTGACTTATAGATGTAAA
* * * *
239388 GAGGTGGGGAGTGCACTGGTGGTGGTGGTGGTGACTTATATATGTAAG
1 GAGGTGGGGAGTGAAC---TGGTGGTGGAGGTGACTTATAGATGTAAA
** * * * **
239436 GAGGTGACG-GTGAATGCTTTGGTGGGGGAGGTGACTTGTAAACATAAGGA
1 GAGGTGGGGAGTGAA--C--TGGTGGTGGAGGTGACTTATAGATGTAA--A
* * * * * * **
239486 GGGGGTGGAGAGTGAACTGGCGGTGGAGGAGACTTGTAGACATATGGTA
1 -GAGGTGGGGAGTGAACTGGTGGTGGAGGTGACTTATAG--ATGT-AAA
* * *
239535 GAGGTGGGGAGTGAACTGGTGGTGGTGGTGACTTATATATGTAAG
1 GAGGTGGGGAGTGAACTGGTGGTGGAGGTGACTTATAGATGTAAA
* * * * **
239580 GAGGTGGTG-GTGAATGCTTTGGTGGGGGAGGTGACTTGTAAACATAAGGA
1 GAGGTGGGGAGTGAA--C--TGGTGGTGGAGGTGACTTATAGATGTAA--A
* * * * * * ***
239630 GGGGGTGGAGAGTGAACTGGCGGTGGAGGAGACTTGTAGACATATGGTG
1 -GAGGTGGGGAGTGAACTGGTGGTGGAGGTGACTTATAG--ATGT-AAA
* * *
239679 GAGGTGGGGAGTGAACTGGTGGTGGTGGTGGTGACTTATATATGTAAG
1 GAGGTGGGGAGTGAAC---TGGTGGTGGAGGTGACTTATAGATGTAAA
** * * * **
239727 GAGGT-GACAGTGAATGCTTTGGTGGGGGAGGTGACTTGTAAACATAAGGA
1 GAGGTGGGGAGTGAA--C--TGGTGGTGGAGGTGACTTATAGATGTAA--A
* * * * * * ***
239777 GGGGGTGGAGAGTGAACTGGCGGTGGAGGAGACTTGTATACATATGGT
1 -GAGGTGGGGAGTGAACTGGTGGTGGAGGTGAC-T-TATAGATGTAAA
* * *
239825 GAAGGTGGGGAGTGAACTGGTGGTGGTGGAGATTTATAGATGTAA
1 G-AGGTGGGGAGTGAACTGGTGGTGGAGGTGACTTATAGATGTAA
239870 GGTGGTTGTG
Statistics
Matches: 696, Mismatches: 193, Indels: 148
0.67 0.19 0.14
Matches are distributed among these distances:
43 4 0.01
44 12 0.02
45 36 0.05
46 21 0.03
47 24 0.03
48 477 0.69
49 9 0.01
50 23 0.03
51 55 0.08
52 32 0.05
53 3 0.00
ACGTcount: A:0.23, C:0.07, G:0.45, T:0.25
Consensus pattern (45 bp):
GAGGTGGGGAGTGAACTGGTGGTGGAGGTGACTTATAGATGTAAA
Found at i:238970 original size:123 final size:120
Alignment explanation
Indices: 238739--238975 Score: 348
Period size: 123 Copynumber: 1.9 Consensus size: 120
238729 AAGATAAGGA
* * *
238739 GGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACTTATAAATGTAAGGTGGCGGCGGTGAATACTT
1 GGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACTTATAAATGTAAAGAGGCGGCAGTGAATACTT
*
238804 TGGTGGGGGAGGTGACTTATAAACGTAAGGGGGAGGTGAGGAGTGAACTAATGGT
66 TGGTGGGGGAGGTGACTTATAAACGTAAGGAGGAGGTGAGGAGTGAACTAATGGT
* * * *
238859 GGAGGTGGGGAGTGAACTAGTGGTGGTGGTGGTGACTTATAGATGTAAAGAGGTGGCAGTGAATG
1 GGAGGTGGGGAGTGAAC---TGGTGGTGGTGGAGACTTATAAATGTAAAGAGGCGGCAGTGAATA
* * *
238924 CTTTGGTGGTGGAGGTGACTTATAAACGTAAGGAGGTGGTGGGGAGTGAACT
63 CTTTGGTGGGGGAGGTGACTTATAAACGTAAGGAGGAGGTGAGGAGTGAACT
238976 GGCGGTGGAG
Statistics
Matches: 103, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
120 17 0.17
123 86 0.83
ACGTcount: A:0.24, C:0.06, G:0.45, T:0.24
Consensus pattern (120 bp):
GGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACTTATAAATGTAAAGAGGCGGCAGTGAATACTT
TGGTGGGGGAGGTGACTTATAAACGTAAGGAGGAGGTGAGGAGTGAACTAATGGT
Found at i:239041 original size:96 final size:96
Alignment explanation
Indices: 238927--239850 Score: 569
Period size: 96 Copynumber: 9.6 Consensus size: 96
238917 GTGAATGCTT
* * *
238927 TGGTGGTGGAGGTGACTTATAAACGTAAGGAGGTGGTGGGGAGTGAACTGGCGGTGGAGGAGACT
1 TGGTGGTGGTGGTGACTTATAGACGTAAGGAGGTGGTGGGGAGTGAACTGGCGGTGGAGGTGACT
* * *
238992 TGTAGAGATATGGTGGAGGTGGGGAGTGAAC
66 TGTAGACATAAGGAGGAGGTGGGGAGTGAAC
* ** * *** * *
239023 TGGTGGTGGTGGTGACTTATAGATGTAAGGAGGTGGTGGTAAATGCTTTAGCCGTGGAGGTGACT
1 TGGTGGTGGTGGTGACTTATAGACGTAAGGAGGTGGTGGGGAGTGAACTGGCGGTGGAGGTGACT
* *
239088 TGTAAACATAAGGAGGAGGTGGGGAGTGCAC
66 TGTAGACATAAGGAGGAGGTGGGGAGTGAAC
* * * * * * * *
239119 TGGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGGCGGTGGTGGTGACA
1 TGGTGGTGGTGGTGACTTATAGACGTAAGGAGGTGGTGGGGAGTGAACTGGCGGTGGAGGTGACT
* ** * * * ***
239184 TATAGATGTAAGGAGGTGGTGGTGAATGCTT
66 TGTAGACATAAGGAGGAGGTGGGGAGTGAAC
* * * * * * * * * *
239215 TGGCGGGGGAGGTGACTTATAAACGTAAGGAGGAGGTGGGGAGTGCATTGGTGGTGGTGGAGACT
1 TGGTGGTGGTGGTGACTTATAGACGTAAGGAGGTGGTGGGGAGTGAACTGGCGGTGGAGGTGACT
* * * * *
239280 TGTAGACATATGGTGGAGTTGGTGAGTGAAT
66 TGTAGACATAAGGAGGAGGTGGGGAGTGAAC
* * ** * * * *** *
239311 TGGCGGTGGTGGTGACTTATAGATGTAAGGAGACGGTTGTGAATGCTTTGGCGGGGGAGGTGACT
1 TGGTGGTGGTGGTGACTTATAGACGTAAGGAGGTGGTGGGGAGTGAACTGGCGGTGGAGGTGACT
* * *
239376 TATA-A-AT-ATGAGGAGGTGGGGAGTGCAC
66 TGTAGACATAAGGAGGAGGTGGGGAGTGAAC
* * ** * * *** * *
239404 TGGTGGTGGTGGTGGTGACTTATATATGTAAGGAGGTGACGGTGAATGCTTTGGTGGGGGAGGTG
1 ---TGGTGGTGGTGGTGACTTATAGACGTAAGGAGGTGGTGGGGAGTGAACTGGCGGTGGAGGTG
* * *
239469 ACTTGTAAACATAAGGAGGGGGTGGAGAGTGAAC
63 ACTTGTAGACATAAGGAGGAGGTGGGGAGTGAAC
* * * * * * * * *
239503 TGGCGGTGGAGGAGACTTGTAGACATATGGTA-GAGGTGGGGAGTGAACTGGTGGTGGTGGTGAC
1 TGGTGGTGGTGGTGACTTATAGACGTAAGG-AGGTGGTGGGGAGTGAACTGGCGGTGGAGGTGAC
* * ** * * * ***
239567 TTATATATGTAAGGAGGTGGTGGTGAATGCTT
65 TTGTAGACATAAGGAGGAGGTGGGGAGTGAAC
* * * * * * * *
239599 TGGTGGGGGAGGTGACTTGTAAACATAAGGAGGGGGTGGAGAGTGAACTGGCGGTGGAGGAGACT
1 TGGTGGTGGTGGTGACTTATAGACGTAAGGAGGTGGTGGGGAGTGAACTGGCGGTGGAGGTGACT
* *
239664 TGTAGACATATGGTGGAGGTGGGGAGTGAAC
66 TGTAGACATAAGGAGGAGGTGGGGAGTGAAC
* * *** * * *** * *
239695 TGGTGGTGGTGGTGGTGACTTATATATGTAAGGAGGTGACAGTGAATGCTTTGGTGGGGGAGGTG
1 ---TGGTGGTGGTGGTGACTTATAGACGTAAGGAGGTGGTGGGGAGTGAACTGGCGGTGGAGGTG
* * *
239760 ACTTGTAAACATAAGGAGGGGGTGGAGAGTGAAC
63 ACTTGTAGACATAAGGAGGAGGTGGGGAGTGAAC
* * * * * * * * ** *
239794 TGGCGGTGGAGGAGACTTGTATACATATGGTGAAGGTGGGGAGTGAACTGGTGGTGG
1 TGGTGGTGGTGGTGACTTATAGACGTAAGGAGGTGGTGGGGAGTGAACTGGCGGTGG
239851 TGGAGATTTA
Statistics
Matches: 623, Mismatches: 194, Indels: 22
0.74 0.23 0.03
Matches are distributed among these distances:
93 14 0.02
94 2 0.00
95 2 0.00
96 511 0.82
97 2 0.00
98 2 0.00
99 90 0.14
ACGTcount: A:0.23, C:0.07, G:0.45, T:0.25
Consensus pattern (96 bp):
TGGTGGTGGTGGTGACTTATAGACGTAAGGAGGTGGTGGGGAGTGAACTGGCGGTGGAGGTGACT
TGTAGACATAAGGAGGAGGTGGGGAGTGAAC
Found at i:239084 original size:219 final size:215
Alignment explanation
Indices: 238641--239060 Score: 468
Period size: 219 Copynumber: 1.9 Consensus size: 215
238631 TAGACATATG
* * * *
238641 GTGGAGGTGGGGAGTGGACTGGCGGTGGTGGAGACTTATAGATATAAGGAGGTAGCGGTGAATTA
1 GTGGAGGTGGGGAGTGAACTGGCGGTGGTGGAGACTTATAGATATAAAGAGGTAGCAGTGAATGA
* * *
238706 TTTGGTGGGGGAGGTGACTTGTAAAGATAAGGAGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGA
66 TTTGGTGGGGGAGGTGACTTATAAAGATAAGGAGGAGGTGGGGAGTGAACTGGCGGTGGAGGAGA
* * *
238771 CTTATAAATGTAAGGTGGCGGCGGTGAATACTTTGGTGGGGGAGGTGACTTATAAACGTAAGGGG
131 CTTATAAATGTAAGGTGGAGGCGGGGAATAC-TTGGTGGGGGAGGTGACTTATAAACGTAAGGAG
* * **
238836 GAGGTGAGGAGTGAACTAATG
195 GAGGTGAGAAATGAACTAACC
* * * *
238857 GTGGAGGTGGGGAGTGAACTAGTGGTGGTGGTGGTGACTTATAGATGTAAAGAGGTGGCAGTGAA
1 GTGGAGGTGGGGAGTGAAC---TGGCGGTGGTGGAGACTTATAGATATAAAGAGGTAGCAGTGAA
* * *
238922 TGCTTTGGTGGTGGAGGTGACTTATAAACG-TAAGGAGGTGGTGGGGAGTGAACTGGCGGTGGAG
63 TGATTTGGTGGGGGAGGTGACTTATAAA-GATAAGGAGGAGGTGGGGAGTGAACTGGCGGTGGAG
* * * * * * * * *
238986 GAGACTTGTAGA-GATATGGTGGAGGTGGGGAGTGAAC-TGGTGGTGGTGGTGACTTATAGATGT
127 GAGACTTATAAATG-TAAGGTGGAGGCGGGGAAT--ACTTGGTGGGGGAGGTGACTTATAAACGT
*
239049 AAGGAGGTGGTG
189 AAGGAGGAGGTG
239061 GTAAATGCTT
Statistics
Matches: 170, Mismatches: 27, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
216 18 0.11
218 1 0.01
219 148 0.87
220 1 0.01
221 2 0.01
ACGTcount: A:0.24, C:0.06, G:0.46, T:0.25
Consensus pattern (215 bp):
GTGGAGGTGGGGAGTGAACTGGCGGTGGTGGAGACTTATAGATATAAAGAGGTAGCAGTGAATGA
TTTGGTGGGGGAGGTGACTTATAAAGATAAGGAGGAGGTGGGGAGTGAACTGGCGGTGGAGGAGA
CTTATAAATGTAAGGTGGAGGCGGGGAATACTTGGTGGGGGAGGTGACTTATAAACGTAAGGAGG
AGGTGAGAAATGAACTAACC
Found at i:239390 original size:144 final size:144
Alignment explanation
Indices: 238854--239415 Score: 824
Period size: 144 Copynumber: 3.9 Consensus size: 144
238844 GAGTGAACTA
* * **
238854 ATGGTGGAGGTGGGGAGTGAACTAGTGGTGGTGGTGGTGACTTATAGATGTAAAGAGGTGGCAGT
1 ATGGTGGAGGTGGGGAGTGAAC---TGGCGGTGGTGGTGACTTATAGATGTAAGGAGGTGGTGGT
* * * * * *
238919 GAATGCTTTGGTGGTGGAGGTGACTTATAAACGTAAGGAGGTGGTGGGGAGTGAACTGGCGGTGG
63 GAATGCTTTGGCGGGGGAGGTGACTTATAAACATAAGGAGGAGGTGGGGAGTGCACTGGTGGTGG
* *
238984 AGGAGACTTGTAGAGAT
128 TGGAGACTTGTAGACAT
* *
239001 ATGGTGGAGGTGGGGAGTGAACTGGTGGTGGTGGTGACTTATAGATGTAAGGAGGTGGTGGTAAA
1 ATGGTGGAGGTGGGGAGTGAACTGGCGGTGGTGGTGACTTATAGATGTAAGGAGGTGGTGGTGAA
* * * *
239066 TGCTTTAGCCGTGGAGGTGACTTGTAAACATAAGGAGGAGGTGGGGAGTGCACTGGTGGTGGTGG
66 TGCTTTGGCGGGGGAGGTGACTTATAAACATAAGGAGGAGGTGGGGAGTGCACTGGTGGTGGTGG
239131 AGACTTGTAGACAT
131 AGACTTGTAGACAT
*
239145 ATGGTGGAGGTGGGGAGTGAACTGGCGGTGGTGGTGACATATAGATGTAAGGAGGTGGTGGTGAA
1 ATGGTGGAGGTGGGGAGTGAACTGGCGGTGGTGGTGACTTATAGATGTAAGGAGGTGGTGGTGAA
* *
239210 TGCTTTGGCGGGGGAGGTGACTTATAAACGTAAGGAGGAGGTGGGGAGTGCATTGGTGGTGGTGG
66 TGCTTTGGCGGGGGAGGTGACTTATAAACATAAGGAGGAGGTGGGGAGTGCACTGGTGGTGGTGG
239275 AGACTTGTAGACAT
131 AGACTTGTAGACAT
* * * ** *
239289 ATGGTGGAGTTGGTGAGTGAATTGGCGGTGGTGGTGACTTATAGATGTAAGGAGACGGTTGTGAA
1 ATGGTGGAGGTGGGGAGTGAACTGGCGGTGGTGGTGACTTATAGATGTAAGGAGGTGGTGGTGAA
*
239354 TGCTTTGGCGGGGGAGGTGACTTAT-AA-AT-ATGAGGAGGTGGGGAGTGCACTGGTGGTGGTGG
66 TGCTTTGGCGGGGGAGGTGACTTATAAACATAAGGAGGAGGTGGGGAGTGCACTGGTGGTGGTGG
239416 TGGTGACTTA
Statistics
Matches: 382, Mismatches: 33, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
141 31 0.08
142 1 0.00
143 2 0.01
144 326 0.85
147 22 0.06
ACGTcount: A:0.22, C:0.07, G:0.45, T:0.26
Consensus pattern (144 bp):
ATGGTGGAGGTGGGGAGTGAACTGGCGGTGGTGGTGACTTATAGATGTAAGGAGGTGGTGGTGAA
TGCTTTGGCGGGGGAGGTGACTTATAAACATAAGGAGGAGGTGGGGAGTGCACTGGTGGTGGTGG
AGACTTGTAGACAT
Found at i:239448 original size:144 final size:144
Alignment explanation
Indices: 238879--239871 Score: 753
Period size: 144 Copynumber: 6.9 Consensus size: 144
238869 AGTGAACTAG
* ** *
238879 TGGTGGTGGTGGTGACTTATAGATGTAAAGAGGTGGCAGTGAATGCTTTGGTGGTGGAGGTGACT
1 TGGTGGTGGTGGTGACTTATAGATGTAAGGAGGTGGTGGTGAATGCTTTGGCGGTGGAGGTGACT
* * * * * * * * *
238944 TATAAACGTAAGGAGGTGGTGGGGAGTGAAC-TGGCGGTGGAGGAGACTTGTAGA-GATATGGTG
66 TAT-AACATAAGGAGGAGGTGGGGAGTGAACTTGGTGGTGGTGGTGACTTATATATG-TAAGGAG
* * * *
239007 GAGGTGGGGAGTGAAC
129 GTGATGGTGAGTGAAT
* * *
239023 TGGTGGTGGTGGTGACTTATAGATGTAAGGAGGTGGTGGTAAATGCTTTAGCCGTGGAGGTGACT
1 TGGTGGTGGTGGTGACTTATAGATGTAAGGAGGTGGTGGTGAATGCTTTGGCGGTGGAGGTGACT
* * * * * ** * *
239088 TGTAAACATAAGGAGGAGGTGGGGAGTGCAC-TGGTGGTGGTGGAGACTTGTAGACATATGGTGG
66 TAT-AACATAAGGAGGAGGTGGGGAGTGAACTTGGTGGTGGTGGTGACTTATATATGTAAGGAGG
* * * *
239152 AGGTGGGGAGTGAAC
130 TGATGGTGAGTGAAT
* * *
239167 TGGCGGTGGTGGTGACATATAGATGTAAGGAGGTGGTGGTGAATGCTTTGGCGGGGGAGGTGACT
1 TGGTGGTGGTGGTGACTTATAGATGTAAGGAGGTGGTGGTGAATGCTTTGGCGGTGGAGGTGACT
* * * * * ** * *
239232 TATAAACGTAAGGAGGAGGTGGGGAGTGCA-TTGGTGGTGGTGGAGACTTGTAGACATATGGTGG
66 TAT-AACATAAGGAGGAGGTGGGGAGTGAACTTGGTGGTGGTGGTGACTTATATATGTAAGGAGG
* *
239296 AGTTGGTGAGTGAAT
130 TGATGGTGAGTGAAT
* ** * *
239311 TGGCGGTGGTGGTGACTTATAGATGTAAGGAGACGGTTGTGAATGCTTTGGCGGGGGAGGTGACT
1 TGGTGGTGGTGGTGACTTATAGATGTAAGGAGGTGGTGGTGAATGCTTTGGCGGTGGAGGTGACT
* *
239376 TATAA-AT-ATGAGGAGGTGGGGAGTGCACTGGTGGTGGTGGTGGTGACTTATATATGTAAGGAG
66 TATAACATAAGGAGGAGGTGGGGAGTGAACT--TGGTGGTGGTGGTGACTTATATATGTAAGGAG
* * **
239439 GTGACGGTGAATGCTT
129 GTGATGGTGAGTGAAT
* * * * ** * * * *** *
239455 TGGTGGGGGAGGTGACTTGTAAACATAAGGAGGGGGTGGAGAGTGAACTGGCGGTGGAGGAGACT
1 TGGTGGTGGTGGTGACTTATAGATGTAAGGAGGTGGTGGTGAATGCTTTGGCGGTGGAGGTGACT
* *
239520 TGTAGACATATGGTA-GAGGTGGGGAGTGAAC-TGGTGGTGGTGGTGACTTATATATGTAAGGAG
66 TATA-ACATAAGG-AGGAGGTGGGGAGTGAACTTGGTGGTGGTGGTGACTTATATATGTAAGGAG
* * **
239583 GTGGTGGTGAATGCTT
129 GTGATGGTGAGTGAAT
* * * * ** * * * *** *
239599 TGGTGGGGGAGGTGACTTGTAAACATAAGGAGGGGGTGGAGAGTGAACTGGCGGTGGAGGAGACT
1 TGGTGGTGGTGGTGACTTATAGATGTAAGGAGGTGGTGGTGAATGCTTTGGCGGTGGAGGTGACT
* * *
239664 TGTAGACATATGGTGGAGGTGGGGAGTGAACTGGTGGTGGTGGTGGTGACTTATATATGTAAGGA
66 TATA-ACATAAGGAGGAGGTGGGGAGTGAACT--TGGTGGTGGTGGTGACTTATATATGTAAGGA
** * **
239729 GGTGACAGTGAATGCTT
128 GGTGATGGTGAGTGAAT
* * * * ** * * * *** *
239746 TGGTGGGGGAGGTGACTTGTAAACATAAGGAGGGGGTGGAGAGTGAACTGGCGGTGGAGGAGACT
1 TGGTGGTGGTGGTGACTTATAGATGTAAGGAGGTGGTGGTGAATGCTTTGGCGGTGGAGGTGACT
* * * * * * *
239811 TGTATACATATGGTGAAGGTGGGGAGTGAAC-TGGTGGTGGTGGAGATTTATAGATGTAAGG
66 TATA-ACATAAGGAGGAGGTGGGGAGTGAACTTGGTGGTGGTGGTGACTTATATATGTAAGG
239872 TGGTTGTGGT
Statistics
Matches: 760, Mismatches: 76, Indels: 26
0.88 0.09 0.03
Matches are distributed among these distances:
141 19 0.03
142 2 0.00
143 2 0.00
144 578 0.76
145 1 0.00
146 2 0.00
147 155 0.20
148 1 0.00
ACGTcount: A:0.23, C:0.07, G:0.45, T:0.26
Consensus pattern (144 bp):
TGGTGGTGGTGGTGACTTATAGATGTAAGGAGGTGGTGGTGAATGCTTTGGCGGTGGAGGTGACT
TATAACATAAGGAGGAGGTGGGGAGTGAACTTGGTGGTGGTGGTGACTTATATATGTAAGGAGGT
GATGGTGAGTGAAT
Found at i:239787 original size:291 final size:291
Alignment explanation
Indices: 239387--239934 Score: 954
Period size: 291 Copynumber: 1.9 Consensus size: 291
239377 ATAAATATGA
* *
239387 GGAGGTGGGGAGTGCACTGGTGGTGGTGGTGGTGACTTATATATGTAAGGAGGTGACGGTGAATG
1 GGAGGTGGGGAGTGAACTGGTGGTGGTGGTGGTGACTTATATATGTAAGGAGGTGACAGTGAATG
239452 CTTTGGTGGGGGAGGTGACTTGTAAACATAAGGAGGGGGTGGAGAGTGAACTGGCGGTGGAGGAG
66 CTTTGGTGGGGGAGGTGACTTGTAAACATAAGGAGGGGGTGGAGAGTGAACTGGCGGTGGAGGAG
* *
239517 ACTTGTAGACATATGGT-AGAGGTGGGGAGTGAACTGGTGGTGGTGGTGACTTATATATGTAAGG
131 ACTTGTAGACATATGGTGA-AGGTGGGGAGTGAACTGGTGGTGGTGGAGACTTATAGATGTAAGG
* * *
239581 AGGTGGTGGTGAATGCTTTGGTGGGGGAGGTGACTTGTAAACATAAGGAGGGGGTGGAGAGTGAA
195 AGGTGGTGGTGAATGCTTTGGTGGAGAAGGTGACTTGTAAACATAAGGAGGGGGTGGAAAGTGAA
239646 CTGGCGGTGGAGGAGACTTGTAGACATATGGT
260 CTGGCGGTGGAGGAGACTTGTAGACATATGGT
239678 GGAGGTGGGGAGTGAACTGGTGGTGGTGGTGGTGACTTATATATGTAAGGAGGTGACAGTGAATG
1 GGAGGTGGGGAGTGAACTGGTGGTGGTGGTGGTGACTTATATATGTAAGGAGGTGACAGTGAATG
239743 CTTTGGTGGGGGAGGTGACTTGTAAACATAAGGAGGGGGTGGAGAGTGAACTGGCGGTGGAGGAG
66 CTTTGGTGGGGGAGGTGACTTGTAAACATAAGGAGGGGGTGGAGAGTGAACTGGCGGTGGAGGAG
* * *
239808 ACTTGTATACATATGGTGAAGGTGGGGAGTGAACTGGTGGTGGTGGAGATTTATAGATGTAAGGT
131 ACTTGTAGACATATGGTGAAGGTGGGGAGTGAACTGGTGGTGGTGGAGACTTATAGATGTAAGGA
* * * *
239873 GGTTGTGGTGAATGCTTTGGTGGAGAAGGTGATTTGTAAACGTAAGGAGGTGGTGGAAAGTG
196 GGTGGTGGTGAATGCTTTGGTGGAGAAGGTGACTTGTAAACATAAGGAGGGGGTGGAAAGTG
239935 GACAAGTGGA
Statistics
Matches: 242, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
291 241 1.00
292 1 0.00
ACGTcount: A:0.24, C:0.06, G:0.45, T:0.26
Consensus pattern (291 bp):
GGAGGTGGGGAGTGAACTGGTGGTGGTGGTGGTGACTTATATATGTAAGGAGGTGACAGTGAATG
CTTTGGTGGGGGAGGTGACTTGTAAACATAAGGAGGGGGTGGAGAGTGAACTGGCGGTGGAGGAG
ACTTGTAGACATATGGTGAAGGTGGGGAGTGAACTGGTGGTGGTGGAGACTTATAGATGTAAGGA
GGTGGTGGTGAATGCTTTGGTGGAGAAGGTGACTTGTAAACATAAGGAGGGGGTGGAAAGTGAAC
TGGCGGTGGAGGAGACTTGTAGACATATGGT
Found at i:239967 original size:144 final size:145
Alignment explanation
Indices: 239389--239934 Score: 857
Period size: 144 Copynumber: 3.8 Consensus size: 145
239379 AAATATGAGG
*
239389 AGGTGGGGAGTGCACTGGTGGTGGTGGTGGTGACTTATATATGTAAGGAGGTGACGGTGAATGCT
1 AGGTGGGGAGTGAAC--GTGGTGGTGGTGGTGACTTATATATGTAAGGAGGTGACGGTGAATGCT
239454 TTGGTGGGGGAGGTGACTTGTAAACATAAGGAGGGGGTGGAGAGTGAACTGGCGGTGGAGGAGAC
64 TTGGTGGGGGAGGTGACTTGTAAACATAAGGAGGGGGTGGAGAGTGAACTGGCGGTGGAGGAGAC
239519 TTGTAGACATATGGT-A
129 TTGTAGACATATGGTGA
**
239535 GAGGTGGGGAGTGAAC-TGGTGGTGGTGGTGACTTATATATGTAAGGAGGTGGTGGTGAATGCTT
1 -AGGTGGGGAGTGAACGTGGTGGTGGTGGTGACTTATATATGTAAGGAGGTGACGGTGAATGCTT
239599 TGGTGGGGGAGGTGACTTGTAAACATAAGGAGGGGGTGGAGAGTGAACTGGCGGTGGAGGAGACT
65 TGGTGGGGGAGGTGACTTGTAAACATAAGGAGGGGGTGGAGAGTGAACTGGCGGTGGAGGAGACT
*
239664 TGTAGACATATGGTGG
130 TGTAGACATATGGTGA
*
239680 AGGTGGGGAGTGAACTGGTGGTGGTGGTGGTGACTTATATATGTAAGGAGGTGACAGTGAATGCT
1 AGGTGGGGAGTGAAC--GTGGTGGTGGTGGTGACTTATATATGTAAGGAGGTGACGGTGAATGCT
239745 TTGGTGGGGGAGGTGACTTGTAAACATAAGGAGGGGGTGGAGAGTGAACTGGCGGTGGAGGAGAC
64 TTGGTGGGGGAGGTGACTTGTAAACATAAGGAGGGGGTGGAGAGTGAACTGGCGGTGGAGGAGAC
*
239810 TTGTATACATATGGTGA
129 TTGTAGACATATGGTGA
* * * * *
239827 AGGTGGGGAGTGAAC-TGGTGGTGGTGGAGATTTATAGATGTAAGGTGGTTG-TGGTGAATGCTT
1 AGGTGGGGAGTGAACGTGGTGGTGGTGGTGACTTATATATGTAAGGAGG-TGACGGTGAATGCTT
* * * * * *
239890 TGGTGGAGAAGGTGATTTGTAAACGTAAGGAGGTGGTGGAAAGTG
65 TGGTGGGGGAGGTGACTTGTAAACATAAGGAGGGGGTGGAGAGTG
239935 GACAAGTGGA
Statistics
Matches: 373, Mismatches: 21, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
144 218 0.58
145 2 0.01
147 153 0.41
ACGTcount: A:0.24, C:0.06, G:0.45, T:0.26
Consensus pattern (145 bp):
AGGTGGGGAGTGAACGTGGTGGTGGTGGTGACTTATATATGTAAGGAGGTGACGGTGAATGCTTT
GGTGGGGGAGGTGACTTGTAAACATAAGGAGGGGGTGGAGAGTGAACTGGCGGTGGAGGAGACTT
GTAGACATATGGTGA
Found at i:241296 original size:26 final size:26
Alignment explanation
Indices: 241261--241325 Score: 121
Period size: 26 Copynumber: 2.5 Consensus size: 26
241251 TATTATTTCG
*
241261 GGTCGTGTCGGGTGAAACTTTATTTT
1 GGTCGGGTCGGGTGAAACTTTATTTT
241287 GGTCGGGTCGGGTGAAACTTTATTTT
1 GGTCGGGTCGGGTGAAACTTTATTTT
241313 GGTCGGGTCGGGT
1 GGTCGGGTCGGGT
241326 CGAATTCGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.12, C:0.12, G:0.38, T:0.37
Consensus pattern (26 bp):
GGTCGGGTCGGGTGAAACTTTATTTT
Found at i:242753 original size:2 final size:2
Alignment explanation
Indices: 242746--242827 Score: 164
Period size: 2 Copynumber: 41.0 Consensus size: 2
242736 TCATTATTTA
242746 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
242788 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
242828 GAAATTTAGT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 80 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:244786 original size:23 final size:23
Alignment explanation
Indices: 244756--244800 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
244746 TAGATAATTA
*
244756 GTTGGACTCGCGTCGCAAACCTT
1 GTTGGACTCGAGTCGCAAACCTT
244779 GTTGGACTCGAGTCGCAAACCT
1 GTTGGACTCGAGTCGCAAACCT
244801 AGCTTTTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.29, G:0.27, T:0.24
Consensus pattern (23 bp):
GTTGGACTCGAGTCGCAAACCTT
Found at i:248814 original size:19 final size:19
Alignment explanation
Indices: 248773--248842 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
248763 CTGAGCAGAG
* *
248773 ATCAGAGATCAAAATATAA
1 ATCAGAGATCAGAACATAA
*
248792 ATCAGAGATCAGAACATAT
1 ATCAGAGATCAGAACATAA
* * * *
248811 ATCAAAGTTCAGAGCAAAA
1 ATCAGAGATCAGAACATAA
*
248830 ATCAGAGGTCAGA
1 ATCAGAGATCAGA
248843 TTGTATTCCA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (19 bp):
ATCAGAGATCAGAACATAA
Found at i:251864 original size:2 final size:2
Alignment explanation
Indices: 251857--251893 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
251847 AAATAATAAC
251857 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
251894 AACACAAACG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:253870 original size:8 final size:8
Alignment explanation
Indices: 253852--253892 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
253842 CTTGAACCCC
253852 TTTTATTT
1 TTTTATTT
*
253860 TTTT-TTA
1 TTTTATTT
253867 TTTTATTT
1 TTTTATTT
253875 TTTTATTT
1 TTTTATTT
*
253883 TCTTATTT
1 TTTTATTT
253891 TT
1 TT
253893 CTTCAAGCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTATTT
Found at i:253877 original size:13 final size:13
Alignment explanation
Indices: 253859--253883 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
253849 CCCTTTTATT
253859 TTTTTTTATTTTA
1 TTTTTTTATTTTA
253872 TTTTTTTATTTT
1 TTTTTTTATTTT
253884 CTTATTTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTATTTTA
Found at i:253878 original size:16 final size:16
Alignment explanation
Indices: 253852--253892 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
253842 CTTGAACCCC
*
253852 TTTTATTTTTTT-TTA
1 TTTTATTTTTTTATTT
253867 TTTTATTTTTTTATTT
1 TTTTATTTTTTTATTT
*
253883 TCTTATTTTT
1 TTTTATTTTT
253893 CTTCAAGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTATTTTTTTATTT
Found at i:256596 original size:16 final size:17
Alignment explanation
Indices: 256572--256605 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
256562 AGTTCTTTTT
256572 TAAATAATATATTTTAA
1 TAAATAATATATTTTAA
*
256589 TAAA-AATATTTTTTAA
1 TAAATAATATATTTTAA
256605 T
1 T
256606 TTTTTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATAATATATTTTAA
Found at i:256791 original size:44 final size:43
Alignment explanation
Indices: 256743--256826 Score: 109
Period size: 43 Copynumber: 1.9 Consensus size: 43
256733 TTCTATAGGC
*
256743 ACTAAAACATTTTTGAGT-CATAGTTTGA-ACACTTATTTTTATAT
1 ACTAAAACATTTTT-A-TACATAATTT-ATACACTTATTTTTATAT
*
256787 ACTAAAACGTTTTTATACATAATTTATACACTTATTTTTA
1 ACTAAAACATTTTTATACATAATTTATACACTTATTTTTA
256827 AAAAATAAGC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
42 2 0.06
43 21 0.58
44 13 0.36
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (43 bp):
ACTAAAACATTTTTATACATAATTTATACACTTATTTTTATAT
Found at i:262818 original size:1 final size:1
Alignment explanation
Indices: 262812--262837 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
262802 GTTTGATTAG
262812 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
262838 CATGTAATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:263438 original size:32 final size:32
Alignment explanation
Indices: 263401--263498 Score: 101
Period size: 32 Copynumber: 3.3 Consensus size: 32
263391 TAATATAATT
263401 TACATTTATATATTTAAGGATAATTGTTATAA
1 TACATTTATATATTTAAGGATAATTGTTATAA
263433 TACATTTATA-ATTT----AT-A-T-TTAT-A
1 TACATTTATATATTTAAGGATAATTGTTATAA
263456 T--ATTTATATATTTAAGGATAATTGTTATAA
1 TACATTTATATATTTAAGGATAATTGTTATAA
263486 TTTACATTTATAT
1 --TACATTTATAT
263499 TTTTCTCATT
Statistics
Matches: 53, Mismatches: 0, Indels: 24
0.69 0.00 0.31
Matches are distributed among these distances:
21 7 0.13
22 4 0.08
23 2 0.04
24 4 0.08
25 1 0.02
26 3 0.06
27 3 0.06
28 1 0.02
29 4 0.08
30 1 0.02
31 4 0.08
32 11 0.21
34 8 0.15
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (32 bp):
TACATTTATATATTTAAGGATAATTGTTATAA
Found at i:269939 original size:59 final size:60
Alignment explanation
Indices: 269861--269978 Score: 175
Period size: 59 Copynumber: 2.0 Consensus size: 60
269851 ATATGAATAG
* * * * * *
269861 TCAAGTGACAATTTTGTAACTTTTAATAGTTGGGTGACTCAACAAAACAATACCCTATAA
1 TCAAGAGACAATTTTGTAACTTTTAATAGTCGAGAGACTCAACAAAACAACACCATATAA
269921 TCAAGAGAC-ATTTTGTAACTTTTAATAGTCGAGAGACTCAACAAAACAACACCATATA
1 TCAAGAGACAATTTTGTAACTTTTAATAGTCGAGAGACTCAACAAAACAACACCATATA
269979 GTTAGATGAC
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
59 44 0.85
60 8 0.15
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.29
Consensus pattern (60 bp):
TCAAGAGACAATTTTGTAACTTTTAATAGTCGAGAGACTCAACAAAACAACACCATATAA
Found at i:272946 original size:11 final size:11
Alignment explanation
Indices: 272927--272973 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
272917 CTTAGCAGTT
*
272927 ATTTTATAATG
1 ATTTAATAATG
* *
272938 ATTTGATAA-A
1 ATTTAATAATG
*
272948 ATTTAATAATT
1 ATTTAATAATG
272959 ATTTAATAATG
1 ATTTAATAATG
272970 ATTT
1 ATTT
272974 GATTAAATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 8 0.27
11 22 0.73
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (11 bp):
ATTTAATAATG
Found at i:272951 original size:21 final size:21
Alignment explanation
Indices: 272927--272967 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
272917 CTTAGCAGTT
* *
272927 ATTTTATAATGATTTGATAAA
1 ATTTAATAATGATTTAATAAA
*
272948 ATTTAATAATTATTTAATAA
1 ATTTAATAATGATTTAATAA
272968 TGATTTGATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (21 bp):
ATTTAATAATGATTTAATAAA
Found at i:272986 original size:20 final size:19
Alignment explanation
Indices: 272961--273006 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
272951 TAATAATTAT
**
272961 TTAATAATGATTTGATTAAA
1 TTAATAATGATTT-AAAAAA
*
272981 TTAATAATTATTTAAAAAA
1 TTAATAATGATTTAAAAAA
273000 TTAATAA
1 TTAATAA
273007 CTCTTATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (19 bp):
TTAATAATGATTTAAAAAA
Found at i:272988 original size:31 final size:32
Alignment explanation
Indices: 272925--272995 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
272915 AACTTAGCAG
*
272925 TTATTTTATAATGATTTGATAAAATTTAATAA
1 TTATTTAATAATGATTTGATAAAATTTAATAA
*
272957 TTATTTAATAATGATTTGATTAAA-TTAATAA
1 TTATTTAATAATGATTTGATAAAATTTAATAA
272988 TTATTTAA
1 TTATTTAA
272996 AAAATTAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
31 15 0.41
32 22 0.59
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.51
Consensus pattern (32 bp):
TTATTTAATAATGATTTGATAAAATTTAATAA
Found at i:274347 original size:20 final size:21
Alignment explanation
Indices: 274312--274359 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
274302 TTTCTAAATT
274312 TTTTTAATACATTTTATACTTA
1 TTTTT-ATACATTTTATACTTA
*
274334 TTTTTATA-ATTTTATATTTA
1 TTTTTATACATTTTATACTTA
274354 TTTTTA
1 TTTTTA
274360 GAAATATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 17 0.68
21 3 0.12
22 5 0.20
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTATACATTTTATACTTA
Found at i:274454 original size:19 final size:19
Alignment explanation
Indices: 274400--274459 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
274390 ATTTAGAAAA
274400 TAAAAATAATAAATTTAATAT
1 TAAAAATAATAAATTT-AT-T
* ** *
274421 GAAAAATGTTGAATTTATT
1 TAAAAATAATAAATTTATT
274440 TAAAAATAATAAATTTATT
1 TAAAAATAATAAATTTATT
274459 T
1 T
274460 TAAATTTCAA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
19 17 0.55
20 2 0.06
21 12 0.39
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
TAAAAATAATAAATTTATT
Found at i:284209 original size:5 final size:5
Alignment explanation
Indices: 284199--284224 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
284189 TTTTATTAAT
284199 AATAA AATAA AATAA AATAA AATAA A
1 AATAA AATAA AATAA AATAA AATAA A
284225 TTATTTAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:285743 original size:126 final size:126
Alignment explanation
Indices: 285474--285719 Score: 332
Period size: 126 Copynumber: 2.0 Consensus size: 126
285464 TGATTGCATT
* * * * * *
285474 TTCAGGTAAGAAGAAGAAGACATCTAAGAAGAAAAGCATTGCTGCATTTGCAGCCTTGGGTGATG
1 TTCAGGTAAGAAGAAGAAGACATCTAAGAAGAAAAACAGTGCTACATTTGCAGCCTTAGATGACG
* * *
285539 AGCTTGAAAACGAAGATGCTGTGAAAGAAGATGAGGAAGAAGATGCTCCTTCATTTGGATC
66 AACTAGAAAACGAAGATGCTGTAAAAGAAGATGAGGAAGAAGATGCTCCTTCATTTGGATC
* * *
285600 TTCAGGTCATAAGAAGAAGTCATCTAAGAAGAAAAACAGTGCTACATTTGCAGCCTTAGATGACG
1 TTCAGGTAAGAAGAAGAAGACATCTAAGAAGAAAAACAGTGCTACATTTGCAGCCTTAGATGACG
* * * *
285665 AACTAGAAAATGAAGA-GAGTGTAAAAGAAGATGAGGAAGAAGATGTTCGTTCATT
66 AACTAGAAAACGAAGATG-CTGTAAAAGAAGATGAGGAAGAAGATGCTCCTTCATT
285720 GTCTTTATCA
Statistics
Matches: 103, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
125 1 0.01
126 102 0.99
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.23
Consensus pattern (126 bp):
TTCAGGTAAGAAGAAGAAGACATCTAAGAAGAAAAACAGTGCTACATTTGCAGCCTTAGATGACG
AACTAGAAAACGAAGATGCTGTAAAAGAAGATGAGGAAGAAGATGCTCCTTCATTTGGATC
Found at i:286082 original size:12 final size:12
Alignment explanation
Indices: 286065--286099 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
286055 CTGAAACTTC
286065 GAAGAACAAGAA
1 GAAGAACAAGAA
*
286077 GAAGAATAAGAA
1 GAAGAACAAGAA
286089 GAAGAACAAGA
1 GAAGAACAAGA
286100 GTGAAAGGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.66, C:0.06, G:0.26, T:0.03
Consensus pattern (12 bp):
GAAGAACAAGAA
Found at i:286320 original size:13 final size:12
Alignment explanation
Indices: 286296--286338 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
286286 CTGCTGCTGC
286296 AAAGAAAAGGAA
1 AAAGAAAAGGAA
286308 AAAGAAGAAGGAA
1 AAAGAA-AAGGAA
*
286321 AAGGAAAAAGAGAA
1 AAAG-AAAAG-GAA
286335 AAAG
1 AAAG
286339 GCGGCTGCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 6 0.23
13 12 0.46
14 8 0.31
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
AAAGAAAAGGAA
Found at i:289157 original size:36 final size:37
Alignment explanation
Indices: 289067--289160 Score: 154
Period size: 39 Copynumber: 2.5 Consensus size: 37
289057 AGGGCGTAGT
*
289067 TTTTTTGGATAATTGTGGAAAGTGCAACATGGTGATA
1 TTTTTTGGATAATTGCGGAAAGTGCAACATGGTGATA
289104 TTTTGGTTGGATAATTGCGGAAAGTGCAACATGGTGATA
1 TTTT--TTGGATAATTGCGGAAAGTGCAACATGGTGATA
289143 -TTTTTGGATAATTGCGGA
1 TTTTTTGGATAATTGCGGA
289161 TAATTTTGGT
Statistics
Matches: 54, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
36 15 0.28
37 4 0.07
38 3 0.06
39 32 0.59
ACGTcount: A:0.28, C:0.06, G:0.29, T:0.37
Consensus pattern (37 bp):
TTTTTTGGATAATTGCGGAAAGTGCAACATGGTGATA
Found at i:291983 original size:2 final size:2
Alignment explanation
Indices: 291976--292008 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
291966 CACAACAAGG
291976 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
292009 GGGATTTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:293566 original size:44 final size:44
Alignment explanation
Indices: 293501--293584 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
293491 TTAAAAAGAA
*
293501 AACGATGATATATTCATGTTCGTTCGTTTAACTTTAACCGTACG
1 AACGATGATATATTCACGTTCGTTCGTTTAACTTTAACCGTACG
293545 AACGA-GAGTATATTCACGTTCGTTCGTTTAACTTTAACCG
1 AACGATGA-TATATTCACGTTCGTTCGTTTAACTTTAACCG
293585 AATGAACACG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
43 2 0.05
44 36 0.95
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (44 bp):
AACGATGATATATTCACGTTCGTTCGTTTAACTTTAACCGTACG
Found at i:311140 original size:18 final size:18
Alignment explanation
Indices: 311117--311151 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
311107 TTCCATCCGG
*
311117 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
311135 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
311152 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:312264 original size:7 final size:7
Alignment explanation
Indices: 312252--312289 Score: 58
Period size: 7 Copynumber: 5.1 Consensus size: 7
312242 GTCAACAGTA
312252 GTCAACG
1 GTCAACG
312259 GTCAACGG
1 GTCAAC-G
312267 GTCAACG
1 GTCAACG
312274 GTCAACGG
1 GTCAAC-G
312282 GTCAACG
1 GTCAACG
312289 G
1 G
312290 GTCGGGTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 15 0.52
8 14 0.48
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.13
Consensus pattern (7 bp):
GTCAACG
Found at i:312271 original size:8 final size:8
Alignment explanation
Indices: 312252--312323 Score: 73
Period size: 8 Copynumber: 9.4 Consensus size: 8
312242 GTCAACAGTA
312252 GTCAAC-G
1 GTCAACGG
312259 GTCAACGG
1 GTCAACGG
312267 GTCAAC-G
1 GTCAACGG
312274 GTCAACGG
1 GTCAACGG
312282 GTCAACGG
1 GTCAACGG
312290 GT---CGG
1 GTCAACGG
*
312295 GTCAACGA
1 GTCAACGG
*
312303 GTCGAGTCGG
1 GTC-A-ACGG
312313 GTCAACGG
1 GTCAACGG
312321 GTC
1 GTC
312324 GGGTAAATGG
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
5 5 0.09
7 13 0.24
8 29 0.54
9 2 0.04
10 5 0.09
ACGTcount: A:0.22, C:0.25, G:0.38, T:0.15
Consensus pattern (8 bp):
GTCAACGG
Found at i:312272 original size:15 final size:15
Alignment explanation
Indices: 312252--312289 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
312242 GTCAACAGTA
312252 GTCAACGGTCAACGG
1 GTCAACGGTCAACGG
312267 GTCAACGGTCAACGG
1 GTCAACGGTCAACGG
312282 GTCAACGG
1 GTCAACGG
312290 GTCGGGTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.13
Consensus pattern (15 bp):
GTCAACGGTCAACGG
Found at i:312297 original size:13 final size:13
Alignment explanation
Indices: 312279--312341 Score: 63
Period size: 13 Copynumber: 4.5 Consensus size: 13
312269 CAACGGTCAA
312279 CGGGTCAACGGGT
1 CGGGTCAACGGGT
312292 CGGGTCAACGAGTCGAGT
1 CGGGTCAAC--G--G-GT
312310 CGGGTCAACGGGT
1 CGGGTCAACGGGT
* *
312323 CGGGTAAATGGGT
1 CGGGTCAACGGGT
312336 CGGGTC
1 CGGGTC
312342 GGGTAAACGG
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
13 27 0.64
14 1 0.02
15 1 0.02
16 1 0.02
17 1 0.02
18 11 0.26
ACGTcount: A:0.17, C:0.21, G:0.44, T:0.17
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:312313 original size:18 final size:18
Alignment explanation
Indices: 312290--312324 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
312280 GGGTCAACGG
312290 GTCGGGTCAACGAGTCGA
1 GTCGGGTCAACGAGTCGA
*
312308 GTCGGGTCAACGGGTCG
1 GTCGGGTCAACGAGTCG
312325 GGTAAATGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (18 bp):
GTCGGGTCAACGAGTCGA
Found at i:312317 original size:31 final size:30
Alignment explanation
Indices: 312264--312359 Score: 106
Period size: 31 Copynumber: 3.2 Consensus size: 30
312254 CAACGGTCAA
*
312264 CGGGTCAACGGTC-A-ACGGGTCAACGGGT
1 CGGGTCAACGGTCGAGTCGGGTCAACGGGT
312292 CGGGTCAACGAGTCGAGTCGGGTCAACGGGT
1 CGGGTCAACG-GTCGAGTCGGGTCAACGGGT
* * * *
312323 CGGGTAAATGGGTCGGGTCGGGTAAACGGGT
1 CGGGTCAA-CGGTCGAGTCGGGTCAACGGGT
*
312354 TGGGTC
1 CGGGTC
312360 GGGTTGTGAC
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
28 10 0.18
29 3 0.05
30 1 0.02
31 42 0.74
32 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.44, T:0.18
Consensus pattern (30 bp):
CGGGTCAACGGTCGAGTCGGGTCAACGGGT
Found at i:312339 original size:18 final size:18
Alignment explanation
Indices: 312318--312363 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
312308 GTCGGGTCAA
*
312318 CGGGTCGGGTAAATGGGT
1 CGGGTCGGGTAAACGGGT
312336 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
*
312354 TGGGTCGGGT
1 CGGGTCGGGT
312364 TGTGACCGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.13, C:0.13, G:0.52, T:0.22
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:316138 original size:18 final size:18
Alignment explanation
Indices: 316115--316149 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
316105 TTCCATCCGG
*
316115 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
316133 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
316150 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:317260 original size:7 final size:7
Alignment explanation
Indices: 317248--317285 Score: 58
Period size: 7 Copynumber: 5.1 Consensus size: 7
317238 GTCAACAGTA
317248 GTCAACG
1 GTCAACG
317255 GTCAACGG
1 GTCAAC-G
317263 GTCAACG
1 GTCAACG
317270 GTCAACGG
1 GTCAAC-G
317278 GTCAACG
1 GTCAACG
317285 G
1 G
317286 GTCGGGTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 15 0.52
8 14 0.48
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.13
Consensus pattern (7 bp):
GTCAACG
Found at i:317267 original size:8 final size:8
Alignment explanation
Indices: 317248--317288 Score: 68
Period size: 8 Copynumber: 5.4 Consensus size: 8
317238 GTCAACAGTA
317248 GTCAAC-G
1 GTCAACGG
317255 GTCAACGG
1 GTCAACGG
317263 GTCAAC-G
1 GTCAACGG
317270 GTCAACGG
1 GTCAACGG
317278 GTCAACGG
1 GTCAACGG
317286 GTC
1 GTC
317289 GGGTCAACGA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 13 0.41
8 19 0.59
ACGTcount: A:0.24, C:0.27, G:0.34, T:0.15
Consensus pattern (8 bp):
GTCAACGG
Found at i:317268 original size:15 final size:15
Alignment explanation
Indices: 317248--317285 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
317238 GTCAACAGTA
317248 GTCAACGGTCAACGG
1 GTCAACGGTCAACGG
317263 GTCAACGGTCAACGG
1 GTCAACGGTCAACGG
317278 GTCAACGG
1 GTCAACGG
317286 GTCGGGTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.13
Consensus pattern (15 bp):
GTCAACGGTCAACGG
Found at i:317293 original size:13 final size:13
Alignment explanation
Indices: 317275--317336 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 13
317265 CAACGGTCAA
317275 CGGGTCAACGGGT
1 CGGGTCAACGGGT
317288 CGGGTCAACGAGTCGAGT
1 CGGGTCAAC--G--G-GT
317306 CGGGTCAAC-GGT
1 CGGGTCAACGGGT
* *
317318 CGGGTAAATGGGT
1 CGGGTCAACGGGT
317331 CGGGTC
1 CGGGTC
317337 GGTAAACGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
12 9 0.22
13 18 0.45
15 1 0.03
17 1 0.03
18 11 0.28
ACGTcount: A:0.18, C:0.21, G:0.44, T:0.18
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:317309 original size:18 final size:17
Alignment explanation
Indices: 317248--317319 Score: 61
Period size: 15 Copynumber: 4.6 Consensus size: 17
317238 GTCAACAGTA
*
317248 GTCAACGGTC-A-ACGG
1 GTCAACGGTCGAGTCGG
*
317263 GTCAACGGTC-A-ACGG
1 GTCAACGGTCGAGTCGG
317278 GTCAAC-G--G-GTCGG
1 GTCAACGGTCGAGTCGG
317291 GTCAACGAGTCGAGTCGG
1 GTCAACG-GTCGAGTCGG
317309 GTCAACGGTCG
1 GTCAACGGTCG
317320 GGTAAATGGG
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
13 9 0.18
14 1 0.02
15 22 0.45
17 5 0.10
18 12 0.24
ACGTcount: A:0.22, C:0.25, G:0.38, T:0.15
Consensus pattern (17 bp):
GTCAACGGTCGAGTCGG
Found at i:317338 original size:30 final size:31
Alignment explanation
Indices: 317275--317352 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 31
317265 CAACGGTCAA
*
317275 CGGGTCAACGGGTCGGGTCAACGAGTCGAGT
1 CGGGTCAACGGGTCGGGTAAACGAGTCGAGT
* * *
317306 CGGGTCAAC-GGTCGGGTAAATGGGTCGGGT
1 CGGGTCAACGGGTCGGGTAAACGAGTCGAGT
* *
317336 C-GGTAAACGGGTTGGGT
1 CGGGTCAACGGGTCGGGT
317353 CGGGTTGTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 6 0.15
30 25 0.62
31 9 0.22
ACGTcount: A:0.18, C:0.18, G:0.45, T:0.19
Consensus pattern (31 bp):
CGGGTCAACGGGTCGGGTAAACGAGTCGAGT
Found at i:317342 original size:17 final size:17
Alignment explanation
Indices: 317315--317355 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
317305 TCGGGTCAAC
*
317315 GGTCGGGTAAATGGGTCG
1 GGTC-GGTAAACGGGTCG
*
317333 GGTCGGTAAACGGGTTG
1 GGTCGGTAAACGGGTCG
317350 GGTCGG
1 GGTCGG
317356 GTTGTGACCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.15, C:0.12, G:0.51, T:0.22
Consensus pattern (17 bp):
GGTCGGTAAACGGGTCG
Found at i:319754 original size:21 final size:21
Alignment explanation
Indices: 319705--319766 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
319695 CGCAAATCAG
319705 TTTCCAAAATCGCAATGCGAT
1 TTTCCAAAATCGCAATGCGAT
** * * *
319726 AGTACAAATTCGCATTGCGAT
1 TTTCCAAAATCGCAATGCGAT
*
319747 TTTCCAAAATCGCAACGCGA
1 TTTCCAAAATCGCAATGCGA
319767 ATATGAAAAT
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (21 bp):
TTTCCAAAATCGCAATGCGAT
Found at i:319803 original size:40 final size:40
Alignment explanation
Indices: 319753--319907 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
319743 CGATTTTCCA
* ** *
319753 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
* * *
319793 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATC-CGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACAT
* ** *
319833 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
319873 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
319908 TATTTAAAGC
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 62 0.65
41 33 0.34
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.18
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
Found at i:319815 original size:20 final size:20
Alignment explanation
Indices: 319753--319906 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
319743 CGATTTTCCA
* ** *
319753 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
319773 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
319793 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
319813 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
319833 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
319853 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
319873 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
319894 AAATCGCAACGCG
1 AAATCGCAACGCG
319907 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 92 0.82
21 17 0.15
22 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:320321 original size:33 final size:33
Alignment explanation
Indices: 320284--320354 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
320274 TTCACTTAGA
*
320284 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
320317 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
320350 TTTCA
1 TTTCA
320355 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:320496 original size:21 final size:21
Alignment explanation
Indices: 320433--320506 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
320423 TGCAGAAGAG
*
320433 TCGCAACGAGA-TAATG-AAA
1 TCGCAACGAGAGAAATGAAAA
***
320452 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGAAAA
320472 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
320493 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
320507 TCGCAACGCG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 15 0.33
20 12 0.26
21 19 0.41
ACGTcount: A:0.45, C:0.18, G:0.26, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:320501 original size:41 final size:39
Alignment explanation
Indices: 320432--320539 Score: 131
Period size: 32 Copynumber: 2.9 Consensus size: 39
320422 TTGCAGAAGA
*
320432 GTCGCAACGAGATAATGAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAAAATGAAATCGCAACGAGAGAATGACT
320471 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAG-A--A--
1 GTCGCAACGAGA-AAATG-AAATCGCAACGAGAGAATGACT
*
320507 -TCGCAACGCG-AAATGAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAAAATGAAATCGCAACGAGAGAAT
320540 CGCAACGCGA
Statistics
Matches: 63, Mismatches: 2, Indels: 13
0.81 0.03 0.17
Matches are distributed among these distances:
32 15 0.24
33 6 0.10
35 9 0.14
38 1 0.02
39 12 0.19
40 5 0.08
41 15 0.24
ACGTcount: A:0.44, C:0.19, G:0.26, T:0.12
Consensus pattern (39 bp):
GTCGCAACGAGAAAATGAAATCGCAACGAGAGAATGACT
Found at i:320510 original size:14 final size:14
Alignment explanation
Indices: 320491--320546 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
320481 GAGAAATGAA
320491 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
320505 AATCGCAACGCGAAATG
1 AATCGCAA--CGAGA-G
320522 AAATCGCAACGAGAG
1 -AATCGCAACGAGAG
320537 AATCGCAACG
1 AATCGCAACG
320547 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 18 0.50
15 1 0.03
16 8 0.22
17 1 0.03
18 8 0.22
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:320523 original size:33 final size:33
Alignment explanation
Indices: 320483--320562 Score: 135
Period size: 32 Copynumber: 2.5 Consensus size: 33
320473 CGCAACGAGA
320483 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
320516 GAAATG-AAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
320548 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
320563 TTGCGATTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
32 30 0.68
33 14 0.32
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:320530 original size:32 final size:32
Alignment explanation
Indices: 320433--320551 Score: 130
Period size: 32 Copynumber: 3.4 Consensus size: 32
320423 TGCAGAAGAG
320433 TCGCAACGAGATAATGAAATCGCAACGAGAGAATGA
1 TCGCAACGAGA-AATGAAATCGCAACGAGAG-A--A
320469 CTGTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAA
1 ---TCGCAAC--GAGAAATG-AAATCGCAACGAGAGAA
*
320507 TCGCAACGCGAAATGAAATCGCAACGAGAGAA
1 TCGCAACGAGAAATGAAATCGCAACGAGAGAA
*
320539 TCGCAACGCGAAA
1 TCGCAACGAGAAA
320552 CCAAAATCGC
Statistics
Matches: 76, Mismatches: 1, Indels: 13
0.84 0.01 0.14
Matches are distributed among these distances:
32 30 0.39
33 7 0.09
35 7 0.09
38 1 0.01
39 7 0.09
40 5 0.07
41 19 0.25
ACGTcount: A:0.44, C:0.20, G:0.25, T:0.11
Consensus pattern (32 bp):
TCGCAACGAGAAATGAAATCGCAACGAGAGAA
Found at i:320610 original size:33 final size:32
Alignment explanation
Indices: 320563--320675 Score: 199
Period size: 33 Copynumber: 3.5 Consensus size: 32
320553 CAAAATCGCA
320563 TTGCGATTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTCATTTCGCGTTGCGATTCTCTCG
*
320595 TTGCGATTTTCATTTCGCGTTGCGATTCTCTAG
1 TTGCGA-TTTCATTTCGCGTTGCGATTCTCTCG
320628 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGA-TTTCATTTCGCGTTGCGATTCTCTCG
320661 TTGCGATTTCATTTC
1 TTGCGATTTCATTTC
320676 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
32 15 0.19
33 63 0.81
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.46
Consensus pattern (32 bp):
TTGCGATTTCATTTCGCGTTGCGATTCTCTCG
Found at i:320617 original size:19 final size:18
Alignment explanation
Indices: 320558--320675 Score: 89
Period size: 14 Copynumber: 7.1 Consensus size: 18
320548 GAAACCAAAA
*
320558 TCGCATTGCGATTTCATT
1 TCGCGTTGCGATTTCATT
320576 TCGCGTTGCGA-TTC---
1 TCGCGTTGCGATTTCATT
*
320590 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
320609 TCGCGTTGCGA-TTC---
1 TCGCGTTGCGATTTCATT
**
320623 TCTAGTTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
320642 TCGCGTTGCGA-TTC---
1 TCGCGTTGCGATTTCATT
*
320656 TCTCGTTGCGATTTCATT
1 TCGCGTTGCGATTTCATT
320674 TC
1 TC
320676 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 8, Indels: 28
0.68 0.07 0.25
Matches are distributed among these distances:
14 29 0.37
15 3 0.04
16 6 0.08
17 9 0.12
18 12 0.15
19 19 0.24
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (18 bp):
TCGCGTTGCGATTTCATT
Found at i:322530 original size:93 final size:93
Alignment explanation
Indices: 322371--322750 Score: 726
Period size: 93 Copynumber: 4.1 Consensus size: 93
322361 TAGATTGCTT
*
322371 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
322436 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
322464 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
322529 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
322557 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
322622 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
322650 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
322715 TTTGTCTTTGTTTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTG--TTTTGTCTTTTGGTTGAA
322744 AGTAAAT
1 AGTAAAT
322751 GTTCAATCCA
Statistics
Matches: 284, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
93 260 0.92
94 17 0.06
95 7 0.02
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:322830 original size:20 final size:20
Alignment explanation
Indices: 322799--322864 Score: 82
Period size: 19 Copynumber: 3.4 Consensus size: 20
322789 TAGTTTACTT
* *
322799 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAACTCAAAA
*
322819 TAGCAACGCGAAAC-CAAAA
1 TCGCAACGCGAAACTCAAAA
*
322838 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACTCAAAA
322857 TCGCAACG
1 TCGCAACG
322865 ACAGAATCGC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
19 28 0.70
20 12 0.30
ACGTcount: A:0.47, C:0.26, G:0.17, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:324619 original size:14 final size:14
Alignment explanation
Indices: 324600--324635 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
324590 ATTGTTTAAT
324600 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
324614 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
324628 TGATTTGT
1 TGATTTGT
324636 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:324765 original size:19 final size:19
Alignment explanation
Indices: 324741--324838 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
324731 AAAATTGACT
324741 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
324760 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
324779 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
324793 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
324812 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
324832 ATCGCAA
1 ATCGCAA
324839 CGGGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:324870 original size:53 final size:53
Alignment explanation
Indices: 324741--324857 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
324731 AAAATTGACT
324741 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
*
324793 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
324846 ATCGCAATGCGA
1 ATCGCAATGCGA
324858 TTTTAATTTC
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:324875 original size:19 final size:19
Alignment explanation
Indices: 324847--325016 Score: 181
Period size: 19 Copynumber: 9.7 Consensus size: 19
324837 AACGGGAGAA
* *
324847 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
324866 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
324882 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
324899 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
324915 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
324932 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
324951 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
324970 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
324988 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
325004 TCGCATTGCGATT
1 TCGCATTGCGATT
325017 CTCTCGTTGC
Statistics
Matches: 127, Mismatches: 8, Indels: 32
0.76 0.05 0.19
Matches are distributed among these distances:
14 23 0.18
16 16 0.13
17 14 0.11
18 1 0.01
19 57 0.45
20 16 0.13
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:324890 original size:14 final size:14
Alignment explanation
Indices: 324871--324925 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
324861 TAATTTCGCA
324871 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
324885 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
324902 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
324918 TTGCGATT
1 TTGCGATT
324926 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:324998 original size:72 final size:68
Alignment explanation
Indices: 324853--325030 Score: 240
Period size: 72 Copynumber: 2.6 Consensus size: 68
324843 AGAATCGCAA
*
324853 TGCGATTTTAATTTCGCATTGCGA--TTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 TGCGATTTTCATTTCGCATTGCGATTTTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCT
324916 CGT
66 CGT
*
324919 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATTTTC-TCTCG--TTGCGATTTTCATTT-CGCATTGCGATT
*
324984 TTCAT-GT
62 CTC-TCGT
*
324991 TGGGATTTTCATTTCGCATTGCGA--TTCTCTCGTTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATTTTCTCTCGTTGCGATT
325031 GTAATTTCCG
Statistics
Matches: 100, Mismatches: 5, Indels: 13
0.85 0.04 0.11
Matches are distributed among these distances:
66 23 0.23
67 8 0.08
68 3 0.03
69 8 0.08
70 3 0.03
71 15 0.15
72 39 0.39
73 1 0.01
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (68 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCT
CGT
Found at i:325038 original size:33 final size:33
Alignment explanation
Indices: 324853--325030 Score: 250
Period size: 33 Copynumber: 5.2 Consensus size: 33
324843 AGAATCGCAA
*
324853 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
324886 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
324919 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
*
324957 TGCGATTTTCATTTCCGCATTGCGATTTTCAT-GT
1 TGCGATTTTCATTT-CGCATTGCGATTCTC-TCGT
*
324991 TGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
325024 TGCGATT
1 TGCGATT
325031 GTAATTTCCG
Statistics
Matches: 130, Mismatches: 7, Indels: 16
0.85 0.05 0.10
Matches are distributed among these distances:
32 1 0.01
33 78 0.60
34 14 0.11
35 3 0.02
36 6 0.05
37 3 0.02
38 15 0.12
39 10 0.08
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:325038 original size:105 final size:104
Alignment explanation
Indices: 324847--325038 Score: 305
Period size: 105 Copynumber: 1.8 Consensus size: 104
324837 AACGGGAGAA
324847 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
1 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
* *
324912 CTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
66 CTCTCGTTGCGATTGTAATTTCGCATTGCGATTTTCATT
* * * *
324951 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTCATTTCGCATTGCGA
1 TCGCAATGCGATTTTAATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTCATTTCGCATTGCGA
325015 TTCTCTCGTTGCGATTGTAATTTC
64 TTCTCTCGTTGCGATTGTAATTTC
325039 CGTGTTGCGA
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
104 18 0.22
105 61 0.76
106 1 0.01
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.45
Consensus pattern (104 bp):
TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
CTCTCGTTGCGATTGTAATTTCGCATTGCGATTTTCATT
Found at i:327487 original size:24 final size:24
Alignment explanation
Indices: 327453--327499 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
327443 CTGAAACATC
327453 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
327477 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
327500 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:328208 original size:20 final size:20
Alignment explanation
Indices: 328180--328489 Score: 352
Period size: 20 Copynumber: 15.5 Consensus size: 20
328170 AAATTTCAGT
* *
328180 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
328200 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
328220 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
328240 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
328260 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
328280 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
328300 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
328320 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
328340 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
328360 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
328380 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
328400 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
328420 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
328440 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
* ** *
328460 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCTC
328480 GTTGCGATTT
1 GTTGCGATTT
328490 TGGAAAATCG
Statistics
Matches: 256, Mismatches: 32, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
20 255 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:328506 original size:21 final size:21
Alignment explanation
Indices: 328476--328558 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
328466 ATTTTCATAT
*
328476 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
328497 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
328518 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
328539 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
328559 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:328549 original size:42 final size:43
Alignment explanation
Indices: 328456--328554 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
328446 ATTTATGTGT
* *
328456 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
328497 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
328539 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
328555 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:331846 original size:23 final size:23
Alignment explanation
Indices: 331813--331868 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
331803 TGAGCTGTTA
331813 TAACTCCTGAAAATTAATCATTG
1 TAACTCCTGAAAATTAATCATTG
*
331836 TAACTCTTGAAAATTAATCATTG
1 TAACTCCTGAAAATTAATCATTG
331859 TAACTCCTGA
1 TAACTCCTGA
331869 TATTAGCAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
TAACTCCTGAAAATTAATCATTG
Found at i:339229 original size:60 final size:59
Alignment explanation
Indices: 339066--339234 Score: 225
Period size: 58 Copynumber: 2.9 Consensus size: 59
339056 TCTTTCTGAA
* * *
339066 AAAAGG-GCAGATCATGAAGCGTGCCTTCGTGGGGTTCTGTCCGAGCTGACACCACAGTG
1 AAAAGGCGCGGATCATGAAG-GTGTCTTCGTGGGGTTCTGTCCGAGCTGGCACCACAGTG
* * *
339125 AAAAGGCACGGATCATGAA-GTGTCTTCGTGGGGTTCTGTCCGAGCTGGCACTATAGTG
1 AAAAGGCGCGGATCATGAAGGTGTCTTCGTGGGGTTCTGTCCGAGCTGGCACCACAGTG
* * *
339183 GAAAGGCGCGGATCATGAAGTGTGTCTTCGCGGGGTTATGTCCGAGCTGGCA
1 AAAAGGCGCGGATCATGAAG-GTGTCTTCGTGGGGTTCTGTCCGAGCTGGCA
339235 AAAGACGCAG
Statistics
Matches: 97, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
58 52 0.54
59 6 0.06
60 39 0.40
ACGTcount: A:0.22, C:0.21, G:0.34, T:0.23
Consensus pattern (59 bp):
AAAAGGCGCGGATCATGAAGGTGTCTTCGTGGGGTTCTGTCCGAGCTGGCACCACAGTG
Found at i:343388 original size:13 final size:13
Alignment explanation
Indices: 343370--343414 Score: 90
Period size: 13 Copynumber: 3.5 Consensus size: 13
343360 CCCATAGCCA
343370 TGGCGTGGACGGC
1 TGGCGTGGACGGC
343383 TGGCGTGGACGGC
1 TGGCGTGGACGGC
343396 TGGCGTGGACGGC
1 TGGCGTGGACGGC
343409 TGGCGT
1 TGGCGT
343415 TGGAGCTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.07, C:0.22, G:0.53, T:0.18
Consensus pattern (13 bp):
TGGCGTGGACGGC
Found at i:343714 original size:3 final size:3
Alignment explanation
Indices: 343706--343789 Score: 141
Period size: 3 Copynumber: 28.0 Consensus size: 3
343696 TTAATATATT
*
343706 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
343754 TGA TAA TAA TAA TAA TAA TAA AAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
343790 ATCAATATGG
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:344248 original size:113 final size:113
Alignment explanation
Indices: 344049--344709 Score: 1037
Period size: 113 Copynumber: 5.8 Consensus size: 113
344039 TCTTGATGAG
* *
344049 TTCTTCTCATTATGAACTTCTTCATCATTCTTTC-GATGAGTTCTTCTCATTATGAACT-TTCTC
1 TTCTTCTCATTATGAACTTCTTCATCCTTC-TTCAGATGAGTTCTTCTTATTATGAACTCTT-TC
* * * * * *
344112 TAGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAA-ATCTGAACAAA
64 TGGAAAAGATAATCTATCAAGTGATAGATTTGAGCAAAAGGT-TGAACAAA
***
344162 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCTTTCTG
*
344227 GAAAAGCTAATCTAT-AGAGTGATAGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGATAATCTATCA-AGTGATAGATTTGAGCAAAAGGTTGAACAAA
***
344275 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCTTTCTG
*
344340 GAAAAGCTAATCTATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGATAATCTATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
* *
344388 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCTTTCTG
344453 GAAAAGATAATCTATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGATAATCTATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
*
344501 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT-TTCATTATGAACTCTTTCT
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTT-ATTATGAACTCTTTCT
344565 GGAAAAGATAATCTATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
65 GGAAAAGATAATCTATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
*
344614 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT-TTCATTATGAACTCTTTCT
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTT-ATTATGAACTCTTTCT
*
344678 GGAAAAGATAATCTATCAAATGATAGATTTGA
65 GGAAAAGATAATCTATCAAGTGATAGATTTGA
344710 ATCTTTGCTA
Statistics
Matches: 523, Mismatches: 19, Indels: 12
0.94 0.03 0.02
Matches are distributed among these distances:
112 5 0.01
113 516 0.99
114 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCTTTCTG
GAAAAGATAATCTATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
Found at i:345784 original size:87 final size:87
Alignment explanation
Indices: 345421--345906 Score: 652
Period size: 87 Copynumber: 5.6 Consensus size: 87
345411 CCTACTGAAT
*
345421 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCA----TCTTTCAACT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTTCTTTCAAAT
345482 TCAATGATTGGTTTTGGGGTTCATACCAAAC
66 TCAATGATTGG---T----TT--TACCAAAC
* * * **
345513 CAGATCAGATAACTCAAAGAACACTTCCAGAATATGCTATTGGGCACATTTGTCTTTC---CAAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAAATTCATCTTTCTTTCAAA
* * * *
345575 TTCAATAACTAGTTTTACAAAAC
65 TTCAATGATTGGTTTTACCAAAC
*
345598 CAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATGAGCAAATTCAT-TTTC---CAAAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTTCTTTCAAAT
* * *
345659 TCAATAATTGGTTCTGCCAAAC
66 TCAATGATTGGTTTTACCAAAC
*
345681 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCTTTCAAAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTTCTTTCAAAT
345746 TCAATGATTGGTTTTACCAAAC
66 TCAATGATTGGTTTTACCAAAC
* *
345768 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCATTCTTTCAAAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTTCTTTCAAAT
345833 TCAATGATTGGTTTTACCAAAC
66 TCAATGATTGGTTTTACCAAAC
345855 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCAT
345907 TTGTTCCAAT
Statistics
Matches: 357, Mismatches: 28, Indels: 23
0.88 0.07 0.06
Matches are distributed among these distances:
83 76 0.21
84 13 0.04
85 44 0.12
87 163 0.46
91 1 0.00
92 38 0.11
93 8 0.02
94 12 0.03
97 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (87 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTTCTTTCAAAT
TCAATGATTGGTTTTACCAAAC
Found at i:345890 original size:257 final size:254
Alignment explanation
Indices: 345421--345908 Score: 725
Period size: 257 Copynumber: 1.9 Consensus size: 254
345411 CCTACTGAAT
*
345421 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTTCAACTTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTTCAAATTCAA
*
345486 TGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAATATGCT
66 TGATTGG--TT---GTT-ATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
*
345551 ATTGGGCACATTTGTCTTTCCAAATTCAATAACTAGTTTTACAAAACCAGATCAGATAACTCAAA
125 ATTGAGCACATTTGTCTTTCCAAATTCAATAACTAGTTTTACAAAACCAGATCAGATAACTCAAA
*
345616 GAATACTTCCAGAAGATGCTATGAGCAAATTCATTTTCCAAATTCAATAATTGGTTCTGCCAAAC
190 GAACACTTCCAGAAGATGCTATGAGCAAATTCATTTTCCAAATTCAATAATTGGTTCTGCCAAAC
*
345681 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCTTTCAAAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCA----TCTTTCAAAT
345746 TCAATGATTGG-T-TT-TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-
62 TCAATGATTGGTTGTTATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
* * * * *
345807 TGAGCACATTCATCATTCTTT-CAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCA
127 TGAGCACATT--T--GTCTTTCCAAATTCAATAACTAGTTTTACAAAACCAGATCAGATAACTCA
345871 AAGAACACTTCCAGAAGATGCTATGAGCAAATTCATTT
188 AAGAACACTTCCAGAAGATGCTATGAGCAAATTCATTT
345909 GTTCCAATTA
Statistics
Matches: 210, Mismatches: 10, Indels: 19
0.88 0.04 0.08
Matches are distributed among these distances:
254 9 0.04
255 46 0.22
256 1 0.00
257 78 0.37
258 5 0.02
260 50 0.24
261 1 0.00
264 20 0.10
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (254 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTTCAAATTCAA
TGATTGGTTGTTATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAG
CACATTTGTCTTTCCAAATTCAATAACTAGTTTTACAAAACCAGATCAGATAACTCAAAGAACAC
TTCCAGAAGATGCTATGAGCAAATTCATTTTCCAAATTCAATAATTGGTTCTGCCAAAC
Found at i:347061 original size:7 final size:7
Alignment explanation
Indices: 347049--347117 Score: 68
Period size: 7 Copynumber: 9.4 Consensus size: 7
347039 CTTGACCCCC
347049 CTTTTTT
1 CTTTTTT
347056 CTTTTTTCT
1 C-TTTTT-T
347065 CTTTTTTT
1 C-TTTTTT
347073 CTTTTTT
1 CTTTTTT
* *
347080 CTCTCTT
1 CTTTTTT
347087 CTTTTTT
1 CTTTTTT
347094 -TTTTCTT
1 CTTTT-TT
*
347101 TTTTTTT
1 CTTTTTT
347108 CTTTTTT
1 CTTTTTT
347115 CTT
1 CTT
347118 CAAGCATAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
6 4 0.08
7 30 0.57
8 11 0.21
9 8 0.15
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
CTTTTTT
Found at i:347070 original size:10 final size:10
Alignment explanation
Indices: 347057--347114 Score: 55
Period size: 10 Copynumber: 5.5 Consensus size: 10
347047 CCCTTTTTTC
347057 TTTTTTCTCT
1 TTTTTTCTCT
347067 TTTTTTCT-T
1 TTTTTTCTCT
347076 TTTTCTCTCTTCTT
1 TTTT-T-TC-TC-T
*
347090 TTTTTTTTCT
1 TTTTTTCTCT
*
347100 TTTTTTTTCT
1 TTTTTTCTCT
347110 TTTTT
1 TTTTT
347115 CTTCAAGCAT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
9 5 0.12
10 25 0.60
11 4 0.10
12 2 0.05
13 1 0.02
14 5 0.12
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTCTCT
Found at i:347072 original size:17 final size:17
Alignment explanation
Indices: 347050--347116 Score: 100
Period size: 17 Copynumber: 3.9 Consensus size: 17
347040 TTGACCCCCC
347050 TTTTTTCTTTTTTCTCT
1 TTTTTTCTTTTTTCTCT
347067 TTTTTTCTTTTTTCTCT
1 TTTTTTCTTTTTTCTCT
*
347084 CTTCTTTT-TTTTTTCTTT
1 -TT-TTTTCTTTTTTCTCT
347102 TTTTTTCTTTTTTCT
1 TTTTTTCTTTTTTCT
347117 TCAAGCATAA
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
16 4 0.09
17 27 0.59
18 11 0.24
19 4 0.09
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTCTTTTTTCTCT
Found at i:358568 original size:15 final size:17
Alignment explanation
Indices: 358532--358570 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
358522 TAAAAATATT
358532 TAAAAATATAAAACAAG
1 TAAAAATATAAAACAAG
358549 T-AAAAT-TAAAACAA-
1 TAAAAATATAAAACAAG
358563 TAAAAATA
1 TAAAAATA
358571 CAACTAGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
14 1 0.05
15 13 0.65
16 5 0.25
17 1 0.05
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.21
Consensus pattern (17 bp):
TAAAAATATAAAACAAG
Found at i:359195 original size:13 final size:13
Alignment explanation
Indices: 359177--359207 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
359167 CGGTGTTCGT
359177 CCGCCGCCAGCCA
1 CCGCCGCCAGCCA
*
359190 CCGCCGCCGGCCA
1 CCGCCGCCAGCCA
359203 CCGCC
1 CCGCC
359208 TTCGGTGGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.65, G:0.26, T:0.00
Consensus pattern (13 bp):
CCGCCGCCAGCCA
Found at i:361405 original size:19 final size:19
Alignment explanation
Indices: 361381--361427 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
361371 AGAAATTGGT
361381 TAAATAATTA-AATATAAAA
1 TAAATAATTATAATA-AAAA
*
361400 TAAATATAATATAATAAAAA
1 TAAATA-ATTATAATAAAAA
361420 T-AATAATT
1 TAAATAATT
361428 TTACCTTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 2 0.08
19 10 0.42
20 8 0.33
21 4 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAATAATTATAATAAAAA
Found at i:367762 original size:56 final size:56
Alignment explanation
Indices: 367676--367790 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
367666 CAAATCAAGT
367676 ATCCAAATTGAATCTGAGGGTCTAAAGTAGGGAAGATCAACATATAACATATAAGC
1 ATCCAAATTGAATCTGAGGGTCTAAAGTAGGGAAGATCAACATATAACATATAAGC
367732 ATCCAAATTGAATCTGAGGGTCTAAAGTAGGGAAGATCAACATATAACATATAAGC
1 ATCCAAATTGAATCTGAGGGTCTAAAGTAGGGAAGATCAACATATAACATATAAGC
367788 ATC
1 ATC
367791 ATATTGATCA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (56 bp):
ATCCAAATTGAATCTGAGGGTCTAAAGTAGGGAAGATCAACATATAACATATAAGC
Found at i:367934 original size:23 final size:23
Alignment explanation
Indices: 367866--367934 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
367856 GTCAAACGAC
*
367866 TAAAAACATATCA-AAAGATAAA
1 TAAAAATATATCATAAAGATAAA
* *
367888 GAAAAATATATCATAAAGACAAA
1 TAAAAATATATCATAAAGATAAA
*
367911 TAAAAATATGTCATAAAGATAAA
1 TAAAAATATATCATAAAGATAAA
367934 T
1 T
367935 TTATTTAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
22 11 0.28
23 29 0.73
ACGTcount: A:0.64, C:0.07, G:0.07, T:0.22
Consensus pattern (23 bp):
TAAAAATATATCATAAAGATAAA
Done.