Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, 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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 43 of 138
Found at i:9420882 original size:17 final size:17
Alignment explanation
Indices: 9420823--9420974 Score: 69
Period size: 19 Copynumber: 8.2 Consensus size: 17
9420813 CAAAATCCCA
9420823 AAACCAAA-CCTAAACCC
1 AAACCAAACCCTAAA-CC
* * *
9420840 TAAACTAATCCCCAAACC
1 -AAACCAAACCCTAAACC
*
9420858 TTAAACCAAACCCTAAATC
1 --AAACCAAACCCTAAACC
* *
9420877 AAACCAAGCTCTAAACC
1 AAACCAAACCCTAAACC
9420894 AAACCCTTAAACCC-AAACC
1 AAA-CC--AAACCCTAAACC
*
9420913 AACCCCCAAACCC-AAACC
1 AA--ACCAAACCCTAAACC
9420931 TTAAACCTAAA-CCTAAACCC
1 --AAACC-AAACCCTAAA-CC
9420951 AAACCCAAACCCTCAAACC
1 AAA-CCAAACCCT-AAACC
9420970 TAAAC
1 -AAAC
9420975 AGAATGGAAA
Statistics
Matches: 104, Mismatches: 14, Indels: 31
0.70 0.09 0.21
Matches are distributed among these distances:
17 17 0.16
18 31 0.30
19 40 0.38
20 16 0.15
ACGTcount: A:0.47, C:0.40, G:0.01, T:0.12
Consensus pattern (17 bp):
AAACCAAACCCTAAACC
Found at i:9420974 original size:32 final size:32
Alignment explanation
Indices: 9420892--9420974 Score: 116
Period size: 31 Copynumber: 2.6 Consensus size: 32
9420882 AAGCTCTAAA
* *
9420892 CCAAACCCTTAAACCCAAACCAACCCCCAAAC
1 CCAAACCCTTAAACCTAAACCAACACCCAAAC
9420924 CCAAA-CCTTAAACCTAAACCTAA-ACCCAAAC
1 CCAAACCCTTAAACCTAAACC-AACACCCAAAC
*
9420955 CCAAACCCTCAAACCTAAAC
1 CCAAACCCTTAAACCTAAAC
9420975 AGAATGGAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
31 26 0.57
32 20 0.43
ACGTcount: A:0.46, C:0.45, G:0.00, T:0.10
Consensus pattern (32 bp):
CCAAACCCTTAAACCTAAACCAACACCCAAAC
Found at i:9431182 original size:2 final size:2
Alignment explanation
Indices: 9431175--9431219 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
9431165 AGATAACTTT
* * *
9431175 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TG TA TG TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9431216 TA TA
1 TA TA
9431220 AATACCCATT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9433721 original size:25 final size:24
Alignment explanation
Indices: 9433693--9433743 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
9433683 ATTAATTATC
*
9433693 TAATTTAAA-ATTAATTAATAAAATT
1 TAATTTAAATA-TAA-TAAAAAAATT
9433718 TAATTTAAATATAATAAAAAAATT
1 TAATTTAAATATAATAAAAAAATT
9433742 TA
1 TA
9433744 TAATTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 11 0.46
25 12 0.50
26 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
TAATTTAAATATAATAAAAAAATT
Found at i:9433739 original size:24 final size:25
Alignment explanation
Indices: 9433693--9433743 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
9433683 ATTAATTATC
*
9433693 TAATTTAAAATTAATTAATAAAATT
1 TAATTTAAAATTAATTAAAAAAATT
9433718 TAATTT-AAATATAA-TAAAAAAATT
1 TAATTTAAAAT-TAATTAAAAAAATT
9433742 TA
1 TA
9433744 TAATTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
TAATTTAAAATTAATTAAAAAAATT
Found at i:9433753 original size:25 final size:23
Alignment explanation
Indices: 9433693--9433757 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 23
9433683 ATTAATTATC
* *
9433693 TAATTTAAAATTAATTAATAAAATT
1 TAATTTAATA-TAA-TAAAAAAATT
9433718 TAATTTAAATATAATAAAAAAATTT
1 TAATTT-AATATAATAAAAAAA-TT
9433743 ATAATTTAATA-AATA
1 -TAATTTAATATAATA
9433758 TATGGTAACA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
24 11 0.31
25 15 0.43
26 9 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TAATTTAATATAATAAAAAAATT
Found at i:9438563 original size:48 final size:48
Alignment explanation
Indices: 9438492--9438587 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
9438482 TCAAACTCCT
9438492 TTTGAAGAATGTTCAAGGCATCTCTAGCCTCTTCACTCACATTGTGGA
1 TTTGAAGAATGTTCAAGGCATCTCTAGCCTCTTCACTCACATTGTGGA
**
9438540 TTTGAAGAATGTTCAAGGCATCTCTAGCCTCTTCGTTCACATTGTGGA
1 TTTGAAGAATGTTCAAGGCATCTCTAGCCTCTTCACTCACATTGTGGA
9438588 GAGTATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (48 bp):
TTTGAAGAATGTTCAAGGCATCTCTAGCCTCTTCACTCACATTGTGGA
Found at i:9439400 original size:5 final size:5
Alignment explanation
Indices: 9439390--9439414 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9439380 AAAACTCTTG
9439390 TTTCT TTTCT TTTCT TTTCT TTTCT
1 TTTCT TTTCT TTTCT TTTCT TTTCT
9439415 CGTTGGTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:9439854 original size:27 final size:27
Alignment explanation
Indices: 9439778--9439855 Score: 66
Period size: 27 Copynumber: 2.7 Consensus size: 27
9439768 AATATAAATT
* *
9439778 TTATTTTTAATTTAATTTTTTTAATTTATA
1 TTATTTTT-ATTT--TTATTTTAAATTATA
***
9439808 TATAATTTTTATTAAAATTTTAAATTATA
1 T-T-ATTTTTATTTTTATTTTAAATTATA
9439837 TTATTTTTATTTTTATTTT
1 TTATTTTTATTTTTATTTT
9439856 TTCATATCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
27 14 0.37
28 1 0.03
29 12 0.32
30 1 0.03
31 4 0.11
32 6 0.16
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (27 bp):
TTATTTTTATTTTTATTTTAAATTATA
Found at i:9442015 original size:14 final size:15
Alignment explanation
Indices: 9441990--9442018 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9441980 TAACTTAACC
9441990 GATCGAATTAATTTT
1 GATCGAATTAATTTT
9442005 GATCG-ATTAATTTT
1 GATCGAATTAATTTT
9442019 AAAAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (15 bp):
GATCGAATTAATTTT
Found at i:9447398 original size:196 final size:196
Alignment explanation
Indices: 9447064--9447456 Score: 750
Period size: 196 Copynumber: 2.0 Consensus size: 196
9447054 GGTTAGCTCC
9447064 TTATCTTCTTTCATCTAATTCTACATATATATAAATCAGATAGGGCAAAACTACAAAAATATCAT
1 TTATCTTCTTTCATCTAATTCTACATATATATAAATCAGATAGGGCAAAACTACAAAAATATCAT
9447129 GTCATTTGAATAAAAAATGATTTGATCCTTGAGGTTTAGAAATTGATAGCTTACCAAAATCAGTT
66 GTCATTTGAATAAAAAATGATTTGATCCTTGAGGTTTAGAAATTGATAGCTTACCAAAATCAGTT
9447194 TTATTCATCCGTTACAAACTTACTAATATATATTAATAGTATTTTTTACAAGTATAGACAACAAC
131 TTATTCATCCGTTACAAACTTACTAATATATATTAATAGTATTTTTTACAAGTATAGACAACAAC
9447259 A
196 A
*
9447260 TTATCTTCTTTCATCTATTTCTACATATATATAAATCAGATAGGGCAAAACTACAAAAATATCAT
1 TTATCTTCTTTCATCTAATTCTACATATATATAAATCAGATAGGGCAAAACTACAAAAATATCAT
*
9447325 GTCATTTGAATAAAAAATGATTTGATCCTTGAGGTTTAGAAATTGATAGCTTACCAAAATGAGTT
66 GTCATTTGAATAAAAAATGATTTGATCCTTGAGGTTTAGAAATTGATAGCTTACCAAAATCAGTT
* *
9447390 TTATTCATCTGTTACAAACTTATTAATATATATTAATAGTATTTTTTACAAGTATAGACAACAAC
131 TTATTCATCCGTTACAAACTTACTAATATATATTAATAGTATTTTTTACAAGTATAGACAACAAC
9447455 A
196 A
9447456 T
1 T
9447457 ATAAAAAAAA
Statistics
Matches: 193, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
196 193 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.37
Consensus pattern (196 bp):
TTATCTTCTTTCATCTAATTCTACATATATATAAATCAGATAGGGCAAAACTACAAAAATATCAT
GTCATTTGAATAAAAAATGATTTGATCCTTGAGGTTTAGAAATTGATAGCTTACCAAAATCAGTT
TTATTCATCCGTTACAAACTTACTAATATATATTAATAGTATTTTTTACAAGTATAGACAACAAC
A
Found at i:9449361 original size:2 final size:2
Alignment explanation
Indices: 9449354--9449381 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9449344 ATTAACATTT
9449354 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9449382 GGGATTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9449669 original size:23 final size:25
Alignment explanation
Indices: 9449614--9449669 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 25
9449604 TTTAGAAAGG
*
9449614 AATTTAGAAAGAAGGAATTGTAGAGAG
1 AATTT-GAAAGAA-GAATTGTAGAGAA
*
9449641 AGTTTGAAAGAA-AATTGT-GAGAA
1 AATTTGAAAGAAGAATTGTAGAGAA
9449664 AATTTG
1 AATTTG
9449670 GTTAAATCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 9 0.35
24 6 0.23
26 7 0.27
27 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.27, T:0.27
Consensus pattern (25 bp):
AATTTGAAAGAAGAATTGTAGAGAA
Found at i:9450957 original size:13 final size:15
Alignment explanation
Indices: 9450941--9450974 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
9450931 TTGTACTTGT
9450941 AATTTAA-A-AAAAA
1 AATTTAAGATAAAAA
9450954 AATTTAAGATAAAAA
1 AATTTAAGATAAAAA
9450969 AATTTA
1 AATTTA
9450975 GTTCTCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 1 0.05
15 11 0.58
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (15 bp):
AATTTAAGATAAAAA
Found at i:9451954 original size:37 final size:35
Alignment explanation
Indices: 9451869--9451958 Score: 108
Period size: 36 Copynumber: 2.5 Consensus size: 35
9451859 TGTGGGTATT
* * *
9451869 TTTCTTTAAAAAAAAAAAGATAAGTAATGAAAGTG
1 TTTCTTTAAAAAATAAAAGATAAATAATGAAAGTA
* *
9451904 TTTTTTTAAAAAATAAAAGAATAAATAATGAGAGTA
1 TTTCTTTAAAAAATAAAAG-ATAAATAATGAAAGTA
*
9451940 TTTCCTTATAAAAATAAAA
1 TTTCTTTA-AAAAATAAAA
9451959 TAATTGTTGA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
35 17 0.37
36 19 0.41
37 10 0.22
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.32
Consensus pattern (35 bp):
TTTCTTTAAAAAATAAAAGATAAATAATGAAAGTA
Found at i:9452047 original size:48 final size:49
Alignment explanation
Indices: 9451938--9452060 Score: 140
Period size: 48 Copynumber: 2.5 Consensus size: 49
9451928 ATAATGAGAG
* ** * *
9451938 TATTTCCTTATAAAAATAAAATAATTGTTGATTAGAATAATTAAGGGAAA
1 TATTTCCCTA-AAAAATAAAATAATTGTCAATGAGAATAATTAAGGAAAA
*
9451988 TATTTCCCTAAAAAATAAAATAATTGTCAATGA-AATAATTTAGGAAAA
1 TATTTCCCTAAAAAATAAAATAATTGTCAATGAGAATAATTAAGGAAAA
* * * *
9452036 TGTTTCTCTAAAAATTAAAAGAATT
1 TATTTCCCTAAAAAATAAAATAATT
9452061 CTATGTGAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
48 34 0.54
49 20 0.32
50 9 0.14
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.35
Consensus pattern (49 bp):
TATTTCCCTAAAAAATAAAATAATTGTCAATGAGAATAATTAAGGAAAA
Found at i:9455296 original size:226 final size:226
Alignment explanation
Indices: 9454878--9455310 Score: 514
Period size: 226 Copynumber: 1.9 Consensus size: 226
9454868 TCGTAAAAAT
* * *
9454878 ATATTATTATAATATAAATAATTATGATGGCAATATAAAATTTTAACTAATTATTGTTTTTGTAT
1 ATATTATTATAACATAAATAATTATGATGACAATATAAAATTTTAACTAATTATTATTTTTGTAT
* *
9454943 ATATAAAAAATAACTAAAAATTAAAAAATAAATTGGTAACATAAACAAGTGAGAAAAACGTAAAA
66 ATATAAAAAATAACTAAAAATTAAAAAAT-AA-TGGCAACATAAAAAAGTGAGAAAAACGTAAAA
* ** * * * * * *** * *
9455008 TTGGTATTATTTGGTATACAATGAATAAGAAGTTTTATAACATGCTAAGAAAGAGTTATGATAAT
129 TTAGTAAAATTTAGCATAAAATGAATAAAAAATACCATAACACGCTAAGAAAAAGTTATGATAAT
9455073 TCTAAACGTAATGGAATATAAGAACATAATAGG
194 TCTAAACGTAATGGAATATAAGAACATAATAGG
* * *
9455106 ATATTATTATAACATAAATAATTATGTTGATAATGTAAAATTTTAACTAATTATTATTTTT-TAA
1 ATATTATTATAACATAAATAATTATGATGACAATATAAAATTTTAACTAATTATTATTTTTGT--
** * * * **
9455170 ATATATAAAGGAAATAGTTAAAAATT-GAAAAT-A-GGCAACGTAAAAAAGTGAGAATAGTGTAA
64 ATATATAAA--AAATAACTAAAAATTAAAAAATAATGGCAACATAAAAAAGTGAGAAAAACGTAA
*
9455232 AATTAGTAAAATTTAGCATAAAATGAATAAAAAATACCATAATACGCTAAGAAAAAGTTATGATA
127 AATTAGTAAAATTTAGCATAAAATGAATAAAAAATACCATAACACGCTAAGAAAAAGTTATGATA
*
9455297 ATTTTAAACGTAAT
192 ATTCTAAACGTAAT
9455311 TAAAGGTAGT
Statistics
Matches: 171, Mismatches: 30, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
226 87 0.51
227 1 0.01
228 56 0.33
229 9 0.05
230 5 0.03
231 13 0.08
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.33
Consensus pattern (226 bp):
ATATTATTATAACATAAATAATTATGATGACAATATAAAATTTTAACTAATTATTATTTTTGTAT
ATATAAAAAATAACTAAAAATTAAAAAATAATGGCAACATAAAAAAGTGAGAAAAACGTAAAATT
AGTAAAATTTAGCATAAAATGAATAAAAAATACCATAACACGCTAAGAAAAAGTTATGATAATTC
TAAACGTAATGGAATATAAGAACATAATAGG
Found at i:9455818 original size:232 final size:229
Alignment explanation
Indices: 9454455--9456005 Score: 946
Period size: 227 Copynumber: 6.7 Consensus size: 229
9454445 TTGATAACTT
* * * *
9454455 AAATTTTAAATTAATTATT-TTTTAAACATATAAGAAAAATAGCTAAAAATT--AAAAGATATAT
1 AAATTTT-AATTAATTATTATTTT-TA-ATATAA-AAAAATAACTAAAAATTAAAAAAAATAAAT
* * * * * * * **
9454517 TGGTAACATAATCAAGTTAGAATAAATGTAAAATTAGTATCATTTAGTGA-AAATTGTA-TATGA
62 TGATAACGTAAACAAGTGAGAA-AAACGTAAAATTAGTATAATTTA-T-ATAAAATG-AGTAAAA
* * * * *
9454580 A-TGA-CGTAATACAC-AACAAAGAGTTATGATAATTTTAAACGTAATGAAAACTAAAAATAACT
123 AGT-ATCATAATACACTAAGAAAAAGTTATGATAATTATAAACGTAATGAAAAAT-AAAA-AA-T
* * * *
9454642 TATAAAAAT-T-TTATTATAAAATAAATAATTATGTTAAC-ATCGTA
184 CATAAAAATATATTATTATAAACTAAATAATTATATTAGCAAT-GTA
* * * *
9454686 AAATTTTAATTAATCATCATTCATATAAATATATATAAAAA-AACT---AATT--AAAAAACAAA
1 AAATTTTAATTAATTATTATT--T-TTAATATA-A-AAAAATAACTAAAAATTAAAAAAAATAAA
* * * * *
9454745 TCGATAACGTAAACAAGTGAGAAATA--TAAAATTAGTATCATTTTGTGTAAAAT-AGGTAAAAA
61 TTGATAACGTAAACAAGTGAGAAAAACGTAAAATTAGTAT-AATTTATATAAAATGA-GTAAAAA
* * * * * *
9454807 GTATCGTAATACACTGAGAAAAAGTTATGATAATTTTGAATGTAATGAAAAATAAGAATAATCGT
124 GTATCATAATACACTAAGAAAAAGTTATGATAATTATAAACGTAATGAAAAATAA-AA-AATCAT
* *
9454872 AAAAATATATTATTATAATA-TAAATAATTATGA-TGGCAATATA
187 AAAAATATATTATTATAA-ACTAAATAATTAT-ATTAGCAATGTA
* * *
9454915 AAATTTTAACTAATTATTGTTTTTGTATATATAAAAAATAACTAAAAATT--AAAAAATAAATTG
1 AAATTTTAATTAATTATTATTTTT-AATATA-AAAAAATAACTAAAAATTAAAAAAAATAAATTG
* * * * * * * * *
9454978 GTAACATAAACAAGTGAGAAAAACGTAAAATTGGTATTATTTGGTATACAATGAATAAGAAGTTT
64 ATAACGTAAACAAGTGAGAAAAACGTAAAATTAGTATAATTT-ATATAAAATGAGTAAAAAGTAT
* * ** * * * * * * **
9455043 TATAACATGCTAAGAAAGAGTTATGATAATTCTAAACGTAATGGAATAT-AAGAA-CATAATAGG
128 CATAATACACTAAGAAAAAGTTATGATAATTATAAACGTAATGAAAAATAAAAAATCATAAAAAT
* *
9455106 ATATTATTAT-AACATAAATAATTATGTT-GATAATGTA
193 ATATTATTATAAAC-TAAATAATTATATTAG-CAATGTA
* ** *
9455143 AAATTTTAACTAATTATTATTTTTTAAATATATAAAGGAAATAGTTAAAAATT---GAAAAT--A
1 AAATTTTAATTAATTATTA-TTTTT-AATATA-AAA--AAATAACTAAAAATTAAAAAAAATAAA
** * * ** * * * *
9455203 --GGCAACGTAAAAAAGTGAGAATAGTGTAAAATTAGTAAAATTTAGCATAAAATGAATAAAAAA
61 TTGATAACGTAAACAAGTGAGAAAAACGTAAAATTAGTATAATTTA-TATAAAATGAGTAAAAAG
* * * * **
9455266 TACCATAATACGCTAAGAAAAAGTTATGATAATTTTAAACGTAATTAAAGGTAGTAAAAATCATA
125 TATCATAATACACTAAGAAAAAGTTATGATAATTATAAACGTAATGAAAAATA--AAAAATCATA
* * * ** * *
9455331 AAAAGAAATTATTCTAATGTAAATAATTAAATTACCAATGTA
188 AAAATATATTATTATAAACTAAATAATTATATTAGCAATGTA
* * * * *
9455373 AAATTTTAATTAATT-TTA--TATAATTTAAATAAATAGCTAAAAATTAAAAAACAT--ATT-AG
1 AAATTTTAATTAATTATTATTTTTAATATAAAAAAATAACTAAAAATTAAAAAAAATAAATTGA-
* * * * * * ** * * * ** *
9455432 TAATGTAAACAAGTAAAAAAAATGTAAAATTAATATCATTTGACGTAAACTAATTATGAATTATC
65 TAACGTAAACAAGTGAGAAAAACGTAAAATTAGTATAATTT-ATATAAAATGAGTAAAAAGTATC
* * * * * *
9455497 TTAATACACTAATAAAAAGTTATGACAATTATAAATGTAAT-AAAAATTAAAAACAACTATAATA
129 ATAATACACTAAGAAAAAGTTATGATAATTATAAACGTAATGAAAAA-TAAAAA-ATC-ATAAAA
* * *
9455561 ATATATTATTGT-GACGTAAATAATTATATTAGCAATGCA
191 ATATATTATTATAAAC-TAAATAATTATATTAGCAATGTA
**
9455600 AAATTTTAATTAATTATTATTTTTAATATAAGAAAAATATTTAAAAATTAAAAAAAATAAATTGA
1 AAATTTTAATTAATTATTATTTTTAATATAA-AAAAATAACTAAAAATTAAAAAAAATAAATTGA
* * * *
9455665 TAACGTAAACATGTGAGAATAAACATAAAATTAGTATTATCTTATATAAAAT-AGGTAAAAAGTG
65 TAACGTAAACAAGTGAGAA-AAACGTAAAATTAGTATAAT-TTATATAAAATGA-GTAAAAAGTA
* * * * * * * *
9455729 TCATAGTACATTAAAAAAAAGTTATAATAATTCTAAACATAAAGAAAAATAAAAAATCATAAGAA
127 TCATAATACACTAAGAAAAAGTTATGATAATTATAAACGTAATGAAAAATAAAAAATCATAAAAA
*
9455794 TATATTATTATAAACTAAATAATTATATTAGCAACGTA
192 TATATTATTATAAACTAAATAATTATATTAGCAATGTA
* * * *
9455832 AAATTTTAATTAATTGTCATCCTTGTAAATATATAAGAAAAATAACT-AAAATTAAAAAAAAAAA
1 AAATTTTAATTAATTATTAT--TT-T-TA-ATATAA-AAAAATAACTAAAAATTAAAAAAAATAA
* ** *
9455896 AGTTGATAACGTAAACAAGTGAGAAATAACGTAAAAGTAGTATAATTTGGAGTAAAATGAGTAAG
60 A-TTGATAACGTAAACAAGTGAGAAA-AACGTAAAATTAGTATAATTTATA-TAAAATGAGTAAA
* * * *
9455961 AAGTGTC-TTA-ACACTAAGAAAAAGTTATAATAATTATAAATGTAA
122 AAGTATCATAATACACTAAGAAAAAGTTATGATAATTATAAACGTAA
9456006 CAAAAAATCA
Statistics
Matches: 1031, Mismatches: 216, Indels: 142
0.74 0.16 0.10
Matches are distributed among these distances:
222 14 0.01
224 3 0.00
225 14 0.01
226 125 0.12
227 169 0.16
228 95 0.09
229 93 0.09
230 108 0.10
231 49 0.05
232 126 0.12
233 33 0.03
234 70 0.07
235 38 0.04
236 23 0.02
237 70 0.07
238 1 0.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (229 bp):
AAATTTTAATTAATTATTATTTTTAATATAAAAAAATAACTAAAAATTAAAAAAAATAAATTGAT
AACGTAAACAAGTGAGAAAAACGTAAAATTAGTATAATTTATATAAAATGAGTAAAAAGTATCAT
AATACACTAAGAAAAAGTTATGATAATTATAAACGTAATGAAAAATAAAAAATCATAAAAATATA
TTATTATAAACTAAATAATTATATTAGCAATGTA
Found at i:9456276 original size:29 final size:29
Alignment explanation
Indices: 9456234--9456289 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
9456224 GGTATCTTAT
*
9456234 AAAATAACTATAAA-ATATTATAAAATAAA
1 AAAATAACTATAAAGAAATTA-AAAATAAA
* *
9456263 AAAATAATTCTAAAGAAATTAAAAATA
1 AAAATAACTATAAAGAAATTAAAAATA
9456290 TTAACATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 18 0.78
30 5 0.22
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.27
Consensus pattern (29 bp):
AAAATAACTATAAAGAAATTAAAAATAAA
Found at i:9457087 original size:2 final size:2
Alignment explanation
Indices: 9457082--9457107 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9457072 TTTGTGTGTC
9457082 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
9457108 AAGAAAATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9459009 original size:30 final size:30
Alignment explanation
Indices: 9458932--9459010 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 30
9458922 GTTTTGAGGG
* *
9458932 TTTTAGGG-TTTGGTTTTAAGGTATGGAAG
1 TTTTAGGGTTTTGGTTTTAAGGTATGAAAA
* ** *
9458961 GTTTAGGGTTTTAATTTT-AGAGTTTGAAAA
1 TTTTAGGGTTTTGGTTTTAAG-GTATGAAAA
9458991 TTTTAGGGTTTTGGTTTTAA
1 TTTTAGGGTTTTGGTTTTAA
9459011 AATTTTGGAT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
29 9 0.24
30 28 0.74
31 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (30 bp):
TTTTAGGGTTTTGGTTTTAAGGTATGAAAA
Found at i:9459025 original size:15 final size:15
Alignment explanation
Indices: 9458999--9459039 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
9458989 AATTTTAGGG
9458999 TTTTGG-TTTTAAAA
1 TTTTGGATTTTAAAA
*
9459013 TTTTGGATTTTAAGA
1 TTTTGGATTTTAAAA
9459028 TTTTGGATTTTA
1 TTTTGGATTTTA
9459040 GGGGTTTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.24, C:0.00, G:0.17, T:0.59
Consensus pattern (15 bp):
TTTTGGATTTTAAAA
Found at i:9460553 original size:3 final size:3
Alignment explanation
Indices: 9460545--9460577 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
9460535 ATATGTATAT
9460545 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9460578 ATAGTAGACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:9460818 original size:22 final size:22
Alignment explanation
Indices: 9460790--9460848 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
9460780 TTATGCCCGG
*
9460790 AGGTCTTAAAAATCTTGTCC-GA
1 AGGTCTTAAAAATCATG-CCTGA
* *
9460812 AGGTCTTAAGAATCATGCCTGG
1 AGGTCTTAAAAATCATGCCTGA
9460834 AGGTCTTATAAAATC
1 AGGTCTTA-AAAATC
9460849 GACCAGGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 2 0.06
22 24 0.77
23 5 0.16
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (22 bp):
AGGTCTTAAAAATCATGCCTGA
Found at i:9461104 original size:88 final size:88
Alignment explanation
Indices: 9460946--9461107 Score: 234
Period size: 88 Copynumber: 1.8 Consensus size: 88
9460936 TGCCTAGAGC
* * * **
9460946 TCTTACAGAATCGACTGGGATAACATCGTAAGTCAAAAAATAAAAAATCGATCAGGATAATATTG
1 TCTTACAGAATCGACTGGGACAACATCATAAGTCAAAAAATAAAAAATCGATCAGGATAACACCG
*
9461011 TGAATCGAATTTATGTCCGAAGG
66 CGAATCGAATTTATGTCCGAAGG
* * * *
9461034 TCTTACAGAATCGACTGGGACAACATTATAAGTCAAAAAATGAAGAATCGATCGGGATAACACCG
1 TCTTACAGAATCGACTGGGACAACATCATAAGTCAAAAAATAAAAAATCGATCAGGATAACACCG
9461099 CGAATCGAA
66 CGAATCGAA
9461108 ACTATGCCTG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 64 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (88 bp):
TCTTACAGAATCGACTGGGACAACATCATAAGTCAAAAAATAAAAAATCGATCAGGATAACACCG
CGAATCGAATTTATGTCCGAAGG
Found at i:9461125 original size:88 final size:88
Alignment explanation
Indices: 9460946--9461126 Score: 229
Period size: 88 Copynumber: 2.1 Consensus size: 88
9460936 TGCCTAGAGC
* * * **
9460946 TCTTACAGAATCGACTGGGATAACATCGTAAGTCAAAAAATAAAAAATCGATCAGGATAATATTG
1 TCTTACAGAATCGACTGGGACAACATCATAAGTCAAAAAATAAAAAATCGATCAGGATAACACCG
* ** *
9461011 TGAATCGAATTTATGTCCGAAGG
66 CGAATCGAAACTATGTCCGAAAG
* * * *
9461034 TCTTACAGAATCGACTGGGACAACATTATAAGTCAAAAAATGAAGAATCGATCGGGATAACACCG
1 TCTTACAGAATCGACTGGGACAACATCATAAGTCAAAAAATAAAAAATCGATCAGGATAACACCG
9461099 CGAATCGAAACTATG-CCTGAAAG
66 CGAATCGAAACTATGTCC-GAAAG
9461122 TCTTA
1 TCTTA
9461127 GAAATCATAC
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
87 2 0.03
88 77 0.97
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (88 bp):
TCTTACAGAATCGACTGGGACAACATCATAAGTCAAAAAATAAAAAATCGATCAGGATAACACCG
CGAATCGAAACTATGTCCGAAAG
Found at i:9461246 original size:22 final size:22
Alignment explanation
Indices: 9461216--9461258 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
9461206 CTGAGAATCA
*
9461216 AAATTATGCCCGGAGGTCTTAG
1 AAATCATGCCCGGAGGTCTTAG
9461238 AAATCATGCCCGGAGGTCTTA
1 AAATCATGCCCGGAGGTCTTA
9461259 CAAAATCGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (22 bp):
AAATCATGCCCGGAGGTCTTAG
Found at i:9461277 original size:110 final size:109
Alignment explanation
Indices: 9461027--9461346 Score: 372
Period size: 110 Copynumber: 2.9 Consensus size: 109
9461017 GAATTTATGT
* * *
9461027 CCGAAGGTCTTACAGAATCGACTGGGACAACATTATAAGTCAAAAAATGAAGAATCGATCGGGAT
1 CCGAAGGTCTTACAGAATCGACTGAGATAACATTGTAAGTCAAAAAAT-AAGAATCGATCGGGAT
* * * * * *
9461092 AACACCGCGAATCGAAACTATGCCTGAAAGTCTTAGAAATCATAC
65 AACACCGAGAATCAAAATTATGCCCGGAGGTCTTAGAAATCATAC
* * *
9461137 TCGAAGGTCTTACAGAATCGACTGTGATAACATTGTAAGTCAAAAAATAAGAAATTGATCGGGAT
1 CCGAAGGTCTTACAGAATCGACTGAGATAACATTGTAAGTCAAAAAATAAG-AATCGATCGGGAT
* *
9461202 AACACTGAGAATCAAAATTATGCCCGGAGGTCTTAGAAATCATGC
65 AACACCGAGAATCAAAATTATGCCCGGAGGTCTTAGAAATCATAC
* * * * ** * **
9461247 CCGGAGGTCTTACAAAATCGATTGAAATAACACCGTAAGAT-AAAAAATAAGGAATCAATCGAAA
1 CCGAAGGTCTTACAGAATCGACTGAGATAACATTGTAAG-TCAAAAAATAA-GAATCGATCGGGA
* *
9461311 AAACACCGTGAATCAAAATTATGCCCGGAGGTCTTA
64 TAACACCGAGAATCAAAATTATGCCCGGAGGTCTTA
9461347 CAGAATCGAC
Statistics
Matches: 179, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
109 3 0.02
110 174 0.97
111 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.22
Consensus pattern (109 bp):
CCGAAGGTCTTACAGAATCGACTGAGATAACATTGTAAGTCAAAAAATAAGAATCGATCGGGATA
ACACCGAGAATCAAAATTATGCCCGGAGGTCTTAGAAATCATAC
Found at i:9461503 original size:88 final size:87
Alignment explanation
Indices: 9461397--9461582 Score: 232
Period size: 88 Copynumber: 2.1 Consensus size: 87
9461387 AATCTACGGG
* * * * * * *
9461397 CTTACAAAATCGATTGGGATAACACCCCAAGTCGAAAGATAAAGAATCGATCG-GGATAACATCG
1 CTTAC-AAATCGACTGGGATAACACCACAAGTCAAAAAATAAAGAATCAATCGAGG-TAACACCA
*
9461461 CGAATCAAAATTATG-CTTGGAGGT
64 CGAATCAAAATTATGTC-CGGAGGT
*
9461485 CTTACAGAATCGACTGGGATAACACCACAAGTCAAAAAATAAAGAATCAATCGAGGTAACACCAT
1 CTTACA-AATCGACTGGGATAACACCACAAGTCAAAAAATAAAGAATCAATCGAGGTAACACCAC
*
9461550 GAATCGAAATTATGTCCGGAGGT
65 GAATCAAAATTATGTCCGGAGGT
9461573 CTTACAAATC
1 CTTACAAATC
9461583 TCAAAATATT
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
87 5 0.06
88 77 0.91
89 3 0.04
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (87 bp):
CTTACAAATCGACTGGGATAACACCACAAGTCAAAAAATAAAGAATCAATCGAGGTAACACCACG
AATCAAAATTATGTCCGGAGGT
Found at i:9461753 original size:41 final size:41
Alignment explanation
Indices: 9461700--9461808 Score: 141
Period size: 41 Copynumber: 2.7 Consensus size: 41
9461690 TTCTGATGAA
* *
9461700 GGTTCCAT-TTAAATAGAGGCTTTAAAATCTTGATTGA-AATT
1 GGTTCC-TCTTAAACAGAGGCTTTAAAATCTTGATTGAGAA-C
*
9461741 GGTTCCTCTTAAACAGAGGCTTTGAAATCTTGATTGAGAAC
1 GGTTCCTCTTAAACAGAGGCTTTAAAATCTTGATTGAGAAC
**
9461782 GGTTCCTCTTAAACAGAAACTTTAAAA
1 GGTTCCTCTTAAACAGAGGCTTTAAAA
9461809 CTTTAAAAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
40 1 0.02
41 57 0.95
42 2 0.03
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (41 bp):
GGTTCCTCTTAAACAGAGGCTTTAAAATCTTGATTGAGAAC
Found at i:9470189 original size:17 final size:17
Alignment explanation
Indices: 9470153--9470192 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
9470143 TTTTTCCTCA
***
9470153 AAAATTTATTTTTTTTG
1 AAAATTTATTTTTAAGG
9470170 AAAATTTATTTTTAAGG
1 AAAATTTATTTTTAAGG
9470187 AAAATT
1 AAAATT
9470193 GATACTTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (17 bp):
AAAATTTATTTTTAAGG
Found at i:9470255 original size:60 final size:58
Alignment explanation
Indices: 9470067--9470435 Score: 501
Period size: 59 Copynumber: 6.3 Consensus size: 58
9470057 TTTTATGTAG
* * * * * **
9470067 GGAAAATTGATATTTTTAACTTTTCC-CAAAAATATTCTTTTGAAACTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
*
9470124 GGAAAATTGATACTTTCAATTTTTCCTCAAAAATTTATTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA--TA-TTTTTTTGAAAATTTATTTTTAA
9470185 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-T-ATTTTTTTGAAAATTTATTTTTAA
*
9470245 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAAATTTATTTTTAA
* * *
9470304 GGAAAATTGACACTTTCAACTTTTCC-CAAAAA-ATGTTTTTTGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTGAAAATTT-ATTTTTAA
* ***
9470362 AGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
9470420 GGAAAATTGATACTTT
1 GGAAAATTGATACTTT
9470436 TAAGGAAAAT
Statistics
Matches: 282, Mismatches: 20, Indels: 19
0.88 0.06 0.06
Matches are distributed among these distances:
56 1 0.00
57 37 0.13
58 66 0.23
59 67 0.24
60 60 0.21
61 51 0.18
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
Found at i:9470334 original size:58 final size:59
Alignment explanation
Indices: 9470067--9470598 Score: 558
Period size: 57 Copynumber: 8.7 Consensus size: 59
9470057 TTTTATGTAG
* * * * * **
9470067 GGAAAATTGATATTTTTAACTTTTCC-CAAAAATA-TTCTTTTGAAACTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAA
*
9470124 GGAAAATTGATACTTTCAATTTTTCCTCAAAAATTTATTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTTTGAAAATTTATTTTTAA
9470185 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TGATTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATAT--TTTTTTTGAAAATTTATTTTTAA
*
9470245 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAA
* * * *
9470304 GGAAAATTGACACTTTCAACTTTTCC-CAAAAA-ATGTTTTTTGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTT-ATTTTTAA
* ***
9470362 AGAAAATTGATACTTTCAACTTTTCCTCAAAAA-CCCTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAA
* * *
9470420 GGAAAATTGATACTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTTTTGA
1 GGAAAATTGATAC-TTT-----CAA---CT--TTTC-C-------TCAAAAATA-TTTTTTTTGA
*
9470485 AATTTTATTTTTAA
46 AAATTTATTTTTAA
* *
9470499 GAAAAATTGATACTTTCAACTTTTCC-CAAAAA-ATCTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAA
* *
9470556 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
9470599 ATTTTTATTT
Statistics
Matches: 407, Mismatches: 36, Indels: 62
0.81 0.07 0.12
Matches are distributed among these distances:
57 86 0.21
58 70 0.17
59 84 0.21
60 59 0.14
61 51 0.13
64 2 0.00
67 1 0.00
68 4 0.01
69 4 0.01
70 1 0.00
73 2 0.00
77 7 0.02
78 3 0.01
79 33 0.08
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.45
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAA
Found at i:9470426 original size:17 final size:18
Alignment explanation
Indices: 9470404--9470454 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
9470394 ACCCTTTTTT
*
9470404 GAAAATT-TATTTTTAAG
1 GAAAATTATACTTTTAAG
9470421 GAAAATTGATACTTTTAAG
1 GAAAATT-ATACTTTTAAG
9470440 GAAAATTGATACTTT
1 GAAAATT-ATACTTT
9470455 CAACTTTTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 7 0.23
19 24 0.77
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.41
Consensus pattern (18 bp):
GAAAATTATACTTTTAAG
Found at i:9470438 original size:19 final size:19
Alignment explanation
Indices: 9470414--9470454 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
9470404 GAAAATTTAT
9470414 TTTTAAGGAAAATTGATAC
1 TTTTAAGGAAAATTGATAC
9470433 TTTTAAGGAAAATTGATAC
1 TTTTAAGGAAAATTGATAC
9470452 TTT
1 TTT
9470455 CAACTTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (19 bp):
TTTTAAGGAAAATTGATAC
Found at i:9470449 original size:77 final size:79
Alignment explanation
Indices: 9470363--9470514 Score: 254
Period size: 79 Copynumber: 1.9 Consensus size: 79
9470353 GATTTTCAAA
*
9470363 GAAAATTGATACTTTCAACTTTTCCTC-AAAA-ACCCTTTTTTGAAAATTTATTTTTAAGGAAAA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATACCCTTTTTTGAAAATTTATTTTTAAGAAAAA
9470426 TTGATACTTTTAAG
66 TTGATACTTTTAAG
** *
9470440 GAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTTTTGAAATTTTATTTTTAAGAAAAA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATACCCTTTTTTGAAAATTTATTTTTAAGAAAAA
9470505 TTGATACTTT
66 TTGATACTTT
9470515 CAACTTTTCC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
77 27 0.39
78 4 0.06
79 38 0.55
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (79 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAAATACCCTTTTTTGAAAATTTATTTTTAAGAAAAA
TTGATACTTTTAAG
Found at i:9470554 original size:136 final size:135
Alignment explanation
Indices: 9470298--9470571 Score: 428
Period size: 136 Copynumber: 2.0 Consensus size: 135
9470288 GAAATTTTAT
9470298 TTTTAAGGAAAATTGACACTTTCAACTTTTCCCAAAAAATGTTTTTTGAAACTTTGATTTTCAAA
1 TTTTAAGGAAAATTGACACTTTCAACTTTTCCCAAAAAATGTTTTTTGAAACTTTGATTTTCAAA
* *
9470363 GAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAAGGAAAATT
66 GAAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAATT
9470428 GATAC
131 GATAC
* * *
9470433 TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTTTTGAAA-TTTTATTTT-
1 TTTTAAGGAAAATTGACACTTTCAACTTTTCC-CAAAAA-A-TGTTTTTTGAAACTTTGATTTTC
* *
9470496 TAAGAAAAATTGATACTTTCAACTTTTCC-CAAAAAATCTTTTTTGAAAATTTATTTTTAAGAAA
63 AAAG-AAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTGAAAATTTATTTTTAAGAAA
9470560 AATTGATAC
127 AATTGATAC
9470569 TTT
1 TTT
9470572 CAACTTTTCC
Statistics
Matches: 128, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
135 31 0.24
136 53 0.41
137 33 0.26
138 11 0.09
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.43
Consensus pattern (135 bp):
TTTTAAGGAAAATTGACACTTTCAACTTTTCCCAAAAAATGTTTTTTGAAACTTTGATTTTCAAA
GAAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAATT
GATAC
Found at i:9470568 original size:194 final size:194
Alignment explanation
Indices: 9470239--9470588 Score: 614
Period size: 194 Copynumber: 1.8 Consensus size: 194
9470229 GAAAATTTAT
9470239 TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTTATTTTTAA
1 TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTTATTTTTAA
* * *
9470304 GGAAAATTGACACTTTCAACTTTTCCCAAAAAATGTTTTTTGAAACTTTGATTTTCAAAGAAAAT
66 GAAAAATTGACACTTTCAACTTTTCCCAAAAAATCTTTTTTGAAAATTTGATTTTCAAAGAAAAT
*
9470369 TGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAAGGAAAATTGATAC
131 TGATACTTTCAACTTTTCCCCAAAAACCCTTTTTTGAAAATTTATTTTTAAGGAAAATTGATAC
9470433 TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTTTTGAAATTTTATTTTTA
1 TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTTGAAATTTTATTTTTA
* *
9470498 AGAAAAATTGATACTTTCAACTTTTCCCAAAAAATCTTTTTTGAAAATTT-ATTTT-TAAGAAAA
65 AGAAAAATTGACACTTTCAACTTTTCCCAAAAAATCTTTTTTGAAAATTTGATTTTCAAAG-AAA
9470561 ATTGATACTTTCAACTTTTCCCCAAAAA
129 ATTGATACTTTCAACTTTTCCCCAAAAA
9470589 TATTTTTTTT
Statistics
Matches: 148, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
193 3 0.02
194 76 0.51
195 69 0.47
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.43
Consensus pattern (194 bp):
TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTTATTTTTAA
GAAAAATTGACACTTTCAACTTTTCCCAAAAAATCTTTTTTGAAAATTTGATTTTCAAAGAAAAT
TGATACTTTCAACTTTTCCCCAAAAACCCTTTTTTGAAAATTTATTTTTAAGGAAAATTGATAC
Found at i:9470634 original size:5 final size:5
Alignment explanation
Indices: 9470623--9470693 Score: 63
Period size: 5 Copynumber: 13.4 Consensus size: 5
9470613 AAAATAGAAT
* * *
9470623 AATAA AACAA AATAA AATAAA AATAA AA-AA AAGAA AAGTAA AACAAA
1 AATAA AATAA AATAA AAT-AA AATAA AATAA AATAA AA-TAA AA-TAA
9470670 AATAAA AATAA AATAA AGATAA AA
1 AAT-AA AATAA AATAA A-ATAA AA
9470694 AGAATATTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
4 4 0.07
5 28 0.51
6 23 0.42
ACGTcount: A:0.80, C:0.03, G:0.04, T:0.13
Consensus pattern (5 bp):
AATAA
Found at i:9470647 original size:6 final size:6
Alignment explanation
Indices: 9470631--9470694 Score: 53
Period size: 6 Copynumber: 10.7 Consensus size: 6
9470621 ATAATAAAAC
* *
9470631 AAAAT- AAAATA AAAATA AAAA-A AAGAAAA GTAAAACA AAAATA AAAAT-
1 AAAATA AAAATA AAAATA AAAATA AA-AATA --AAAATA AAAATA AAAATA
*
9470679 AAAATA AAGATA AAAA
1 AAAATA AAAATA AAAA
9470695 GAATATTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
5 13 0.27
6 30 0.61
7 1 0.02
8 3 0.06
9 2 0.04
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (6 bp):
AAAATA
Found at i:9470647 original size:11 final size:11
Alignment explanation
Indices: 9470613--9470693 Score: 71
Period size: 11 Copynumber: 7.4 Consensus size: 11
9470603 TTATTTAAAG
9470613 AAAATAGAATAAT
1 AAAATA-AA-AAT
*
9470626 AAAA-CAAAAT
1 AAAATAAAAAT
9470636 AAAATAAAAAT
1 AAAATAAAAAT
9470647 AAAA-AAAAGA-
1 AAAATAAAA-AT
*
9470657 AAAGTAAAACA-
1 AAAATAAAA-AT
9470668 AAAATAAAAAT
1 AAAATAAAAAT
*
9470679 AAAATAAAGAT
1 AAAATAAAAAT
9470690 AAAA
1 AAAA
9470694 AGAATATTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
10 15 0.26
11 39 0.67
13 4 0.07
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:9470670 original size:17 final size:17
Alignment explanation
Indices: 9470636--9470682 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
9470626 AAAACAAAAT
*
9470636 AAAATAAAAAT-AAA-A
1 AAAAGAAAAATAAAACA
*
9470651 AAAAGAAAAGTAAAACA
1 AAAAGAAAAATAAAACA
*
9470668 AAAATAAAAATAAAA
1 AAAAGAAAAATAAAA
9470683 TAAAGATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 9 0.35
16 3 0.12
17 14 0.54
ACGTcount: A:0.83, C:0.02, G:0.04, T:0.11
Consensus pattern (17 bp):
AAAAGAAAAATAAAACA
Found at i:9470671 original size:26 final size:25
Alignment explanation
Indices: 9470626--9470677 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
9470616 ATAGAATAAT
*
9470626 AAAACAAAATAAAATAAAAATAAAA
1 AAAACAAAATAAAACAAAAATAAAA
*
9470651 AAAAGAAAAGTAAAACAAAAATAAAA
1 AAAACAAAA-TAAAACAAAAATAAAA
9470677 A
1 A
9470678 TAAAATAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.83, C:0.04, G:0.04, T:0.10
Consensus pattern (25 bp):
AAAACAAAATAAAACAAAAATAAAA
Found at i:9470724 original size:4 final size:4
Alignment explanation
Indices: 9470717--9470766 Score: 75
Period size: 4 Copynumber: 12.8 Consensus size: 4
9470707 AACCTAATCT
* *
9470717 AATA AATA AA-A AATA AATA AATA AACA AATA AACA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
9470764 AAT
1 AAT
9470767 TCAAAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 3 0.07
4 38 0.93
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:9471681 original size:25 final size:24
Alignment explanation
Indices: 9471603--9471722 Score: 83
Period size: 25 Copynumber: 5.1 Consensus size: 24
9471593 TAAAAATCAG
*
9471603 ATAAAAAAAT-TTA-AT-AGATAA
1 ATAAAAAAATAATATATAAGATAA
* *
9471624 TTAGAAAAATAATA-ATAAGATAA
1 ATAAAAAAATAATATATAAGATAA
* *
9471647 AT-TAACAATAATATTATAAGATAA
1 ATAAAAAAATAATA-TATAAGATAA
9471671 ATAAAAAAATAATA-ATAACAGATAA
1 ATAAAAAAATAATATAT-A-AGATAA
* * *
9471696 ATAAATATATAATTAGATAA-ATAA
1 ATAAAAAAATAA-TATATAAGATAA
9471720 ATA
1 ATA
9471723 TACATATAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
21 8 0.10
22 13 0.16
23 9 0.11
24 19 0.24
25 26 0.32
26 3 0.04
27 2 0.03
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (24 bp):
ATAAAAAAATAATATATAAGATAA
Found at i:9471758 original size:15 final size:16
Alignment explanation
Indices: 9471730--9471766 Score: 58
Period size: 15 Copynumber: 2.3 Consensus size: 16
9471720 ATATACATAT
9471730 AAAATAAAATGAAAAAG
1 AAAA-AAAATGAAAAAG
9471747 AAAAAAAA-GAAAAAG
1 AAAAAAAATGAAAAAG
9471762 AAAAA
1 AAAAA
9471767 TATATATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 12 0.60
16 4 0.20
17 4 0.20
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (16 bp):
AAAAAAAATGAAAAAG
Found at i:9471854 original size:11 final size:11
Alignment explanation
Indices: 9471833--9471883 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
9471823 AAATATATAC
9471833 ATAAAATATAAA
1 ATAAAA-ATAAA
9471845 ATAAAAATAAA
1 ATAAAAATAAA
9471856 ATAAAAATAACA
1 ATAAAAATAA-A
*
9471868 A-AAAGATAAA
1 ATAAAAATAAA
*
9471878 ACAAAA
1 ATAAAA
9471884 TTGGGCTTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 2 0.06
11 25 0.71
12 8 0.23
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:9471864 original size:17 final size:18
Alignment explanation
Indices: 9471833--9471878 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
9471823 AAATATATAC
9471833 ATAAAATATAAAATAA-AA
1 ATAAAATA-AAAATAACAA
9471851 ATAAAATAAAAATAACAA
1 ATAAAATAAAAATAACAA
*
9471869 A-AAGATAAAA
1 ATAAAATAAAA
9471879 CAAAATTGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (18 bp):
ATAAAATAAAAATAACAA
Found at i:9472538 original size:30 final size:29
Alignment explanation
Indices: 9472442--9472582 Score: 101
Period size: 30 Copynumber: 4.8 Consensus size: 29
9472432 TGAAGATTCG
* *
9472442 GATTTTAAGGGTTTGGA-TTTAAGTTTAGAG
1 GATTTT-AGGGTTTTGATTTTAAGTTT-GAA
* * *
9472472 GGTTTTAGGG-TTTGGTTTTAAGGTATGGAA
1 GATTTTAGGGTTTTGATTTTAA-GT-TTGAA
9472502 GA-TTTAGGGTTTTGATTTTAGAGTTTGAA
1 GATTTTAGGGTTTTGATTTTA-AGTTTGAA
* * * *
9472531 GATTTTAGGGTTTCGGTTTTAAATTT-TA
1 GATTTTAGGGTTTTGATTTTAAGTTTGAA
* *
9472559 GATTTTAAGATTTTGGATTTTAAG
1 GATTTTAGGGTTTT-GATTTTAAG
9472583 GGATTTTGGA
Statistics
Matches: 87, Mismatches: 17, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
28 15 0.17
29 33 0.38
30 37 0.43
31 2 0.02
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.48
Consensus pattern (29 bp):
GATTTTAGGGTTTTGATTTTAAGTTTGAA
Found at i:9472589 original size:17 final size:17
Alignment explanation
Indices: 9472553--9472605 Score: 76
Period size: 15 Copynumber: 3.3 Consensus size: 17
9472543 TCGGTTTTAA
*
9472553 ATTTTAGATTTTAA--G
1 ATTTTGGATTTTAAGGG
9472568 ATTTTGGATTTTAAGGG
1 ATTTTGGATTTTAAGGG
9472585 ATTTTGGATTTT-AGGG
1 ATTTTGGATTTTAAGGG
9472601 ATTTT
1 ATTTT
9472606 AGAAACCTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
15 13 0.37
16 9 0.26
17 13 0.37
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.53
Consensus pattern (17 bp):
ATTTTGGATTTTAAGGG
Found at i:9473023 original size:22 final size:23
Alignment explanation
Indices: 9472992--9473038 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
9472982 ATCATGTAAG
9472992 AATAAAAAAAAAAAAAAC-TAAA
1 AATAAAAAAAAAAAAAACATAAA
* * *
9473014 AATAACAAAAATAATAACATAAA
1 AATAAAAAAAAAAAAAACATAAA
9473037 AA
1 AA
9473039 AATTAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (23 bp):
AATAAAAAAAAAAAAAACATAAA
Found at i:9475433 original size:231 final size:230
Alignment explanation
Indices: 9474744--9475535 Score: 718
Period size: 233 Copynumber: 3.4 Consensus size: 230
9474734 GTTGATAATT
* *
9474744 TAAAATTTTAACTAATTATTATTTTTAAAATATATA-AAGGAAATAGTTAAAAATT--GAAAAT-
1 TAAAATTTTAATTAATTATTA-TTTT-AAATATA-AGAA--AAATAGTT-AAAATTAAAAAAATA
* * * * *
9474805 AA---ATAATGTAAAAAAGTGAG-AAAAACATAAAATTAGTATAATTT-AGTATAAAATAAATAA
60 AATTGATAATGTAAACAAGTGAGAAAAAACATAAAATTAATATCATTTGA-CATAAAATAGATAA
* *
9474865 AAAGTATCGTAATACACTAAGAAAAAGTTATGATAATTTTAAACGTAATTAAAGGTAGTAAAA-A
124 AAAGTATCATAATACACTAA-AAAAAGTTATGATAATTTTAAACGTAATAAAAGGTA--AAAACA
* * * * * *
9474929 TCATAAAAAGAAATTATTCTAATGTAAATAATTAAATT-GCAATG
186 TCATAAAAATATATTATTATAAAGTAAATAATTATATTAGCAATA
* *
9474973 TAAAATTTTAATTAATT-TT-TTATAAATATAAGAAAAATAGCTAAAAATTAAAAAACAT--ATT
1 TAAAATTTTAATTAATTATTATTTTAAATATAAGAAAAATAG-TTAAAATTAAAAAA-ATAAATT
* * * *
9475034 GATAATATAAACAAGTGAAAAAAAAAAAACATAAAATTAGTATCATTTGACAT-AAATTGATTAA
64 GATAATGTAAACAAGTG----AGAAAAAACATAAAATTAATATCATTTGACATAAAATAGA-TAA
* * * * * * * **
9475098 GAATTATCTTAATACACTAAAAAAAAGTTATGACAGTTATAAATGTAATAAAAATTAAAAACAAT
124 AAAGTATCATAATACACT-AAAAAAAGTTATGATAATTTTAAACGTAATAAAAGGTAAAAAC-AT
* * * *
9475163 CATAATAATATATTATTATAACGTATATAATTATATTAGCAATT
187 CATAAAAATATATTATTATAAAGTAAATAATTATATTAGCAATA
* * *
9475207 TAAAATTTTAATTAATTATTATTTTTAATATAAGGAAAATATTTACAAATTAAAAAAATAAATTG
1 TAAAATTTTAATTAATTATTATTTTAAATATAAGAAAAATAGTTA-AAATTAAAAAAATAAATTG
* * * ** * * ** *
9475272 ATAACGTAAACATGTGAGAACAAATGTACAATTAATATTATTTGATGTAAAATAGATAAAAAGTG
65 ATAATGTAAACAAGTGAGAAAAAACATAAAATTAATATCATTTGACATAAAATAGATAAAAAGTA
* * * * *
9475337 TCATAATACATTAAAAAGAAGTTATAATAATTTTAAACATAATAAAAGGTAAAAACCT-ATAAGA
130 TCATAATACACTAAAAA-AAGTTATGATAATTTTAAACGTAATAAAAGGTAAAAACATCATAAAA
*
9475401 ATATATTATTATAAAGTAAATAATTATATTAGCAACA
194 ATATATTATTATAAAGTAAATAATTATATTAGCAATA
* *
9475438 TAAAATTTTAATTAATTATTATTCTTGCAAATATATAAAAAAATAGTTAAAATTAGAAAAATAAA
1 TAAAATTTTAATTAATTATTATT-TT--AAATATA-AGAAAAATAGTTAAAATTAAAAAAATAAA
* * *
9475503 TTAATAATGTAAACAAGTGAGAAATAACGTAAA
62 TTGATAATGTAAACAAGTGAGAAAAAACATAAA
9475536 GCTAGTGTAA
Statistics
Matches: 455, Mismatches: 78, Indels: 55
0.77 0.13 0.09
Matches are distributed among these distances:
223 12 0.03
224 2 0.00
225 13 0.03
226 5 0.01
228 16 0.04
229 16 0.04
231 65 0.14
232 14 0.03
233 173 0.38
234 78 0.17
235 16 0.04
236 28 0.06
237 17 0.04
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (230 bp):
TAAAATTTTAATTAATTATTATTTTAAATATAAGAAAAATAGTTAAAATTAAAAAAATAAATTGA
TAATGTAAACAAGTGAGAAAAAACATAAAATTAATATCATTTGACATAAAATAGATAAAAAGTAT
CATAATACACTAAAAAAAGTTATGATAATTTTAAACGTAATAAAAGGTAAAAACATCATAAAAAT
ATATTATTATAAAGTAAATAATTATATTAGCAATA
Found at i:9475662 original size:18 final size:17
Alignment explanation
Indices: 9475626--9475664 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
9475616 AATAAGAATA
9475626 ATTGTAAGAAATATATT
1 ATTGTAAGAAATATATT
* *
9475643 ATTGTAATGTAATTTATT
1 ATTGTAA-GAAATATATT
9475661 ATTG
1 ATTG
9475665 CTTTTACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (17 bp):
ATTGTAAGAAATATATT
Found at i:9477049 original size:203 final size:204
Alignment explanation
Indices: 9476700--9477110 Score: 815
Period size: 203 Copynumber: 2.0 Consensus size: 204
9476690 CCTGCCAAGT
9476700 CCAACAAAACTTATAAATGAGTACATACGGTAACAATATTCAGCTTATGAAGATTGTTTACATTC
1 CCAACAAAACTTATAAATGAGTACATACGGTAACAATATTCAGCTTATGAAGATTGTTTACATTC
9476765 GAAATAAGGATGGCTGTAACTCAACAAGCAAATATACTGCTATTGCTATATTGTTTACATCCAAA
66 GAAATAAGGATGGCTGTAACTCAACAAGCAAATATACTGCTATTGCTATATTGTTTACATCCAAA
9476830 AGAGAAAGGCATTTGGCCTTCCACATACC-ATAGCAGCAACATTGTAATGAAAGTTGCAAGAAAA
131 AGAGAAAGGCATTTGGCCTTCCACATACCTATAGCAGCAACATTGTAATGAAAGTTGCAAGAAAA
9476894 TTTGATGAA
196 TTTGATGAA
9476903 CCAACAAAACTTATAAATGAGTACATACGGTAACAATATTCAGCTTATGAAGATTGTTTACATTC
1 CCAACAAAACTTATAAATGAGTACATACGGTAACAATATTCAGCTTATGAAGATTGTTTACATTC
9476968 GAAATAAGGATGGCTGTAACTCAACAAGCAAATATACTGCTATTGCTATATTGTTTACATCCAAA
66 GAAATAAGGATGGCTGTAACTCAACAAGCAAATATACTGCTATTGCTATATTGTTTACATCCAAA
9477033 AGAGAAAGGCATTTGGCCTTCCACATACCTATAGCAGCAACATTGTAATGAAAGTTGCAAGAAAA
131 AGAGAAAGGCATTTGGCCTTCCACATACCTATAGCAGCAACATTGTAATGAAAGTTGCAAGAAAA
9477098 TTTGATGAA
196 TTTGATGAA
9477107 CCAA
1 CCAA
9477111 ATATCACACT
Statistics
Matches: 207, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
203 159 0.77
204 48 0.23
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.27
Consensus pattern (204 bp):
CCAACAAAACTTATAAATGAGTACATACGGTAACAATATTCAGCTTATGAAGATTGTTTACATTC
GAAATAAGGATGGCTGTAACTCAACAAGCAAATATACTGCTATTGCTATATTGTTTACATCCAAA
AGAGAAAGGCATTTGGCCTTCCACATACCTATAGCAGCAACATTGTAATGAAAGTTGCAAGAAAA
TTTGATGAA
Found at i:9479557 original size:16 final size:16
Alignment explanation
Indices: 9479536--9479571 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
9479526 ACATCCAACT
9479536 TAAAATCAATTGACAA
1 TAAAATCAATTGACAA
*
9479552 TAAAATCAATTGACGA
1 TAAAATCAATTGACAA
9479568 TAAA
1 TAAA
9479572 TGAAGAGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.56, C:0.11, G:0.08, T:0.25
Consensus pattern (16 bp):
TAAAATCAATTGACAA
Found at i:9480816 original size:15 final size:15
Alignment explanation
Indices: 9480796--9480825 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9480786 ATAAAGTATC
9480796 GTAACATATTATAAA
1 GTAACATATTATAAA
9480811 GTAACATATTATAAA
1 GTAACATATTATAAA
9480826 AGAATTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (15 bp):
GTAACATATTATAAA
Found at i:9481418 original size:236 final size:235
Alignment explanation
Indices: 9480912--9481452 Score: 544
Period size: 235 Copynumber: 2.3 Consensus size: 235
9480902 GTAAGTAATG
*
9480912 TAAAATTTTAATTAATTATTATTTTTGTAAATATATAAACAAAATAATTAAAAATTAAAAAACAA
1 TAAAATTTTAATTAATTATTA-TTTTGT-AA-ATATAAACAAAATAACTAAAAATTAAAAAACAA
*
9480977 ATAGGTAACGTAAACAAGTGAGAAAAGTTGTAAAAATCGTATAATTTGATGTAAAATGAATTAAA
63 ATAGGTAACGTAAACAAGTGAGAAAAGTTGTAAAAATCGTATAATTTGACGTAAAATGAATTAAA
* * *
9481042 AAATCATAACAAACATTAAGAGAGAATTATAACAATTCTAAACATAATAAAAAGTAAAAAATAGC
128 AAATCATAAC-AACATTAAAAGAGAATTACAACAATTCTAAACATAATAAAAAGTAAAAAATAAC
* *
9481107 CATAAGAAAATATTATTGTAACATAAATAATTAAGCAAACAACA
192 CATAAGAAAATATTATTATAACATAAATAATGAAGCAAACAACA
* *
9481151 TAAAATTTTAGTTAATTATTATTTTGTAAATATACA-AAAATAACT-AAAATCTAAAAAAACAAA
1 TAAAATTTTAATTAATTATTATTTTGTAAATATAAACAAAATAACTAAAAAT-T-AAAAAACAAA
* ** * * *
9481214 TAGGTAATGTAAACAAGTGAGAAAAAAG-TGTAAATTTTGTATCATTTGGCGTAAAATGAA-TAA
64 TAGGTAACGTAAACAAGTGAG--AAAAGTTGTAAAAATCGTATAATTTGACGTAAAATGAATTAA
* ** * * *** *
9481277 GAAGTATCATAAC-TTATTAAAAGA-AAGTTACAACAATTTTAAAC-TTATTGGAA-TATAAGAA
127 -AA-AATCATAACAACATTAAAAGAGAA-TTACAACAATTCTAAACATAATAAAAAGTA-AAAAA
* ****
9481338 TAACCATACA-AAAATATTATTATAACATAAATAGTGAAGTTGGCAACA
188 TAACCATA-AGAAAATATTATTATAACATAAATAATGAAGCAAACAACA
* * * * * *
9481386 TAAATTTTTAATTAATTGTTATTCTAGTAAATATATAAGAAAAATATCTAATAAA-TAAAAAAAA
1 TAAAATTTTAATTAATTATTATT-TTGTAAATATA-AA-CAAAATAACTAA-AAATTAAAAAACA
9481450 AAT
62 AAT
9481453 TTTTTTGGTA
Statistics
Matches: 251, Mismatches: 36, Indels: 31
0.79 0.11 0.10
Matches are distributed among these distances:
234 7 0.03
235 78 0.31
236 73 0.29
237 31 0.12
238 29 0.12
239 29 0.12
240 1 0.00
241 3 0.01
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (235 bp):
TAAAATTTTAATTAATTATTATTTTGTAAATATAAACAAAATAACTAAAAATTAAAAAACAAATA
GGTAACGTAAACAAGTGAGAAAAGTTGTAAAAATCGTATAATTTGACGTAAAATGAATTAAAAAA
TCATAACAACATTAAAAGAGAATTACAACAATTCTAAACATAATAAAAAGTAAAAAATAACCATA
AGAAAATATTATTATAACATAAATAATGAAGCAAACAACA
Found at i:9485593 original size:12 final size:11
Alignment explanation
Indices: 9485566--9485591 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9485556 CATGCAGGTC
9485566 TTTTCTTTTTT
1 TTTTCTTTTTT
9485577 TTTTCTTTTTT
1 TTTTCTTTTTT
9485588 TTTT
1 TTTT
9485592 TCACTATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:9487710 original size:84 final size:82
Alignment explanation
Indices: 9487599--9487943 Score: 210
Period size: 84 Copynumber: 4.1 Consensus size: 82
9487589 ATACTTAAAC
* ** * *
9487599 AAATTTAGCTCAGAAA-ACTAATGAATCTTGTTTGGAATACTTAGAGACTATGCCTAAAGGTCTT
1 AAATTTAGCTCA-AAAGACTTACAAATCTTGTTT-GAAAACTTAGAGACTATGCCTGAAGGTCTT
* *
9487663 ACAAATCTTGATATGAAAAT
64 ATAAATCTTGACAT-AAAAT
* * * ** * *
9487683 AAATTTAGCTCAAAAGACTTACAAATCTCGCTTGAAGGACTTAGAGACTACACCCGAAGGTCTTG
1 AAATTTAGCTCAAAAGACTTACAAATCTTGTTTGAA-AACTTAGAGACTATGCCTGAAGGTCTTA
* *
9487748 TAAATCTTGAGACTAAAAG
65 TAAATCTTGACA-TAAAAT
* * * * * *** * * * * *
9487767 AGATTCAACTCGAATGACTTACAAATCTTGTCCAAAAAATGTAAAGATTATGCTTGAAGGTTTTA
1 AAATTTAGCTCAAAAGACTTACAAATCTTGTTTGAAAACT-TAGAGACTATGCCTGAAGGTCTTA
*
9487832 TAAATCTCGACATTAAAAT
65 TAAATCTTGACA-TAAAAT
* * * * * * * * *
9487851 AAATTTAGCTAAAAAAACTTACAAATCTTG-TTGAAGGATTTAAAAATTATGCC-CAGAGGTTTT
1 AAATTTAGCTCAAAAGACTTACAAATCTTGTTTGAA-AACTTAGAGACTATGCCTGA-AGGTCTT
*
9487914 ATAAATCTCGACACTAAAAT
64 ATAAATCTTGACA-TAAAAT
*
9487934 AAATTCAGCT
1 AAATTTAGCT
9487944 TAGAACCCTA
Statistics
Matches: 200, Mismatches: 55, Indels: 13
0.75 0.21 0.05
Matches are distributed among these distances:
82 1 0.00
83 56 0.28
84 142 0.71
85 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.30
Consensus pattern (82 bp):
AAATTTAGCTCAAAAGACTTACAAATCTTGTTTGAAAACTTAGAGACTATGCCTGAAGGTCTTAT
AAATCTTGACATAAAAT
Found at i:9487971 original size:83 final size:83
Alignment explanation
Indices: 9487824--9488061 Score: 212
Period size: 83 Copynumber: 2.9 Consensus size: 83
9487814 TTATGCTTGA
* * * **
9487824 AGGTTTTATAAATCTCGACATTAAAATAAATTTAGCTAAAAAAACTTACAAATCTTGTTGAAGGA
1 AGGTTTTATAAATCTCGACACTAAAATAAATTCAGCTAAAAAAACCTACAAATCTTGTCAAAGGA
*
9487889 TTTAAAAATTATGCCCAG
66 CTTAAAAATTATGCCCAG
* * * * *
9487907 AGGTTTTATAAATCTCGACACTAAAATAAATTCAGCT-TAGAACCCTATAAATTTTGTCCAAAGG
1 AGGTTTTATAAATCTCGACACTAAAATAAATTCAGCTAAAAAAACCTACAAATCTTGT-CAAAGG
* *
9487971 ACTTAAAGATTATGCTC-G
65 ACTTAAAAATTATGCCCAG
* * * * * *** * *
9487989 AAAGTCTTATAAATCTC-ATAACTAAAGTAAATTCAACTTGGAAAACTTACGAATCTTGTCCAAA
1 -AGGTTTTATAAATCTCGA-CACTAAAATAAATTCAGCTAAAAAAACCTACAAATCTTGT-CAAA
9488053 GGACTTAAA
63 GGACTTAAA
9488062 GGCTATATCG
Statistics
Matches: 125, Mismatches: 26, Indels: 7
0.79 0.16 0.04
Matches are distributed among these distances:
82 16 0.13
83 83 0.66
84 26 0.21
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (83 bp):
AGGTTTTATAAATCTCGACACTAAAATAAATTCAGCTAAAAAAACCTACAAATCTTGTCAAAGGA
CTTAAAAATTATGCCCAG
Found at i:9488717 original size:29 final size:28
Alignment explanation
Indices: 9488658--9488726 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
9488648 AAATAGAATT
* * *
9488658 ATGCAATAGATTAAACTTTATCTAAATC
1 ATGCAATAAATTAAACTTAATCTAAAAC
9488686 ATGCAATAAAGTTAAA-TTAATCTATAAAC
1 ATGCAATAAA-TTAAACTTAATCTA-AAAC
9488715 ATGCAAATAAAT
1 ATGC-AATAAAT
9488727 CGAATTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 16 0.46
29 13 0.37
30 6 0.17
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (28 bp):
ATGCAATAAATTAAACTTAATCTAAAAC
Found at i:9490206 original size:20 final size:21
Alignment explanation
Indices: 9490162--9490207 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
9490152 TATTATGCAT
*
9490162 CAAGAATCTTCCAAGATTGAT
1 CAAGAATCTTCCAAGATTGAA
* *
9490183 CAAGAATCTT-TAAGATTTAA
1 CAAGAATCTTCCAAGATTGAA
9490203 CAAGA
1 CAAGA
9490208 TTCATTCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (21 bp):
CAAGAATCTTCCAAGATTGAA
Found at i:9490927 original size:31 final size:32
Alignment explanation
Indices: 9490858--9490928 Score: 94
Period size: 31 Copynumber: 2.2 Consensus size: 32
9490848 ATTGGTGCCA
9490858 TAGGCTTAAAATCTTATCTGTGCCAACTTAAT
1 TAGGCTTAAAATCTTATCTGTGCCAACTTAAT
*
9490890 TGGGCTTAAAAT-TTAAT-TGTGCCAAC-TAGAT
1 TAGGCTTAAAATCTT-ATCTGTGCCAACTTA-AT
9490921 TAGGCTTA
1 TAGGCTTA
9490929 TTAATTCTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 2 0.06
31 20 0.57
32 13 0.37
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (32 bp):
TAGGCTTAAAATCTTATCTGTGCCAACTTAAT
Found at i:9491201 original size:26 final size:26
Alignment explanation
Indices: 9491165--9491215 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
9491155 CAATTATAAC
9491165 TGATGCCATGGGCTTAGAA-TCTCAAT
1 TGATGCCATGGGCTT-GAATTCTCAAT
9491191 TGATGCCATGGGCTTGAATTCTCAA
1 TGATGCCATGGGCTTGAATTCTCAA
9491216 CTAATAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 3 0.12
26 21 0.88
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (26 bp):
TGATGCCATGGGCTTGAATTCTCAAT
Found at i:9491479 original size:15 final size:14
Alignment explanation
Indices: 9491454--9491484 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
9491444 TTCTAAAAAT
9491454 AATGGTGCAAATGC
1 AATGGTGCAAATGC
9491468 AATGGATGCAAATGC
1 AATGG-TGCAAATGC
9491483 AA
1 AA
9491485 ATATTCTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.19
Consensus pattern (14 bp):
AATGGTGCAAATGC
Found at i:9491772 original size:45 final size:45
Alignment explanation
Indices: 9491721--9491842 Score: 147
Period size: 45 Copynumber: 2.7 Consensus size: 45
9491711 TCACACATGA
** *
9491721 AGAGATTCGTATCCAAAAA-CAAAATATTTACATTTAAAAATTGTC
1 AGAGATTCACATCCAAAAATC-AAATATTCACATTTAAAAATTGTC
* * * *
9491766 AGAGATTCACATCTAAAAATCAAATATTCACATTTGAAAATTTTT
1 AGAGATTCACATCCAAAAATCAAATATTCACATTTAAAAATTGTC
* *
9491811 AAAGATTCACATCTAAAAATCAAATATTCACA
1 AGAGATTCACATCCAAAAATCAAATATTCACA
9491843 CTTCAAATAT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 67 0.99
46 1 0.01
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.31
Consensus pattern (45 bp):
AGAGATTCACATCCAAAAATCAAATATTCACATTTAAAAATTGTC
Found at i:9491782 original size:24 final size:23
Alignment explanation
Indices: 9491750--9491842 Score: 77
Period size: 21 Copynumber: 4.1 Consensus size: 23
9491740 CAAAATATTT
* *
9491750 ACATTTAAAAATTGTCAGAGATTC
1 ACATCTAAAAATT-TCAAAGATTC
*
9491774 ACATCTAAAAA--TCAAATATTC
1 ACATCTAAAAATTTCAAAGATTC
* * *
9491795 ACATTTGAAAATTTTTAAAGATTC
1 ACATCT-AAAAATTTCAAAGATTC
*
9491819 ACATCTAAAAA--TCAAATATTC
1 ACATCTAAAAATTTCAAAGATTC
9491840 ACA
1 ACA
9491843 CTTCAAATAT
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
21 24 0.44
22 4 0.07
23 4 0.07
24 23 0.42
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.32
Consensus pattern (23 bp):
ACATCTAAAAATTTCAAAGATTC
Found at i:9491796 original size:21 final size:21
Alignment explanation
Indices: 9491770--9491842 Score: 83
Period size: 21 Copynumber: 3.3 Consensus size: 21
9491760 ATTGTCAGAG
9491770 ATTCACATCTAAAAATCAAAT
1 ATTCACATCTAAAAATCAAAT
* * * *
9491791 ATTCACATTTGAAAATTTTTAAAG
1 ATTCACATCT-AAAA--ATCAAAT
9491815 ATTCACATCTAAAAATCAAAT
1 ATTCACATCTAAAAATCAAAT
9491836 ATTCACA
1 ATTCACA
9491843 CTTCAAATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
21 20 0.49
22 4 0.10
23 4 0.10
24 13 0.32
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (21 bp):
ATTCACATCTAAAAATCAAAT
Found at i:9491835 original size:127 final size:126
Alignment explanation
Indices: 9491652--9491934 Score: 340
Period size: 127 Copynumber: 2.2 Consensus size: 126
9491642 CTCTCAAAAC
* * *
9491652 AAAAACTCAAAGATTCTCGTTTGAAAATTTTCAAAGTTACATATCTAAAAATCAAATATTCACAC
1 AAAAA-TCAAAGATTCACATTTGAAAATTTTCAAAGTTACACATCTAAAAATCAAATATTCACAC
* * * * *
9491717 ATGAAGAGATTCGTATCCAAAA-ACAAAATATT-TACATTTAAAAATTGTCAGAGATTCACATCT
65 ATCAA-AGATTCATATCCAAAAGACAAAAGATTCT-CATTTAAAAATT-TCAAAAATTCACATCT
* *
9491780 AAAAATCAAATATTCACATTTGAAAATTTTTAAAGATT-CACATCTAAAAATCAAATATTCACAC
1 AAAAATCAAAGATTCACATTTGAAAATTTTCAAAG-TTACACATCTAAAAATCAAATATTCACAC
* * * * *
9491844 TTCAAATATTCATATCCAAAAGTCAAAAGATTCTCATTTGAAAATTTCAAAAATTCACATTT
65 ATCAAAGATTCATATCCAAAAGACAAAAGATTCTCATTTAAAAATTTCAAAAATTCACATCT
9491906 AAAAATCAAAGATTCTA-ATTTGGAAAATT
1 AAAAATCAAAGATTC-ACATTT-GAAAATT
9491935 CAATGATTCT
Statistics
Matches: 134, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
126 45 0.34
127 81 0.60
128 8 0.06
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.32
Consensus pattern (126 bp):
AAAAATCAAAGATTCACATTTGAAAATTTTCAAAGTTACACATCTAAAAATCAAATATTCACACA
TCAAAGATTCATATCCAAAAGACAAAAGATTCTCATTTAAAAATTTCAAAAATTCACATCT
Found at i:9491899 original size:23 final size:22
Alignment explanation
Indices: 9491861--9491963 Score: 84
Period size: 23 Copynumber: 4.6 Consensus size: 22
9491851 ATTCATATCC
*
9491861 AAAAGTCAAAAGATTCTCATTTG
1 AAAATTCAAAA-ATTCTCATTTG
*
9491884 AAAATTTCAAAAATTCACATTT-
1 AAAA-TTCAAAAATTCTCATTTG
* * *
9491906 AAAAATCAAAGATTCTAATTTGG
1 AAAATTCAAAAATTCTCATTT-G
**
9491929 AAAATTCAATGATTCTCATTT-
1 AAAATTCAAAAATTCTCATTTG
* *
9491950 AAAAATAAAAAATT
1 AAAATTCAAAAATT
9491964 TAGAGATTTA
Statistics
Matches: 64, Mismatches: 13, Indels: 8
0.75 0.15 0.09
Matches are distributed among these distances:
21 23 0.36
22 4 0.06
23 31 0.48
24 6 0.09
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.33
Consensus pattern (22 bp):
AAAATTCAAAAATTCTCATTTG
Found at i:9491937 original size:44 final size:44
Alignment explanation
Indices: 9491869--9492147 Score: 122
Period size: 45 Copynumber: 6.1 Consensus size: 44
9491859 CCAAAAGTCA
*
9491869 AAAGATTCTCATTTGAAAATTTCAAAAATTCACATTTAAAAATC
1 AAAGATTCTAATTTGAAAATTTCAAAAATTCACATTTAAAAATC
** * *
9491913 AAAGATTCTAATTTGGAAAA-TTCAATGATTCTCATTTAAAAATA
1 AAAGATTCTAATTT-GAAAATTTCAAAAATTCACATTTAAAAATC
* ** * * *
9491957 AAAAATT-TAGAGATTT-ACTTTTAAAAGTCAAATATTCACATCTCAAAAA-A
1 AAAGATTCT--A-ATTTGA-----AAATTTCAAAAATTCACAT-TTAAAAATC
* * * * *
9492007 AAAAATT-TAACATTTGAAAAATTCAAAGATTTACATCTAAAAAATC
1 AAAGATTCT-A-ATTTGAAAATTTCAAAAATTCACAT-TTAAAAATC
* * * * * *
9492053 AAAGATTC-ATATTTGAAAATTTTAGAGACTCAAATCTAAAAATC
1 AAAGATTCTA-ATTTGAAAATTTCAAAAATTCACATTTAAAAATC
* * * * *
9492097 AAATATTC-ACATTTGAAAATTTTTAGAGATTTACATTTAAAAATC
1 AAAGATTCTA-ATTTGAAAA-TTTCAAAAATTCACATTTAAAAATC
9492142 AAAGAT
1 AAAGAT
9492148 CACATTTCAA
Statistics
Matches: 185, Mismatches: 35, Indels: 29
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.01
44 64 0.35
45 75 0.41
46 10 0.05
49 8 0.04
50 21 0.11
51 6 0.03
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.34
Consensus pattern (44 bp):
AAAGATTCTAATTTGAAAATTTCAAAAATTCACATTTAAAAATC
Found at i:9492067 original size:45 final size:44
Alignment explanation
Indices: 9492016--9492170 Score: 179
Period size: 45 Copynumber: 3.5 Consensus size: 44
9492006 AAAAAATTTA
* * *
9492016 ACATTTGAAAAATTCAAAGATTTACATCTAAAAAATCAAAGATTC
1 ACATTTGAAAATTTTAGAGATTTACATCT-AAAAATCAAAGATTC
* * * * *
9492061 ATATTTGAAAATTTTAGAGACTCAAATCTAAAAATCAAATATTC
1 ACATTTGAAAATTTTAGAGATTTACATCTAAAAATCAAAGATTC
*
9492105 ACATTTGAAAATTTTTAGAGATTTACATTTAAAAATCAAAGA-TC
1 ACATTTGAAAA-TTTTAGAGATTTACATCTAAAAATCAAAGATTC
*
9492149 ACATTT-CAAATATTTAGAGATT
1 ACATTTGAAAAT-TTTAGAGATT
9492171 CACAATGAAG
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 1 0.01
43 13 0.14
44 32 0.34
45 47 0.51
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (44 bp):
ACATTTGAAAATTTTAGAGATTTACATCTAAAAATCAAAGATTC
Found at i:9494326 original size:12 final size:11
Alignment explanation
Indices: 9494304--9494337 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
9494294 AAGCATGAAA
*
9494304 TTTGATTTTTT
1 TTTGTTTTTTT
9494315 TTTGTCTTTTTT
1 TTTGT-TTTTTT
9494327 TTTGTTTTTTT
1 TTTGTTTTTTT
9494338 ATTTTTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.03, C:0.03, G:0.09, T:0.85
Consensus pattern (11 bp):
TTTGTTTTTTT
Found at i:9497393 original size:13 final size:13
Alignment explanation
Indices: 9497375--9497399 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9497365 TATTATCACA
9497375 ATTTTGATTTTTT
1 ATTTTGATTTTTT
9497388 ATTTTGATTTTT
1 ATTTTGATTTTT
9497400 CTTTATAAAA
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:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (13 bp):
ATTTTGATTTTTT
Found at i:9508286 original size:15 final size:15
Alignment explanation
Indices: 9508243--9508280 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
9508233 TTCCATGGGC
*
9508243 AACTATTTCATAAAT
1 AACTATTTCATGAAT
9508258 AACTATTTCATGAAT
1 AACTATTTCATGAAT
9508273 AACT-TTTC
1 AACTATTTC
9508281 TGTGAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.42
Consensus pattern (15 bp):
AACTATTTCATGAAT
Found at i:9508966 original size:25 final size:25
Alignment explanation
Indices: 9508945--9509016 Score: 65
Period size: 26 Copynumber: 2.8 Consensus size: 25
9508935 TATTATTTTC
9508945 AATAGTATTTTATATTAATATTTTAA
1 AATA-TATTTTATATTAATATTTTAA
* * **
9508971 AATATATTTTAAAATTAAAATTAAATA
1 AATATATTTT-ATATTAATATTTTA-A
9508998 AATATATTATT-TATTAATA
1 AATATATT-TTATATTAATA
9509017 AAATAATTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 6 0.16
26 20 0.54
27 9 0.24
28 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (25 bp):
AATATATTTTATATTAATATTTTAA
Found at i:9510121 original size:3 final size:3
Alignment explanation
Indices: 9510115--9510146 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
9510105 ATCGTCGTTT
9510115 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9510147 TTCTTTTGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9510220 original size:18 final size:17
Alignment explanation
Indices: 9510194--9510227 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9510184 CAGCCTATTA
9510194 TTTTCATTTTACTTTTTG
1 TTTTCATTTTA-TTTTTG
*
9510212 TTTTTATTTTATTTTT
1 TTTTCATTTTATTTTT
9510228 ATTTAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTCATTTTATTTTTG
Found at i:9510322 original size:19 final size:18
Alignment explanation
Indices: 9510257--9510342 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 18
9510247 TTCTGTTAAC
**
9510257 TTAATATAATAAATAAATT
1 TTAATA-AATAAATAAAAA
*
9510276 TTATATATAATAAA-AACTAA
1 TTA-ATA-AATAAATAA-AAA
9510296 TTAATAAATAAATAAAAA
1 TTAATAAATAAATAAAAA
*
9510314 TTAAATAAATACATAAATAA
1 TT-AATAAATAAATAAA-AA
*
9510334 GTAATAAAT
1 TTAATAAAT
9510343 TCTATAATCA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
18 10 0.18
19 30 0.54
20 16 0.29
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (18 bp):
TTAATAAATAAATAAAAA
Found at i:9510339 original size:38 final size:38
Alignment explanation
Indices: 9510258--9510342 Score: 93
Period size: 38 Copynumber: 2.2 Consensus size: 38
9510248 TCTGTTAACT
** * *
9510258 TAATATAATAAATAAATTTTATATATAATAAAAACTAAT
1 TAATA-AATAAATAAAAATTAAATATAATAAAAACTAAG
9510297 TAATAAATAAATAAAAATTAAATA-AATACATAAA-TAAG
1 TAATAAATAAATAAAAATTAAATATAATA-A-AAACTAAG
9510335 TAATAAAT
1 TAATAAAT
9510343 TCTATAATCA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
37 4 0.10
38 28 0.70
39 8 0.20
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (38 bp):
TAATAAATAAATAAAAATTAAATATAATAAAAACTAAG
Found at i:9510342 original size:23 final size:23
Alignment explanation
Indices: 9510284--9510333 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
9510274 TTTTATATAT
* *
9510284 AATAAAAACT-AATTAATAAATA
1 AATAAAAATTAAATAAATAAATA
*
9510306 AATAAAAATTAAATAAATACATA
1 AATAAAAATTAAATAAATAAATA
9510329 AATAA
1 AATAA
9510334 GTAATAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (23 bp):
AATAAAAATTAAATAAATAAATA
Found at i:9510671 original size:20 final size:21
Alignment explanation
Indices: 9510648--9510688 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
9510638 TTAATTTTTA
9510648 ATTATTT-ATATTAAAA-AATT
1 ATTATTTAATA-TAAAATAATT
9510668 ATTATTTAATATAAAATAATT
1 ATTATTTAATATAAAATAATT
9510689 TTAATTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTATTTAATATAAAATAATT
Found at i:9517193 original size:20 final size:20
Alignment explanation
Indices: 9517145--9517196 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
9517135 TTTGTCCCAA
* *
9517145 AAAAATAAAAATAATAATAC
1 AAAAACAAAAAAAATAATAC
9517165 AAAATACAAAAAAAATATATAC
1 AAAA-ACAAAAAAAATA-ATAC
9517187 -AAAACAAAAA
1 AAAAACAAAAA
9517197 GAAGAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 11 0.39
21 13 0.46
22 4 0.14
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (20 bp):
AAAAACAAAAAAAATAATAC
Found at i:9518717 original size:30 final size:31
Alignment explanation
Indices: 9518606--9518728 Score: 151
Period size: 30 Copynumber: 3.9 Consensus size: 31
9518596 CTAAAATCCT
9518606 TAAAATCTAAAA-CCTGCTAAAATCCAAACCCC
1 TAAAATCTAAAATCC--CTAAAATCCAAACCCC
* * *
9518638 TAAAAATCTAAAATCTCTTAAATCCGAACCCC
1 T-AAAATCTAAAATCCCTAAAATCCAAACCCC
* * *
9518670 TAAAATTTGAAACCCCTAAAATCCAAACCCC
1 TAAAATCTAAAATCCCTAAAATCCAAACCCC
9518701 -AAAATCTAAAATCCCTAAAATCCAAACC
1 TAAAATCTAAAATCCCTAAAATCCAAACC
9518729 TTTAAATCAA
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
30 25 0.32
31 24 0.31
32 16 0.21
33 11 0.14
34 1 0.01
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.20
Consensus pattern (31 bp):
TAAAATCTAAAATCCCTAAAATCCAAACCCC
Found at i:9518722 original size:16 final size:16
Alignment explanation
Indices: 9518595--9518722 Score: 93
Period size: 16 Copynumber: 8.1 Consensus size: 16
9518585 ATCCTAGGTT
* *
9518595 TCTAAAATCCTTAAAA
1 TCTAAAACCCCTAAAA
*
9518611 TCTAAAACCTGCTAAAA
1 TCTAAAACC-CCTAAAA
*
9518628 TC-CAAACCCCTAAAAA
1 TCTAAAACCCCT-AAAA
* * *
9518644 TCTAAAATCTCTTAAA
1 TCTAAAACCCCTAAAA
**
9518660 TC-CGAACCCCTAAAA
1 TCTAAAACCCCTAAAA
* *
9518675 TTTGAAACCCCTAAAA
1 TCTAAAACCCCTAAAA
*
9518691 TC-CAAACCCC-AAAA
1 TCTAAAACCCCTAAAA
*
9518705 TCTAAAATCCCTAAAA
1 TCTAAAACCCCTAAAA
9518721 TC
1 TC
9518723 CAAACCTTTA
Statistics
Matches: 85, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
14 6 0.07
15 24 0.28
16 42 0.49
17 13 0.15
ACGTcount: A:0.46, C:0.29, G:0.02, T:0.23
Consensus pattern (16 bp):
TCTAAAACCCCTAAAA
Found at i:9518736 original size:30 final size:30
Alignment explanation
Indices: 9518603--9518742 Score: 122
Period size: 30 Copynumber: 4.6 Consensus size: 30
9518593 TTTCTAAAAT
9518603 CCTTAAAATCTAAAA-CCTGCTAAAATCCAAA
1 CCTTAAAATCTAAAATCC--CTAAAATCCAAA
* * * *
9518634 CCCCTAAAAATCTAAAATCTCTTAAATCCGAAC
1 --CCTTAAAATCTAAAATCCCTAAAATCC-AAA
* * * *
9518667 CCCTAAAATTTGAAACCCCTAAAATCCAAA
1 CCTTAAAATCTAAAATCCCTAAAATCCAAA
**
9518697 CCCCAAAATCTAAAATCCCTAAAATCCAAA
1 CCTTAAAATCTAAAATCCCTAAAATCCAAA
*
9518727 CCTTTAAATC-AAAATC
1 CCTTAAAATCTAAAATC
9518743 TCAAACCACA
Statistics
Matches: 86, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
29 6 0.07
30 35 0.41
31 20 0.23
32 8 0.09
33 16 0.19
34 1 0.01
ACGTcount: A:0.46, C:0.29, G:0.02, T:0.22
Consensus pattern (30 bp):
CCTTAAAATCTAAAATCCCTAAAATCCAAA
Found at i:9518755 original size:51 final size:49
Alignment explanation
Indices: 9518687--9518800 Score: 124
Period size: 51 Copynumber: 2.2 Consensus size: 49
9518677 TGAAACCCCT
* * *
9518687 AAAATCCAAACCCCAAAATCTAAAATCCCTAAAA-TCCAAAC-CTTTAAATC
1 AAAATCCAAACCACAAAA-CCAAAAT-CCTAAAACTCCAAACTC-TAAAATC
*
9518737 AAAATCTCAAACCACAAAACCCAAATCCTAAAATCTCCAAACTCTAAAATC
1 AAAATC-CAAACCACAAAACCAAAATCCTAAAA-CTCCAAACTCTAAAATC
9518788 AAAATCCTAAACC
1 AAAATCC-AAACC
9518801 TTTCATATCC
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
49 7 0.13
50 12 0.22
51 35 0.64
52 1 0.02
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (49 bp):
AAAATCCAAACCACAAAACCAAAATCCTAAAACTCCAAACTCTAAAATC
Found at i:9520595 original size:9 final size:8
Alignment explanation
Indices: 9520569--9520594 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
9520559 CCAACAAGCC
9520569 AACAAAAA
1 AACAAAAA
9520577 AACAAAAA
1 AACAAAAA
9520585 AACAAAAA
1 AACAAAAA
9520593 AA
1 AA
9520595 AGGGTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (8 bp):
AACAAAAA
Found at i:9526640 original size:121 final size:121
Alignment explanation
Indices: 9526425--9526875 Score: 731
Period size: 121 Copynumber: 3.7 Consensus size: 121
9526415 AAGCCATGTT
* * *
9526425 TTAAAATATTTTTAAATTTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTG
1 TTAAAAGATTTTCAAA-TTTTAAAGTTTCATTACCTCTGATTATGAGGAGCATTCAAAGATTTTG
* * * * *
9526490 AGATTTGTAAGACCTTCGGGCATAATCTCTAAAAACCTTTACGCACGACTTTCAAGA
65 AGATTTGTAAGACCTCCGAGCATAATCTCTAAAAGCCTTTGCGCATGACTTTCAAGA
* * *
9526547 TTAAAAGATTTTCAAATTTTAAAGTTTCATTGCCTCTGATTATGAGAAGCATTGAAAGATTTTGA
1 TTAAAAGATTTTCAAATTTTAAAGTTTCATTACCTCTGATTATGAGGAGCATTCAAAGATTTTGA
*
9526612 GATTTGTAAGACCTCCGAGCATAATCTCTAAAAGCCTTTGCGCATGACTTTTAAGA
66 GATTTGTAAGACCTCCGAGCATAATCTCTAAAAGCCTTTGCGCATGACTTTCAAGA
*
9526668 TTAAAAGATTTTTAAATTTTAAAGTTTCATTACCTCTGATTATGAGGAGCATTCAAAGATTTTGA
1 TTAAAAGATTTTCAAATTTTAAAGTTTCATTACCTCTGATTATGAGGAGCATTCAAAGATTTTGA
* * *
9526733 GATTTGTAAGACCTCTGGGCATAATCTCTAAAAGCCTTTGCGCATGATTTTCAAGA
66 GATTTGTAAGACCTCCGAGCATAATCTCTAAAAGCCTTTGCGCATGACTTTCAAGA
* *
9526789 TTAAAAGATTTTCAAATTTTAAAGTTTTATTACCTCTGATTATGAGGAGCATTCAAAGAGTTTGA
1 TTAAAAGATTTTCAAATTTTAAAGTTTCATTACCTCTGATTATGAGGAGCATTCAAAGATTTTGA
9526854 GATTTGTAAGACCTCCGAGCAT
66 GATTTGTAAGACCTCCGAGCAT
9526876 GATTCTGTAA
Statistics
Matches: 306, Mismatches: 23, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
121 292 0.95
122 14 0.05
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (121 bp):
TTAAAAGATTTTCAAATTTTAAAGTTTCATTACCTCTGATTATGAGGAGCATTCAAAGATTTTGA
GATTTGTAAGACCTCCGAGCATAATCTCTAAAAGCCTTTGCGCATGACTTTCAAGA
Found at i:9526911 original size:22 final size:22
Alignment explanation
Indices: 9526854--9526920 Score: 98
Period size: 23 Copynumber: 3.0 Consensus size: 22
9526844 AAGAGTTTGA
*
9526854 GATTTGTAAGACCTCCGAGCAT
1 GATTTGTAAGACCTCCGGGCAT
9526876 GATTCTGTAAGACCTCCGGGCAT
1 GATT-TGTAAGACCTCCGGGCAT
* *
9526899 GATTTCTAAGACCTCCTGGCAT
1 GATTTGTAAGACCTCCGGGCAT
9526921 AAAATTGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 20 0.49
23 21 0.51
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.28
Consensus pattern (22 bp):
GATTTGTAAGACCTCCGGGCAT
Found at i:9527042 original size:22 final size:23
Alignment explanation
Indices: 9526985--9527044 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
9526975 TAATCCAGTC
* * *
9526985 ATTCTGTAAGACCTCCGGGTATG
1 ATTCTATAAGACCTCCGAGCATG
9527008 ATTCTATAAGACCTCCGAGCATG
1 ATTCTATAAGACCTCCGAGCATG
*
9527031 ATT-TTTAAGACCTC
1 ATTCTATAAGACCTC
9527045 TGGGCATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (23 bp):
ATTCTATAAGACCTCCGAGCATG
Found at i:9527051 original size:22 final size:22
Alignment explanation
Indices: 9526991--9527056 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
9526981 AGTCATTCTG
*
9526991 TAAGACCTCCGGGTATGATTCTA
1 TAAGACCTCCGGGCATGATT-TA
* *
9527014 TAAGACCTCCGAGCATGATTTT
1 TAAGACCTCCGGGCATGATTTA
* *
9527036 TAAGACCTCTGGGCATAATTT
1 TAAGACCTCCGGGCATGATTT
9527057 CGATTCGCGA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
22 19 0.51
23 18 0.49
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (22 bp):
TAAGACCTCCGGGCATGATTTA
Found at i:9527107 original size:131 final size:132
Alignment explanation
Indices: 9526854--9527158 Score: 383
Period size: 131 Copynumber: 2.3 Consensus size: 132
9526844 AAGAGTTTGA
* * *
9526854 GATT-TGTAAGACCTCCGAGCATGATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCTGG
1 GATTCTGTAAGACCTCCGGGCATGATTCTATAAGACCTCCGAGCATGATTTCTAAGACCTCCTGG
* * * *
9526918 CATAAAATTGATTCGTGTGTTATCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTAAT-CCA
66 CATAAAATTGATTCGCGTGTTATCCCGATCGATTCTTGATCTTTTGACTTGCGATGTT-ATCCCA
9526982 GTC
130 GTC
* *
9526985 -ATTCTGTAAGACCTCCGGGTATGATTCTATAAGACCTCCGAGCATGATTTTTAAGACCT-CTGG
1 GATTCTGTAAGACCTCCGGGCATGATTCTATAAGACCTCCGAGCATGATTTCTAAGACCTCCT-G
*
9527048 GCAT-AATTTCGATTCGCGATGTTATCCCGATCGATTCTTGATCTTTTGA-TTGCGATGTTATCC
65 GCATAAAATT-GATTCGCG-TGTTATCCCGATCGATTCTTGATCTTTTGACTTGCGATGTTATCC
9527111 CAGTC
128 CAGTC
* * * *
9527116 GATTCTATAAGATCC-CCGGACATGATT-TTTAAGACCTCAGAGC
1 GATTCTGTAAGA-CCTCCGGGCATGATTCTATAAGACCTCCGAGC
9527159 GTAATTTTGA
Statistics
Matches: 152, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
130 11 0.07
131 90 0.59
132 49 0.32
133 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (132 bp):
GATTCTGTAAGACCTCCGGGCATGATTCTATAAGACCTCCGAGCATGATTTCTAAGACCTCCTGG
CATAAAATTGATTCGCGTGTTATCCCGATCGATTCTTGATCTTTTGACTTGCGATGTTATCCCAG
TC
Found at i:9527201 original size:109 final size:110
Alignment explanation
Indices: 9527007--9527242 Score: 343
Period size: 109 Copynumber: 2.2 Consensus size: 110
9526997 CTCCGGGTAT
* *
9527007 GATTCTATAAGACCTCCGAGCATGATTTTTAAGACCTCTGGGCATAATTTCGATTCGCGATGTTA
1 GATTCTATAAGACCTCCGAGCATGATTTTTAAGACCTCAGAGCATAATTTCGATTCGCGATGTTA
*
9527072 TCCCGATCGATTCTTGATCTTTTGA-TTGCGATGTTATCCCAGTC
66 TCCCGATCGATTCTTGATCTTTTGACTTACGATGTTATCCCAGTC
* * * *
9527116 GATTCTATAAGATCC-CCG-GACATGATTTTTAAGACCTCAGAGCGTAATTTTGATTCGGGGTGT
1 GATTCTATAAGA-CCTCCGAG-CATGATTTTTAAGACCTCAGAGCATAATTTCGATTCGCGATGT
* * *
9527179 TATCCTGATCGATTCTTTATCTTTTGACTTACGGTGTTATCCCAGTC
64 TATCCCGATCGATTCTTGATCTTTTGACTTACGATGTTATCCCAGTC
9527226 GATTCTATAAGACCTCC
1 GATTCTATAAGACCTCC
9527243 AGGTATAATT
Statistics
Matches: 113, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
108 1 0.01
109 79 0.70
110 33 0.29
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (110 bp):
GATTCTATAAGACCTCCGAGCATGATTTTTAAGACCTCAGAGCATAATTTCGATTCGCGATGTTA
TCCCGATCGATTCTTGATCTTTTGACTTACGATGTTATCCCAGTC
Found at i:9527256 original size:88 final size:87
Alignment explanation
Indices: 9527160--9527329 Score: 218
Period size: 88 Copynumber: 1.9 Consensus size: 87
9527150 CCTCAGAGCG
** **
9527160 TAATTTTGATTCGGGGTGTTATC-CTGATCGA-TTCTTTATCTTTTGACTTACGGTGTTATCCCA
1 TAATTTTGATTCGGAATGTTATCTC-GATCGATTTC-TTATCTTTTGAC-TACAATGTTATCCCA
9527223 GTCGATTCTATAAGACCTCCAGGTA
63 GTCGATTCTATAAGACCTCCAGGTA
* * *
9527248 TAATTTTGATTCGTAATGTTATCTCGATCTATTTCTTATCTTTTGACTGCAATGTTATCCCAGTC
1 TAATTTTGATTCGGAATGTTATCTCGATCGATTTCTTATCTTTTGACTACAATGTTATCCCAGTC
* *
9527313 TATTCTGTAAGACCTCC
66 GATTCTATAAGACCTCC
9527330 GAACATGATT
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
87 30 0.42
88 37 0.52
89 4 0.06
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.43
Consensus pattern (87 bp):
TAATTTTGATTCGGAATGTTATCTCGATCGATTTCTTATCTTTTGACTACAATGTTATCCCAGTC
GATTCTATAAGACCTCCAGGTA
Found at i:9527362 original size:22 final size:22
Alignment explanation
Indices: 9527320--9527363 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9527310 GTCTATTCTG
*
9527320 TAAGACCTCCGAACATGATTTT
1 TAAGACCTCCGAACATAATTTT
**
9527342 TAAGACCTCCGGGCATAATTTT
1 TAAGACCTCCGAACATAATTTT
9527364 GATTCGCGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (22 bp):
TAAGACCTCCGAACATAATTTT
Found at i:9527379 original size:197 final size:196
Alignment explanation
Indices: 9527036--9528444 Score: 818
Period size: 197 Copynumber: 6.9 Consensus size: 196
9527026 GCATGATTTT
* *
9527036 TAAGACCTCTGGGCATAATTTCGATTCGCGATGTTATCCCGATCGA-TTCTTGATCTTTTGATTG
1 TAAGACCTC-CGGCATAATTTCGATTCGCGATGTTATCCCGATCGATTTCTT-ATCTTTTGACTG
* * * * * *
9527100 CGATGTTATCCCAGTCGATTCTATAAGATCC-CCGGACATGATTTTTAAGACCTCAGAGCGTAAT
64 CGATGTTATCCCAGTCTATTCTGTAAGA-CCTCCGAACATGATTTTTAAGACCTCCGGGCATAAT
* * * **
9527164 TTTGATTCGGGGTGTTATCCTGATCGATTCTTTATCTTTTGACTTACGGTGTTATCCCAGTCGAT
128 TTTGATTCGCGATGTTATCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGAT
*
9527229 TCTA
193 TCTG
* * ** * *
9527233 TAAGACCTCCAGGTATAATTTTGATTCGTAATGTTATCTCGATCTATTTCTTATCTTTTGACTGC
1 TAAGACCTCC-GGCATAATTTCGATTCGCGATGTTATCCCGATCGATTTCTTATCTTTTGACTGC
*
9527298 AATGTTATCCCAGTCTATTCTGTAAGACCTCCGAACATGATTTTTAAGACCTCCGGGCATAATTT
65 GATGTTATCCCAGTCTATTCTGTAAGACCTCCGAACATGATTTTTAAGACCTCCGGGCATAATTT
* * *
9527363 TGATTCGCGATGTTATCCCAATCGATTCTTTATCTTTTGACTTGTGATGTTATCTCAGTCGATTC
130 TGATTCGCGATGTTATCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATTC
9527428 TG
195 TG
* * * *
9527430 TAAAACCTCCGAGCATAATTTCGAATCGCGGTGTTATCCCGATCGATTCCTTATCTTTTGACTGC
1 TAAGACCTCCG-GCATAATTTCGATTCGCGATGTTATCCCGATCGATTTCTTATCTTTTGACTGC
* *
9527495 GATGTTATCCCAGTCTATTCTGTAAGACCTCCGAGCAT-AGTTTCTAAGACCTCCGGGCATAATT
65 GATGTTATCCCAGTCTATTCTGTAAGACCTCCGAACATGA-TTTTTAAGACCTCCGGGCATAATT
* *
9527559 TTGATTCAC-AGTGTTATCCCGATTGATT-TCTTATCTTTTGACTTGTGGTGTTATCCCAGTCGA
129 TTGATTCGCGA-TGTTATCCCGATCGATTCT-TTATCTTTTGACTTGTGGTGTTATCCCAGTCGA
*
9527622 TTTTG
192 TTCTG
** * * * *
9527627 TAAGACCTTTGGGCATGATTTTTAAGACTTC-CAAGCATAATTTCAATTCACAGTGTTATCTTGA
1 TAAGACC-TCCGGCAT-A-ATTT-CGA-TTCGC--G-AT--GTT--A-TC-C--CG--ATC--GA
* * * ** *
9527691 TCAATTCTTTATCTTTCGACTGCGATGTTATCCCAGTCAATTCTGTAAGACCTCTGGGCAT-AAT
46 T---TTC-TTATCTTTTGACTGCGATGTTATCCCAGTCTATTCTGTAAGACCTCCGAACATGATT
* * * * ** ** *
9527755 TTT--GA--TTCGCGG-----TGTT-A-TCCCGATCGAT-TCCTTATCTTTTGACTTGTAGTGTT
107 TTTAAGACCTCCG-GGCATAATTTTGATTCGCGAT-GTTATCCCGATCGATT--CTT-TA-TCTT
** * * ** * * * * *
9527808 ATCCAGTCGATTCTGTAAGACCTCCGGACATGATT-TT
166 -TTGACTTG-TGGTGT--TATC-CCAGTC--GATTCTG
* * *
9527845 TAAGACCTCTGGGTATAATTTCGATTCGCAATGTTATCCCGATCGA-TTCATTATCTTTTGACTT
1 TAAGACCTC-CGGCATAATTTCGATTCGCGATGTTATCCCGATCGATTTC-TTATCTTTTGAC-T
* * ** * *
9527909 GTGATGTTATCCCAGTCGATTCTGTAAGACCTCCGGGCATGATTTTTAAGACTTCCGAGCATAAT
63 GCGATGTTATCCCAGTCTATTCTGTAAGACCTCCGAACATGATTTTTAAGACCTCCGGGCATAAT
* * * * ** * *
9527974 TTTGATTCAC-AGTATTATCCCGATCAATTCCTTATCTTTTGACTTACGGTGTTATCCTAGTCTA
128 TTTGATTCGCGA-TGTTATCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGA
9528038 TTCTG
192 TTCTG
** * * **
9528043 TAAGACCTCCGAGCATGGTTTCTAAGACCTCCGGACATAATTTCGATTCATGGTGTTATCCCGAT
1 TAAGACCTCCG-GCATAATTTC---GA--TTC-G-C--GA--T-G-TT-A------TCCC--GAT
* * *
9528108 CGATTCCTTATCTTTTGACTTGCGATGTTATCCCAGTCGATTCTGTAAGACCTCCGAGCATGATT
43 CGATTTCTTATCTTTTGAC-TGCGATGTTATCCCAGTCTATTCTGTAAGACCTCCGAACATGATT
* * * ** * * *
9528173 TTAAAGACCTCCAGGCATAATTTCGATTTACGGTGTTATCCCGATCGATTCCTTATCTTTCGAC-
107 TTTAAGACCTCCGGGCATAATTTTGATTCGCGATGTTATCCCGATCGATTCTTTATCTTTTGACT
* *
9528237 TGTGATGTTATCCTAGTC-ATTTCTG
172 TGTGGTGTTATCCCAGTCGA-TTCTG
* * * * * * *
9528262 TAAGACTTTCGAACATAATTTTGATTCACGATGTTATCCCGATCGATTCCTTATCTTTTGACTAC
1 TAAGACCTCCG-GCATAATTTCGATTCGCGATGTTATCCCGATCGATTTCTTATCTTTTGACTGC
* * * * * * * * ***
9528327 GATGTTATCCCAGTCTATTTTATAAGACTTCC-AGGCATGGTTTCTAAGACTTTCATACATAATT
65 GATGTTATCCCAGTCTATTCTGTAAGACCTCCGA-ACATGATTTTTAAGACCTCCGGGCATAATT
* * * * * *
9528391 TTGATTCACGGTGTTATCCCGATTGATT-TCTTATCTTTTGGCTTGCGATGTTAT
129 TTGATTCGCGATGTTATCCCGATCGATTCT-TTATCTTTTGACTTGTGGTGTTAT
9528445 ATCAGTCTGT
Statistics
Matches: 946, Mismatches: 173, Indels: 186
0.72 0.13 0.14
Matches are distributed among these distances:
195 1 0.00
196 108 0.11
197 417 0.44
198 30 0.03
199 8 0.01
200 9 0.01
201 5 0.01
202 10 0.01
203 6 0.01
204 5 0.01
205 6 0.01
206 8 0.01
207 9 0.01
208 27 0.03
209 6 0.01
210 8 0.01
211 6 0.01
212 7 0.01
213 7 0.01
214 12 0.01
215 8 0.01
216 9 0.01
217 6 0.01
218 21 0.02
219 90 0.10
220 115 0.12
221 2 0.00
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.39
Consensus pattern (196 bp):
TAAGACCTCCGGCATAATTTCGATTCGCGATGTTATCCCGATCGATTTCTTATCTTTTGACTGCG
ATGTTATCCCAGTCTATTCTGTAAGACCTCCGAACATGATTTTTAAGACCTCCGGGCATAATTTT
GATTCGCGATGTTATCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATTCT
G
Found at i:9527576 original size:306 final size:306
Alignment explanation
Indices: 9527233--9528283 Score: 1170
Period size: 306 Copynumber: 3.4 Consensus size: 306
9527223 GTCGATTCTA
* * ** * *
9527233 TAAGACCTCCAGGTATAATTTTGATTCGTAATGTTATCTCGATCTATTTCTTATCTTTTGAC-TG
1 TAAGACCTCCAGGCATAATTTCGATTCACAATGTTATCCCGATCGATTTCTTATCTTTTGACTTG
** * * *
9527297 CAATGTTATCCCAGTCTATTCTGTAAGACCTCCGAACATGATTTTTAAGACCTCCGGGCATAATT
66 TGATGTTATCCCAGTCGATTCTGTAAGACCTCCGAACATGATTTTTAAGACTTCCGAGCATAATT
* * *
9527362 TTGATTCGC-GATGTTATCCCAATCGATTCTTTATCTTTTGACTTGTGATGTTATCTCAGTCGAT
131 TTGATTCACAG-TGTTATCCCGATCAATTCTTTATCTTTTGACTTGTGATGTTATCTCAGTCGAT
* *
9527426 TCTGTAAAACCTCCGAGCATAATTTCGAATCGCGGTGTTATCCCGATCGATTCCTTATCTTTTGA
195 TCTGTAAGACCTCCG-GCATAATTTCGATTCGCGGTGTTATCCCGATCGATTCCTTATCTTTTGA
*
9527491 C-TGCGATGTTATCCCAGTCTATTCTGTAAGACCTCCGAGCAT-AGTTT
259 CTTGCGATGTTATCCCAGTCGATTCTGTAAGACCTCCGAGCATGA-TTT
* * * *
9527538 CTAAGACCTCCGGGCATAATTTTGATTCACAGTGTTATCCCGATTGATTTCTTATCTTTTGACTT
1 -TAAGACCTCCAGGCATAATTTCGATTCACAATGTTATCCCGATCGATTTCTTATCTTTTGACTT
* * ** ** *
9527603 GTGGTGTTATCCCAGTCGATTTTGTAAGACCTTTGGGCATGATTTTTAAGACTTCCAAGCATAAT
65 GTGATGTTATCCCAGTCGATTCTGTAAGACCTCCGAACATGATTTTTAAGACTTCCGAGCATAAT
** ** * * * *
9527668 TTCAATTCACAGTGTTATCTTGATCAATTCTTTATCTTTCGAC-TGCGATGTTATCCCAGTCAAT
130 TTTGATTCACAGTGTTATCCCGATCAATTCTTTATCTTTTGACTTGTGATGTTATCTCAGTCGAT
* *
9527732 TCTGTAAGACCTCTGGGCATAATTTTGATTCGCGGTGTTATCCCGATCGATTCCTTATCTTTTGA
195 TCTGTAAGACCTC-CGGCATAATTTCGATTCGCGGTGTTATCCCGATCGATTCCTTATCTTTTGA
*
9527797 CTTG-TAGTGTTAT-CCAGTCGATTCTGTAAGACCTCCG-GACATGATTTT
259 CTTGCGA-TGTTATCCCAGTCGATTCTGTAAGACCTCCGAG-CATGA-TTT
** * *
9527845 TAAGACCTCTGGGTATAATTTCGATTCGCAATGTTATCCCGATCGA-TTCATTATCTTTTGACTT
1 TAAGACCTCCAGGCATAATTTCGATTCACAATGTTATCCCGATCGATTTC-TTATCTTTTGACTT
**
9527909 GTGATGTTATCCCAGTCGATTCTGTAAGACCTCCGGGCATGATTTTTAAGACTTCCGAGCATAAT
65 GTGATGTTATCCCAGTCGATTCTGTAAGACCTCCGAACATGATTTTTAAGACTTCCGAGCATAAT
* *
9527974 TTTGATTCACAGTATTATCCCGATCAATTCCTTATCTTTTGACTTACGGTGTTATCCTAGTCTAT
130 TTTGATTCACAGTGTTATCCCGATCAATTCTTTATCTTTTGACTT---GTG--A---T-GT-TA-
* * * **
9528039 TCTGTAAGACCTCCGAGCATGGTTTCTAAGACCTCCGGACATAATTTCGATTCATGGTGTTATCC
184 TC--TCAG---T-C--G-AT--TCTGTAAGACCTCCGG-CATAATTTCGATTCGCGGTGTTATCC
9528104 CGATCGATTCCTTATCTTTTGACTTGCGATGTTATCCCAGTCGATTCTGTAAGACCTCCGAGCAT
237 CGATCGATTCCTTATCTTTTGACTTGCGATGTTATCCCAGTCGATTCTGTAAGACCTCCGAGCAT
9528169 GATTT
302 GATTT
* ** * *
9528174 TAAAGACCTCCAGGCATAATTTCGATTTACGGTGTTATCCCGATCGATTCCTTATCTTTCGAC-T
1 T-AAGACCTCCAGGCATAATTTCGATTCACAATGTTATCCCGATCGATTTCTTATCTTTTGACTT
* * * *
9528238 GTGATGTTATCCTAGTC-ATTTCTGTAAGACTTTCGAACATAATTTT
65 GTGATGTTATCCCAGTCGA-TTCTGTAAGACCTCCGAACATGATTTT
9528284 GATTCACGAT
Statistics
Matches: 625, Mismatches: 82, Indels: 53
0.82 0.11 0.07
Matches are distributed among these distances:
305 4 0.01
306 309 0.49
307 101 0.16
308 1 0.00
310 2 0.00
312 1 0.00
315 1 0.00
316 2 0.00
317 2 0.00
318 2 0.00
320 2 0.00
323 1 0.00
324 1 0.00
327 2 0.00
328 3 0.00
329 109 0.17
330 79 0.13
331 3 0.00
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.39
Consensus pattern (306 bp):
TAAGACCTCCAGGCATAATTTCGATTCACAATGTTATCCCGATCGATTTCTTATCTTTTGACTTG
TGATGTTATCCCAGTCGATTCTGTAAGACCTCCGAACATGATTTTTAAGACTTCCGAGCATAATT
TTGATTCACAGTGTTATCCCGATCAATTCTTTATCTTTTGACTTGTGATGTTATCTCAGTCGATT
CTGTAAGACCTCCGGCATAATTTCGATTCGCGGTGTTATCCCGATCGATTCCTTATCTTTTGACT
TGCGATGTTATCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTT
Found at i:9527757 original size:109 final size:109
Alignment explanation
Indices: 9527434--9527757 Score: 382
Period size: 109 Copynumber: 3.0 Consensus size: 109
9527424 ATTCTGTAAA
* * * *
9527434 ACCTCCGAGCATAATTTCGAA-TCGCGGTGTTATCCCGATCGATTCCTTATCTTTTGACTGCGAT
1 ACCTCCAAGCATAATTTC-AATTCACAGTGTTATCCCGATCGATTCTTTATCTTTTGACTGCGAT
* * * * *
9527498 GTTATCCCAGTCTATTCTGTAAGACCTCCGAGCATAGTTTCTAAG
65 GTTATCCCAGTCAATTCTGTAAGACCTCTGGGCATAATTTTTAAG
** ** * * *
9527543 ACCTCCGGGCATAATTTTGATTCACAGTGTTATCCCGATTGATT-TCTTATCTTTTGACTTGTGG
1 ACCTCCAAGCATAATTTCAATTCACAGTGTTATCCCGATCGATTCT-TTATCTTTTGAC-TGCGA
* * * *
9527607 TGTTATCCCAGTCGATTTTGTAAGACCTTTGGGCATGATTTTTAAG
64 TGTTATCCCAGTCAATTCTGTAAGACCTCTGGGCATAATTTTTAAG
* ** * *
9527653 ACTTCCAAGCATAATTTCAATTCACAGTGTTATCTTGATCAATTCTTTATCTTTCGACTGCGATG
1 ACCTCCAAGCATAATTTCAATTCACAGTGTTATCCCGATCGATTCTTTATCTTTTGACTGCGATG
9527718 TTATCCCAGTCAATTCTGTAAGACCTCTGGGCATAATTTT
66 TTATCCCAGTCAATTCTGTAAGACCTCTGGGCATAATTTT
9527758 GATTCGCGGT
Statistics
Matches: 178, Mismatches: 33, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
108 1 0.01
109 89 0.50
110 87 0.49
111 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (109 bp):
ACCTCCAAGCATAATTTCAATTCACAGTGTTATCCCGATCGATTCTTTATCTTTTGACTGCGATG
TTATCCCAGTCAATTCTGTAAGACCTCTGGGCATAATTTTTAAG
Found at i:9527770 original size:87 final size:87
Alignment explanation
Indices: 9527661--9527831 Score: 211
Period size: 87 Copynumber: 2.0 Consensus size: 87
9527651 AGACTTCCAA
** *
9527661 GCATAATTTCAATTCACAGTGTTATCTTGATCAATTCTTTATCTTTCGAC-TGCGA-TGTTATCC
1 GCATAATTTCAATTCACAGTGTTATCCCGATCAATTCCTTATCTTTCGACTTG-GAGTGTTAT-C
9527724 CAGTCAATTCTGTAAGACCTCTGG
64 CAGTCAATTCTGTAAGACCTCTGG
** * * * * *
9527748 GCATAATTTTGATTCGCGGTGTTATCCCGATCGATTCCTTATCTTTTGACTTGTAGTGTTATCCA
1 GCATAATTTCAATTCACAGTGTTATCCCGATCAATTCCTTATCTTTCGACTTGGAGTGTTATCCA
*
9527813 GTCGATTCTGTAAGACCTC
66 GTCAATTCTGTAAGACCTC
9527832 CGGACATGAT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
87 63 0.89
88 8 0.11
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.40
Consensus pattern (87 bp):
GCATAATTTCAATTCACAGTGTTATCCCGATCAATTCCTTATCTTTCGACTTGGAGTGTTATCCA
GTCAATTCTGTAAGACCTCTGG
Found at i:9527958 original size:22 final size:22
Alignment explanation
Indices: 9527933--9527976 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9527923 GTCGATTCTG
* *
9527933 TAAGACCTCCGGGCATGATTTT
1 TAAGACCTCCGAGCATAATTTT
*
9527955 TAAGACTTCCGAGCATAATTTT
1 TAAGACCTCCGAGCATAATTTT
9527977 GATTCACAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (22 bp):
TAAGACCTCCGAGCATAATTTT
Found at i:9527981 original size:110 final size:110
Alignment explanation
Indices: 9527736--9528267 Score: 700
Period size: 110 Copynumber: 4.9 Consensus size: 110
9527726 GTCAATTCTG
* * * *
9527736 TAAGACCTCTGGGCATAATTTTGATTCGCGGTGTTATCCCGATCGATTCCTTATCTTTTGACTTG
1 TAAGACCTCCGAGCATAATTTCGATTCACGGTGTTATCCCGATCGATTCCTTATCTTTTGACTTG
9527801 T-AGTGTTAT-CCAGTCGATTCTGTAAGACCTCCG-GACATGATTTT
66 TGA-TGTTATCCCAGTCGATTCTGTAAGACCTCCGAG-CATGATTTT
* * * * ** *
9527845 TAAGACCTCTGGGTATAATTTCGATTCGCAATGTTATCCCGATCGATTCATTATCTTTTGACTTG
1 TAAGACCTCCGAGCATAATTTCGATTCACGGTGTTATCCCGATCGATTCCTTATCTTTTGACTTG
*
9527910 TGATGTTATCCCAGTCGATTCTGTAAGACCTCCGGGCATGATTTT
66 TGATGTTATCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTTT
* * * * * *
9527955 TAAGACTTCCGAGCATAATTTTGATTCACAGTATTATCCCGATCAATTCCTTATCTTTTGACTTA
1 TAAGACCTCCGAGCATAATTTCGATTCACGGTGTTATCCCGATCGATTCCTTATCTTTTGACTTG
* * * * * *
9528020 CGGTGTTATCCTAGTCTATTCTGTAAGACCTCCGAGCATGGTTTC
66 TGATGTTATCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTTT
*
9528065 TAAGACCTCCG-GACATAATTTCGATTCATGGTGTTATCCCGATCGATTCCTTATCTTTTGACTT
1 TAAGACCTCCGAG-CATAATTTCGATTCACGGTGTTATCCCGATCGATTCCTTATCTTTTGACTT
*
9528129 GCGATGTTATCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTTT
65 GTGATGTTATCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTTT
* * *
9528175 AAAGACCTCC-AGGCATAATTTCGATTTACGGTGTTATCCCGATCGATTCCTTATCTTTCGAC-T
1 TAAGACCTCCGA-GCATAATTTCGATTCACGGTGTTATCCCGATCGATTCCTTATCTTTTGACTT
*
9528238 GTGATGTTATCCTAGTC-ATTTCTGTAAGAC
65 GTGATGTTATCCCAGTCGA-TTCTGTAAGAC
9528268 TTTCGAACAT
Statistics
Matches: 375, Mismatches: 41, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
108 1 0.00
109 95 0.25
110 277 0.74
111 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (110 bp):
TAAGACCTCCGAGCATAATTTCGATTCACGGTGTTATCCCGATCGATTCCTTATCTTTTGACTTG
TGATGTTATCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTTT
Found at i:9528086 original size:22 final size:22
Alignment explanation
Indices: 9528043--9528086 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9528033 GTCTATTCTG
**
9528043 TAAGACCTCCGAGCATGGTTTC
1 TAAGACCTCCGAGCATAATTTC
9528065 TAAGACCTCCG-GACATAATTTC
1 TAAGACCTCCGAG-CATAATTTC
9528087 GATTCATGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (22 bp):
TAAGACCTCCGAGCATAATTTC
Found at i:9528139 original size:526 final size:517
Alignment explanation
Indices: 9527434--9528781 Score: 1584
Period size: 526 Copynumber: 2.6 Consensus size: 517
9527424 ATTCTGTAAA
* * * *
9527434 ACCTCCGAGCATAATTTCGAATCGCGGTGTTATCCCGATCGATTCCTTATCTTTTGACTGCGATG
1 ACCTCCGAGCATAATTTTGATTCACGGTGTTATCCCGATCGATTCCTTATCTTTTGACTTCGATG
* * *
9527499 TTATCCCAGTCTATTCTGTAAGACCTCCGAGCATAGTTTCTAAGACCTCCGGGCATAATTTTGAT
66 TTATCCTAGTCTATTCTGTAAGACCTCCGAGCATGGTTTCTAAGACCTCCGGACATAA-TTTGAT
** * * * * *
9527564 TCACAGTGTTATCCCGATTGATTTCTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATTTTGTA
130 TCATGGTGTTATCCCGATCGATTCCTTATCTTTTGACTTGAGATGTTATCCCAGTCGATTCTGTA
* * * **
9527629 AGACCTTTGGGCATGATTTTTAAGACTTCCAAGCATAATTTCAATTCACAGTGTTATCTTGATCA
195 AGACCTCTGGGCATGATTTTTAAGACCTCCAAGCATAATTTCGATTCAC-GTGTTATCCCGATCA
9527694 ATTCTTTATCTTTCGACTGCGATGTTATCCCAGTCAATTCTGTAAGACC-TCTGGGCATAATTTT
259 ATTC-TTATCTTTCGACTGCGATGTTATCCCAGTCAATTCTGTAAGACCTTC-GGGCATAATTTT
* * *
9527758 GATTCGCGGTGTTATCCCGATCGATTCCTTATCTTTTGACT-TGTAGTGTTAT-CCAGTCGATTC
322 GATTCACGATGTTATCCCGATCGATTCCTTATCTTTTGACTACG-A-TGTTATCCCAGTCGATTC
* * ** *
9527821 TGTAAGACCTCC-GGACATGATTTTTAAGAC-CTC-TGGGTATAATTTCGATTCGCAATGTTATC
385 TATAAGACCTCCAGG-CATGATTTCTAAGACTCTCAT--ACATAATTTCGATTCACAATGTTATC
* * *
9527883 CCGATCGA-TTCATTATCTTTTGACTTGTGATGTTATCCCAGTCGATTCTGTAAGACCTCCGGGC
447 CCGATCGATTTC-TTATCTTTTGACTTGCGATGTTAT---A-TC-AGTCTGTAAGACCTCCGAGC
9527947 ATGATTTTTAAG
506 ATGATTTTTAAG
* * * * *
9527959 ACTTCCGAGCATAATTTTGATTCACAGTATTATCCCGATCAATTCCTTATCTTTTGACTTACGGT
1 ACCTCCGAGCATAATTTTGATTCACGGTGTTATCCCGATCGATTCCTTATCTTTTGACTT-CGAT
9528024 GTTATCCTAGTCTATTCTGTAAGACCTCCGAGCATGGTTTCTAAGACCTCCGGACATAATTTCGA
65 GTTATCCTAGTCTATTCTGTAAGACCTCCGAGCATGGTTTCTAAGACCTCCGGACATAATTT-GA
*
9528089 TTCATGGTGTTATCCCGATCGATTCCTTATCTTTTGACTTGCGATGTTATCCCAGTCGATTCTGT
129 TTCATGGTGTTATCCCGATCGATTCCTTATCTTTTGACTTGAGATGTTATCCCAGTCGATTCTGT
* * * * *
9528154 AAGACCTCCGAGCATGATTTTAAAGACCTCCAGGCATAATTTCGATTTACGGTGTTATCCCGATC
194 AAGACCTCTGGGCATGATTTTTAAGACCTCCAAGCATAATTTCGATTCAC-GTGTTATCCCGATC
* * * * * **
9528219 GATTCCTTATCTTTCGACTGTGATGTTATCCTAGTCATTTCTGTAAGACTTTCGAACATAATTTT
258 AATT-CTTATCTTTCGACTGCGATGTTATCCCAGTCAATTCTGTAAGACCTTCGGGCATAATTTT
* *
9528284 GATTCACGATGTTATCCCGATCGATTCCTTATCTTTTGACTACGATGTTATCCCAGTCTATTTTA
322 GATTCACGATGTTATCCCGATCGATTCCTTATCTTTTGACTACGATGTTATCCCAGTCGATTCTA
* * * * **
9528349 TAAGACTTCCAGGCATGGTTTCTAAGACTTTCATACATAATTTTGATTCACGGTGTTATCCCGAT
387 TAAGACCTCCAGGCATGATTTCTAAGACTCTCATACATAATTTCGATTCACAATGTTATCCCGAT
* *
9528414 TGATTTCTTATCTTTTGGCTTGCGATGTTATATCAGTCTGTAAGACCTCCGAGCATGATTTTTAA
452 CGATTTCTTATCTTTTGACTTGCGATGTTATATCAGTCTGTAAGACCTCCGAGCATGATTTTTAA
9528479 G
517 G
* * * *
9528480 ACCTCCGGGCATAATTTTGATTCATGGTGTTATCCCGATCGATTTCTTATCTTTCGACTGT-GAT
1 ACCTCCGAGCATAATTTTGATTCACGGTGTTATCCCGATCGATTCCTTATCTTTTGACT-TCGAT
*
9528544 GTTATCCTAGTCGATTCTGTAAGACCT-C---CA-GG----T---A--T----A-AT--TTTGAT
65 GTTATCCTAGTCTATTCTGTAAGACCTCCGAGCATGGTTTCTAAGACCTCCGGACATAATTTGAT
** * * *
9528588 TTGTGGTGTTATCCTGATCGATTCCTTATCTTTTTACTTGAGATATTATCCCAGTCGATTCTGTA
130 TCATGGTGTTATCCCGATCGATTCCTTATCTTTTGACTTGAGATGTTATCCCAGTCGATTCTGTA
* ** *
9528653 AGACCTCTAGGCATGATTTTTAAGACCTCTGAGCATAATTTCGATTCACGACGTTATCCCGATCA
195 AGACCTCTGGGCATGATTTTTAAGACCTCCAAGCATAATTTCGATTCACG-TGTTATCCCGATCA
* * * * * *
9528718 ATTACTTATCTTTTGACTTACGGTGTTATCCCAGTCGATTTTGTAAGACCTTCGGGCATGATTT
259 ATT-CTTATCTTTCGAC-TGCGATGTTATCCCAGTCAATTCTGTAAGACCTTCGGGCATAATTT
9528782 CTAAGACCTC
Statistics
Matches: 713, Mismatches: 97, Indels: 52
0.83 0.11 0.06
Matches are distributed among these distances:
497 1 0.00
498 130 0.18
499 38 0.05
501 2 0.00
502 1 0.00
506 1 0.00
508 1 0.00
511 1 0.00
515 2 0.00
516 2 0.00
519 1 0.00
520 28 0.04
521 81 0.11
522 3 0.00
523 1 0.00
525 61 0.09
526 347 0.49
527 11 0.02
528 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (517 bp):
ACCTCCGAGCATAATTTTGATTCACGGTGTTATCCCGATCGATTCCTTATCTTTTGACTTCGATG
TTATCCTAGTCTATTCTGTAAGACCTCCGAGCATGGTTTCTAAGACCTCCGGACATAATTTGATT
CATGGTGTTATCCCGATCGATTCCTTATCTTTTGACTTGAGATGTTATCCCAGTCGATTCTGTAA
GACCTCTGGGCATGATTTTTAAGACCTCCAAGCATAATTTCGATTCACGTGTTATCCCGATCAAT
TCTTATCTTTCGACTGCGATGTTATCCCAGTCAATTCTGTAAGACCTTCGGGCATAATTTTGATT
CACGATGTTATCCCGATCGATTCCTTATCTTTTGACTACGATGTTATCCCAGTCGATTCTATAAG
ACCTCCAGGCATGATTTCTAAGACTCTCATACATAATTTCGATTCACAATGTTATCCCGATCGAT
TTCTTATCTTTTGACTTGCGATGTTATATCAGTCTGTAAGACCTCCGAGCATGATTTTTAAG
Found at i:9528190 original size:22 final size:22
Alignment explanation
Indices: 9528154--9528195 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9528144 TCGATTCTGT
*
9528154 AAGACCTCCGAGCATGATTTTA
1 AAGACCTCCGAGCATAATTTTA
9528176 AAGACCTCC-AGGCATAATTT
1 AAGACCTCCGA-GCATAATTT
9528196 CGATTTACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (22 bp):
AAGACCTCCGAGCATAATTTTA
Found at i:9528331 original size:87 final size:87
Alignment explanation
Indices: 9528188--9528356 Score: 250
Period size: 87 Copynumber: 1.9 Consensus size: 87
9528178 GACCTCCAGG
* * ** *
9528188 CATAATTTCGATTTACGGTGTTATCCCGATCGATTCCTTATCTTTCGACTGTGATGTTATCCTAG
1 CATAATTTCGATTCACGATGTTATCCCGATCGATTCCTTATCTTTCGACTACGATGTTATCCCAG
*
9528253 TC-ATTTCTGTAAGACTTTCGAA
66 TCTATTT-TATAAGACTTTCGAA
* *
9528275 CATAATTTTGATTCACGATGTTATCCCGATCGATTCCTTATCTTTTGACTACGATGTTATCCCAG
1 CATAATTTCGATTCACGATGTTATCCCGATCGATTCCTTATCTTTCGACTACGATGTTATCCCAG
9528340 TCTATTTTATAAGACTT
66 TCTATTTTATAAGACTT
9528357 CCAGGCATGG
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
87 69 0.95
88 4 0.05
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (87 bp):
CATAATTTCGATTCACGATGTTATCCCGATCGATTCCTTATCTTTCGACTACGATGTTATCCCAG
TCTATTTTATAAGACTTTCGAA
Found at i:9528389 original size:109 final size:106
Alignment explanation
Indices: 9528262--9528575 Score: 357
Period size: 105 Copynumber: 2.9 Consensus size: 106
9528252 GTCATTTCTG
* * *
9528262 TAAGACTTTCGAACATAATTTTGATTCACGATGTTATCCCGATCGATTCCTTATCTTTTGACTAC
1 TAAGACTTTC-AACATAATTTTGATTCACGGTGTTATCCCGATCGATTTCTTATCTTTTGACTGC
* * * *
9528327 GATGTTATCCCAGTCTATTTTATAAGACTTCCAGGCATGGTTTC
65 GATGTTAT-CCAGTC-ATTCTGTAAGACCTCCAGGCATGATTTC
* *
9528371 TAAGACTTTCATACATAATTTTGATTCACGGTGTTATCCCGATTGATTTCTTATCTTTTGGCTTG
1 TAAGACTTTCA-ACATAATTTTGATTCACGGTGTTATCCCGATCGATTTCTTATCTTTTGAC-TG
* *
9528436 CGATGTTAT--A-TCAGTCTGTAAGACCTCC-GAGCATGATTTT
64 CGATGTTATCCAGTCATTCTGTAAGACCTCCAG-GCATGATTTC
* * ** * * *
9528476 TAAGACCTCCGGGCATAATTTTGATTCATGGTGTTATCCCGATCGATTTCTTATCTTTCGACTGT
1 TAAGACTTTC-AACATAATTTTGATTCACGGTGTTATCCCGATCGATTTCTTATCTTTTGACTGC
9528541 GATGTTATCCTAGTCGATTCTGTAAGACCTCCAGG
65 GATGTTATCC-AGTC-ATTCTGTAAGACCTCCAGG
9528576 TATAATTTTG
Statistics
Matches: 174, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
104 11 0.06
105 73 0.42
106 2 0.01
107 2 0.01
108 3 0.02
109 72 0.41
110 11 0.06
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.39
Consensus pattern (106 bp):
TAAGACTTTCAACATAATTTTGATTCACGGTGTTATCCCGATCGATTTCTTATCTTTTGACTGCG
ATGTTATCCAGTCATTCTGTAAGACCTCCAGGCATGATTTC
Found at i:9528482 original size:22 final size:22
Alignment explanation
Indices: 9528454--9528497 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
9528444 TATCAGTCTG
*
9528454 TAAGACCTCCGAGCATGATTTT
1 TAAGACCTCCGAGCATAATTTT
*
9528476 TAAGACCTCCGGGCATAATTTT
1 TAAGACCTCCGAGCATAATTTT
9528498 GATTCATGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (22 bp):
TAAGACCTCCGAGCATAATTTT
Found at i:9528688 original size:22 final size:22
Alignment explanation
Indices: 9528651--9528693 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9528641 GTCGATTCTG
*
9528651 TAAGACCTCTAGGCATGATTTT
1 TAAGACCTCTAGGCATAATTTT
9528673 TAAGACCTCT-GAGCATAATTT
1 TAAGACCTCTAG-GCATAATTT
9528694 CGATTCACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (22 bp):
TAAGACCTCTAGGCATAATTTT
Found at i:9528787 original size:22 final size:22
Alignment explanation
Indices: 9528761--9528803 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9528751 GTCGATTTTG
* *
9528761 TAAGACCTTCGGGCATGATTTC
1 TAAGACCTCCGGGCATAATTTC
9528783 TAAGACCTCCGGGCATAATTT
1 TAAGACCTCCGGGCATAATTT
9528804 TAGAATCGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (22 bp):
TAAGACCTCCGGGCATAATTTC
Found at i:9528867 original size:111 final size:110
Alignment explanation
Indices: 9528563--9528879 Score: 368
Period size: 110 Copynumber: 2.9 Consensus size: 110
9528553 GTCGATTCTG
* * * *
9528563 TAAGACCTCCAGGTATAATTTTGATTTGTGGTGTTATCCTGATCGATTCCTTATCTTTTTACTTG
1 TAAGACCTCCGGGCATAATTTTGATTCGTGGTGTTATCC-GATCGATTCCTTATCTTTTGACTTG
* * * *
9528628 AGATATTATCCCAGTCGATTCTGTAAGACC-TCTAGGCATGATTTT
65 CGGTGTTATCCCAGTCGATTCTGTAAGACCTTCTAGGCATGATTTC
* * * ** ** * * *
9528673 TAAGACCTCTGAGCATAATTTCGATTCACGACGTTATCCCGATCAATTACTTATCTTTTGACTTA
1 TAAGACCTCCGGGCATAATTTTGATTCGTGGTGTTAT-CCGATCGATTCCTTATCTTTTGACTTG
* *
9528738 CGGTGTTATCCCAGTCGATTTTGTAAGACCTTC-GGGCATGATTTC
65 CGGTGTTATCCCAGTCGATTCTGTAAGACCTTCTAGGCATGATTTC
* * *
9528783 TAAGACCTCCGGGCATAATTTTAGAATCGTGGTGTTATCTCGATTGAGTCCTTATCTTTTGACTT
1 TAAGACCTCCGGGCATAATTTT-GATTCGTGGTGTTATC-CGATCGATTCCTTATCTTTTGACTT
*
9528848 GCGGTGTTATCTCAGTCGATTCTGTAAGACCT
64 GCGGTGTTATCCCAGTCGATTCTGTAAGACCT
9528880 ACATGATTTC
Statistics
Matches: 168, Mismatches: 35, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
110 104 0.62
111 64 0.38
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (110 bp):
TAAGACCTCCGGGCATAATTTTGATTCGTGGTGTTATCCGATCGATTCCTTATCTTTTGACTTGC
GGTGTTATCCCAGTCGATTCTGTAAGACCTTCTAGGCATGATTTC
Found at i:9528983 original size:22 final size:23
Alignment explanation
Indices: 9528949--9529015 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 23
9528939 TATCCCAGTC
*
9528949 GATTCTGTAAGACCTTTGGGCAT
1 GATTCTCTAAGACCTTTGGGCAT
* *
9528972 GATTCT-TAAGACCTATAGGCAT
1 GATTCTCTAAGACCTTTGGGCAT
*
9528994 GATT-TCTAAGACCTTCGGGCAT
1 GATTCTCTAAGACCTTTGGGCAT
9529016 AAATTCGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
21 1 0.03
22 31 0.82
23 6 0.16
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (23 bp):
GATTCTCTAAGACCTTTGGGCAT
Found at i:9529220 original size:6 final size:6
Alignment explanation
Indices: 9529209--9529250 Score: 59
Period size: 6 Copynumber: 6.8 Consensus size: 6
9529199 TTATCCCAAA
9529209 AAAAAT AAAAAT AAAAAT ACAAAAT AAAAAAT AAAAA- AAAAA
1 AAAAAT AAAAAT AAAAAT A-AAAAT -AAAAAT AAAAAT AAAAA
9529251 GAAATCGAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.15
6 18 0.53
7 10 0.29
8 1 0.03
ACGTcount: A:0.86, C:0.02, G:0.00, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:9529225 original size:7 final size:7
Alignment explanation
Indices: 9529208--9529250 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
9529198 TTTATCCCAA
9529208 AAAAAAT
1 AAAAAAT
9529215 -AAAAAT
1 AAAAAAT
9529221 -AAAAAT
1 AAAAAAT
*
9529227 ACAAAAT
1 AAAAAAT
9529234 AAAAAAT
1 AAAAAAT
9529241 AAAAAA-
1 AAAAAAT
9529247 AAAA
1 AAAA
9529251 GAAATCGAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
6 16 0.48
7 17 0.52
ACGTcount: A:0.86, C:0.02, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:9529978 original size:16 final size:16
Alignment explanation
Indices: 9529959--9530119 Score: 122
Period size: 16 Copynumber: 10.4 Consensus size: 16
9529949 CTAGATTTCT
9529959 AAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
**
9529975 AAAACCTGTTAAAAT-C
1 AAAACC-CCTAAAATCC
* *
9529991 TAAACCCCTAAAAATCT
1 AAAACCCCT-AAAATCC
* * *
9530008 AAAATCTCTTAAATCC
1 AAAACCCCTAAAATCC
*
9530024 -AAACCCCTAAAATTC
1 AAAACCCCTAAAATCC
*
9530039 GAAACCCCTAAAAT-C
1 AAAACCCCTAAAATCC
*
9530054 TAAACCCC-AAAATCC
1 AAAACCCCTAAAATCC
*
9530069 AAAATCCCTAAAATCC
1 AAAACCCCTAAAATCC
*
9530085 -AAA-CCCTTAAAT-C
1 AAAACCCCTAAAATCC
**
9530098 AAAACCCC-AAACCCC
1 AAAACCCCTAAAATCC
9530113 AAAACCC
1 AAAACCC
9530120 AAATCCTAAA
Statistics
Matches: 114, Mismatches: 22, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
13 1 0.01
14 18 0.16
15 41 0.36
16 42 0.37
17 12 0.11
ACGTcount: A:0.48, C:0.34, G:0.01, T:0.17
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:9529996 original size:32 final size:32
Alignment explanation
Indices: 9529960--9530103 Score: 140
Period size: 30 Copynumber: 4.7 Consensus size: 32
9529950 TAGATTTCTA
*
9529960 AAACCCCTAAAATCCAAAACCTGTTAAAATCT
1 AAACCCCTAAAATCCAAAACCTCTTAAAATCT
* * *
9529992 AAACCCCTAAAAATCTAAAATCTCTT-AAATCC
1 AAACCCCT-AAAATCCAAAACCTCTTAAAATCT
* * *
9530024 AAACCCCTAAAATTCGAAACC-CCTAAAATCT
1 AAACCCCTAAAATCCAAAACCTCTTAAAATCT
*
9530055 AAACCCC-AAAATCCAAAATCC-C-TAAAATCC
1 AAACCCCTAAAATCCAAAA-CCTCTTAAAATCT
*
9530085 AAA-CCCTTAAAT-CAAAACC
1 AAACCCCTAAAATCCAAAACC
9530104 CCAAACCCCA
Statistics
Matches: 94, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
28 2 0.02
29 8 0.09
30 25 0.27
31 24 0.26
32 21 0.22
33 14 0.15
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.19
Consensus pattern (32 bp):
AAACCCCTAAAATCCAAAACCTCTTAAAATCT
Found at i:9530161 original size:51 final size:51
Alignment explanation
Indices: 9530053--9530161 Score: 141
Period size: 51 Copynumber: 2.1 Consensus size: 51
9530043 CCCCTAAAAT
*
9530053 CTAAACCCCAAAATCCAAAATCCCTAAAATCCAAACCCTTAAATCAAAACC
1 CTAAACCCCAAAATCCAAAATCCCTAAAATCCAAACCCTAAAATCAAAACC
* * *
9530104 CCAAACCCCAAAA-CCCAAAT-CCTAAAATCTCCAAACTCTAAAATCAAAACC
1 CTAAACCCCAAAATCCAAAATCCCTAAAA--TCCAAACCCTAAAATCAAAACC
*
9530155 TTAAACC
1 CTAAACC
9530162 TTCCATATCC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
49 7 0.14
50 6 0.12
51 37 0.74
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.16
Consensus pattern (51 bp):
CTAAACCCCAAAATCCAAAATCCCTAAAATCCAAACCCTAAAATCAAAACC
Found at i:9531833 original size:288 final size:290
Alignment explanation
Indices: 9531289--9531857 Score: 970
Period size: 288 Copynumber: 2.0 Consensus size: 290
9531279 ATGTCTAATA
* *
9531289 AATTAGGGTTTTTGACCTAACATAAATCCACCTAAACAAGTATCTATTAAACCTAGAATGGCCAG
1 AATTAGGGTTTTTGACCTAACACAAATCCACCTAAACAAGTATCTATTAAACCTAAAATGGCCAG
*
9531354 AGGTCATTGACCATTCATCATTAACCATGGTTTATCATTTATCATATATCATAGATGCATTAGGA
66 AGGTCATTGACCATTCATCATTAACCATGGTTTATCA--TAT-ATATATCATAAATGCATTAGGA
9531419 CGATGGGTTTAAAAAAAAAGTTTACAAAACAAATTTCATGTGAAGACACAATTTCAGTTTTAACT
128 CGATGGGTTTAAAAAAAAAGTTTACAAAACAAATTTCATGTGAAGACACAATTTCAGTTTTAACT
*
9531484 TTGGTGTTTCGTACTATTTATAATTTTTTAGCAATTTTTATTGTTTATTTTATTTTATTTGAGCT
193 TTGGTGTTTCGTACTATTTATAATTTTTGAGCAATTTTTATTGTTTATTTTATTTTATTTGAGCT
9531549 AGTGAAGTTGTTGAGTTATTTTTATTTTATTGTT
258 AGTGAAGTTGTTGAGTT-TTTTTATTTTATTGTT
9531583 AATTAGGGTTTTTGACCTAACACAAATCCACCTAAACAAGTATCTATTAAACCTAAAATGGCCAG
1 AATTAGGGTTTTTGACCTAACACAAATCCACCTAAACAAGTATCTATTAAACCTAAAATGGCCAG
*
9531648 AGGTCATTGACCATTCATCATTCACCATGGTTTAT-A-AT-T-TATCATAAATGCATTAGGAC-A
66 AGGTCATTGACCATTCATCATTAACCATGGTTTATCATATATATATCATAAATGCATTAGGACGA
*
9531708 GTGGGTTTAAAAAAAAAAGTTTACAAAACAAATTTCATGTGAAGACACAATTTTAGTTTTAACTT
131 -TGGGTTT-AAAAAAAAAGTTTACAAAACAAATTTCATGTGAAGACACAATTTCAGTTTTAACTT
*
9531773 TGGTGCTTT-GTAGTATTTATAATTTTTGAGCAATTTTTATTGTTTATTTTATTTTATTTGAGCT
194 TGGTG-TTTCGTACTATTTATAATTTTTGAGCAATTTTTATTGTTTATTTTATTTTATTTGAGCT
9531837 AGTGAAGTTGTTGAGTTTTTT
258 AGTGAAGTTGTTGAGTTTTTT
9531858 ATGATATATA
Statistics
Matches: 265, Mismatches: 7, Indels: 13
0.93 0.02 0.05
Matches are distributed among these distances:
286 1 0.00
287 30 0.11
288 131 0.49
289 3 0.01
290 2 0.01
293 1 0.00
294 97 0.37
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.41
Consensus pattern (290 bp):
AATTAGGGTTTTTGACCTAACACAAATCCACCTAAACAAGTATCTATTAAACCTAAAATGGCCAG
AGGTCATTGACCATTCATCATTAACCATGGTTTATCATATATATATCATAAATGCATTAGGACGA
TGGGTTTAAAAAAAAAGTTTACAAAACAAATTTCATGTGAAGACACAATTTCAGTTTTAACTTTG
GTGTTTCGTACTATTTATAATTTTTGAGCAATTTTTATTGTTTATTTTATTTTATTTGAGCTAGT
GAAGTTGTTGAGTTTTTTTATTTTATTGTT
Found at i:9538468 original size:5 final size:5
Alignment explanation
Indices: 9538449--9538482 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
9538439 TTTCCTTAGC
*
9538449 ATTTT -TTTT AATTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
9538483 TTAAGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:9538489 original size:130 final size:132
Alignment explanation
Indices: 9538288--9538585 Score: 319
Period size: 130 Copynumber: 2.3 Consensus size: 132
9538278 TTCATTATTC
* * * *
9538288 AGGAAAAATTGATA-ATTCAACTTTTTTCTTA--ATTTATTTTGTTTATTGTATTTTTATTTTAT
1 AGGAAAATTTGATATA-TCAACTTTTTCCTTAGCATTTTTTTTATTTATTGTATTTTTATTTTAT
9538350 TTTCAAAGAATTT-AGTAAAAACTGATATTTTAACATTTTTT-CTAAATATTTT-CAAATTTTGA
65 TTTCAAAGAATTTAAG-AAAAACTGATATTTTAACATTTTTTCCTAAATATTTTACAAATTTT-A
*
9538412 TTTTA
128 TTCTA
*
9538417 AGGAAAATTTGATATATCAAC-TTTTCCTTAGCATTTTTTTTAATTTATTTTA-TTTTATTTTAT
1 AGGAAAATTTGATATATCAACTTTTTCCTTAGCATTTTTTTT-ATTTATTGTATTTTTATTTTAT
** * ** * ** *
9538480 TTTTTAAGAATTTAAGGAAATTTGATTTTTTAATTTTTTTTCCTAAATATTTTAGAAATTTTATT
65 TTTCAAAGAATTTAAGAAAAACTGATATTTTAACATTTTTTCCTAAATATTTTACAAATTTTATT
9538545 CTA
130 CTA
* * *
9538548 AGG-AATTTTTATAT-TGGAACTTTTTCCTTAGCATTTTT
1 AGGAAAATTTGATATAT-CAACTTTTTCCTTAGCATTTTT
9538586 AAAAACTAAA
Statistics
Matches: 142, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
128 8 0.06
129 19 0.13
130 62 0.44
131 46 0.32
132 7 0.05
ACGTcount: A:0.31, C:0.07, G:0.08, T:0.55
Consensus pattern (132 bp):
AGGAAAATTTGATATATCAACTTTTTCCTTAGCATTTTTTTTATTTATTGTATTTTTATTTTATT
TTCAAAGAATTTAAGAAAAACTGATATTTTAACATTTTTTCCTAAATATTTTACAAATTTTATTC
TA
Done.