Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 97 of 160
Found at i:18331942 original size:21 final size:22
Alignment explanation
Indices: 18331902--18331950 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
18331892 ATCTTTTGAT
*
18331902 GAGAATATTTGAGTTTTCAAAG
1 GAGAATATTTGAGATTTCAAAG
*
18331924 GAGAATATTTGA-ATTTCAAAT
1 GAGAATATTTGAGATTTCAAAG
18331945 GAGAAT
1 GAGAAT
18331951 CTCTAAGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (22 bp):
GAGAATATTTGAGATTTCAAAG
Found at i:18332087 original size:20 final size:21
Alignment explanation
Indices: 18332059--18332114 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
18332049 AAATTTGTCG
*
18332059 AATGTGAATCTTTGAACTT-A
1 AATGAGAATCTTTGAACTTCA
**
18332079 AATGAGAATCTTTGAGTTTCA
1 AATGAGAATCTTTGAACTTCA
*
18332100 AATAAGAATCTTTGA
1 AATGAGAATCTTTGA
18332115 GTTTCAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (21 bp):
AATGAGAATCTTTGAACTTCA
Found at i:18332107 original size:21 final size:21
Alignment explanation
Indices: 18332064--18332122 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
18332054 TGTCGAATGT
** *
18332064 GAATCTTTGAACTT-AAATGA
1 GAATCTTTGAGTTTCAAATAA
18332084 GAATCTTTGAGTTTCAAATAA
1 GAATCTTTGAGTTTCAAATAA
18332105 GAATCTTTGAGTTTCAAA
1 GAATCTTTGAGTTTCAAA
18332123 ATTTGTGACT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 12 0.34
21 23 0.66
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.37
Consensus pattern (21 bp):
GAATCTTTGAGTTTCAAATAA
Found at i:18332114 original size:79 final size:79
Alignment explanation
Indices: 18331918--18332115 Score: 281
Period size: 79 Copynumber: 2.5 Consensus size: 79
18331908 ATTTGAGTTT
* * * *
18331918 TCAAAGGAGAATATTTGAATTTCAAATGAGAATCTCTAAGGTGTGAAACCTAAAATTTGTCAAAT
1 TCAAATGAGAATATTTGAATTTCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTGTCAAAT
18331983 GTGAATCTTCGAAC
66 GTGAATCTTCGAAC
* *
18331997 TCAAATGAGAATATTTGAATTTAAAATGAGAA-CTTTTGAGGTGTGAAACCCAAAATTTGTCGAA
1 TCAAATGAGAATATTTGAATTTCAAATGAGAATC-TTTGAGGTGTGAAACCCAAAATTTGTCAAA
*
18332061 TGTGAATCTTTGAAC
65 TGTGAATCTTCGAAC
* * * *
18332076 TTAAATGAGAATCTTTGAGTTTCAAATAAGAATCTTTGAG
1 TCAAATGAGAATATTTGAATTTCAAATGAGAATCTTTGAG
18332116 TTTCAAAATT
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
78 1 0.01
79 103 0.98
80 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (79 bp):
TCAAATGAGAATATTTGAATTTCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTGTCAAAT
GTGAATCTTCGAAC
Found at i:18334843 original size:24 final size:24
Alignment explanation
Indices: 18334815--18334862 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
18334805 AAAAGGTTTC
* *
18334815 AAAGAGAGAAAGAAAAGCAAAATG
1 AAAGAAAGAAAGAAAAGAAAAATG
*
18334839 AAAGAAAGAGAGAAAAGAAAAATG
1 AAAGAAAGAAAGAAAAGAAAAATG
18334863 CCACAAACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.69, C:0.02, G:0.25, T:0.04
Consensus pattern (24 bp):
AAAGAAAGAAAGAAAAGAAAAATG
Found at i:18335243 original size:9 final size:9
Alignment explanation
Indices: 18335229--18335258 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
18335219 AGAATGAAAG
18335229 AAAGAAAAA
1 AAAGAAAAA
*
18335238 AAAGAACAA
1 AAAGAAAAA
18335247 AAAGAAAAA
1 AAAGAAAAA
18335256 AAA
1 AAA
18335259 AAGTGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:18336503 original size:21 final size:22
Alignment explanation
Indices: 18336464--18336511 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
18336454 GACGAGAAAT
*
18336464 TTTGAGTTCTCAAAAGAGAATC
1 TTTGAATTCTCAAAAGAGAATC
*
18336486 TTTGAATT-TCAAATGAGAATC
1 TTTGAATTCTCAAAAGAGAATC
18336507 TTTGA
1 TTTGA
18336512 GGTGTGAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (22 bp):
TTTGAATTCTCAAAAGAGAATC
Found at i:18336558 original size:58 final size:57
Alignment explanation
Indices: 18336494--18336627 Score: 223
Period size: 57 Copynumber: 2.3 Consensus size: 57
18336484 TCTTTGAATT
*
18336494 TCAAATGAGAATCTTTGAGGTGTGAAACTCAAAATTTGTCGAATGTGAATCTTCGAAC
1 TCAAATGAGAATCTTTGAGGTGTGAAAC-CAAAATTTATCGAATGTGAATCTTCGAAC
* *
18336552 TCAAATGAGAATCTTTAAGGTGTGAAACCTAAATTTATCGAATGTGAATCTTCGAAC
1 TCAAATGAGAATCTTTGAGGTGTGAAACCAAAATTTATCGAATGTGAATCTTCGAAC
*
18336609 TAAAATGAGAATCTTTGAG
1 TCAAATGAGAATCTTTGAG
18336628 TTTCAAATGA
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
57 44 0.62
58 27 0.38
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (57 bp):
TCAAATGAGAATCTTTGAGGTGTGAAACCAAAATTTATCGAATGTGAATCTTCGAAC
Found at i:18336688 original size:79 final size:79
Alignment explanation
Indices: 18336552--18336775 Score: 301
Period size: 79 Copynumber: 2.8 Consensus size: 79
18336542 ATCTTCGAAC
*
18336552 TCAAATGAGAATCTTTAAGGTGTGAAAC-CTAAATTTATCGAATGTGAATCTTCGAACTAAAATG
1 TCAAATGAGAATCTTTAAGGTGTGAAACTCAAAATTTATCGAATGTGAATCTTCGAACTAAAATG
18336616 AGAATCTTTGAGTT
66 AGAATCTTTGAGTT
* * *
18336630 TCAAATGAGAACCTTTAAGGTGTGAAACTCAAAATTTATCGAATGTGAATCTTTGAACTTAAATG
1 TCAAATGAGAATCTTTAAGGTGTGAAACTCAAAATTTATCGAATGTGAATCTTCGAACTAAAATG
18336695 AGAATCTTTGAGTT
66 AGAATCTTTGAGTT
* * * * * * *
18336709 TTAAAT-AAAGATCTTTGAGGTGT-AATACATTAATATTTATCGGATGTGAATCTTCGAACTAGA
1 TCAAATGAGA-ATCTTTAAGGTGTGAA-AC-TCAAAATTTATCGAATGTGAATCTTCGAACTAAA
18336772 ATGA
63 ATGA
18336776 AAAGTTTTGA
Statistics
Matches: 128, Mismatches: 14, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
78 31 0.24
79 65 0.51
80 32 0.25
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (79 bp):
TCAAATGAGAATCTTTAAGGTGTGAAACTCAAAATTTATCGAATGTGAATCTTCGAACTAAAATG
AGAATCTTTGAGTT
Found at i:18337265 original size:41 final size:41
Alignment explanation
Indices: 18337145--18337397 Score: 272
Period size: 41 Copynumber: 6.3 Consensus size: 41
18337135 ATCGTCAATA
18337145 AGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTT-GTAGG
1 AGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAG-AGG
* *
18337186 AACAATTTATTTTGTCAAAGTTGTGGTGCCCCTGTTTAGAGG
1 AGCAATTTATTTT-TCAAAGTTGTGGTGCCTCTGTTTAGAGG
* *
18337228 AGCAATTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAGA
1 AGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGG
* * * * * *
18337269 AGCACTTTATTTTTCAGAGTTGTAGTACCTTTGATTAGAGG
1 AGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGG
*
18337310 AGC-A---A-TTTTCAAAGTTGTGGTGCTTCTGTTTAGAGG
1 AGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGG
* * * *
18337346 AGC-ATTTATTTTTCTCAAAGTCGTTGAGTCTCTGTTTAGAGG
1 AGCAATTTA-TTTT-TCAAAGTTGTGGTGCCTCTGTTTAGAGG
18337388 AGC--TTTATTT
1 AGCAATTTATTT
18337398 GATTTAAAAA
Statistics
Matches: 178, Mismatches: 26, Indels: 17
0.81 0.12 0.08
Matches are distributed among these distances:
36 29 0.16
37 1 0.01
39 1 0.01
40 3 0.02
41 80 0.45
42 63 0.35
43 1 0.01
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.42
Consensus pattern (41 bp):
AGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGG
Found at i:18337326 original size:36 final size:36
Alignment explanation
Indices: 18337279--18337349 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
18337269 AGCACTTTAT
*
18337279 TTTTCAGAGTTGTAGTACCTT-TGATTAGAGGAGCAA
1 TTTTCAAAGTTGTAGT-CCTTCTGATTAGAGGAGCAA
* * *
18337315 TTTTCAAAGTTGTGGTGCTTCTGTTTAGAGGAGCA
1 TTTTCAAAGTTGTAGTCCTTCTGATTAGAGGAGCA
18337350 TTTATTTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 3 0.10
36 27 0.90
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.38
Consensus pattern (36 bp):
TTTTCAAAGTTGTAGTCCTTCTGATTAGAGGAGCAA
Found at i:18337342 original size:77 final size:79
Alignment explanation
Indices: 18337152--18337359 Score: 237
Period size: 83 Copynumber: 2.6 Consensus size: 79
18337142 ATAAGCAATT
* *
18337152 TATTTTTCAAAGTTGTGGTGCCTCTGTTT-GTAGGAA-CAATTTATTTTGTCAAAGTTGTGGTGC
1 TATTTTTCAAAGTTGTGGTGCCTCTGTTTAG-A-GAAGC-ATTTATTTT-TCAAAGTTGTAGTAC
*
18337215 CCCTGTTTAGAGGAGCAA
62 CCCTGATTAGAGGAGCAA
* *
18337233 TTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAGAAGCACTTTATTTTTCAGAGTTGTAGTACC
1 --TATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGAAGCA-TTTATTTTTCAAAGTTGTAGTACC
**
18337298 TTTGATTAGAGGAGC-A
63 CCTGATTAGAGGAGCAA
* *
18337314 -A-TTTTCAAAGTTGTGGTGCTTCTGTTTAGAGGAGCATTTATTTTTC
1 TATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGAAGCATTTATTTTTC
18337360 TCAAAGTCGT
Statistics
Matches: 112, Mismatches: 10, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
76 10 0.09
77 32 0.29
78 1 0.01
81 1 0.01
82 29 0.26
83 38 0.34
84 1 0.01
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (79 bp):
TATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGAAGCATTTATTTTTCAAAGTTGTAGTACCCCT
GATTAGAGGAGCAA
Found at i:18337437 original size:9 final size:9
Alignment explanation
Indices: 18337404--18337429 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
18337394 ATTTGATTTA
18337404 AAAAAAAAC
1 AAAAAAAAC
18337413 AAAAAAAAC
1 AAAAAAAAC
18337422 AAAAAAAA
1 AAAAAAAA
18337430 AAGAAAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:18337801 original size:22 final size:22
Alignment explanation
Indices: 18337768--18337810 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 22
18337758 ACACAGGAAG
18337768 TAGAGAGAAAAT-A-AAAACAC
1 TAGAGAGAAAATCAGAAAACAC
18337788 TAGAGAGTAGAAATCAGAAAACA
1 TAGAGAG-A-AAATCAGAAAACA
18337811 AAGAAAAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 7 0.37
21 1 0.05
22 4 0.21
23 1 0.05
24 6 0.32
ACGTcount: A:0.60, C:0.09, G:0.19, T:0.12
Consensus pattern (22 bp):
TAGAGAGAAAATCAGAAAACAC
Found at i:18337874 original size:14 final size:16
Alignment explanation
Indices: 18337847--18337881 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
18337837 TTTTTGAGAG
18337847 TTTTTTTGATAAAAAA
1 TTTTTTTGATAAAAAA
18337863 TTTTTTT-A-AAAAAA
1 TTTTTTTGATAAAAAA
18337877 TTTTT
1 TTTTT
18337882 AAATTTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.58
15 1 0.05
16 7 0.37
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTTTTTGATAAAAAA
Found at i:18338448 original size:19 final size:19
Alignment explanation
Indices: 18338408--18338448 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
18338398 TTTTCTAGTA
*
18338408 TTTTATTTATTTATTTTAT
1 TTTTATTTATGTATTTTAT
*
18338427 TTTTATTTATGT-GTTTAT
1 TTTTATTTATGTATTTTAT
18338445 TTTT
1 TTTT
18338449 GGTATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (19 bp):
TTTTATTTATGTATTTTAT
Found at i:18339314 original size:21 final size:21
Alignment explanation
Indices: 18339285--18339330 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
18339275 CTTAAAAATT
*
18339285 ATTTTCAATATTTAACATAAA
1 ATTTCCAATATTTAACATAAA
*
18339306 ATTTCCAATATTTAATATAAA
1 ATTTCCAATATTTAACATAAA
18339327 ATTT
1 ATTT
18339331 GAAACTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTTCCAATATTTAACATAAA
Found at i:18339657 original size:29 final size:29
Alignment explanation
Indices: 18339619--18339674 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
18339609 TGACAATAAT
* *
18339619 AAAATTAAAAATTATAAAATAGAATTAAA
1 AAAATTAAAAAATAAAAAATAGAATTAAA
*
18339648 AAAATTAAAAAATAAAAAATATAATTA
1 AAAATTAAAAAATAAAAAATAGAATTA
18339675 TATTATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (29 bp):
AAAATTAAAAAATAAAAAATAGAATTAAA
Found at i:18344014 original size:13 final size:13
Alignment explanation
Indices: 18343996--18344021 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18343986 AAATAGAGAT
18343996 GATTATTTTAATC
1 GATTATTTTAATC
18344009 GATTATTTTAATC
1 GATTATTTTAATC
18344022 TATAAGATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
GATTATTTTAATC
Found at i:18345735 original size:13 final size:14
Alignment explanation
Indices: 18345710--18345745 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
18345700 TAAAATTTCT
*
18345710 AATGTATAAAATTA
1 AATGTAAAAAATTA
18345724 AAT-TAAAAAATTA
1 AATGTAAAAAATTA
18345737 AATGTAAAA
1 AATGTAAAA
18345746 CAAATTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (14 bp):
AATGTAAAAAATTA
Found at i:18349532 original size:111 final size:111
Alignment explanation
Indices: 18349382--18349606 Score: 360
Period size: 111 Copynumber: 2.0 Consensus size: 111
18349372 CATATTAACC
* * ** *
18349382 ATGGTTTCAAAAATGAAATATGATTTATCAATTTTTATTAAATCCTTAGTGTTTTATGAAGTACA
1 ATGGCTTCAAAAATGAAATATAATTTATCAATTTTTATTAAATCCTTAAAGTTTTATCAAGTACA
* * *
18349447 TACGCATTTTCTCATATTTTTGGTAGTTTTTGAATTAGAGTTCTTA
66 CACACATTTTCTCATATTTTTGGTAGTCTTTGAATTAGAGTTCTTA
*
18349493 ATGGCTTCAAAAGTGAAATATAATTTATCAATTTTTATTAAATCCTTAAAGTTTTATCAAGTACA
1 ATGGCTTCAAAAATGAAATATAATTTATCAATTTTTATTAAATCCTTAAAGTTTTATCAAGTACA
*
18349558 CACACATTTTCTCATATTTTTTGTAGTCTTTGAATTAGAGTTCTTA
66 CACACATTTTCTCATATTTTTGGTAGTCTTTGAATTAGAGTTCTTA
18349604 ATG
1 ATG
18349607 ACGATGTGCA
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
111 104 1.00
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (111 bp):
ATGGCTTCAAAAATGAAATATAATTTATCAATTTTTATTAAATCCTTAAAGTTTTATCAAGTACA
CACACATTTTCTCATATTTTTGGTAGTCTTTGAATTAGAGTTCTTA
Found at i:18352858 original size:15 final size:15
Alignment explanation
Indices: 18352838--18352869 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
18352828 AAGAAAGTCA
18352838 AATTAACATAATATC
1 AATTAACATAATATC
18352853 AATTAACATAATATC
1 AATTAACATAATATC
18352868 AA
1 AA
18352870 GCAATAGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (15 bp):
AATTAACATAATATC
Found at i:18353527 original size:128 final size:126
Alignment explanation
Indices: 18353370--18353601 Score: 292
Period size: 127 Copynumber: 1.8 Consensus size: 126
18353360 TTATTTAAAC
* *
18353370 TAAAACCCTAAAATTACTCTAAAATATCTTAAAAATCAAAACA-AAATACTAAAAAAT-ATTTTT
1 TAAAACCCTAAAATTACTCCAAAATATCTTAAAAAT-AAAA-ATAAA-A-TAAAAAATAATTTTA
* * * *
18353433 TAAGGAACCAAAAAATAAATTA-ATATTTTTAATCTTTCTCAATATTTCATCCATAAAAAAGTAA
62 TAAAGAACAAAAAAATAAATTATACATTTTTAACCTTTCTCAATATTTCATCCATAAAAAAGTAA
*
18353497 TAAAACCCTAAAAATTACTCCATAAA-ATCTTTAAAATAAAAATAAAATAAAAAATGAATTTTAT
1 TAAAACCCT-AAAATTACTCCA-AAATATCTTAAAAATAAAAATAAAATAAAAAAT-AATTTTAT
* *
18353561 AAAGAATAAAAAAATAAGTTATACATTTTTAACCTTTCTCA
63 AAAGAACAAAAAAATAAATTATACATTTTTAACCTTTCTCA
18353602 CCTTTTATCC
Statistics
Matches: 90, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
125 8 0.09
126 2 0.02
127 39 0.43
128 38 0.42
129 3 0.03
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (126 bp):
TAAAACCCTAAAATTACTCCAAAATATCTTAAAAATAAAAATAAAATAAAAAATAATTTTATAAA
GAACAAAAAAATAAATTATACATTTTTAACCTTTCTCAATATTTCATCCATAAAAAAGTAA
Found at i:18353675 original size:20 final size:20
Alignment explanation
Indices: 18353647--18353684 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18353637 TTTTGTATAA
*
18353647 AGATAAAAATAATAAAAAAG
1 AGATAAAAACAATAAAAAAG
*
18353667 AGATTAAAACAATAAAAA
1 AGATAAAAACAATAAAAA
18353685 TCCTTCAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.16
Consensus pattern (20 bp):
AGATAAAAACAATAAAAAAG
Found at i:18355685 original size:70 final size:70
Alignment explanation
Indices: 18355557--18355704 Score: 174
Period size: 70 Copynumber: 2.1 Consensus size: 70
18355547 TTCATAAATA
* * * **
18355557 TTTAATTTGATTTGATTTTGATCAAATTAATTATATTTATGTTTATTAATGTAAATCTCTTTAAA
1 TTTAATTTAATTTAATTTTGATCAAATTAATTACATTTATGTTTAGCAATGTAAATCTCTTTAAA
* *
18355622 TTATT
66 TCAGT
* * *
18355627 TTTAATTTAATTTAATTTAT-ATCAAATTAATTACATTTATTTTTAGCAACT-TATATCTCTTTC
1 TTTAATTTAATTTAATTT-TGATCAAATTAATTACATTTATGTTTAGCAA-TGTAAATCTCTTTA
18355690 AATCAGT
64 AATCAGT
18355697 TTTAATTT
1 TTTAATTT
18355705 TTAATATCAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
70 64 0.97
71 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (70 bp):
TTTAATTTAATTTAATTTTGATCAAATTAATTACATTTATGTTTAGCAATGTAAATCTCTTTAAA
TCAGT
Found at i:18362375 original size:17 final size:17
Alignment explanation
Indices: 18362353--18362386 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
18362343 AAGTGTTTTG
18362353 AACAAAATACCCATGAT
1 AACAAAATACCCATGAT
18362370 AACAAAATACCCATGAT
1 AACAAAATACCCATGAT
18362387 GTGGGCCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.24, G:0.06, T:0.18
Consensus pattern (17 bp):
AACAAAATACCCATGAT
Found at i:18363763 original size:168 final size:168
Alignment explanation
Indices: 18363485--18363823 Score: 651
Period size: 168 Copynumber: 2.0 Consensus size: 168
18363475 GCAAGTTATC
18363485 GTATTCATTTATGTAATATCTTCTTGTTTATGTGCTTTTGAATAGGACAAAGCCTTTTTCATGGC
1 GTATTCATTTATGTAATATCTTCTTGTTTATGTGCTTTTGAATAGGACAAAGCCTTTTTCATGGC
*
18363550 TACTCTTTTCTACATTCCTCATTAATCCAATGTATCATCCTACCCAGGTCATGGTATGATTGTGA
66 TACTCTCTTCTACATTCCTCATTAATCCAATGTATCATCCTACCCAGGTCATGGTATGATTGTGA
18363615 AATAGTGAAATGGATCATAAAGAAACAACAAAACCCTA
131 AATAGTGAAATGGATCATAAAGAAACAACAAAACCCTA
*
18363653 GTATTCATTTATGTAATATCTTCTTGTTTGTGTGCTTTTGAATAGGACAAAGCCTTTTTCATGGC
1 GTATTCATTTATGTAATATCTTCTTGTTTATGTGCTTTTGAATAGGACAAAGCCTTTTTCATGGC
18363718 TACTCTCTTCTACATTCCTCATTAATCCAATGTATCATCCTACCCAGGTCATGGTATGATTGTGA
66 TACTCTCTTCTACATTCCTCATTAATCCAATGTATCATCCTACCCAGGTCATGGTATGATTGTGA
*
18363783 AATAGTGAAATGGATCATAAAGAAACAATAAAACCCTA
131 AATAGTGAAATGGATCATAAAGAAACAACAAAACCCTA
18363821 GTA
1 GTA
18363824 GGATTTTTTG
Statistics
Matches: 168, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
168 168 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (168 bp):
GTATTCATTTATGTAATATCTTCTTGTTTATGTGCTTTTGAATAGGACAAAGCCTTTTTCATGGC
TACTCTCTTCTACATTCCTCATTAATCCAATGTATCATCCTACCCAGGTCATGGTATGATTGTGA
AATAGTGAAATGGATCATAAAGAAACAACAAAACCCTA
Found at i:18365024 original size:195 final size:195
Alignment explanation
Indices: 18364692--18365078 Score: 756
Period size: 195 Copynumber: 2.0 Consensus size: 195
18364682 GATTTGCTCT
18364692 ATTATAGTGCTTTGCTACATAATATATAGTCTCGGAAACATATTCAAGTACCAAAATAAGATAGA
1 ATTATAGTGCTTTGCTACATAATATATAGTCTCGGAAACATATTCAAGTACCAAAATAAGATAGA
*
18364757 GCTCATACTTATTAGTCACTGAAAAAAAGTAACACTTGAGTGACACAACATTGGGATGATTAAGT
66 GCTCATACTTATTAGTCACTGAAAAAAAGTAACACTTGAGTGACACAACATTGGGATGATTAAGA
*
18364822 TGGCACATCGTTTGCAACTCACGATTTTAATATCTCTTATCTTGTAAAGCCTTTTTTATGGCTAC
131 CGGCACATCGTTTGCAACTCACGATTTTAATATCTCTTATCTTGTAAAGCCTTTTTTATGGCTAC
18364887 ATTATAGTGCTTTGCTACATAATATATAGTCTCGGAAACATATTCAAGTACCAAAATAAGATAGA
1 ATTATAGTGCTTTGCTACATAATATATAGTCTCGGAAACATATTCAAGTACCAAAATAAGATAGA
18364952 GCTCATACTTATTAGTCACTGAAAAAAAGTAACACTTGAGTGACACAACATTGGGATGATTAAGA
66 GCTCATACTTATTAGTCACTGAAAAAAAGTAACACTTGAGTGACACAACATTGGGATGATTAAGA
18365017 CGGCACATCGTTTGCAACTCACGATTTTAATATCTCTTATCTTGTAAAGCCTTTTTTATGGC
131 CGGCACATCGTTTGCAACTCACGATTTTAATATCTCTTATCTTGTAAAGCCTTTTTTATGGC
18365079 AACAATTTCT
Statistics
Matches: 190, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
195 190 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.33
Consensus pattern (195 bp):
ATTATAGTGCTTTGCTACATAATATATAGTCTCGGAAACATATTCAAGTACCAAAATAAGATAGA
GCTCATACTTATTAGTCACTGAAAAAAAGTAACACTTGAGTGACACAACATTGGGATGATTAAGA
CGGCACATCGTTTGCAACTCACGATTTTAATATCTCTTATCTTGTAAAGCCTTTTTTATGGCTAC
Found at i:18367508 original size:19 final size:19
Alignment explanation
Indices: 18367472--18367510 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18367462 AATAGTGGTT
*
18367472 TGTATATACTTTACATAAA
1 TGTATATACTTTAAATAAA
18367491 TGTATATA-TGTTAAATAAA
1 TGTATATACT-TTAAATAAA
18367510 T
1 T
18367511 ACCCTAACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (19 bp):
TGTATATACTTTAAATAAA
Found at i:18371110 original size:19 final size:21
Alignment explanation
Indices: 18371086--18371127 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
18371076 TAAGCTTCAA
18371086 AATTTTTGAT-TATTTAT-TG
1 AATTTTTGATATATTTATGTG
*
18371105 AATTTTTTATATATTTATGTG
1 AATTTTTGATATATTTATGTG
18371126 AA
1 AA
18371128 CAATAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 7 0.35
21 4 0.20
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.60
Consensus pattern (21 bp):
AATTTTTGATATATTTATGTG
Found at i:18371917 original size:234 final size:232
Alignment explanation
Indices: 18371107--18374875 Score: 1616
Period size: 234 Copynumber: 16.4 Consensus size: 232
18371097 ATTTATTGAA
** * * * *
18371107 TTTT-TTATATATTTATGTGAACAATAATTAATTAAAATTTTACCTTATCAATTTAATTA-TTAC
1 TTTTCTTATATATTTAT-AAAACAATAATTAATTAAAATTTTACATTGTCAATATAATTATTTAT
** * * * * * * * *
18371170 ATTGGAATAATATTTTCGTA-CAGTTGTTTTTA-TATTGCAATAAGTTTAAAATTATCATAACTC
65 ATTACAATAATATTTT-TTATGA-TTGTTCTTACT-TTCCATTACGTTTAGAATTGTCATAACT-
* * * * * * * *
18371233 TTTT-TTAATGTGTTATGATACTTTTTACCCATTTTAGACCAAATGATA-GAATTTTACACTTTT
126 TTTTCTTAGTGTGTTATGACACTTCTTACTCATTTTACA-TAAATGATACTAATTTTAC-GTTTT
* * * ** * *
18371296 TCTTACATGTTCATGTTACCTATTTACTTTTTAAAATTTTATCCA-TAT
189 TCTCACTTGTTTACATTACCTATTT-GTTTTT-TAATTTT-T--AGTAT
* * * * *
18371344 ATATT-TTATATATTTACAAAAATAATAATTAATTAAAATTTAATATTG-C--T-TAATTATTTA
1 -TTTTCTTATATATTTA-TAAAACAATAATTAATTAAAATTTTACATTGTCAATATAATTATTTA
** * * * * *
18371404 CGTTACAATAATATCTTTTTATGATTATTCTTACATTCCTTTACGTTTAGAATTGTTATAACTCT
64 TATTACAATAATAT-TTTTTATGATTGTTCTTACTTTCCATTACGTTTAGAATTGTCATAACTTT
* * * * * * * * *
18371469 TTCTTGGTGTGTGTTACGATATTTCTTACTCATTTTATATCAAATGATGCAAATTTTATGATTCT
128 TTCTT--AGTGTGTTATGACACTTCTTACTCATTTTACAT-AAATGATACTAATTTTACG-TTTT
** * *
18371534 TCTCACTTGTTTATGTTACTTATTTATTTTTTAATTTTTAGCTAT
189 TCTCACTTGTTTACATTACCTATTTGTTTTTTAATTTTTAG-TAT
* * * * *
18371579 TTTAT-TTATATA-TT-T---AC-A-AA--AATTAAAATTTTACGTTGCCTATTTAATTGTTTAT
1 TTT-TCTTATATATTTATAAAACAATAATTAATTAAAATTTTACATTGTCAATATAATTATTTAT
* * * * * * *
18371634 GTTACAATAATATTATTTTA-CAGTTATTCTTACTTTTCATTATGTTTAGAATTGTTATAAGTTT
65 ATTACAATAATATT-TTTTATGA-TTGTTCTTACTTTCCATTACGTTTAGAATTGTCATAACTTT
* * *
18371698 TTCATAGTGTGTTATGACACTTCTTACTCATTTTACAATAAATTATACAAATTTTACGTTTTTCT
128 TTCTTAGTGTGTTATGACACTTCTTACTCATTTTAC-ATAAATGATACTAATTTTACGTTTTTCT
*
18371763 CACTTGTTTACATTGCCTATTTGTTTTTTAATTTTTAGT-T
192 CACTTGTTTACATTACCTATTTGTTTTTTAATTTTTAGTAT
* * * * * * *
18371803 TTTTTTTATATATTTATAAAATCAATAATCAATTAAAAGTTAACATTATCTATTTAATTATTTAT
1 TTTTCTTATATATTTATAAAA-CAATAATTAATTAAAATTTTACATTGTCAATATAATTATTTAT
*
18371868 ATTACAATAATATTTTCTTATGGTTGTTCTTA-TCTTCCATTACGTTTAGAATTGTCATAAC---
65 ATTACAATAATATTTT-TTATGATTGTTCTTACT-TTCCATTACGTTTAGAATTGTCATAACTTT
* * * * * * * *
18371929 -TC-T--T-T-CT-T-ACTCTTTTTAC-C------C-CAAATGATACAAAATTTATGTTTCTCAC
128 TTCTTAGTGTGTTATGACACTTCTTACTCATTTTACATAAATGATACTAATTTTACGTTT-T-TC
* * * * *
18371978 TTATTTGTTT-CGTTACCTATTTGCTTTTTAATTATTAGCTA-
191 TCACTTGTTTACATTACCTATTTGTTTTTTAATTTTTAG-TAT
* * * * * *
18372019 ---T-ATATATATATAT-AAACAATAGTTAATTAAATTTTTACATTGTCTACTTAAAATT-TTTA
1 TTTTCTTATATATTTATAAAACAATAATTAATTAAAATTTTACATTGTC-A-ATATAATTATTTA
* * * * * * * *
18372078 TGTAATAATAATATTTTCTTATGAATGTTCTTACTTTCTATTACGTAATAATAATAACTATCATA
64 TATTACAATAATATTTT-TTATGATTGTTCTTACTTTCCATTACGT--T--T-AGAATTGTCATA
* * * * * * * * * *
18372143 GCTCTTTCTTAGTCTATTACGATACTTTTTA-TCTATTTTACATCAAATAATATTAATTTTATGT
123 ACTTTTTCTTAGTGTGTTATGACACTTCTTACTC-ATTTTACAT-AAATGATACTAATTTTACGT
* * * * * *
18372207 CTCTTCCCACTTATTTACATTACC-A-AT-TTTTTGAATTTGTAGCTAT
186 -TTTTCTCACTTGTTTACATTACCTATTTGTTTTTTAATTTTTAG-TAT
* * * * * *
18372253 TTTTCGTGTATATATACAACAATAACAATTAATTAAAAATTTT-CATTGTC-ATCATAATTATTT
1 TTTTCTTATATATTTATAA-AACAATAATTAATT-AAAATTTTACATTGTCAAT-ATAATTATTT
* * * ** ** *
18372316 ACATTACAATAATATATTTTTACT-ATTGTTTTTACTTTTCATTGTGTTTAGAATTGTTGTAGCT
63 ATATTACAATAATAT-TTTTTA-TGATTGTTCTTACTTTCCATTACGTTTAGAATTGTCATAACT
* * * * * * * * *
18372380 TTTTCTT-GTTGTGTTACGATACTTCTAACCCGTTTTAC-TCAAATGGTACAAATTTTACATTAC
126 TTTTCTTAG-TGTGTTATGACACTTCTTACTCATTTTACAT-AAATGATACTAATTTTACGTT-T
* * *
18372443 TTCTCACTTGTTTATATTATCAATTTGATTTTTTAA-TTTTAGCTAT
188 TTCTCACTTGTTTACATTACCTATTTG-TTTTTTAATTTTTAG-TAT
* * * * * * *
18372489 TTTACTT-TATATTTACAAGAATAATAAATAATTAAAATTTTACGTTGCCAACATAATTA-TTAC
1 TTTTCTTATATATTTATAA-AACAATAATTAATTAAAATTTTACATTGTCAATATAATTATTTA-
* * * ** * * *
18372552 TATTACAATAATAATTTTTTACGGTTGCTT-TTACTTTTCATTATATTTACAATTATCATAGCTT
64 TATTACAATAAT-ATTTTTTATGATTG-TTCTTACTTTCCATTACGTTTAGAATTGTCATAACTT
*** * * * *
18372616 TTTCTTAACATGTTATGACAATTTTTAC-CTATTTTACGCTAAAT-AGTACTAA-TTTATGTTTG
127 TTTCTTAGTGTGTTATGACACTTCTTACTC-ATTTTAC-ATAAATGA-TACTAATTTTACGTTT-
* * * *
18372678 TTCTCACTTGTTTACGTTA-CTAATTT-ATTTTTAATTTCTAACTAT
188 TTCTCACTTGTTTACATTACCT-ATTTGTTTTTTAATTT-TTAGTAT
* * * ** ** *
18372723 TTTCCTTAGATATTTATAAAATAATAATTAATTAAAATTTTATGTTACCAATATAATTATTTACA
1 TTTTCTTATATATTTATAAAACAATAATTAATTAAAATTTTACATTGTCAATATAATTATTTATA
* * * * * ** ** *
18372788 TCA-AGATAATATATTATTATGGTTATTTTTTA-TTTTTATTATATTTAGAATTATCATAAC-TT
66 TTACA-ATAATAT-TTTTTATGATT-GTTCTTACTTTCCATTACGTTTAGAATTGTCATAACTTT
* * * * * * *
18372850 TT-TAAATGTATTATGACTA-TTCATACTTATTTTATGC-CAAATGATACTAATTTTACATTTTT
128 TTCTTAGTGTGTTATGAC-ACTTCTTACTCATTTTA--CATAAATGATACTAATTTTAC-GTTTT
* * * *
18372912 TTTCACTTGTTTACGTTACCAATTAGTTTTTTAA-TTTTA-T-T
189 TCTCACTTGTTTACATTACCTATTTGTTTTTTAATTTTTAGTAT
* * * * *
18372953 TATTTTTTATATATTTACAAAAAAATAAATAATTAAAATTTTACATTGGCAACT-TAATTATTTA
1 T-TTTCTTATATATTTATAAAACAATAATTAATTAAAATTTTACATTGTCAA-TATAATTATTTA
* * * * * *
18373017 CATTATAATAAT-TTTTTTATGATTGTTCTTACCTTT-AATTATGTTTATAATTGTCATTACTTT
64 TATTACAATAATATTTTTTATGATTGTTCTTA-CTTTCCATTACGTTTAGAATTGTCATAACTTT
* * * * * * * * * *
18373080 TTTTTAGTGTGTTACGATATTTTTTACTCTTTTTATATCAAATTATACTAATTTTATGCTTTTCT
128 TTCTTAGTGTGTTATGACACTTCTTACTCATTTTACAT-AAATGATACTAATTTTACGTTTTTCT
* * * *
18373145 CACTTTTTTACATTATCTATTTGTTTTTCAATTTTTAACTAT
192 CACTTGTTTACATTACCTATTTGTTTTTTAATTTTT-AGTAT
* * * * * * * *
18373187 TCTCCTTATATATTTAAAAAATAATAATTAGTTAAAATTTTACATTGCCAACATAATTATTTATG
1 TTTTCTTATATATTTATAAAACAATAATTAATTAAAATTTTACATTGTCAATATAATTATTTATA
* * * * ** *
18373252 TTATAATAATATATTCTTAT-AGTTGGTCTTA-TGTTTCATTACGTTTAGAATCATCATTACTTT
66 TTACAATAATAT-TTTTTATGA-TTGTTCTTACT-TTCCATTACGTTTAGAATTGTCATAACTTT
* * * ** * * * *
18373315 TTCTTAGTATATTATAATGCTTCTTACTTATTTTACACTAAATAATACTAATTTTACATTTTGCT
128 TTCTTAGTGTGTTATGACACTTCTTACTCATTTTACA-TAAATGATACTAATTTTACGTTTTTCT
*
18373380 CACTTGTTTACATTA-CTAATTGTATTTTTTTTTAATTTTTAGCTAT
192 CACTTGTTTACATTACCT-A---T-TTGTTTTTTAATTTTTAG-TAT
* *
18373426 TTTTCTTATATA--TGT-AAACAATAATTAATTAAAATTTTACATTG-CTATCATAATTATTTAT
1 TTTTCTTATATATTTATAAAACAATAATTAATTAAAATTTTACATTGTCAAT-ATAATTATTTAT
* * * * * * *
18373487 ATTATAATAATATATTTTTATGATTGGTCTTACTTTCTATTACATTTAGAATTGTTATAGCTCTT
65 ATTACAATAATAT-TTTTTATGATTGTTCTTACTTTCCATTACGTTTAGAATTGTCATAACTTTT
* * * * * * *
18373552 TCTTGGTATTTTATGACACTTATTACTCATTTTATACCAAATGATACTAATTTTAC--ATTTCTC
129 TCTTAGTGTGTTATGACACTTCTTACTCATTTTACA-TAAATGATACTAATTTTACGTTTTTCTC
* * * * *
18373615 ACTTGTTTATATTATCAATTTATTTTTTAATTTTTAACTAT
193 ACTTGTTTACATTACCTATTTGTTTTTTAATTTTT-AGTAT
* ** *
18373656 TTTTCTTATATATTTATAGGAACAATAATTAATTAAAATTTTATGTTGTCAACATAATTATTTAC
1 TTTTCTTATATATTTATA-AAACAATAATTAATTAAAATTTTACATTGTCAATATAATTATTTA-
* * ** * * * ** *
18373721 T-TTACAATAATATAATCTTACAATTATTTTTA-TCTTCCAATGTGTTTAGAATTGTCATAACTG
64 TATTACAATAATAT-TTTTTATGATTGTTCTTACT-TTCCATTACGTTTAGAATTGTCATAACTT
* * * ** * * *
18373784 CTTCTTAATGTATTACAACACTTTTTAC-CTATTTTACATCAAATGATATTAATTTTACATTTTT
127 TTTCTTAGTGTGTTATGACACTTCTTACTC-ATTTTACAT-AAATGATACTAATTTTAC-GTTTT
* * * * *
18373848 TCTCACTTGTTTACTTTATCAATTTATTTTTTAATTTTTATATAT
189 TCTCACTTGTTTACATTACCTATTTGTTTTTTAATTTTTA-GTAT
* * * * ** *
18373893 TTTTCTTAAATATTTACAAAACAATAATTAATTAAAATTTTACGTTGTCGATATAATTCCTTACA
1 TTTTCTTATATATTTATAAAACAATAATTAATTAAAATTTTACATTGTCAATATAATTATTTATA
* * * * * * ***
18373958 TTACAATAATATTTTATTAT-AGCTGTTTTTATTTTCCATTACATTTAAAATTTTCATAAAGGTT
66 TTACAATAATATTTT-TTATGA-TTGTTCTTACTTTCCATTACGTTTAGAATTGTCATAACTTTT
* * * * *
18374022 T-TTA--GTG-TAT--TA-TTCATACCCATTTTACACTAAATGGTACTAATTTTATGTTTCTTCT
129 TCTTAGTGTGTTATGACACTTCTTACTCATTTTACA-TAAATGATACTAATTTTACGTTT-TTCT
* * * * * *
18374080 TAATTGTTTACGTTA-CTAATATATATTTTTTAATTTCTAGCCAT
192 CACTTGTTTACATTACCT-AT-T-TGTTTTTTAATTTTTAG-TAT
* * *
18374124 TTTTCTTACATATTT-T-AAA-AATAATTTATTAAAATTTTACGTTAG-CAACT-TAATTATTTA
1 TTTTCTTATATATTTATAAAACAATAATTAATTAAAATTTTACATT-GTCAA-TATAATTATTTA
* * * * *
18374184 CATTATAATAAT-TTATTTTCATGATTGTTCTTACCTTT-AATTACATTTAGAATTG-CAATAGC
64 TATTACAATAATATT-TTTT-ATGATTGTTCTTA-CTTTCCATTACGTTTAGAATTGTC-ATAAC
* * * * *
18374246 TATTTCTTACTGTGTTATGACACTT-TT-TTTAGTTTTACACCAAATG------A---TA-----
125 TTTTTCTTAGTGTGTTATGACACTTCTTACTCA-TTTTACA-TAAATGATACTAATTTTACGTTT
* * *
18374295 --CTCA--T-TTTACATTACCTATTTGTATTTTAATTTTT-TTCT
188 TTCTCACTTGTTTACATTACCTATTTGTTTTTTAATTTTTAGTAT
* * * * *
18374334 ATTTTCTTTATATATTTA-AAAATATTAATTAGTTAAAATTTTACGTTGTCAAAATAATTATTTA
1 -TTTTC-TTATATATTTATAAAACAATAATTAATTAAAATTTTACATTGTCAATATAATTATTTA
* * * * * * * ** * *
18374398 TGTTATAAT-A-ATTTTTTACGAATGTTCTTACCTTCTAGTATATTTAGAATAGTTATAACTTTT
64 TATTACAATAATATTTTTTATGATTGTTCTTACTTTCCATTACGTTTAGAATTGTCATAACTTTT
* * * * ** *
18374461 T-TTTG-GTGTTA-CAAACTTTTTACTCATTTTACATAAAATGATACTAATTTTATATTTCTTCA
129 TCTTAGTGTGTTATGACACTTCTTACTCATTTTACAT-AAATGATACTAATTTTACGTTT-TTCT
* * * * *
18374523 CACTTGTTTACTTTATCGATTTATTTTTTAATTTATAGTCA-
192 CACTTGTTTACATTACCTATTTGTTTTTTAATTTTTAGT-AT
* * * * * * * *
18374564 TTTTCTT-TGTATATACAAAAAAAAAATTAATTAAAATTTTATATT-ACTATCAT-ATTATTTAT
1 TTTTCTTATATATTTATAAAACAATAATTAATTAAAATTTTACATTGTCAAT-ATAATTATTTAT
* * * * * * *
18374626 GTTACAATAATATATTTTTATGTTTATGCTTACTTTTCGATATA--TTTAGAATTGTCTTAATTT
65 ATTACAATAATAT-TTTTTATGATTGTTCTTAC-TTTCCAT-TACGTTTAGAATTGTCATAACTT
* * * * ** * *
18374689 TTTCTTAGTGTGTTATAATATTTCTTACTTATTTTACGCCAAATGATA-TGAATGTTATGTTTCT
127 TTTCTTAGTGTGTTATGACACTTCTTACTCATTTTAC-ATAAATGATACT-AATTTTACGTTT-T
* * * ** * *
18374753 TCTTA-TCTATTCATGTTATCTA--TATTTTTT-ATTTATTAGATAT
189 TCTCACT-TGTTTACATTACCTATTTGTTTTTTAATTT-TTAG-TAT
* ** * * *
18374796 TTTTCTTATATATTTAT-AGA-AATAATTAATTAAAATTTTATGTTGT-TATCATAGTTATTTAC
1 TTTTCTTATATATTTATAAAACAATAATTAATTAAAATTTTACATTGTCAAT-ATAATTATTTAT
* *
18374858 ATTTCAATGATATTTTTT
65 ATTACAATAATATTTTTT
18374876 TACAGTTATT
Statistics
Matches: 2720, Mismatches: 566, Indels: 497
0.72 0.15 0.13
Matches are distributed among these distances:
208 5 0.00
209 20 0.01
210 30 0.01
211 82 0.03
212 41 0.02
213 10 0.00
214 70 0.03
215 30 0.01
216 21 0.01
217 3 0.00
218 2 0.00
220 2 0.00
221 1 0.00
222 1 0.00
223 11 0.00
224 13 0.00
225 22 0.01
226 45 0.02
227 83 0.03
228 120 0.04
229 186 0.07
230 115 0.04
231 190 0.07
232 84 0.03
233 220 0.08
234 412 0.15
235 332 0.12
236 282 0.10
237 112 0.04
238 84 0.03
239 62 0.02
240 22 0.01
241 7 0.00
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (232 bp):
TTTTCTTATATATTTATAAAACAATAATTAATTAAAATTTTACATTGTCAATATAATTATTTATA
TTACAATAATATTTTTTATGATTGTTCTTACTTTCCATTACGTTTAGAATTGTCATAACTTTTTC
TTAGTGTGTTATGACACTTCTTACTCATTTTACATAAATGATACTAATTTTACGTTTTTCTCACT
TGTTTACATTACCTATTTGTTTTTTAATTTTTAGTAT
Found at i:18374149 original size:934 final size:931
Alignment explanation
Indices: 18372471--18374200 Score: 1916
Period size: 934 Copynumber: 1.8 Consensus size: 931
18372461 ATCAATTTGA
* * *
18372471 TTTTTTAATTTTAGCTATTTTACTTTATATTTACAAGAATAATAAATAATTAAAATTTTACGTTG
1 TTTTTTAATTTTAGCTATTTTACTTTATATGTACAACAATAAT--ATAATTAAAATTTTACATTG
* * *
18372536 CCAACATAATTATTACTATTACAATAATAATTTTTTACGGTTGCTTTTACTTTTCATTATATTTA
64 CCAACATAATTATTACTATTACAATAATAATTTTTTACGATTGCTCTTACTTTTCATTACATTTA
* * * *
18372601 CAATTATCATAGCTTTTTCTTAACATGTTATGACAATTTTTACCTATTTTACGCTAAATAGTACT
129 CAATTATCATAGCTCTTTCTTAACATGTTATGACAATTATTACCTATTTTACACCAAATAGTACT
*** *
18372666 AATTTATGTTTGTTCTCACTTGTTTACGTTACTAATTTATTTTTAATTTCTAACTATTTTCCTTA
194 AATTTATACATGTTCTCACTTGTTTACATTACTAATTTATTTTTAATTTCTAACTATTTTCCTTA
* *
18372731 GATATTTATAAAATAATAATTAATTAAAATTTTATGTTACCAATATAATTATTTACATCAAGATA
259 GATATTTATAAAACAATAATTAATTAAAATTTTATGTTACCAACATAATTATTTACATCAAGATA
* *** ** *
18372796 ATATATTATTATGGTTATTTTTTATTTTTATTATATTTAGAATTATCATAACTTTTTAAATGTAT
324 ATATAATATTACAATTATTTTTTATTTCCAATATATTTAGAATTATCATAACTTTTTAAATGTAT
** * ** *
18372861 TATGACTATTCATACTTATTTTATGCCAAATGATACTAATTTTACATTTTTTTTCACTTGTTTAC
389 TACAACTATTCATACCTATTTTACACCAAATGATACTAATTTTACATTTTTTCTCACTTGTTTAC
* *
18372926 GTTACCAATTAGTTTTTTAATTTTATTTATTTTTTATATATTTACAAAAAAATAAATAATTAAAA
454 GTTACCAATTAGTTTTTTAATTTTATATATTTTTTAAATATTTACAAAAAAATAAATAATTAAAA
* * *
18372991 TTTTACATTGGCAACTTAATTATTTACATTATAATAATTTTTTTATGATTGTTCTTACCTTTAAT
519 TTTTACATTGGCAACTTAATTACTTACATTACAATAATTTTTTTATGACTGTTCTTACCTTTAAT
** * **** ** * * *
18373056 TATGTTTATAATTGTCATTACTTTTTTTTAGTGTGTTACGATATTTTTTACTCTTTTTATATCAA
584 TACATTTAAAATTGTCATTAAAGGTTTTTAG-GTGTTAC-ATATTTCATACCCATTTTACATCAA
* * * * * *
18373121 ATTATACTAATTTTATGCTTTTCTCACTTTTTTACATTATCTATTTGTTTTTCAATTTTTAACTA
647 ATGATACTAATTTTATGCTTTTCTCAATTGTTTACATTATCTATTTATTTTTCAATTTCTAACCA
*
18373186 TTCTCCTTATATATTTAAAAAATAATAA-TTAGTTAAAATTTTACATT-GCCAACATAATTATTT
712 TTCTCCTTACATATTT-AAAAATAATAATTTA-TTAAAATTTTACATTAG-CAACATAATTATTT
**
18373249 ATGTTATAATAATATATTCTTATAGTTGGTCTTATGTTTCATTACGTTTAGAATCATCATTACTT
774 ACATTATAATAATATATTCTTATAGTTGGTCTTATGTTTCATTACGTTTAGAATCATCATTACTT
18373314 TTTCTTAGTATATTATAATGCTTCTTACTTATTTTACACTAAATAATACTAATTTTACATTTTGC
839 TTTCTTAGTATATTATAATGCTTCTTACTTATTTTACACTAAATAATACTAATTTTACATTTTGC
18373379 TCACTTGTTTACATTACTAATTGTATTT
904 TCACTTGTTTACATTACTAATTGTATTT
*
18373407 TTTTTTAATTTTTAGCTATTTTTCTTATATATGTA-AACAATAAT-TAATTAAAATTTTACATTG
1 TTTTTTAA-TTTTAGCTATTTTACTT-TATATGTACAACAATAATATAATTAAAATTTTACATTG
* * * * *
18373470 CTATCATAATTATTTA-TATTATAATAAT-ATATTTTTATGATTGGTCTTAC-TTTCTATTACAT
64 CCAACATAATTA-TTACTATTACAATAATAAT-TTTTTACGATTGCTCTTACTTTTC-ATTACAT
* * * *** * * *
18373532 TTAGAATTGTTATAGCTCTTTCTTGGTATTTTATGACACTTATTA-CTCATTTTATACCAAAT-G
126 TTACAATTATCATAGCTCTTTCTTAACATGTTATGACAATTATTACCT-ATTTTACACCAAATAG
* *
18373595 ATACTAATTT-TACAT-TTCTCACTTGTTTATATTA-TCAATTTATTTTTTAATTTTTAACTATT
190 -TACTAATTTATACATGTTCTCACTTGTTTACATTACT-AATTTA-TTTTTAATTTCTAACTATT
* * * ** *
18373657 TTTCTTATATATTTATAGGAACAATAATTAATTAAAATTTTATGTTGTCAACATAATTATTTACT
252 TTCCTTAGATATTTATA-AAACAATAATTAATTAAAATTTTATGTTACCAACATAATTATTTACA
* * * * *
18373722 TTACA-ATAATATAATCTTACAATTA-TTTTTATCTTCCAATGTGTTTAGAATTGTCATAACTGC
316 TCA-AGATAATATAATATTACAATTATTTTTTAT-TTCCAATATATTTAGAATTATCATAACT--
** * *
18373785 TTCTT-AATGTATTACAAC-ACTTTTTACCTATTTTACATCAAATGATATTAATTTTACATTTTT
377 TT-TTAAATGTATTACAACTA-TTCATACCTATTTTACACCAAATGATACTAATTTTACATTTTT
* *
18373848 TCTCACTTGTTTACTTTATCAATTTA-TTTTTTAATTTTTATATATTTTTCTTAAATATTTACAA
440 TCTCACTTGTTTACGTTACCAA-TTAGTTTTTTAA-TTTTATATA-TTTT-TTAAATATTTACAA
* * * * * *
18373912 AACAATAATTAATTAAAATTTTACGTTGTCGA-TATAATTCCTTACATTACAATAATATTTTATT
501 AAAAATAAATAATTAAAATTTTACATTGGCAACT-TAATTACTTACATTACAATAAT-TTTT-TT
* * * * *
18373976 AT-AGCTGTTTTTA-TTTTCCATTACATTTAAAATTTTCA-TAAAGGTTTTTA-GTG-TA-TTA-
563 ATGA-CTGTTCTTACCTTT-AATTACATTTAAAATTGTCATTAAAGGTTTTTAGGTGTTACATAT
* * * *
18374034 TTCATACCCATTTTACA-CTAAATGGTACTAATTTTATGTTTCTTCTTAATTGTTTACGTTA-CT
626 TTCATACCCATTTTACATC-AAATGATACTAATTTTATGCTT-TTCTCAATTGTTTACATTATCT
* * * * *
18374097 AATATATATTTTTTAATTTCTAGCCATTTTTCTTACATATTT-TAAA-AATAATTTATTAAAATT
689 -AT-T-TATTTTTCAATTTCTAACCATTCTCCTTACATATTTAAAAATAATAATTTATTAAAATT
* * *
18374160 TTACGTTAGCAACTTAATTATTTACATTATAATAATTTATT
751 TTACATTAGCAACATAATTATTTACATTATAATAATATATT
18374201 TTCATGATTG
Statistics
Matches: 650, Mismatches: 112, Indels: 66
0.79 0.14 0.08
Matches are distributed among these distances:
931 1 0.00
932 23 0.04
933 52 0.08
934 275 0.42
935 31 0.05
936 85 0.13
937 67 0.10
938 15 0.02
939 59 0.09
940 16 0.02
941 26 0.04
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (931 bp):
TTTTTTAATTTTAGCTATTTTACTTTATATGTACAACAATAATATAATTAAAATTTTACATTGCC
AACATAATTATTACTATTACAATAATAATTTTTTACGATTGCTCTTACTTTTCATTACATTTACA
ATTATCATAGCTCTTTCTTAACATGTTATGACAATTATTACCTATTTTACACCAAATAGTACTAA
TTTATACATGTTCTCACTTGTTTACATTACTAATTTATTTTTAATTTCTAACTATTTTCCTTAGA
TATTTATAAAACAATAATTAATTAAAATTTTATGTTACCAACATAATTATTTACATCAAGATAAT
ATAATATTACAATTATTTTTTATTTCCAATATATTTAGAATTATCATAACTTTTTAAATGTATTA
CAACTATTCATACCTATTTTACACCAAATGATACTAATTTTACATTTTTTCTCACTTGTTTACGT
TACCAATTAGTTTTTTAATTTTATATATTTTTTAAATATTTACAAAAAAATAAATAATTAAAATT
TTACATTGGCAACTTAATTACTTACATTACAATAATTTTTTTATGACTGTTCTTACCTTTAATTA
CATTTAAAATTGTCATTAAAGGTTTTTAGGTGTTACATATTTCATACCCATTTTACATCAAATGA
TACTAATTTTATGCTTTTCTCAATTGTTTACATTATCTATTTATTTTTCAATTTCTAACCATTCT
CCTTACATATTTAAAAATAATAATTTATTAAAATTTTACATTAGCAACATAATTATTTACATTAT
AATAATATATTCTTATAGTTGGTCTTATGTTTCATTACGTTTAGAATCATCATTACTTTTTCTTA
GTATATTATAATGCTTCTTACTTATTTTACACTAAATAATACTAATTTTACATTTTGCTCACTTG
TTTACATTACTAATTGTATTT
Found at i:18374210 original size:698 final size:682
Alignment explanation
Indices: 18372214--18374604 Score: 1949
Period size: 698 Copynumber: 3.5 Consensus size: 682
18372204 TGTCTCTTCC
* * * * * *
18372214 CACTTATTTACATTACCAA-T--TTTTTGAATTTGTAGCTATTTTTCGTGTATATATACAACAAT
1 CACTTGTTTACATTACCAATTAGTTTTTTAATTT-TAACTATTTTT--TATATATTTACAA-AAA
* * *
18372276 AACAATTAATTAAAAATTTTCATTGTCATCATAATTATTTACATTACAATAATATATTTTTACTA
62 AATAATTAATT-AAAATTTT-ATTGTCAACATAATTATTTACATTACAATAATATATTTTTACAA
* ** * ** *
18372341 TTGTTTTTACTTTTCATTGTGTTTAGAATTGTTGTAGCTTTTTCTTGTTGTGTTACGATACTTCT
125 TTGTTTTTAC--TTCAATGTGTTTAGAATTGTCATAACTTTTTCTTAATGTGTTACGATACTTTT
* * * * **
18372406 AACCCGTTTTAC-TCAAATGGTACAAATTTTACATTACTTCTCACTTGTTTA-TATTATCAATTT
188 TA-CCTTTTTACATCAAATGATACTAATTTTACATTTTTTCTCACTTGTTTACT-TTATCAATTT
* *
18372469 GATTTTTTAA-TTTTAGCTATTTTACTT-TATATTTACAAGAATAATAAATAATTAAAATTTTAC
251 -ATTTTTTAATTTTTA-ATATTTTACTTATATATTTACAA-AATAATAATTAATTAAAATTTTAC
** *
18372532 GTTGCCAACATAATTATTACTATTACAATAATAATTTTTTACGGTTGCTTTTACTTTTCATTATA
313 GTTGCCAACATAATTATTAC-ATTACAATAAT-ATTTTTTATAGTTGCTTTTA-TTTTCATTACA
* * * * * *
18372597 TTTACAATTATCATAGCTTTTTCTTAACATGTTATGACAATTTTTACCTATTTTACGCTAAATAG
375 TTTAAAATTATCATAACTTTTTCTT-A-GTG-TAT-A-TATTCTTACCTATTTTACACTAAATAG
*
18372662 TACTAA-TTTATGTTTGTTCTCACTTGTTTACGTTACTAATT-TA-TTTTTAATTTCTAACTATT
435 TACTAATTTTATGTTT-TTCTCACTTGTTTACGTTACTAATTATATTTTTTAATTTCTAGCTATT
* * * * *
18372724 TTCCTTAGATATTTATAAAATAATAATTAATTAAAATTTTATGTTACCAA-TATAATTATTTACA
499 TTTCTTACATATTT-T-AAACAATAATTAATTAAAATTTTACGTTAGCAACT-TAATTATTTACA
* * * * * * * * * *
18372788 TCA-AGATAATATATTATTATGGTTATTTTTTATTTTTATTATATTTAGAATTATCATAACTTTT
561 TTATA-ATAATATATT-TTATGATT-GTTCTTACTTTTATTACATTTAGAATTGTAATAGCTATT
** * *
18372852 TAAATGTA-TTATGACTA-TTCA-TACTTATTTTATGCCAAATGATACTAATTTTACATTTTTTT
623 T-CTTGTATTTATGAC-ACTT-ATTACTTATTTTATACCAAATGATACTAATTTTACA---TTTC
18372914 T
682 T
* **
18372915 CACTTGTTTACGTTACCAATTAGTTTTTTAATTTTATTTATTTTTTATATATTTACAAAAAAATA
1 CACTTGTTTACATTACCAATTAGTTTTTTAATTTTAACTATTTTTTATATATTTACAAAAAAATA
* * * * **
18372980 AATAATTAAAATTTTACATTGGCAACTTAATTATTTACATTATAATAAT-T-TTTTTATGATTGT
66 ATTAATTAAAATTTT--ATTGTCAACATAATTATTTACATTACAATAATATATTTTTACAATTGT
* * * * * * * *
18373043 TCTTACCTTTAATTATGTTTATAATTGTCATTACTTTTTTTTAGTGTGTTACGATATTTTTTACT
129 TTTTA-CTTCAA-TGTGTTTAGAATTGTCATAACTTTTTCTTAATGTGTTACGATACTTTTTAC-
* * * * * * *
18373108 CTTTTTATATCAAATTATACTAATTTT--ATGCTTTTCTCACTTTTTTACATTATCTATTTGTTT
191 CTTTTTACATCAAATGATACTAATTTTACAT-TTTTTCTCACTTGTTTACTTTATCAATTTATTT
* * * * * *
18373171 TTCAATTTTTAACTATTCTCCTTATATATTTAAAAAATAATAATTAGTTAAAATTTTACATTGCC
255 TTTAATTTTTAA-TATTTTACTTATATATTTACAAAATAATAATTAATTAAAATTTTACGTTGCC
** * * * * * *
18373236 AACATAATTATTTATGTTATAATAATATATTCTTATAGTTGGTCTTATGTTTCATTACGTTTAGA
319 AACATAATTA-TTACATTACAATAATAT-TTTTTATAGTTGCTTTTAT-TTTCATTACATTTAAA
* * * * *
18373301 ATCATCATTACTTTTTCTTAGTATATTATAATGCTTCTTACTTATTTTACACTAAATAATACTAA
381 ATTATCATAACTTTTTCTTAGTGTA-TAT-A---TTCTTACCTATTTTACACTAAATAGTACTAA
** * * * *
18373366 TTTTACATTTTGCTCACTTGTTTACATTACTAATTGTATTTTTTTTTAATTTTTAGCTATTTTTC
441 TTTTATGTTTTTCTCACTTGTTTACGTTACTAA-T-TA-TATTTTTTAATTTCTAGCTATTTTTC
* * * * * *
18373431 TTATATA-TGTAAACAATAATTAATTAAAATTTTACATT-GCTATCATAATTATTTATATTATAA
503 TTACATATTTTAAACAATAATTAATTAAAATTTTACGTTAGC-AACTTAATTATTTACATTATAA
* * *
18373494 TAATATATTTTTATGATTGGTCTTACTTTCTATTACATTTAGAATTGTTATAGCTCTTTCTTGGT
567 TAATATA-TTTTATGATTGTTCTTACTTT-TATTACATTTAGAATTGTAATAGCTATTTCTT-GT
*
18373559 ATTTTATGACACTTATTACTCATTTTATACCAAATGATACTAATTTTACATTTCT
629 A-TTTATGACACTTATTACTTATTTTATACCAAATGATACTAATTTTACATTTCT
* * * *
18373614 CACTTGTTTATATTATCAATTTA-TTTTTTAATTTTTAACTATTTTTCTTATATATTTATAGGAA
1 CACTTGTTTACATTACCAA-TTAGTTTTTTAA-TTTTAACTA-TTTT-TTATATATTTACA-AAA
* * * *
18373678 CAATAATTAATTAAAATTTTATGTTGTCAACATAATTATTTACTTTACAATAATATAATCTTACA
61 AAATAATTAATTAAAATTTTA--TTGTCAACATAATTATTTACATTACAATAATATATTTTTACA
* ** * * *
18373743 ATTATTTTTATCTTCCAATGTGTTTAGAATTGTCATAACTGCTTCTTAATGTATTACAACACTTT
124 ATTGTTTTTA-CTT-CAATGTGTTTAGAATTGTCATAACTTTTTCTTAATGTGTTACGATACTTT
*
18373808 TTACCTATTTTACATCAAATGATATTAATTTTACATTTTTTCTCACTTGTTTACTTTATCAATTT
187 TTACCT-TTTTACATCAAATGATACTAATTTTACATTTTTTCTCACTTGTTTACTTTATCAATTT
* * *
18373873 ATTTTTTAATTTTTATATATTTTTCTTAAATATTTACAAAACAATAATTAATTAAAATTTTACGT
251 ATTTTTTAATTTTTA-ATATTTTACTTATATATTTACAAAATAATAATTAATTAAAATTTTACGT
* * * * * *
18373938 TGTCGATATAATTCCTTACATTACAATAATATTTTATTATAGCTGTTTTTATTTTCCATTACATT
315 TGCCAACATAATT-ATTACATTACAATAATATTTT-TTATAGTTGCTTTTATTTT-CATTACATT
* *** * * *
18374003 TAAAATTTTCATAAAGGTTT-TTAGTGTAT-TATTCATACCCATTTTACACTAAATGGTACTAAT
377 TAAAATTATCATAACTTTTTCTTAGTGTATATATTCTTACCTATTTTACACTAAATAGTACTAAT
* * *
18374066 TTTATGTTTCTTCTTAATTGTTTACGTTACTAATATATATTTTTTAATTTCTAGCCATTTTTCTT
442 TTTATGTTT-TTCTCACTTGTTTACGTTACTAAT-TATATTTTTTAATTTCTAGCTATTTTTCTT
*
18374131 ACATATTTTAAA-AATAATTTATTAAAATTTTACGTTAGCAACTTAATTATTTACATTATAATAA
505 ACATATTTTAAACAATAATTAATTAAAATTTTACGTTAGCAACTTAATTATTTACATTATAATAA
* * * * *
18374195 TTTATTTTCATGATTGTTCTTACCTTTAATTACATTTAGAATTGCAATAGCTATTTCTTACTGTG
570 TATATTTT-ATGATTGTTCTTA-CTTTTATTACATTTAGAATTGTAATAGCTATTTCTT-GTAT-
* * * *
18374260 TTATGACACTT-TT-TTTAGTTTTACACCAAATGATACTCATTTTACATTAC-
631 TTATGACACTTATTACTTA-TTTTATACCAAATGATACTAATTTTACATTTCT
* *
18374310 CTATTTGTATT---TT---AATT--TTTTTCT-ATTTT--C-----TTTATATATTTA-AAAATA
1 C-ACTTGT-TTACATTACCAATTAGTTTTT-TAATTTTAACTATTTTTTATATATTTACAAAAAA
* * * ** *
18374358 TTAATTAGTTAAAATTTTACGTTGTCAAAATAATTATTTATGTTATAAT-A-AT-TTTTTACGAA
63 ATAATTAATTAAAATTTTA--TTGTCAACATAATTATTTACATTACAATAATATATTTTTAC-AA
* * * * * * *
18374420 -TGTTCTTACCTTCTAGTATATTTAGAATAGTTATAACTTTTT-TT--TGGTGTTAC-AAACTTT
125 TTGTTTTTA-CTTC-AATGTGTTTAGAATTGTCATAACTTTTTCTTAAT-GTGTTACGATACTTT
* * * * * *
18374480 TTACTCATTTTACATAAAATGATACTAATTTTATATTTCTTCACACTTGTTTACTTTATCGATTT
187 TTAC-CTTTTTACATCAAATGATACTAATTTTACATTTTTTCTCACTTGTTTACTTTATCAATTT
* * * * * *
18374545 ATTTTTTAATTTATAGTCATTTT-CTT-TGTATATACAAAAAAAAAATTAATTAAAATTTTA
251 ATTTTTTAATTTTTAAT-ATTTTACTTATATATTTACAAAATAATAATTAATTAAAATTTTA
18374605 TATTACTATC
Statistics
Matches: 1374, Mismatches: 247, Indels: 169
0.77 0.14 0.09
Matches are distributed among these distances:
670 29 0.02
671 4 0.00
672 82 0.06
673 7 0.01
674 3 0.00
675 35 0.03
676 4 0.00
677 1 0.00
678 45 0.03
679 1 0.00
680 11 0.01
681 1 0.00
687 1 0.00
689 4 0.00
690 6 0.00
691 3 0.00
692 2 0.00
695 6 0.00
696 5 0.00
697 58 0.04
698 360 0.26
699 131 0.10
700 151 0.11
701 39 0.03
702 57 0.04
703 83 0.06
704 14 0.01
705 89 0.06
706 139 0.10
707 3 0.00
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (682 bp):
CACTTGTTTACATTACCAATTAGTTTTTTAATTTTAACTATTTTTTATATATTTACAAAAAAATA
ATTAATTAAAATTTTATTGTCAACATAATTATTTACATTACAATAATATATTTTTACAATTGTTT
TTACTTCAATGTGTTTAGAATTGTCATAACTTTTTCTTAATGTGTTACGATACTTTTTACCTTTT
TACATCAAATGATACTAATTTTACATTTTTTCTCACTTGTTTACTTTATCAATTTATTTTTTAAT
TTTTAATATTTTACTTATATATTTACAAAATAATAATTAATTAAAATTTTACGTTGCCAACATAA
TTATTACATTACAATAATATTTTTTATAGTTGCTTTTATTTTCATTACATTTAAAATTATCATAA
CTTTTTCTTAGTGTATATATTCTTACCTATTTTACACTAAATAGTACTAATTTTATGTTTTTCTC
ACTTGTTTACGTTACTAATTATATTTTTTAATTTCTAGCTATTTTTCTTACATATTTTAAACAAT
AATTAATTAAAATTTTACGTTAGCAACTTAATTATTTACATTATAATAATATATTTTATGATTGT
TCTTACTTTTATTACATTTAGAATTGTAATAGCTATTTCTTGTATTTATGACACTTATTACTTAT
TTTATACCAAATGATACTAATTTTACATTTCT
Found at i:18374630 original size:20 final size:21
Alignment explanation
Indices: 18374601--18374649 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
18374591 TAATTAAAAT
* * *
18374601 TTTATATTACTATCATAT-TA
1 TTTATGTTACAATAATATATA
*
18374621 TTTATGTTACAATAATATATT
1 TTTATGTTACAATAATATATA
18374642 TTTATGTT
1 TTTATGTT
18374650 TATGCTTACT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (21 bp):
TTTATGTTACAATAATATATA
Found at i:18375517 original size:11 final size:10
Alignment explanation
Indices: 18375464--18375526 Score: 65
Period size: 10 Copynumber: 6.2 Consensus size: 10
18375454 GAAGAAAATA
18375464 ATGATTCTTG
1 ATGATTCTTG
*
18375474 ATAATTCTTG
1 ATGATTCTTG
* *
18375484 AAGATTCTTA
1 ATGATTCTTG
*
18375494 AAG-TTCTTTG
1 ATGATTC-TTG
18375504 ATGATTCTTGG
1 ATGATTCTT-G
18375515 ATGATTCTTG
1 ATGATTCTTG
18375525 AT
1 AT
18375527 CATATTATGG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
9 3 0.07
10 28 0.64
11 13 0.30
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.48
Consensus pattern (10 bp):
ATGATTCTTG
Found at i:18381521 original size:14 final size:14
Alignment explanation
Indices: 18381499--18381528 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18381489 TAATAAACTT
*
18381499 AAAATTTTTAAATA
1 AAAAATTTTAAATA
18381513 AAAAATTTTAAATA
1 AAAAATTTTAAATA
18381527 AA
1 AA
18381529 TAATATTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAAATTTTAAATA
Found at i:18389808 original size:31 final size:32
Alignment explanation
Indices: 18389770--18389831 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
18389760 ACTATCAAAG
18389770 TTTTCAAAAATG-AAAA-TTTTAAAACTTTCTC
1 TTTTC-AAAATGAAAAATTTTTAAAACTTTCTC
* *
18389801 TTTTCAAAGTGAAAAATTTTTAAAATTTTCT
1 TTTTCAAAATGAAAAATTTTTAAAACTTTCT
18389832 ACCTATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 5 0.19
31 9 0.33
32 13 0.48
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (32 bp):
TTTTCAAAATGAAAAATTTTTAAAACTTTCTC
Found at i:18389913 original size:49 final size:49
Alignment explanation
Indices: 18389850--18390130 Score: 189
Period size: 49 Copynumber: 5.7 Consensus size: 49
18389840 TTACAAGCCC
** * * *
18389850 TTTCAAAGCGAGATTTTTTAAATTTCTTGCATATGTTTGTAAGAGCCTT
1 TTTCAAAATGAGATTTTTTAAATTTCTTACCTATGTTTATAAGAGCCTT
* * * ***
18389899 TTTCAAAATGAGA-TTTTTAAAGCTCCTTACCTATATTTATAGTAGATTTTT
1 TTTCAAAATGAGATTTTTTAAA-TTTCTTACCTATGTTTATA--AGAGCCTT
* * ** *
18389950 TTTTAAAAAGA-AAATTTTAAAGTTTCTTACTTATGTTTATAAGAGCC-T
1 TTTCAAAATGAGATTTTTTAAA-TTTCTTACCTATGTTTATAAGAGCCTT
* * *
18389998 TTTCAATATGAGATTTTTGAAA-TTCTTTACCTATATTTATAAGAGCCTT
1 TTTCAAAATGAGATTTTTTAAATTTC-TTACCTATGTTTATAAGAGCCTT
* ** * * *
18390047 TTTTAACGTGAGATTTTTT-AATGCTCCCTGCCTATGTTTAT-AGAAGCC-T
1 TTTCAAAATGAGATTTTTTAAAT--TTCTTACCTATGTTTATAAG-AGCCTT
* *
18390096 TTTCAAAATTAGATTTTTAAAATTTCTTATCCTAT
1 TTTCAAAATGAGATTTTTTAAATTTCTTA-CCTAT
18390131 AGCTTAAAAA
Statistics
Matches: 174, Mismatches: 45, Indels: 26
0.71 0.18 0.11
Matches are distributed among these distances:
47 3 0.02
48 41 0.24
49 72 0.41
50 19 0.11
51 39 0.22
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.46
Consensus pattern (49 bp):
TTTCAAAATGAGATTTTTTAAATTTCTTACCTATGTTTATAAGAGCCTT
Found at i:18398567 original size:26 final size:26
Alignment explanation
Indices: 18398531--18398584 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
18398521 GTCAATTACT
*
18398531 AAGTTTTTGTTCTTTTAATATTTTTC
1 AAGTTTTTGTTCTTTAAATATTTTTC
18398557 AAGTTTTTGTTCTTTAAATATTTTTC
1 AAGTTTTTGTTCTTTAAATATTTTTC
18398583 AA
1 AA
18398585 TCATGAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.61
Consensus pattern (26 bp):
AAGTTTTTGTTCTTTAAATATTTTTC
Found at i:18402399 original size:16 final size:16
Alignment explanation
Indices: 18402378--18402408 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18402368 TATTAATACT
*
18402378 CATGCAAATATATTAC
1 CATGCAAATAAATTAC
18402394 CATGCAAATAAATTA
1 CATGCAAATAAATTA
18402409 TCACACAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.29
Consensus pattern (16 bp):
CATGCAAATAAATTAC
Found at i:18402467 original size:25 final size:24
Alignment explanation
Indices: 18402439--18402568 Score: 82
Period size: 25 Copynumber: 5.1 Consensus size: 24
18402429 TCATGCAAAT
18402439 TCATACACATAAATATATTAGGTAA
1 TCATACACATAAATATATTA-GTAA
* * *
18402464 TCATATATATAAATATATTAATAA
1 TCATACACATAAATATATTAGTAA
* * *
18402488 TCATGCA-ACTAAATTAATAAATCATTCAA
1 TCATACACA-TAAA-T-AT--ATTAGT-AA
* *
18402517 TTACACACATAAATATATTAGGTAA
1 TCATACACATAAATATATTA-GTAA
* * *
18402542 TCATGCAAATAAATATATTAATAA
1 TCATACACATAAATATATTAGTAA
18402566 TCA
1 TCA
18402569 AGCAATTAAA
Statistics
Matches: 80, Mismatches: 17, Indels: 17
0.70 0.15 0.15
Matches are distributed among these distances:
23 1 0.01
24 18 0.22
25 40 0.50
26 3 0.04
27 2 0.03
28 5 0.06
29 10 0.12
30 1 0.01
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.34
Consensus pattern (24 bp):
TCATACACATAAATATATTAGTAA
Found at i:18402532 original size:78 final size:78
Alignment explanation
Indices: 18402427--18402597 Score: 261
Period size: 78 Copynumber: 2.2 Consensus size: 78
18402417 ATATAATATT
* * * *
18402427 AATCATGCAAATTCATACACATAAATATATTAGGTAATCATATATATAAATATATTAATAATCAT
1 AATCATGC-AATT-ACACACATAAATATATTAGGTAATCATACAAATAAATATATTAATAATCAA
18402492 GCAACTAAATTAATA
64 GCAACTAAATTAATA
* *
18402507 AATCATTCAATTACACACATAAATATATTAGGTAATCATGCAAATAAATATATTAATAATCAAGC
1 AATCATGCAATTACACACATAAATATATTAGGTAATCATACAAATAAATATATTAATAATCAAGC
*
18402572 AATTAAATTAATA
66 AACTAAATTAATA
18402585 AATCATGCAATTA
1 AATCATGCAATTA
18402598 AATAAATCAT
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
78 72 0.87
79 4 0.05
80 7 0.08
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (78 bp):
AATCATGCAATTACACACATAAATATATTAGGTAATCATACAAATAAATATATTAATAATCAAGC
AACTAAATTAATA
Found at i:18402594 original size:21 final size:20
Alignment explanation
Indices: 18402558--18402623 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
18402548 AAATAAATAT
18402558 ATTAATAATCAAGCAATTAA
1 ATTAATAATCAAGCAATTAA
*
18402578 ATTAATAAATCATGCAATTAA
1 ATTAAT-AATCAAGCAATTAA
* * *
18402599 ATAAATCATGCAAGAAAATTAA
1 ATTAATAAT-CAAG-CAATTAA
18402621 ATT
1 ATT
18402624 CATGCAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
20 8 0.22
21 21 0.57
22 8 0.22
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (20 bp):
ATTAATAATCAAGCAATTAA
Found at i:18402601 original size:17 final size:17
Alignment explanation
Indices: 18402577--18402630 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
18402567 CAAGCAATTA
18402577 AATT-AATAAATCATGC
1 AATTAAATAAATCATGC
18402593 AATTAAATAAATCATGC
1 AATTAAATAAATCATGC
**
18402610 AAGAAAATTAAATTCATGC
1 AATTAAA-TAAA-TCATGC
18402629 AA
1 AA
18402631 AATATTAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
16 4 0.12
17 17 0.52
18 4 0.12
19 8 0.24
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.28
Consensus pattern (17 bp):
AATTAAATAAATCATGC
Found at i:18402637 original size:18 final size:18
Alignment explanation
Indices: 18402583--18402642 Score: 63
Period size: 17 Copynumber: 3.4 Consensus size: 18
18402573 ATTAAATTAA
**
18402583 TAAATCATGCAATTAAA-
1 TAAATCATGCAAGAAAAT
18402600 TAAATCATGCAAGAAAAT
1 TAAATCATGCAAGAAAAT
*
18402618 TAAATTCATGCAA-AATAT
1 TAAA-TCATGCAAGAAAAT
18402636 T-AATCAT
1 TAAATCAT
18402643 TATGCAGTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
16 4 0.11
17 17 0.45
18 9 0.24
19 8 0.21
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.30
Consensus pattern (18 bp):
TAAATCATGCAAGAAAAT
Found at i:18403004 original size:25 final size:26
Alignment explanation
Indices: 18402952--18403010 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
18402942 AATTAATTAA
* *
18402952 AAAACAGAATAAAGAAAACATAATAG
1 AAAACAAAATAAAGAAAACATAAAAG
18402978 AAAACAAAATAAA-AAAA-ATGAAAAG
1 AAAACAAAATAAAGAAAACAT-AAAAG
18403003 AAAACAAA
1 AAAACAAA
18403011 CTGAAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 2 0.07
25 16 0.53
26 12 0.40
ACGTcount: A:0.76, C:0.07, G:0.08, T:0.08
Consensus pattern (26 bp):
AAAACAAAATAAAGAAAACATAAAAG
Found at i:18404234 original size:6 final size:6
Alignment explanation
Indices: 18404157--18404247 Score: 92
Period size: 6 Copynumber: 15.0 Consensus size: 6
18404147 AAATTAAACA
* * * * * *
18404157 AAAACT AAAATC AAAATC AAAATC AAAATT AAAACT AAAATC AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
* * *
18404205 AAAATC AAAATT AAAATC AAAATT AAAATT AAGATT AAGAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AA-AATT
18404248 TTAGGCCTTT
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
6 68 0.96
7 3 0.04
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.24
Consensus pattern (6 bp):
AAAATT
Found at i:18404241 original size:24 final size:24
Alignment explanation
Indices: 18404157--18404242 Score: 118
Period size: 24 Copynumber: 3.6 Consensus size: 24
18404147 AAATTAAACA
* * *
18404157 AAAACTAAAATCAAAATCAAAATC
1 AAAATTAAAATTAAAATCAAAATT
*
18404181 AAAATTAAAACTAAAATCAAAATT
1 AAAATTAAAATTAAAATCAAAATT
*
18404205 AAAATCAAAATTAAAATCAAAATT
1 AAAATTAAAATTAAAATCAAAATT
*
18404229 AAAATTAAGATTAA
1 AAAATTAAAATTAA
18404243 GAATTTTAGG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.66, C:0.09, G:0.01, T:0.23
Consensus pattern (24 bp):
AAAATTAAAATTAAAATCAAAATT
Found at i:18404242 original size:12 final size:12
Alignment explanation
Indices: 18404163--18404233 Score: 106
Period size: 12 Copynumber: 5.9 Consensus size: 12
18404153 AACAAAAACT
*
18404163 AAAATCAAAATC
1 AAAATTAAAATC
* *
18404175 AAAATCAAAATT
1 AAAATTAAAATC
*
18404187 AAAACTAAAATC
1 AAAATTAAAATC
18404199 AAAATTAAAATC
1 AAAATTAAAATC
18404211 AAAATTAAAATC
1 AAAATTAAAATC
18404223 AAAATTAAAAT
1 AAAATTAAAAT
18404234 TAAGATTAAG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 54 1.00
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATTAAAATC
Found at i:18408767 original size:2 final size:2
Alignment explanation
Indices: 18408760--18408803 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
18408750 CACAGACGAG
* * * *
18408760 AT AT AT AT AT AT AT AT AT AT AC AT AC AT AC AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18408802 AT
1 AT
18408804 GCTGATAAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:18413867 original size:2 final size:2
Alignment explanation
Indices: 18413860--18413884 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18413850 GGCCCTAAAC
18413860 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
18413885 ATACACACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:18417254 original size:33 final size:32
Alignment explanation
Indices: 18417187--18417263 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
18417177 TATTAATTTT
* *
18417187 ATAAAT-ATTAAATAAATCATCAACATGTTAA
1 ATAAATAAATAAATAAATAATCAACATGTTAA
* * *
18417218 ATAAGTAAATAAATAAATAATTTAACATGTTTA
1 ATAAATAAATAAATAAATAA-TCAACATGTTAA
18417251 ATAAATAAA-AAAT
1 ATAAATAAATAAAT
18417264 TATTTTTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
31 5 0.13
32 15 0.39
33 18 0.47
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.32
Consensus pattern (32 bp):
ATAAATAAATAAATAAATAATCAACATGTTAA
Found at i:18418885 original size:47 final size:46
Alignment explanation
Indices: 18418797--18418892 Score: 115
Period size: 48 Copynumber: 2.1 Consensus size: 46
18418787 ATTTTATAAG
*
18418797 TTTTGTTTCTAAATTTTTCACTATTTGGGCCAATTTAAAATTTTTCT
1 TTTTGTTTCTAAATTTTTCACTATTTGGGCCAACTTAAAATTTTT-T
* * *
18418844 TTTTGATTTCTAATTTTTTCA-TCATTTGGGTCTACTT-AAATTTTTT
1 TTTTG-TTTCTAAATTTTTCACT-ATTTGGGCCAACTTAAAATTTTTT
18418890 TTT
1 TTT
18418893 ATTTTTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
46 4 0.09
47 14 0.33
48 25 0.58
ACGTcount: A:0.21, C:0.11, G:0.08, T:0.59
Consensus pattern (46 bp):
TTTTGTTTCTAAATTTTTCACTATTTGGGCCAACTTAAAATTTTTT
Found at i:18423776 original size:79 final size:79
Alignment explanation
Indices: 18423693--18423850 Score: 210
Period size: 79 Copynumber: 2.0 Consensus size: 79
18423683 TGATCTATAG
* * * * *
18423693 TATTTTCATCACTTGATCACAACTCACAGGCTTCTCAGCATTAGTAATTTTCA-AATAAATTTCG
1 TATTTTCATCAATTGATCACAACTCACAGGCTTCTCAGCACTAGCAATTTT-AGAACAAATTTCA
18423757 TCCACTAATCCACAA
65 TCCACTAATCCACAA
* * * *
18423772 TATTTTCATCAATTGATCACAACTCATAGGCTTTTTAGCACTAGCAATTTTAGAACAAATTTTAT
1 TATTTTCATCAATTGATCACAACTCACAGGCTTCTCAGCACTAGCAATTTTAGAACAAATTTCAT
*
18423837 CCACTGATCCACAA
66 CCACTAATCCACAA
18423851 CAACTCATAG
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
78 1 0.01
79 67 0.99
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.35
Consensus pattern (79 bp):
TATTTTCATCAATTGATCACAACTCACAGGCTTCTCAGCACTAGCAATTTTAGAACAAATTTCAT
CCACTAATCCACAA
Found at i:18424429 original size:9 final size:8
Alignment explanation
Indices: 18424418--18424491 Score: 67
Period size: 8 Copynumber: 8.6 Consensus size: 8
18424408 TTTTTTTTTT
18424418 TTTTTTCA
1 TTTTTTCA
18424426 TTTTTTCA
1 TTTTTTCA
*
18424434 CTTTTTCA
1 TTTTTTCA
18424442 TTTTTGTTCA
1 -TTTT-TTCA
* **
18424452 CATTCCTCA
1 -TTTTTTCA
18424461 TTTTTTCA
1 TTTTTTCA
18424469 CTTTTTTCA
1 -TTTTTTCA
18424478 TTTTTTCA
1 TTTTTTCA
18424486 TCTTTT
1 T-TTTT
18424492 GGTTTTTTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
8 29 0.55
9 18 0.34
10 6 0.11
ACGTcount: A:0.12, C:0.19, G:0.01, T:0.68
Consensus pattern (8 bp):
TTTTTTCA
Found at i:18424438 original size:17 final size:17
Alignment explanation
Indices: 18424418--18424491 Score: 87
Period size: 17 Copynumber: 4.2 Consensus size: 17
18424408 TTTTTTTTTT
18424418 TTTTTTCATTTTTTCAC
1 TTTTTTCATTTTTTCAC
18424435 -TTTTTCATTTTTGTTCAC
1 TTTTTTCA-TTTT-TTCAC
* **
18424453 ATTCCTCATTTTTTCAC
1 TTTTTTCATTTTTTCAC
18424470 TTTTTTCATTTTTTCATC
1 TTTTTTCATTTTTTCA-C
18424488 TTTT
1 TTTT
18424492 GGTTTTTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
16 7 0.15
17 22 0.46
18 14 0.29
19 5 0.10
ACGTcount: A:0.12, C:0.19, G:0.01, T:0.68
Consensus pattern (17 bp):
TTTTTTCATTTTTTCAC
Found at i:18425465 original size:23 final size:23
Alignment explanation
Indices: 18425439--18425502 Score: 110
Period size: 23 Copynumber: 2.8 Consensus size: 23
18425429 TCTTACTACA
*
18425439 TAAAAGGAATCCTAACATTACTT
1 TAAAAGAAATCCTAACATTACTT
18425462 TAAAAGAAATCCTAACATTACTT
1 TAAAAGAAATCCTAACATTACTT
*
18425485 TAAAAGAAATCCCAACAT
1 TAAAAGAAATCCTAACAT
18425503 GACAAGCAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.27
Consensus pattern (23 bp):
TAAAAGAAATCCTAACATTACTT
Found at i:18436483 original size:13 final size:14
Alignment explanation
Indices: 18436458--18436488 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
18436448 TTAAATTAAT
18436458 GTTTCATTTTTAGA
1 GTTTCATTTTTAGA
18436472 GTTTCA-TTTTAGA
1 GTTTCATTTTTAGA
18436485 GTTT
1 GTTT
18436489 TAAGTTTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.19, C:0.06, G:0.16, T:0.58
Consensus pattern (14 bp):
GTTTCATTTTTAGA
Found at i:18437158 original size:7 final size:7
Alignment explanation
Indices: 18437105--18437139 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
18437095 TACTCATCAC
18437105 TATTTCTT
1 TATTT-TT
18437113 TATTTTT
1 TATTTTT
18437120 TATTTTT
1 TATTTTT
18437127 TATTTTT
1 TATTTTT
18437134 TATTTT
1 TATTTT
18437140 ATTAAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 22 0.81
8 5 0.19
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (7 bp):
TATTTTT
Found at i:18437229 original size:14 final size:14
Alignment explanation
Indices: 18437195--18437229 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
18437185 TTTTTTTTGG
18437195 TATTATTTCATTTT
1 TATTATTTCATTTT
* *
18437209 CAATATTTCATTTT
1 TATTATTTCATTTT
18437223 TATTATT
1 TATTATT
18437230 ATTTTTTTAC
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTTCATTTT
Found at i:18437456 original size:32 final size:32
Alignment explanation
Indices: 18437414--18437487 Score: 112
Period size: 32 Copynumber: 2.3 Consensus size: 32
18437404 TGCCGAAACC
*
18437414 ATTAACAAACACAAACCATGCAACTTTGATAT
1 ATTAACAAACACAAACCATGCAACTTGGATAT
* *
18437446 GTTAACAAACACAAACCATGCAAGTTGGATAT
1 ATTAACAAACACAAACCATGCAACTTGGATAT
18437478 ATTAAGCAAA
1 ATTAA-CAAA
18437488 TGCTAAGCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 33 0.89
33 4 0.11
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.23
Consensus pattern (32 bp):
ATTAACAAACACAAACCATGCAACTTGGATAT
Found at i:18439175 original size:33 final size:31
Alignment explanation
Indices: 18439039--18439190 Score: 124
Period size: 33 Copynumber: 4.7 Consensus size: 31
18439029 TAGGTGATAG
* * *
18439039 CTAAATTGGGCTTAAATTTTCATTAGTTCCA
1 CTAAACTGGGCTTAAAATTTCATTAGTGCCA
* **
18439070 ATAATTTGGGCTTAAAATTTGCATTAGTGCCAA
1 CTAAACTGGGCTTAAAATTT-CATTAGTGCC-A
* * * **
18439103 CTAGACTCGGCTTAAAATTTTATTAGGTGTTA
1 CTAAACTGGGCTTAAAATTTCATTA-GTGCCA
*
18439135 ATCAAACTGGGCTTAAAATTTCATTTAGTGCCA
1 CT-AAACTGGGCTTAAAATTTCA-TTAGTGCCA
**
18439168 GCTAAACTGGATTTAAAATTTCA
1 -CTAAACTGGGCTTAAAATTTCA
18439191 CAAGGTGTCA
Statistics
Matches: 94, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
31 17 0.18
32 15 0.16
33 58 0.62
34 4 0.04
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (31 bp):
CTAAACTGGGCTTAAAATTTCATTAGTGCCA
Found at i:18439197 original size:66 final size:66
Alignment explanation
Indices: 18439076--18439217 Score: 164
Period size: 66 Copynumber: 2.2 Consensus size: 66
18439066 TCCAATAATT
* * ** *
18439076 TGGGCTTAAAATTTGCATTAGTGCCAACTAGACTCGGCTTAAAATTTTATTAGGTGTTA-ATCAA
1 TGGGCTTAAAATTTGCATTAGTGCCAACTAAACTCGGCTTAAAATTTCACAAGGTGTCAGAT-AA
18439140 AC
65 AC
* *
18439142 TGGGCTTAAAATTT-CATTTAGTGCCAGCTAAACT-GGATTTAAAATTTCACAAGGTGTCAGATA
1 TGGGCTTAAAATTTGCA-TTAGTGCCAACTAAACTCGG-CTTAAAATTTCACAAGGTGTCAGATA
18439205 AAC
64 AAC
*
18439208 TAGGCTTAAA
1 TGGGCTTAAA
18439218 TTTTTTCATT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
65 4 0.06
66 59 0.91
67 2 0.03
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (66 bp):
TGGGCTTAAAATTTGCATTAGTGCCAACTAAACTCGGCTTAAAATTTCACAAGGTGTCAGATAAA
C
Found at i:18439217 original size:33 final size:32
Alignment explanation
Indices: 18439078--18439235 Score: 99
Period size: 33 Copynumber: 4.8 Consensus size: 32
18439068 CAATAATTTG
* *
18439078 GGCTTAAAATTTGCATTA-GTGCCA-ACTAGACT
1 GGCTTAAAATTT-CATTAGGTGTCAGA-TAAACT
* *
18439110 CGGCTTAAAATTTTATTAGGTGTTA-ATCAAACT
1 -GGCTTAAAATTTCATTAGGTGTCAGAT-AAACT
* *
18439143 GGGCTTAAAATTTCATTTA-GTGCCAGCTAAACT
1 -GGCTTAAAATTTCA-TTAGGTGTCAGATAAACT
* **
18439176 GGATTTAAAATTTCACAAGGTGTCAGATAAACT
1 GG-CTTAAAATTTCATTAGGTGTCAGATAAACT
* *
18439209 AGGCTTAAATTTTTTCATTGGGTGTCA
1 -GGCTTAAA--ATTTCATTAGGTGTCA
18439236 ACTAAGCTAG
Statistics
Matches: 97, Mismatches: 19, Indels: 16
0.73 0.14 0.12
Matches are distributed among these distances:
32 8 0.08
33 71 0.73
34 6 0.06
35 12 0.12
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (32 bp):
GGCTTAAAATTTCATTAGGTGTCAGATAAACT
Found at i:18439584 original size:155 final size:155
Alignment explanation
Indices: 18439302--18439613 Score: 608
Period size: 155 Copynumber: 2.0 Consensus size: 155
18439292 GGGTGCCAAC
18439302 TAAACTAGACTTAAATTTTCATTGAGAATTAATGATCCCTATCATAAATGAAAGAGGAGAAAATT
1 TAAACTAGACTTAAATTTTCATTGAGAATTAATGATCCCTATCATAAATGAAAGAGGAGAAAATT
18439367 TTCTTTCCCAATGGACTAGATGATTCAGCACCCGAAGGTCTTTGTTGATTTAAAAAGACTTCACC
66 TTCTTTCCCAATGGACTAGATGATTCAGCACCCGAAGGTCTTTGTTGATTTAAAAAGACTTCACC
18439432 ATTTAAGGGGAACAAAAAAGGTGTA
131 ATTTAAGGGGAACAAAAAAGGTGTA
18439457 TAAACTAGACTTAAATTTTCATT-AGGAATTAATGATCCCTATCATAAATGAAAGAGGAGAAAAT
1 TAAACTAGACTTAAATTTTCATTGA-GAATTAATGATCCCTATCATAAATGAAAGAGGAGAAAAT
18439521 TTTCTTTCCCAATGGACTAGATGATTCAGCACCCGAAGGTCTTTGTTGATTTAAAAAGACTTCAC
65 TTTCTTTCCCAATGGACTAGATGATTCAGCACCCGAAGGTCTTTGTTGATTTAAAAAGACTTCAC
18439586 CATTTAAGGGGAACAAAAAAGGTGTA
130 CATTTAAGGGGAACAAAAAAGGTGTA
18439612 TA
1 TA
18439614 CTTTTTCAGT
Statistics
Matches: 156, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
154 1 0.01
155 155 0.99
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (155 bp):
TAAACTAGACTTAAATTTTCATTGAGAATTAATGATCCCTATCATAAATGAAAGAGGAGAAAATT
TTCTTTCCCAATGGACTAGATGATTCAGCACCCGAAGGTCTTTGTTGATTTAAAAAGACTTCACC
ATTTAAGGGGAACAAAAAAGGTGTA
Found at i:18440684 original size:7 final size:7
Alignment explanation
Indices: 18440672--18440742 Score: 56
Period size: 7 Copynumber: 9.4 Consensus size: 7
18440662 CCACCCATCA
18440672 TTTCTTT
1 TTTCTTT
18440679 TTTCTTT
1 TTTCTTT
18440686 TTTCTTT
1 TTTCTTT
18440693 TCCTT-TGTT
1 T--TTCT-TT
*
18440702 CTTCTTT
1 TTTCTTT
18440709 TTT-TTT
1 TTTCTTT
18440715 TCTTCATTT
1 T-TTC-TTT
18440724 TTTCATTT
1 TTTC-TTT
18440732 TTTCTCTT
1 TTTCT-TT
18440740 TTT
1 TTT
18440743 TCTCATCTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
6 4 0.07
7 24 0.44
8 18 0.33
9 8 0.15
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.79
Consensus pattern (7 bp):
TTTCTTT
Found at i:18440727 original size:33 final size:33
Alignment explanation
Indices: 18440676--18440743 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
18440666 CCATCATTTC
** *
18440676 TTTTTTCTTTTTTCTTTTCCTTTGTTCTTCTTTT
1 TTTTTTCTTCATTCTTTTCATTTGTTC-TCTTTT
*
18440710 TTTTTTCTTCATT-TTTTCATTTTTTCTCTTTT
1 TTTTTTCTTCATTCTTTTCATTTGTTCTCTTTT
18440742 TT
1 TT
18440744 CTCATCTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 8 0.27
33 11 0.37
34 11 0.37
ACGTcount: A:0.03, C:0.16, G:0.01, T:0.79
Consensus pattern (33 bp):
TTTTTTCTTCATTCTTTTCATTTGTTCTCTTTT
Found at i:18440734 original size:19 final size:20
Alignment explanation
Indices: 18440710--18440757 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
18440700 TTCTTCTTTT
18440710 TTTTTTCTTCATTTTT-TCA
1 TTTTTTCTTCATTTTTCTCA
*
18440729 TTTTTTC-TCTTTTTTCTCA
1 TTTTTTCTTCATTTTTCTCA
18440748 TCTTTTTCTT
1 T-TTTTTCTT
18440758 TTGTATTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 7 0.28
19 11 0.44
20 6 0.24
21 1 0.04
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTTTCTTCATTTTTCTCA
Found at i:18442021 original size:20 final size:19
Alignment explanation
Indices: 18441998--18442059 Score: 76
Period size: 18 Copynumber: 3.3 Consensus size: 19
18441988 CTCAAAACTT
18441998 TCTTTTTTCACTTTTTTGTC
1 TCTTTTTTCACTTTTTT-TC
18442018 TCTTTTTTTC-CTTTTTTTC
1 TC-TTTTTTCACTTTTTTTC
*
18442037 -CTTTTTTCACATTTTTTC
1 TCTTTTTTCACTTTTTTTC
18442055 T-TTTT
1 TCTTTT
18442060 CTCTTTTCTC
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
17 7 0.18
18 13 0.34
19 2 0.05
20 9 0.24
21 7 0.18
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.74
Consensus pattern (19 bp):
TCTTTTTTCACTTTTTTTC
Found at i:18442054 original size:10 final size:9
Alignment explanation
Indices: 18442000--18442043 Score: 61
Period size: 9 Copynumber: 4.6 Consensus size: 9
18441990 CAAAACTTTC
18442000 TTTTTTCACT
1 TTTTTTC-CT
18442010 TTTTTGTCTCT
1 TTTTT-TC-CT
18442021 TTTTTTCCT
1 TTTTTTCCT
18442030 TTTTTTCCT
1 TTTTTTCCT
18442039 TTTTT
1 TTTTT
18442044 CACATTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
9 16 0.50
10 7 0.22
11 9 0.28
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.77
Consensus pattern (9 bp):
TTTTTTCCT
Found at i:18446911 original size:7 final size:7
Alignment explanation
Indices: 18446899--18446923 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18446889 AAAATCTCAT
18446899 TTTATTA
1 TTTATTA
18446906 TTTATTA
1 TTTATTA
18446913 TTTATTA
1 TTTATTA
18446920 TTTA
1 TTTA
18446924 ATTTTAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATTA
Found at i:18447259 original size:25 final size:26
Alignment explanation
Indices: 18447209--18447267 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
18447199 GGGTTTCGCC
18447209 TAAGGTTTCGAATTAAGGTTCTATTT
1 TAAGGTTTCGAATTAAGGTTCTATTT
* * *
18447235 TAAGGTTTC-ATTTAGGGTTTTATTT
1 TAAGGTTTCGAATTAAGGTTCTATTT
*
18447260 TAGGGTTT
1 TAAGGTTT
18447268 TAAGTCTAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.22, C:0.05, G:0.22, T:0.51
Consensus pattern (26 bp):
TAAGGTTTCGAATTAAGGTTCTATTT
Found at i:18447268 original size:13 final size:13
Alignment explanation
Indices: 18447225--18447269 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
18447215 TTCGAATTAA
* *
18447225 GGTTCTATTTTAA
1 GGTTTTATTTTAG
*
18447238 GGTTTCA-TTTAG
1 GGTTTTATTTTAG
18447250 GGTTTTATTTTAG
1 GGTTTTATTTTAG
18447263 GGTTTTA
1 GGTTTTA
18447270 AGTCTAGGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.18, C:0.04, G:0.22, T:0.56
Consensus pattern (13 bp):
GGTTTTATTTTAG
Found at i:18448494 original size:20 final size:18
Alignment explanation
Indices: 18448455--18448505 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
18448445 ATAGTTATTA
*
18448455 CATGAT-ATTTATTTTTTG
1 CATGATAATTTA-TATTTG
18448473 CATGACTAATATTATATTTG
1 CATGA-TAAT-TTATATTTG
18448493 CATGATAATTTAT
1 CATGATAATTTAT
18448506 TTGCCTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 9 0.31
19 5 0.17
20 12 0.41
21 3 0.10
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (18 bp):
CATGATAATTTATATTTG
Found at i:18448562 original size:24 final size:23
Alignment explanation
Indices: 18448530--18448603 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 23
18448520 TGTTTGGATG
18448530 ATTAATATATTTATTTGTGTGATT
1 ATTAATATATTTATTTGT-TGATT
*
18448554 ATTAATATATTTAATTGCTTGATT
1 ATTAATATATTTATTTG-TTGATT
* *
18448578 ATTAATATTTTTATTTGCATGATT
1 ATTAATATATTTATTTG-TTGATT
18448602 AT
1 AT
18448604 ATATTTAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 44 0.98
25 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (23 bp):
ATTAATATATTTATTTGTTGATT
Found at i:18448610 original size:20 final size:20
Alignment explanation
Indices: 18448455--18448623 Score: 70
Period size: 24 Copynumber: 8.4 Consensus size: 20
18448445 ATAGTTATTA
*
18448455 CATGA-TATTTATTT-TTTG
1 CATGATTATATATTTATTTG
*
18448473 CATGACTA-ATATTATATTTG
1 CATGATTATATATT-TATTTG
18448493 CATG---ATA-ATTTATTTG
1 CATGATTATATATTTATTTG
* * *
18448509 CCT-A--ATATGTTTGTTTG
1 CATGATTATATATTTATTTG
*
18448526 GATGATTAATATATTTATTTGTG
1 CATGATT-ATATATTTA-TT-TG
* * *
18448549 TGATTATTAATATATTTAATTG
1 -CATGATT-ATATATTTATTTG
*
18448571 CTTGATTATTAATATTTTTATTTG
1 CATGATTA-T-ATA--TTTATTTG
*
18448595 CATGATTATATATTTAATTG
1 CATGATTATATATTTATTTG
*
18448615 CATGTTTAT
1 CATGATTAT
18448624 TTGCATGATT
Statistics
Matches: 117, Mismatches: 17, Indels: 32
0.70 0.10 0.19
Matches are distributed among these distances:
16 11 0.09
17 12 0.10
18 11 0.09
19 3 0.03
20 24 0.21
21 12 0.10
22 10 0.09
23 4 0.03
24 30 0.26
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (20 bp):
CATGATTATATATTTATTTG
Found at i:18448641 original size:55 final size:55
Alignment explanation
Indices: 18448582--18448750 Score: 259
Period size: 55 Copynumber: 3.1 Consensus size: 55
18448572 TTGATTATTA
* *
18448582 ATATTTTTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGATTTAT
1 ATATTATTATTTGCATGATTATATATTTAATTACATGTTTATTTGCATGATTTAT
* * * *
18448637 ATATTATTATTTTCATTATTATACATTTAATTACATGTTTACTTGCATGATTTAT
1 ATATTATTATTTGCATGATTATATATTTAATTACATGTTTATTTGCATGATTTAT
* *
18448692 ATATTATTATTTGCATGGTTATATATTTAATTACATGTTTATTTGCAT-AATTAT
1 ATATTATTATTTGCATGATTATATATTTAATTACATGTTTATTTGCATGATTTAT
18448746 ATATT
1 ATATT
18448751 TAATTTCATG
Statistics
Matches: 102, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 10 0.10
55 92 0.90
ACGTcount: A:0.30, C:0.07, G:0.08, T:0.55
Consensus pattern (55 bp):
ATATTATTATTTGCATGATTATATATTTAATTACATGTTTATTTGCATGATTTAT
Found at i:18448688 original size:87 final size:88
Alignment explanation
Indices: 18448587--18448861 Score: 262
Period size: 87 Copynumber: 3.2 Consensus size: 88
18448577 TATTAATATT
* *
18448587 TTTATTTGCATGA-TTATATA-T-TTAATTGCATGTTTATTTGCATGATTT-A-TATAT-TATTA
1 TTTATTTGCATGATTTATATATTATTAATTGCATGATTA-TT--AT-ATTTAATTACATGT-TTA
* *
18448646 TTTTCATTATTATACATTTAATTACATG
61 TTTGCATAATTATACATTTAATTACATG
* * *
18448674 TTTACTTGCATGATTTATATATTATTATTTGCATGGTTA-TATATTTAATTACATGTTTATTTGC
1 TTTATTTGCATGATTTATATATTATTAATTGCATGATTATTATATTTAATTACATGTTTATTTGC
* *
18448738 ATAATTATATATTTAATTTCATG
66 ATAATTATACATTTAATTACATG
* * * *
18448761 TTTATTTGCATAATTTATATATTATTAATTGCATGATTA-TATATTAAATTGCATGTTTA-TTAC
1 TTTATTTGCATGATTTATATATTATTAATTGCATGATTATTATATTTAATTACATGTTTATTTGC
** * * *
18448824 ATCTTTATATATTTAATTGCAAG
66 ATAATTATACATTTAATTACATG
* *
18448847 TCTATTTGGATGATT
1 TTTATTTGCATGATT
18448862 ATTAATTTAT
Statistics
Matches: 160, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
85 4 0.03
86 37 0.23
87 96 0.60
88 9 0.06
89 1 0.01
90 13 0.08
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.53
Consensus pattern (88 bp):
TTTATTTGCATGATTTATATATTATTAATTGCATGATTATTATATTTAATTACATGTTTATTTGC
ATAATTATACATTTAATTACATG
Found at i:18448734 original size:32 final size:32
Alignment explanation
Indices: 18448698--18448783 Score: 136
Period size: 32 Copynumber: 2.7 Consensus size: 32
18448688 TTATATATTA
**
18448698 TTATTTGCATGGTTATATATTTAATTACATGT
1 TTATTTGCATAATTATATATTTAATTACATGT
*
18448730 TTATTTGCATAATTATATATTTAATTTCATGT
1 TTATTTGCATAATTATATATTTAATTACATGT
18448762 TTATTTGCATAATTTATATATT
1 TTATTTGCATAA-TTATATATT
18448784 ATTAATTGCA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
32 41 0.82
33 9 0.18
ACGTcount: A:0.30, C:0.06, G:0.08, T:0.56
Consensus pattern (32 bp):
TTATTTGCATAATTATATATTTAATTACATGT
Found at i:18448800 original size:55 final size:51
Alignment explanation
Indices: 18448729--18448844 Score: 142
Period size: 55 Copynumber: 2.2 Consensus size: 51
18448719 TAATTACATG
* * * *
18448729 TTTATTTGCATAATTATATATTTAATTTCATGTTTATTTGCATAATTTATATA
1 TTTAATTGCATAATTATATATTAAATTGCATGTTTA-TTACAT-ATTTATATA
* *
18448782 TTATTAATTGCATGATTATATATTAAATTGCATGTTTATTACATCTTTATATA
1 -T-TTAATTGCATAATTATATATTAAATTGCATGTTTATTACATATTTATATA
18448835 TTTAATTGCA
1 TTTAATTGCA
18448845 AGTCTATTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
51 9 0.16
52 1 0.02
53 8 0.15
54 6 0.11
55 31 0.56
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (51 bp):
TTTAATTGCATAATTATATATTAAATTGCATGTTTATTACATATTTATATA
Found at i:18448801 original size:20 final size:20
Alignment explanation
Indices: 18448775--18448820 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
18448765 TTTGCATAAT
18448775 TTATATATTATTAATTGCATGA
1 TTATATATTA--AATTGCATGA
*
18448797 TTATATATTAAATTGCATGT
1 TTATATATTAAATTGCATGA
18448817 TTAT
1 TTAT
18448821 TACATCTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.57
22 10 0.43
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (20 bp):
TTATATATTAAATTGCATGA
Found at i:18448987 original size:17 final size:17
Alignment explanation
Indices: 18448950--18448987 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
18448940 ATTTTTTTAT
*
18448950 TTATTGCATGATATATG
1 TTATTGCATGATATATA
18448967 TTATTGCATGAT-TAATA
1 TTATTGCATGATAT-ATA
18448984 TTAT
1 TTAT
18448988 ATTTGAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.32, C:0.05, G:0.13, T:0.50
Consensus pattern (17 bp):
TTATTGCATGATATATA
Found at i:18453793 original size:21 final size:21
Alignment explanation
Indices: 18453756--18453802 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
18453746 CTCAAACAAA
*
18453756 GTCAAAATTATACAAACCT-TG
1 GTCAAAATAATACAAA-CTATG
18453777 GTCAAAATGAATA-AAACTATG
1 GTCAAAAT-AATACAAACTATG
18453798 GTCAA
1 GTCAA
18453803 TCCTCAGAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 2 0.09
21 18 0.78
22 3 0.13
ACGTcount: A:0.47, C:0.15, G:0.13, T:0.26
Consensus pattern (21 bp):
GTCAAAATAATACAAACTATG
Found at i:18454110 original size:145 final size:144
Alignment explanation
Indices: 18453906--18454342 Score: 510
Period size: 145 Copynumber: 3.1 Consensus size: 144
18453896 GAAAGTACAC
* * * * **
18453906 AATTATCAAAATA-CCATTTAAGGATATTTTCATAATTTATCCTTATCAAGCTCAAATTTTCATG
1 AATTACCAAAATACCCCTATAAGGGTATTTTCATAATTTGCCCTTATCAAGCTC-AATTTTCATG
* *
18453970 AAACTTTTTAGATCTTAATTTCAAAATATTTCATGATTTTTGGTGCATTTGAAATCATAGTATTA
65 AAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCATAGTAGTA
18454035 TCCCGAGAAGTGTAA
130 TCCCGAGAAGTGTAA
* **
18454050 AATTATCAAAATACCCCTATAAGGGTATTTTCATAATTTGCCC-T-TC---CT-AA-GCTCAT--
1 AATTACCAAAATACCCCTATAAGGGTATTTTCATAATTTGCCCTTATCAAGCTCAATTTTCATGA
* *
18454106 -A-TTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTG-AAGCATAGTAGTAT
66 AACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCATAGTAGTAT
* * *
18454168 --CTAAAAGTCTAA
131 CCCGAGAAGTGTAA
* ** *
18454180 AATTACCAAAATACCCTTATAAGGGTATTTTCATAATTTGGTCTTTTCAAGCTCCAATTTTCATG
1 AATTACCAAAATACCCCTATAAGGGTATTTTCATAATTTGCCCTTATCAAGCT-CAATTTTCATG
* * *
18454245 AAACTTTTTAGATCTTAATTTCATAATATTTCATAATTTTTGGTTCATTTGAAATCACA-TCAGT
65 AAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCATAGT-AGT
* *
18454309 ACCCCGAGAAGTGTGA
129 ATCCCGAGAAGTGTAA
18454325 AATTACCAAAATACCCCT
1 AATTACCAAAATACCCCT
18454343 TCGGGATATT
Statistics
Matches: 245, Mismatches: 31, Indels: 33
0.79 0.10 0.11
Matches are distributed among these distances:
130 48 0.20
131 1 0.00
132 14 0.06
133 45 0.18
134 1 0.00
135 2 0.01
137 6 0.02
138 6 0.02
140 2 0.01
141 1 0.00
142 45 0.18
143 11 0.04
144 14 0.06
145 49 0.20
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.40
Consensus pattern (144 bp):
AATTACCAAAATACCCCTATAAGGGTATTTTCATAATTTGCCCTTATCAAGCTCAATTTTCATGA
AACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCATAGTAGTAT
CCCGAGAAGTGTAA
Found at i:18454232 original size:130 final size:132
Alignment explanation
Indices: 18453974--18454242 Score: 375
Period size: 130 Copynumber: 2.0 Consensus size: 132
18453964 TTCATGAAAC
* * *
18453974 TTTTTAGATCTTAATTTCAAAATATTTCATGATTTTTGGTGCATTTGAAATCATAGTATTATCCC
1 TTTTCAGATCTTAATTTCAAAATATTTCATGATTTTTGGTGCATTTGAAAGCATAGTAGTAT-CC
* * *
18454039 GAGAAGTGTAAAATTATCAAAATACCCCTATAAGGGTATTTTCATAATTTGCCCTTCCTAAGCT-
65 GAAAAGTCTAAAATTACCAAAATACCCCTATAAGGGTATTTTCATAATTTGCCCTTCCTAAGCTC
18454103 CATA
130 CA-A
* *
18454107 TTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTG-AAGCATAGTAGTAT-CT
1 TTTTCAGATCTTAATTTCAAAATATTTCATGATTTTTGGTGCATTTGAAAGCATAGTAGTATCCG
* ** *
18454170 AAAAGTCTAAAATTACCAAAATACCCTTATAAGGGTATTTTCATAATTTGGTCTT-TTCAAGCTC
66 AAAAGTCTAAAATTACCAAAATACCCCTATAAGGGTATTTTCATAATTTGCCCTTCCT-AAGCTC
18454234 CAA
130 CAA
18454237 TTTTCA
1 TTTTCA
18454243 TGAAACTTTT
Statistics
Matches: 122, Mismatches: 12, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
129 1 0.01
130 62 0.51
131 2 0.02
132 12 0.10
133 45 0.37
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (132 bp):
TTTTCAGATCTTAATTTCAAAATATTTCATGATTTTTGGTGCATTTGAAAGCATAGTAGTATCCG
AAAAGTCTAAAATTACCAAAATACCCCTATAAGGGTATTTTCATAATTTGCCCTTCCTAAGCTCC
AA
Found at i:18458752 original size:15 final size:16
Alignment explanation
Indices: 18458732--18458761 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18458722 ATGATAAGAA
18458732 ATAATCCTTT-AATTT
1 ATAATCCTTTGAATTT
18458747 ATAATCCTTTGAATT
1 ATAATCCTTTGAATT
18458762 AATTTTGGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.13, G:0.03, T:0.50
Consensus pattern (16 bp):
ATAATCCTTTGAATTT
Found at i:18459019 original size:12 final size:11
Alignment explanation
Indices: 18458985--18459033 Score: 53
Period size: 11 Copynumber: 4.2 Consensus size: 11
18458975 AGAGATGTGC
18458985 AAAAGAAAAAA
1 AAAAGAAAAAA
**
18458996 AAAAGGCCAAAA
1 AAAA-GAAAAAA
18459008 AAAAGTAAAAAAA
1 AAAAG--AAAAAA
18459021 AAAAGAAAAAA
1 AAAAGAAAAAA
18459032 AA
1 AA
18459034 TGAAGACTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
11 13 0.42
12 9 0.29
13 9 0.29
ACGTcount: A:0.84, C:0.04, G:0.10, T:0.02
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:18459039 original size:13 final size:12
Alignment explanation
Indices: 18458985--18459033 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
18458975 AGAGATGTGC
18458985 AAAAG-AAAAAA
1 AAAAGAAAAAAA
***
18458996 AAAAGGCCAAAA
1 AAAAGAAAAAAA
18459008 AAAAGTAAAAAAA
1 AAAAG-AAAAAAA
18459021 AAAAGAAAAAAA
1 AAAAGAAAAAAA
18459033 A
1 A
18459034 TGAAGACTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
11 5 0.16
12 17 0.55
13 9 0.29
ACGTcount: A:0.84, C:0.04, G:0.10, T:0.02
Consensus pattern (12 bp):
AAAAGAAAAAAA
Found at i:18460555 original size:42 final size:42
Alignment explanation
Indices: 18460493--18460864 Score: 254
Period size: 43 Copynumber: 8.7 Consensus size: 42
18460483 AGAACGATAT
* *
18460493 CATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTGTAGAGGTG
1 CATTTTATTTTT-AAAAGTTTCAAAGCCTCAGTTGTAGAGGAG
* ** * *
18460536 TATTTTATATTTT-AAAGTTTCAAAGCCTCAGTCATGGGGGAG
1 CATTTTAT-TTTTAAAAGTTTCAAAGCCTCAGTTGTAGAGGAG
** *
18460578 CATTTTATTTTTCAAAAGTTTCAAAGTTTCAGTAGTAGAGGAG
1 CATTTTATTTTT-AAAAGTTTCAAAGCCTCAGTTGTAGAGGAG
* * * * *
18460621 CATTTTATTTTTCAAAAATTCCAAAGCCTCAGTTGTGGGGGTG
1 CATTTTATTTTT-AAAAGTTTCAAAGCCTCAGTTGTAGAGGAG
* * * ** *
18460664 CATTATACTTTCAAAAGTTTCAAAGCC-CAAAT-TATGGGAGAG
1 CATTTTATTTTTAAAAGTTTCAAAGCCTCAGTTGTA-GAG-GAG
* * * *
18460706 TC-TTTTATTTTCAAAAGTTTCAAAAG-CTTAGTTGTGGGGGAG
1 -CATTTTATTTTTAAAAGTTTC-AAAGCCTCAGTTGTAGAGGAG
* * * *
18460748 TC-TTTTATATTTTCAAAAGTTCCAAAGCCTCATTTGTGGAAGAG
1 -CATTTTAT-TTTT-AAAAGTTTCAAAGCCTCAGTTGTAGAGGAG
* * * * * *
18460792 CATTTTATTTTTCACAA-TTTCAAAGCTTTAATTGTGGGGGGAG
1 CATTTTATTTTT-AAAAGTTTCAAAGCCTCAGTTGT-AGAGGAG
*
18460835 CATTTTATTTTCAAAAGTTTCAAAGCCTCA
1 CATTTTATTTTTAAAAGTTTCAAAGCCTCA
18460865 ATTATGGGAA
Statistics
Matches: 260, Mismatches: 54, Indels: 30
0.76 0.16 0.09
Matches are distributed among these distances:
40 1 0.00
41 10 0.04
42 91 0.35
43 127 0.49
44 31 0.12
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (42 bp):
CATTTTATTTTTAAAAGTTTCAAAGCCTCAGTTGTAGAGGAG
Found at i:18460603 original size:43 final size:43
Alignment explanation
Indices: 18460493--18460864 Score: 350
Period size: 42 Copynumber: 8.7 Consensus size: 43
18460483 AGAACGATAT
* * * *
18460493 CATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTGTAGAGGTG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* **
18460536 TATTTTATATTTT--AAAGTTTCAAAGCCTCAGTCATGGGGGAG
1 CATTTTAT-TTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
** * * *
18460578 CATTTTATTTTTCAAAAGTTTCAAAGTTTCAGTAGTAGAGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* * *
18460621 CATTTTATTTTTCAAAAATTCCAAAGCCTCAGTTGTGGGGGTG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* * * * *
18460664 CATTATA-CTTTCAAAAGTTTCAAAGCC-CAAATTATGGGAGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTC-AGTTGTGGGGGAG
*
18460706 TC-TTTTA-TTTTCAAAAGTTTCAAAAG-CTTAGTTGTGGGGGAG
1 -CATTTTATTTTTCAAAAGTTTC-AAAGCCTCAGTTGTGGGGGAG
* * **
18460748 TC-TTTTATATTTTCAAAAGTTCCAAAGCCTCATTTGTGGAAGAG
1 -CATTTTAT-TTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* * * *
18460792 CATTTTATTTTTCACAA-TTTCAAAGCTTTAATTGTGGGGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGT-GGGGGAG
18460835 CATTTTA-TTTTCAAAAGTTTCAAAGCCTCA
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCA
18460865 ATTATGGGAA
Statistics
Matches: 265, Mismatches: 51, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
41 5 0.02
42 113 0.43
43 112 0.42
44 35 0.13
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (43 bp):
CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
Found at i:18460761 original size:128 final size:126
Alignment explanation
Indices: 18460493--18460858 Score: 375
Period size: 128 Copynumber: 2.8 Consensus size: 126
18460483 AGAACGATAT
* * * * *
18460493 CATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTGTAGAGGTGTATTTTATATTT-TAAAGTTTC
1 CATTTTATTTTTCAAAAGTTCCAAAGCCTCAGTTGTGGAGGTGCA--TTATATTTCAAAAGTTTC
* * *
18460557 AAAGCCTCAGTCATGGGGGAGCATTTTATTTTTCAAAAGTTTC-AAAGTTTCAGTAGTAGAGGAG
64 AAAGCC-CAATTATGGGGGAGCATTTTA-TTTTCAAAAGTTTCAAAAGCTTCAGTAGTAGAGGAG
* *
18460621 CATTTTATTTTTCAAAAATTCCAAAGCCTCAGTTGTGGGGGTGCATTATACTTTCAAAAGTTTCA
1 CATTTTATTTTTCAAAAGTTCCAAAGCCTCAGTTGTGGAGGTGCATTATA-TTTCAAAAGTTTCA
* * * *
18460686 AAGCCCAAATTATGGGAGAGTC-TTTTATTTTCAAAAGTTTCAAAAGCTT-AGTTGTGGGGGAG
65 AAGCCC-AATTATGGGGGAG-CATTTTATTTTCAAAAGTTTCAAAAGCTTCAGTAGTAGAGGAG
* * * * *
18460748 TC-TTTTATATTTTCAAAAGTTCCAAAGCCTCATTTGTGGAAGAGCATTTTATTTTTCACAA-TT
1 -CATTTTAT-TTTTCAAAAGTTCCAAAGCCTCAGTTGTGGAGGTGCA--TTATATTTCAAAAGTT
** *
18460811 TCAAAGCTTTAATTGTGGGGGGAGCATTTTATTTTCAAAAGTTTCAAA
62 TCAAAGC-CCAATTAT-GGGGGAGCATTTTATTTTCAAAAGTTTCAAA
18460859 GCCTCAATTA
Statistics
Matches: 201, Mismatches: 25, Indels: 23
0.81 0.10 0.09
Matches are distributed among these distances:
126 5 0.02
127 34 0.17
128 122 0.61
129 36 0.18
130 4 0.02
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.39
Consensus pattern (126 bp):
CATTTTATTTTTCAAAAGTTCCAAAGCCTCAGTTGTGGAGGTGCATTATATTTCAAAAGTTTCAA
AGCCCAATTATGGGGGAGCATTTTATTTTCAAAAGTTTCAAAAGCTTCAGTAGTAGAGGAG
Found at i:18460862 original size:85 final size:85
Alignment explanation
Indices: 18460493--18460864 Score: 362
Period size: 85 Copynumber: 4.4 Consensus size: 85
18460483 AGAACGATAT
* * * *
18460493 CATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTGTAGAGGTGTATTTTATATTTT--AAAGTTT
1 CATTTTA-TTTTCAAAAGTTTCAAAGCCTCAGTTGTAGAAGAGCATTTTAT-TTTTCAAAAGTTT
**
18460556 CAAAGCCTCAGTCATGGGGGAG
64 CAAAGCCTCAGTTGTGGGGGAG
** * * * *
18460578 CATTTTATTTTTCAAAAGTTTCAAAGTTTCAGTAGTAGAGGAGCATTTTATTTTTCAAAAATTCC
1 CATTTTA-TTTTCAAAAGTTTCAAAGCCTCAGTTGTAGAAGAGCATTTTATTTTTCAAAAGTTTC
*
18460643 AAAGCCTCAGTTGTGGGGGTG
65 AAAGCCTCAGTTGTGGGGGAG
* * * * * *
18460664 CATTATACTTTCAAAAGTTTCAAAGCC-CAAATTATGGGAGAGTC-TTTTA-TTTTCAAAAGTTT
1 CATTTTATTTTCAAAAGTTTCAAAGCCTC-AGTTGTAGAAGAG-CATTTTATTTTTCAAAAGTTT
*
18460726 CAAAAG-CTTAGTTGTGGGGGAG
64 C-AAAGCCTCAGTTGTGGGGGAG
* * * * *
18460748 TCTTTTATATTTTCAAAAGTTCCAAAGCCTCATTTGTGGAAGAGCATTTTATTTTTCACAA-TTT
1 -CATTT-TATTTTCAAAAGTTTCAAAGCCTCAGTTGTAGAAGAGCATTTTATTTTTCAAAAGTTT
* * *
18460812 CAAAGCTTTAATTGTGGGGGGAG
64 CAAAGCCTCAGTTGT-GGGGGAG
18460835 CATTTTATTTTCAAAAGTTTCAAAGCCTCA
1 CATTTTATTTTCAAAAGTTTCAAAGCCTCA
18460865 ATTATGGGAA
Statistics
Matches: 240, Mismatches: 35, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
84 31 0.13
85 112 0.47
86 81 0.34
87 16 0.07
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (85 bp):
CATTTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTAGAAGAGCATTTTATTTTTCAAAAGTTTCA
AAGCCTCAGTTGTGGGGGAG
Found at i:18460967 original size:38 final size:38
Alignment explanation
Indices: 18460925--18461107 Score: 157
Period size: 38 Copynumber: 4.9 Consensus size: 38
18460915 CAAAAGTTCC
*
18460925 AAGTTGAAGCCTCGGTGAAGAAGTATTTTATTTTTTCA
1 AAGTTGAAGCCTTGGTGAAGAAGTATTTTATTTTTTCA
*
18460963 AAGTTGAAGTCTTGGTGGAA-AAGT-TCTTTA-TTTTTCA
1 AAGTTGAAGCCTTGGT-GAAGAAGTAT-TTTATTTTTTCA
* *
18461000 AAGTTGATGCATTGGTGAATG-AGT-TCTTTA-TTTTTC-
1 AAGTTGAAGCCTTGGTGAA-GAAGTAT-TTTATTTTTTCA
* * * * *
18461036 AAGTTGAAGCCTTGGGGAAGGAGTACTCTATTTTCTCA
1 AAGTTGAAGCCTTGGTGAAGAAGTATTTTATTTTTTCA
* *
18461074 AAGTTGAAGCCTCGGT-AGAGGAGTATTTTTATTT
1 AAGTTGAAGCCTTGGTGA-AGAAGTA-TTTTATTT
18461108 AAAGTTTCAA
Statistics
Matches: 120, Mismatches: 15, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
35 1 0.01
36 25 0.21
37 42 0.35
38 43 0.36
39 9 0.08
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.40
Consensus pattern (38 bp):
AAGTTGAAGCCTTGGTGAAGAAGTATTTTATTTTTTCA
Found at i:18461006 original size:37 final size:37
Alignment explanation
Indices: 18460925--18461085 Score: 177
Period size: 37 Copynumber: 4.3 Consensus size: 37
18460915 CAAAAGTTCC
*
18460925 AAGTTGAAGCCTCGGTGAAGAAGTAT-TTTATTTTTTCA
1 AAGTTGAAGCCTTGGTGAAGAAGT-TCTTTA-TTTTTCA
*
18460963 AAGTTGAAGTCTTGGTGGAA-AAGTTCTTTATTTTTCA
1 AAGTTGAAGCCTTGGT-GAAGAAGTTCTTTATTTTTCA
* *
18461000 AAGTTGATGCATTGGTGAATG-AGTTCTTTATTTTTC-
1 AAGTTGAAGCCTTGGTGAA-GAAGTTCTTTATTTTTCA
* * * *
18461036 AAGTTGAAGCCTTGGGGAAGGAGTACTCTATTTTCTCA
1 AAGTTGAAGCCTTGGTGAAGAAGTTCTTTATTTT-TCA
18461074 AAGTTGAAGCCT
1 AAGTTGAAGCCT
18461086 CGGTAGAGGA
Statistics
Matches: 106, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
35 1 0.01
36 30 0.28
37 38 0.36
38 34 0.32
39 3 0.03
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (37 bp):
AAGTTGAAGCCTTGGTGAAGAAGTTCTTTATTTTTCA
Found at i:18461245 original size:44 final size:43
Alignment explanation
Indices: 18461108--18461247 Score: 135
Period size: 43 Copynumber: 3.3 Consensus size: 43
18461098 ATTTTTATTT
* * * *
18461108 AAAGTTTC-AAGCCTCAGTTATAGG-GGAGTATTTT-CTTTTCTA
1 AAAGTTTCAAAGCCTTAATTAT-GGTGGAGCATTTTATTTTTC-A
* * * *
18461150 AAAGTTTCAAAGTCTTAGTTGTGGTGGAGTATTTTATTTTTCA
1 AAAGTTTCAAAGCCTTAATTATGGTGGAGCATTTTATTTTTCA
*
18461193 AAAGTTTCAAGGCCTTAATTATGGAT-GAGCATTTTATGTTTTCA
1 AAAGTTTCAAAGCCTTAATTATGG-TGGAGCATTTTAT-TTTTCA
18461237 AAAGTTTCAAA
1 AAAGTTTCAAA
18461248 CCCCTGTCAA
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
42 10 0.12
43 51 0.61
44 22 0.27
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (43 bp):
AAAGTTTCAAAGCCTTAATTATGGTGGAGCATTTTATTTTTCA
Found at i:18461525 original size:20 final size:20
Alignment explanation
Indices: 18461492--18461534 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
18461482 AAGCCCTAAA
* *
18461492 TTTTATTTTTATTTTTATTT
1 TTTTAGTTTAATTTTTATTT
*
18461512 TTTTAGTTTAATTTTTGTTT
1 TTTTAGTTTAATTTTTATTT
18461532 TTT
1 TTT
18461535 AATCAAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (20 bp):
TTTTAGTTTAATTTTTATTT
Found at i:18462210 original size:21 final size:21
Alignment explanation
Indices: 18462184--18462227 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
18462174 TTTATTTGCC
*
18462184 TAATATATCTGTTTGTATGAT
1 TAATATATCTATTTGTATGAT
* *
18462205 TAATATATTTATTTGTGTGAT
1 TAATATATCTATTTGTATGAT
18462226 TA
1 TA
18462228 TTAATATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.55
Consensus pattern (21 bp):
TAATATATCTATTTGTATGAT
Found at i:18462235 original size:24 final size:23
Alignment explanation
Indices: 18462203--18462276 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 23
18462193 TGTTTGTATG
18462203 ATTAATATATTTATTTGTGTGATT
1 ATTAATATATTTATTTGT-TGATT
*
18462227 ATTAATATATTTAATTGCTTGATT
1 ATTAATATATTTATTTG-TTGATT
* *
18462251 ATTAATATTTTTATTTGCATGATT
1 ATTAATATATTTATTTG-TTGATT
18462275 AT
1 AT
18462277 ATATTTAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 44 0.98
25 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (23 bp):
ATTAATATATTTATTTGTTGATT
Found at i:18462283 original size:20 final size:20
Alignment explanation
Indices: 18462231--18462296 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
18462221 GTGATTATTA
*
18462231 ATATATTTAATTGCTTGATT
1 ATATATTTAATTGCATGATT
*
18462251 ATTAATATTTTTATTTGCATGATT
1 A-T-ATA--TTTAATTGCATGATT
*
18462275 ATATATTTAATTGCATGTTT
1 ATATATTTAATTGCATGATT
18462295 AT
1 AT
18462297 TTGCATGGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 16 0.42
21 1 0.03
22 6 0.16
23 1 0.03
24 14 0.37
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.56
Consensus pattern (20 bp):
ATATATTTAATTGCATGATT
Found at i:18462318 original size:23 final size:24
Alignment explanation
Indices: 18462292--18462336 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
18462282 TAATTGCATG
*
18462292 TTTATTTGCATGGTT-TATATTTT
1 TTTATTTGCATGATTATATATTTT
*
18462315 TTTATTTGTATGATTATATATT
1 TTTATTTGCATGATTATATATT
18462337 AAATTGCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.22, C:0.02, G:0.11, T:0.64
Consensus pattern (24 bp):
TTTATTTGCATGATTATATATTTT
Found at i:18462368 original size:55 final size:55
Alignment explanation
Indices: 18462258--18462364 Score: 155
Period size: 55 Copynumber: 2.0 Consensus size: 55
18462248 ATTATTAATA
* * * *
18462258 TTTTTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGGTTTATATT
1 TTTTTATTTGCATGATTATATATTAAATTGCATCTTTATTTACATCGTTTATATT
*
18462313 TTTTTATTTGTATGATTATATATTAAATTGCATCTTTA-TTACATC-TTTATAT
1 TTTTTATTTGCATGATTATATATTAAATTGCATCTTTATTTACATCGTTTATAT
18462365 ATTTAATTGC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 7 0.15
54 5 0.11
55 35 0.74
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.58
Consensus pattern (55 bp):
TTTTTATTTGCATGATTATATATTAAATTGCATCTTTATTTACATCGTTTATATT
Found at i:18462702 original size:20 final size:20
Alignment explanation
Indices: 18462650--18462717 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
18462640 TATGGTGTTT
*
18462650 TATATTTGCTTGAT-A-TAA
1 TATATTTGCATGATAATTAA
*
18462668 TATATTT--AT-ATAATTAT
1 TATATTTGCATGATAATTAA
18462685 TAT-TATTGCATGATAATTAA
1 TATAT-TTGCATGATAATTAA
18462705 TATATTTGCATGA
1 TATATTTGCATGA
18462718 CATTCTTGCG
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
15 2 0.05
16 3 0.08
17 7 0.17
18 7 0.17
19 2 0.05
20 18 0.45
21 1 0.03
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (20 bp):
TATATTTGCATGATAATTAA
Found at i:18463136 original size:13 final size:13
Alignment explanation
Indices: 18463118--18463143 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18463108 CTTAAAAATG
18463118 ATAGATTTACATA
1 ATAGATTTACATA
18463131 ATAGATTTACATA
1 ATAGATTTACATA
18463144 TCAATCACAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
ATAGATTTACATA
Found at i:18463531 original size:14 final size:14
Alignment explanation
Indices: 18463512--18463545 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
18463502 ATTTTTTAGT
18463512 ATTATTTCATTTTC
1 ATTATTTCATTTTC
*
18463526 ATTATTTCATTTTT
1 ATTATTTCATTTTC
18463540 ATTATT
1 ATTATT
18463546 ATTATTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTATTTCATTTTC
Found at i:18463769 original size:32 final size:32
Alignment explanation
Indices: 18463727--18463800 Score: 114
Period size: 32 Copynumber: 2.3 Consensus size: 32
18463717 TACAGAAACC
18463727 ATTAACAAACACAAACCATGCAAGCTT-GATAT
1 ATTAACAAACACAAACCATGCAAG-TTGGATAT
*
18463759 GTTAACAAACACAAACCATGCAAGTTGGATAT
1 ATTAACAAACACAAACCATGCAAGTTGGATAT
18463791 ATTAAGCAAA
1 ATTAA-CAAA
18463801 TGCTAAGGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 2 0.05
32 32 0.84
33 4 0.11
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (32 bp):
ATTAACAAACACAAACCATGCAAGTTGGATAT
Found at i:18465239 original size:3 final size:3
Alignment explanation
Indices: 18465231--18465279 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
18465221 TTTTTAAAAT
*
18465231 TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18465278 TT
1 TT
18465280 TTTACTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18469656 original size:3 final size:3
Alignment explanation
Indices: 18469637--18469693 Score: 80
Period size: 3 Copynumber: 19.3 Consensus size: 3
18469627 TATGGTATAC
* * *
18469637 TAT TAT TAA TAT CAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18469685 TAT T-T TAT T
1 TAT TAT TAT T
18469694 TTCATTTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:18470144 original size:20 final size:19
Alignment explanation
Indices: 18470119--18470158 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18470109 CAAAAGGTTT
*
18470119 TGGGGAAGATTTGAAGCTTC
1 TGGGG-AGATTTGAAGATTC
*
18470139 TGGGGAGGTTTGAAGATTC
1 TGGGGAGATTTGAAGATTC
18470158 T
1 T
18470159 CTAGATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.23, C:0.07, G:0.38, T:0.33
Consensus pattern (19 bp):
TGGGGAGATTTGAAGATTC
Found at i:18471577 original size:18 final size:19
Alignment explanation
Indices: 18471519--18471583 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
18471509 TAAATTTGAA
*
18471519 ATTATTTA-ATTCCTTTTTC
1 ATTATTTATATT-TTTTTTC
** *
18471538 ATTGCTTATATTTGTTTT-
1 ATTATTTATATTTTTTTTC
18471556 ATTATTTAT-TTTTTTTTC
1 ATTATTTATATTTTTTTTC
*
18471574 ATTATGTATA
1 ATTATTTATA
18471584 CTTGCTTAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
17 7 0.20
18 15 0.43
19 10 0.29
20 3 0.09
ACGTcount: A:0.22, C:0.08, G:0.05, T:0.66
Consensus pattern (19 bp):
ATTATTTATATTTTTTTTC
Found at i:18481446 original size:62 final size:61
Alignment explanation
Indices: 18481351--18481468 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
18481341 TAAAAAAAAG
* * *
18481351 AAAAGAAATAAAAAAAAAGAAAAAAGTTTAAGTT-AAAGACTCGAAAGGGCAGCTTGAACAA
1 AAAAAAAATAAAAAAAAAGAAAAAAGTTCAAGTTGAAA-ACTCAAAAGGGCAGCTTGAACAA
* *
18481412 AAAAAAAATTAAAAAAAAAGAAAAAAGTTCAAGTTGAAAACTCAAAAGTGTAGCTTG
1 AAAAAAAA-TAAAAAAAAAGAAAAAAGTTCAAGTTGAAAACTCAAAAGGGCAGCTTG
18481469 GATCCAAAGA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
61 7 0.14
62 40 0.80
63 3 0.06
ACGTcount: A:0.59, C:0.08, G:0.16, T:0.17
Consensus pattern (61 bp):
AAAAAAAATAAAAAAAAAGAAAAAAGTTCAAGTTGAAAACTCAAAAGGGCAGCTTGAACAA
Found at i:18482557 original size:118 final size:119
Alignment explanation
Indices: 18482155--18482661 Score: 438
Period size: 119 Copynumber: 4.2 Consensus size: 119
18482145 TTCATCACAA
* * * **
18482155 GTCACTTGATCTTGGCTTAGTTTAGATCATTTCATATGATTCATGGTTTCAT-CC--TGGTTTAT
1 GTCACTTGATCTTGGCTTAGTCTAGATCATTTCATATGATTCGTAGTTTCATCCCGATCATTTAT
* * * * *
18482217 TTTTTACCTTAACTCAATTTTGATCACTTCATTTTGACTCATGGTTTCAT-TCTG
66 CTTTTACCTCAACTCAATCTTGGTCACTTCATTTTGACTCATGATTTCATCTC-G
* * * * *
18482271 ATCACTTGATATTGGCTTAGTCTAGGTCATTTCATATGATT--TATGATTTCATCTCGGTCATTT
1 GTCACTTGATCTTGGCTTAGTCTAGATCATTTCATATGATTCGTA-G-TTTCATCCCGATCATTT
* * * * *
18482334 ATTTTTTACCTTAACTCAATCTTAGT-AGCTTCATTTTGACTCGTGATTTCATCTCA
64 ATCTTTTACCTCAACTCAATCTTGGTCA-CTTCATTTTGACTCATGATTTCATCTCG
* * * * * * ** *
18482390 GCCATTTGATCTTGGCTTAGTCCAGATCATTTTATATGATTTGTGGTTTTGTCCCAATCATTTAT
1 GTCACTTGATCTTGGCTTAGTCTAGATCATTTCATATGATTCGTAGTTTCATCCCGATCATTTAT
* ** ** * *
18482455 CTTTAACCTCAACTCAATCTTGGTCGTTTCATTTTGA-TTGTGGTTTCATTTCG
66 CTTTTACCTCAACTCAATCTTGGTCACTTCATTTTGACTCATGATTTCATCTCG
* * ** *
18482508 GTCACTTGATCTTGGCTCAATCTAGATCATTTCATATGATTCGTAGTTTTGTCTCGATCATTTAT
1 GTCACTTGATCTTGGCTTAGTCTAGATCATTTCATATGATTCGTAGTTTCATCCCGATCATTTAT
** * *
18482573 CTTCGACCTCGACTTACTCTTAATCTTGGTCATTTCATTTTGAC-CTATGATTTCATCCCG
66 CTTTTACCTC-A---ACTC--AATCTTGGTCACTTCATTTTGACTC-ATGATTTCATCTCG
*
18482633 GTCACTTGATCTTGGCTTAGTCCAGATCA
1 GTCACTTGATCTTGGCTTAGTCTAGATCA
18482662 CCTTCAGACT
Statistics
Matches: 315, Mismatches: 58, Indels: 27
0.79 0.14 0.07
Matches are distributed among these distances:
114 1 0.00
115 1 0.00
116 43 0.14
117 1 0.00
118 76 0.24
119 128 0.41
120 3 0.01
121 1 0.00
122 4 0.01
124 21 0.07
125 36 0.11
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (119 bp):
GTCACTTGATCTTGGCTTAGTCTAGATCATTTCATATGATTCGTAGTTTCATCCCGATCATTTAT
CTTTTACCTCAACTCAATCTTGGTCACTTCATTTTGACTCATGATTTCATCTCG
Found at i:18483012 original size:3 final size:3
Alignment explanation
Indices: 18483006--18483037 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
18482996 CATCATCATC
18483006 ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18483038 TTTGTGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:18483938 original size:19 final size:19
Alignment explanation
Indices: 18483910--18483958 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
18483900 CAATCACAGG
*
18483910 TTTTTCTTTTTTCATTTTA
1 TTTTTATTTTTTCATTTTA
*
18483929 TTTTTATTTTTTGATTTTA
1 TTTTTATTTTTTCATTTTA
18483948 -TTTTATTTTTT
1 TTTTTATTTTTT
18483959 AACTCATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 11 0.39
19 17 0.61
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.82
Consensus pattern (19 bp):
TTTTTATTTTTTCATTTTA
Found at i:18483993 original size:18 final size:17
Alignment explanation
Indices: 18483925--18483993 Score: 59
Period size: 18 Copynumber: 3.9 Consensus size: 17
18483915 CTTTTTTCAT
* *
18483925 TTTATTTTTATTTTTTGAT
1 TTTA-TTTTATTATTT-AA
*
18483944 TTTATTTTATTTTTTAA
1 TTTATTTTATTATTTAA
* *
18483961 CTCATTTTA-TATTTAA
1 TTTATTTTATTATTTAA
18483977 TTTATTATTATTATTTA
1 TTTATT-TTATTATTTA
18483994 GGTTTTGGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
16 10 0.24
17 11 0.26
18 17 0.40
19 4 0.10
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (17 bp):
TTTATTTTATTATTTAA
Found at i:18484102 original size:25 final size:25
Alignment explanation
Indices: 18484066--18484120 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 25
18484056 TAATGATTCT
*
18484066 ATAAAAAATAAAAAACT-TTTTCAA
1 ATAAAAAATAAAAAAATCTTTTCAA
18484090 ATAAAAAACTAAAAAAATCTTTTCAA
1 ATAAAAAA-TAAAAAAATCTTTTCAA
18484116 ATAAA
1 ATAAA
18484121 GTTTTCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 8 0.29
25 8 0.29
26 12 0.43
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (25 bp):
ATAAAAAATAAAAAAATCTTTTCAA
Found at i:18484223 original size:12 final size:12
Alignment explanation
Indices: 18484192--18484216 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18484182 AAAATAAAAA
18484192 TAAAAAATCTTT
1 TAAAAAATCTTT
18484204 TAAAAAATCTTT
1 TAAAAAATCTTT
18484216 T
1 T
18484217 TCAAAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAAAAATCTTT
Found at i:18484228 original size:20 final size:19
Alignment explanation
Indices: 18484205--18484245 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
18484195 AAAATCTTTT
*
18484205 AAAAAATCTTTTTCAAAATA
1 AAAAAATC-ATTTCAAAATA
18484225 AAAAAATCATTTCAAAATA
1 AAAAAATCATTTCAAAATA
18484244 AA
1 AA
18484246 TTCATGAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAAAATCATTTCAAAATA
Found at i:18486839 original size:21 final size:21
Alignment explanation
Indices: 18486807--18486859 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
18486797 GTAAAGGACC
*
18486807 TAATCGATCCCCTATCTCAG-A
1 TAATCAATCCCCTATCT-AGAA
* *
18486828 TGATCAATCCCCTATGTAGAA
1 TAATCAATCCCCTATCTAGAA
18486849 TAATCAATCCC
1 TAATCAATCCC
18486860 TTCTGCAAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.32, C:0.30, G:0.09, T:0.28
Consensus pattern (21 bp):
TAATCAATCCCCTATCTAGAA
Found at i:18487712 original size:4 final size:4
Alignment explanation
Indices: 18487703--18487772 Score: 81
Period size: 4 Copynumber: 17.2 Consensus size: 4
18487693 TTCTTGTTAC
*
18487703 TATT TATT TATT TATT TATG TATT TATT TATT TATT TATAT T-TT T-TT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TAT-T TATT TATT
*
18487750 TGATT TATT TGCTT TATT TATT T
1 T-ATT TATT T-ATT TATT TATT T
18487773 GTACATATTT
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
3 5 0.09
4 45 0.78
5 8 0.14
ACGTcount: A:0.21, C:0.01, G:0.04, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:18488289 original size:25 final size:26
Alignment explanation
Indices: 18488243--18488299 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
18488233 ATGTTAAGAG
*
18488243 AATTTTTTTTAATTTTTCAATATAA-
1 AATTTTTTTTAATTTTTCAATAAAAT
18488268 AATTTTTATTTACA-TTTT-AATAAAAT
1 AATTTTT-TTTA-ATTTTTCAATAAAAT
18488294 AATTTT
1 AATTTT
18488300 AATAAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 13 0.46
26 14 0.50
27 1 0.04
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (26 bp):
AATTTTTTTTAATTTTTCAATAAAAT
Done.