Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 55 of 187
Found at i:16422214 original size:22 final size:22
Alignment explanation
Indices: 16422189--16422240 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
16422179 TATTAAATAA
* *
16422189 GGTTTAGAGGTTAGTGGTTTGG
1 GGTTTAGAGGTTAGTGATTTAG
*
16422211 GGTTAAGA-GTTAGTGATTTAG
1 GGTTTAGAGGTTAGTGATTTAG
16422232 GGTTTAGAG
1 GGTTTAGAG
16422241 ATTCGGGGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.38
Consensus pattern (22 bp):
GGTTTAGAGGTTAGTGATTTAG
Found at i:16422764 original size:28 final size:29
Alignment explanation
Indices: 16422733--16422814 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 29
16422723 GGGTTGTGAT
* * *
16422733 TTAAGGTTTATAGGTTATGGGTTAGGG-G
1 TTAAGGTTTATAGATTAAGAGTTAGGGAG
* * *
16422761 TTAAGGGTTAGAGATTAAGAGTTAGGGAT
1 TTAAGGTTTATAGATTAAGAGTTAGGGAG
* *
16422790 TTAGGGTTTATAGATT-AGTGTTAGG
1 TTAAGGTTTATAGATTAAGAGTTAGG
16422815 TTAGGGTTTA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
28 30 0.70
29 13 0.30
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.38
Consensus pattern (29 bp):
TTAAGGTTTATAGATTAAGAGTTAGGGAG
Found at i:16422768 original size:14 final size:14
Alignment explanation
Indices: 16422751--16422797 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
16422741 TATAGGTTAT
*
16422751 GGGTTAGGGGTTAA
1 GGGTTAGGGATTAA
*
16422765 GGGTTAGAGATTAA
1 GGGTTAGGGATTAA
* *
16422779 GAGTTAGGGATTTA
1 GGGTTAGGGATTAA
16422793 GGGTT
1 GGGTT
16422798 TATAGATTAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.43, T:0.32
Consensus pattern (14 bp):
GGGTTAGGGATTAA
Found at i:16422886 original size:89 final size:90
Alignment explanation
Indices: 16422793--16422976 Score: 228
Period size: 89 Copynumber: 2.1 Consensus size: 90
16422783 TAGGGATTTA
* * * **
16422793 GGGTTTATAGA-TTAGTGTTAGGTTAGGGTTTAGGGTTTAGATTAATTAGTGTATTTTAATTTAT
1 GGGTTTAGAGACTTAGGGTCAGGTTAGGGTTTAGAATTTAGATTAATTAGTGTATTTTAATTTAT
* *
16422857 ATATTAAATAATGTTTAGGGGTTAG
66 ATATTAAATAAGGTTTAGAGGTTAG
* * * * * *
16422882 GGG-TTAGGGACTTGGGGTCGGGTTAGGGTTTATAATTTAGATTAATTAGTGTTTTTTAATTTCT
1 GGGTTTAGAGACTTAGGGTCAGGTTAGGGTTTAGAATTTAGATTAATTAGTGTATTTTAATTTAT
16422946 ATATTAAATAAGGTTTAGAGGTTAG
66 ATATTAAATAAGGTTTAGAGGTTAG
*
16422971 TGGTTT
1 GGGTTT
16422977 GGGGTTAAGA
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
88 5 0.06
89 72 0.91
90 2 0.03
ACGTcount: A:0.26, C:0.02, G:0.27, T:0.45
Consensus pattern (90 bp):
GGGTTTAGAGACTTAGGGTCAGGTTAGGGTTTAGAATTTAGATTAATTAGTGTATTTTAATTTAT
ATATTAAATAAGGTTTAGAGGTTAG
Found at i:16422982 original size:22 final size:22
Alignment explanation
Indices: 16422957--16423008 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
16422947 TATTAAATAA
* *
16422957 GGTTTAGAGGTTAGTGGTTTGG
1 GGTTTAGAGGTTAGTGATTTAG
*
16422979 GGTTAAGA-GTTAGTGATTTAG
1 GGTTTAGAGGTTAGTGATTTAG
16423000 GGTTTAGAG
1 GGTTTAGAG
16423009 ATTCGGGGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.38
Consensus pattern (22 bp):
GGTTTAGAGGTTAGTGATTTAG
Found at i:16423293 original size:768 final size:768
Alignment explanation
Indices: 16421931--16423466 Score: 3072
Period size: 768 Copynumber: 2.0 Consensus size: 768
16421921 AATTAGAGAT
16421931 CATGGGTTAGGGATTTTGATTTAAGGGTTGTGATTTAAGGTTTATAGGTTATGGGTTAGGGGTTA
1 CATGGGTTAGGGATTTTGATTTAAGGGTTGTGATTTAAGGTTTATAGGTTATGGGTTAGGGGTTA
16421996 AGGGTTAGAGATTAAGAGTTAGGGATTTAGGGTTTATAGATTAGTGTTAGGTTAGGGTTTAGGGT
66 AGGGTTAGAGATTAAGAGTTAGGGATTTAGGGTTTATAGATTAGTGTTAGGTTAGGGTTTAGGGT
16422061 TTAGATTAATTAGTGTATTTTAATTTATATATTAAATAATGTTTAGGGGTTAGGGGTTAGGGACT
131 TTAGATTAATTAGTGTATTTTAATTTATATATTAAATAATGTTTAGGGGTTAGGGGTTAGGGACT
16422126 TGGGGTCGGGTTAGGGTTTATAATTTAGATTAATTAGTGTTTTTTAATTTCTATATTAAATAAGG
196 TGGGGTCGGGTTAGGGTTTATAATTTAGATTAATTAGTGTTTTTTAATTTCTATATTAAATAAGG
16422191 TTTAGAGGTTAGTGGTTTGGGGTTAAGAGTTAGTGATTTAGGGTTTAGAGATTCGGGGTCGAGTT
261 TTTAGAGGTTAGTGGTTTGGGGTTAAGAGTTAGTGATTTAGGGTTTAGAGATTCGGGGTCGAGTT
16422256 AGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAATGTCTTATATAATT
326 AGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAATGTCTTATATAATT
16422321 GTAAAAGAGAAATAATAAATTGTAAAGATTATTAGTTTAAAATTGATATGCAATATACAATAACT
391 GTAAAAGAGAAATAATAAATTGTAAAGATTATTAGTTTAAAATTGATATGCAATATACAATAACT
16422386 GCATATAAAAAATTGTAAAATATGCGAGCTTTGGCAGCGTTTATAGCCAAAAAGCCGCTAATATG
456 GCATATAAAAAATTGTAAAATATGCGAGCTTTGGCAGCGTTTATAGCCAAAAAGCCGCTAATATG
16422451 ATTTAGAATTTTTCAAAACGGTGTCGTTTCATTACAATAATTTAATTTATTAGTGGCGTTTCTTC
521 ATTTAGAATTTTTCAAAACGGTGTCGTTTCATTACAATAATTTAATTTATTAGTGGCGTTTCTTC
16422516 TGTAAACGCCGAAAAAGGTAACATTAGCAGTGTTTCTGACTAAAAAATATTTAATTTAAACCATT
586 TGTAAACGCCGAAAAAGGTAACATTAGCAGTGTTTCTGACTAAAAAATATTTAATTTAAACCATT
16422581 TGATATATTTAAATATTAGATTTTAAAAAATTAATAAATAAAAAATGTAAAAAATTGGTACGAAT
651 TGATATATTTAAATATTAGATTTTAAAAAATTAATAAATAAAAAATGTAAAAAATTGGTACGAAT
16422646 AGGTAACTATCTATTTTAGATATATAGGACCAAATTATAACAAATAAAAATAA
716 AGGTAACTATCTATTTTAGATATATAGGACCAAATTATAACAAATAAAAATAA
16422699 CATGGGTTAGGGATTTTGATTTAAGGGTTGTGATTTAAGGTTTATAGGTTATGGGTTAGGGGTTA
1 CATGGGTTAGGGATTTTGATTTAAGGGTTGTGATTTAAGGTTTATAGGTTATGGGTTAGGGGTTA
16422764 AGGGTTAGAGATTAAGAGTTAGGGATTTAGGGTTTATAGATTAGTGTTAGGTTAGGGTTTAGGGT
66 AGGGTTAGAGATTAAGAGTTAGGGATTTAGGGTTTATAGATTAGTGTTAGGTTAGGGTTTAGGGT
16422829 TTAGATTAATTAGTGTATTTTAATTTATATATTAAATAATGTTTAGGGGTTAGGGGTTAGGGACT
131 TTAGATTAATTAGTGTATTTTAATTTATATATTAAATAATGTTTAGGGGTTAGGGGTTAGGGACT
16422894 TGGGGTCGGGTTAGGGTTTATAATTTAGATTAATTAGTGTTTTTTAATTTCTATATTAAATAAGG
196 TGGGGTCGGGTTAGGGTTTATAATTTAGATTAATTAGTGTTTTTTAATTTCTATATTAAATAAGG
16422959 TTTAGAGGTTAGTGGTTTGGGGTTAAGAGTTAGTGATTTAGGGTTTAGAGATTCGGGGTCGAGTT
261 TTTAGAGGTTAGTGGTTTGGGGTTAAGAGTTAGTGATTTAGGGTTTAGAGATTCGGGGTCGAGTT
16423024 AGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAATGTCTTATATAATT
326 AGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAATGTCTTATATAATT
16423089 GTAAAAGAGAAATAATAAATTGTAAAGATTATTAGTTTAAAATTGATATGCAATATACAATAACT
391 GTAAAAGAGAAATAATAAATTGTAAAGATTATTAGTTTAAAATTGATATGCAATATACAATAACT
16423154 GCATATAAAAAATTGTAAAATATGCGAGCTTTGGCAGCGTTTATAGCCAAAAAGCCGCTAATATG
456 GCATATAAAAAATTGTAAAATATGCGAGCTTTGGCAGCGTTTATAGCCAAAAAGCCGCTAATATG
16423219 ATTTAGAATTTTTCAAAACGGTGTCGTTTCATTACAATAATTTAATTTATTAGTGGCGTTTCTTC
521 ATTTAGAATTTTTCAAAACGGTGTCGTTTCATTACAATAATTTAATTTATTAGTGGCGTTTCTTC
16423284 TGTAAACGCCGAAAAAGGTAACATTAGCAGTGTTTCTGACTAAAAAATATTTAATTTAAACCATT
586 TGTAAACGCCGAAAAAGGTAACATTAGCAGTGTTTCTGACTAAAAAATATTTAATTTAAACCATT
16423349 TGATATATTTAAATATTAGATTTTAAAAAATTAATAAATAAAAAATGTAAAAAATTGGTACGAAT
651 TGATATATTTAAATATTAGATTTTAAAAAATTAATAAATAAAAAATGTAAAAAATTGGTACGAAT
16423414 AGGTAACTATCTATTTTAGATATATAGGACCAAATTATAACAAATAAAAATAA
716 AGGTAACTATCTATTTTAGATATATAGGACCAAATTATAACAAATAAAAATAA
16423467 AATACAAAAA
Statistics
Matches: 768, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
768 768 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (768 bp):
CATGGGTTAGGGATTTTGATTTAAGGGTTGTGATTTAAGGTTTATAGGTTATGGGTTAGGGGTTA
AGGGTTAGAGATTAAGAGTTAGGGATTTAGGGTTTATAGATTAGTGTTAGGTTAGGGTTTAGGGT
TTAGATTAATTAGTGTATTTTAATTTATATATTAAATAATGTTTAGGGGTTAGGGGTTAGGGACT
TGGGGTCGGGTTAGGGTTTATAATTTAGATTAATTAGTGTTTTTTAATTTCTATATTAAATAAGG
TTTAGAGGTTAGTGGTTTGGGGTTAAGAGTTAGTGATTTAGGGTTTAGAGATTCGGGGTCGAGTT
AGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAATGTCTTATATAATT
GTAAAAGAGAAATAATAAATTGTAAAGATTATTAGTTTAAAATTGATATGCAATATACAATAACT
GCATATAAAAAATTGTAAAATATGCGAGCTTTGGCAGCGTTTATAGCCAAAAAGCCGCTAATATG
ATTTAGAATTTTTCAAAACGGTGTCGTTTCATTACAATAATTTAATTTATTAGTGGCGTTTCTTC
TGTAAACGCCGAAAAAGGTAACATTAGCAGTGTTTCTGACTAAAAAATATTTAATTTAAACCATT
TGATATATTTAAATATTAGATTTTAAAAAATTAATAAATAAAAAATGTAAAAAATTGGTACGAAT
AGGTAACTATCTATTTTAGATATATAGGACCAAATTATAACAAATAAAAATAA
Found at i:16423770 original size:76 final size:76
Alignment explanation
Indices: 16423640--16423797 Score: 203
Period size: 76 Copynumber: 2.1 Consensus size: 76
16423630 ATTTGATAGT
* *
16423640 AAAATAATTTTACTTTAAAAAAATAGCGCCATTTCATATAGCAGAACATTTAGCGGCGTTTTTAT
1 AAAATAATTTTACTTT-AAAAAATA-CGCCATTTCATATAGCAAAACATTTAGCGGCGTTTTCAT
16423705 AAAAAAACGCCACAA
64 --AAAAACGCCACAA
* * * *
16423720 AAAATAATTTTACTTT-AAAAATA-GTCATTTTATGTAGCAAAACATTTAGCGGTGTTTTCATAA
1 AAAATAATTTTACTTTAAAAAATACGCCATTTCATATAGCAAAACATTTAGCGGCGTTTTCATAA
*
16423783 AAACGCCGCAA
66 AAACGCCACAA
16423794 AAAA
1 AAAA
16423798 ATCAATTTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
74 16 0.23
76 32 0.45
78 7 0.10
80 16 0.23
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (76 bp):
AAAATAATTTTACTTTAAAAAATACGCCATTTCATATAGCAAAACATTTAGCGGCGTTTTCATAA
AAACGCCACAA
Found at i:16424930 original size:281 final size:287
Alignment explanation
Indices: 16424418--16425058 Score: 938
Period size: 282 Copynumber: 2.2 Consensus size: 287
16424408 TTATTTTTGG
* *
16424418 GCTTTCGCCTTTCGCCGGGCTTGCGAGCTTGTGCTGCTTCCTTCCTTCCTTGGATGTCTGAGACC
1 GCTTTCGCCTTTCGCCGGGCTTGAGAGCTTGTGCTGCTTCATTCCTTCCTTGGATGTCTGAGACC
* *
16424483 TTTTATGACTTCTATATGATTGTTGTTTTCATTATTTGTGATTGAAAACCCAGTCACTTCCTCAG
66 TTTTATGACTTCTATATGATTGTTGTTTTCATTATTTGCGATTGAAAACCCAATCACTTCCTCAG
*
16424548 AAATCTGGCTGTACATTTTTTCCTTCTTTTTTTTTTCAGTTCAATTGATAAACGATATTCTTAAA
131 AAATCTGGCTGTACATTTTTTCC-TC-TTTTTTTTTCAGTTCAATTGATAAACGATATTCATAAA
** *
16424613 ATTCAGTCAAAGGAAAATATATTTGTTGTGTATGGGTTTATGATGATAA-TCCAAAGGCTTGTTT
194 ATTCAGTCAAAGGAAAATATATTTCATGTGTATGGGTTTATGAGGATAAGTCCAAAGGCTTGTTT
16424677 CTCAAAACATTCGCAGTGGCCGCCTAAGA
259 CTCAAAACATTCGCAGTGGCCGCCTAAGA
*
16424706 GCTTTCGCCTTTCGCCGGGCTTGAGAGCTTGTGCTGCTTCATTCCTTCCTTGGATGTTTGAGACC
1 GCTTTCGCCTTTCGCCGGGCTTGAGAGCTTGTGCTGCTTCATTCCTTCCTTGGATGTCTGAGACC
* * * * * *
16424771 TTTTATGACTTGTATAT-A--GTTGTTTTTCATTATTTGCGCTTGAAAATCCAATTATTTTCTCA
66 TTTTATGACTTCTATATGATTGTTG-TTTTCATTATTTGCGATTGAAAACCCAATCACTTCCTCA
* * *
16424833 GAAATCTGGTTGTATA-TTTTTCC-C-TTTTTTTTCAGTTCCATTGATAAACGATATTCATAAAA
130 GAAATCTGGCTGTACATTTTTTCCTCTTTTTTTTTCAGTTCAATTGATAAACGATATTCATAAAA
* * * ***
16424895 TTGAGTCAAATGATAATATATTTCATGTGTATGGGTTTATGAGGATAAGTTGTAAGGCTTGTTTC
195 TTCAGTCAAAGGAAAATATATTTCATGTGTATGGGTTTATGAGGATAAGTCCAAAGGCTTGTTTC
*
16424960 TCAAAACATTCGCAGTGGCCGCCTGAGA
260 TCAAAACATTCGCAGTGGCCGCCTAAGA
* * *
16424988 GCTTTCGCTTTTCGCCGGGCTTGAGAGCTTGTGCTACTT-TTATCCTTCCTTGGATGTCTGAGAC
1 GCTTTCGCCTTTCGCCGGGCTTGAGAGCTTGTGCTGCTTCAT-TCCTTCCTTGGATGTCTGAGAC
16425052 CTTTTAT
65 CTTTTAT
16425059 TATATCTTTA
Statistics
Matches: 321, Mismatches: 29, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
281 79 0.25
282 105 0.33
283 1 0.00
285 11 0.03
286 46 0.14
287 1 0.00
288 78 0.24
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (287 bp):
GCTTTCGCCTTTCGCCGGGCTTGAGAGCTTGTGCTGCTTCATTCCTTCCTTGGATGTCTGAGACC
TTTTATGACTTCTATATGATTGTTGTTTTCATTATTTGCGATTGAAAACCCAATCACTTCCTCAG
AAATCTGGCTGTACATTTTTTCCTCTTTTTTTTTCAGTTCAATTGATAAACGATATTCATAAAAT
TCAGTCAAAGGAAAATATATTTCATGTGTATGGGTTTATGAGGATAAGTCCAAAGGCTTGTTTCT
CAAAACATTCGCAGTGGCCGCCTAAGA
Found at i:16425570 original size:23 final size:21
Alignment explanation
Indices: 16425528--16425570 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
16425518 CCCTTCCCTT
*
16425528 CAAAACCCAAATTCCTTCAAG
1 CAAAACCCAAACTCCTTCAAG
16425549 CAAAACCCAAACCCTCCTTCAA
1 CAAAACCCAAA--CTCCTTCAA
16425571 ATTATGCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.42, C:0.40, G:0.02, T:0.16
Consensus pattern (21 bp):
CAAAACCCAAACTCCTTCAAG
Found at i:16427387 original size:43 final size:43
Alignment explanation
Indices: 16427339--16427474 Score: 193
Period size: 43 Copynumber: 3.2 Consensus size: 43
16427329 TGTTTTTAGT
* *
16427339 GGCGTTTGTGGGAAAAGCGTTGCTAAAAGTCATGACCTATAGC
1 GGCGTTTGTGGGAAAAGCGTCGCTAAAAGTCATGATCTATAGC
* * *
16427382 GGCGTTTGTGAGATAAGCGTCGCT-AAAGCTCCTGATCTATAGC
1 GGCGTTTGTGGGAAAAGCGTCGCTAAAAG-TCATGATCTATAGC
*
16427425 GGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAGC
1 GGCGTTTGTGGGAAAAGCGTCGCTAAAAGTCATGATCTATAGC
*
16427468 AGCGTTT
1 GGCGTTT
16427475 ATTTCTAAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 4 0.05
43 73 0.90
44 4 0.05
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (43 bp):
GGCGTTTGTGGGAAAAGCGTCGCTAAAAGTCATGATCTATAGC
Found at i:16430873 original size:14 final size:14
Alignment explanation
Indices: 16430856--16430920 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
16430846 CTATTTCAAA
16430856 AATAATATTATT-TT
1 AATAAT-TTATTATT
16430870 AATAATTTATTATT
1 AATAATTTATTATT
*
16430884 -A-AATTTAAT-TT
1 AATAATTTATTATT
*
16430895 AATAATTATCTTA-T
1 AATAATT-TATTATT
*
16430909 AATATTTTATTA
1 AATAATTTATTA
16430921 ATTTAATATT
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
11 2 0.05
12 8 0.20
13 14 0.34
14 17 0.41
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (14 bp):
AATAATTTATTATT
Found at i:16430921 original size:25 final size:24
Alignment explanation
Indices: 16430857--16430922 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
16430847 TATTTCAAAA
16430857 ATAATATTATT-TTAATAATTTATT
1 ATAATATT-TTATTAATAATTTATT
* *
16430881 ATTAA-ATTTAATTTAATAATTATCTT
1 A-TAATATTTTA-TTAATAATT-TATT
16430907 ATAATATTTTATTAAT
1 ATAATATTTTATTAAT
16430923 TTAATATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
23 1 0.03
24 4 0.12
25 20 0.59
26 9 0.26
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
ATAATATTTTATTAATAATTTATT
Found at i:16437403 original size:249 final size:246
Alignment explanation
Indices: 16436967--16437459 Score: 797
Period size: 249 Copynumber: 2.0 Consensus size: 246
16436957 TTGATGGAGA
* * *
16436967 AAAATAAGGGATTGGGGTGGTTATCAAATATTTTGTTCATCTTTTTTTTCCTTTTTTTTACTTTC
1 AAAATAAGGGATTAGGGTAGTTATCAAATATTCTGTTCATCTTTTTTTTCCTTTTTTTTACTTTC
* * *
16437032 CCTAAAATCCCTCCACACTCTTGTCGTTTTACTCTTCATTGCTGTCGAATTTTTGCTCTCTTTCA
66 CCCAAAATCCCTCCACACTCTTGTCGTTTTACTCTTCATTGCTGCCGAATTTCTGCTCTCTTTCA
* * *
16437097 CCCTTCATCTTCTTGATTTTTCTTTTCCCAGTCTGCCTCGTGTCGCTCCACGTTTGTCTGCGATC
131 CCCTTCATCTTCTTGATTTTTCTTTCCCCACTCTGCCTCGTGTCGCTCCACGTTTGTCTACGATC
* *
16437162 GTTCGGTAAGTTTTAGATAAGTGATTTGTCTTCATTTGTTAACTTTCTTCT
196 GTTCGGTAAGTTTTAGATAAGTGATTTGTCTCCATATGTTAACTTTCTTCT
* *
16437213 AAAATAAGGGATTAGGGTAGTTATCAAATATTCTGTTCATATTTGTTTTTTTCTCTTTTTTTACT
1 AAAATAAGGGATTAGGGTAGTTATCAAATATTCTGTTCAT-CTT-TTTTTTCCT-TTTTTTTACT
* *
16437278 TTCCCCAAAATCCCTCCACCCTCTTGTCGTTTTTCTCTTCATTGCTGCCGAATTTCTGCTCTCTT
63 TTCCCCAAAATCCCTCCACACTCTTGTCGTTTTACTCTTCATTGCTGCCGAATTTCTGCTCTCTT
* * *
16437343 TCACCCTTTATCTTCTTGATTTTTCTTTCCCCACTCTGCCTCGTGTCGCTCCATGTTTGTCTATG
128 TCACCCTTCATCTTCTTGATTTTTCTTTCCCCACTCTGCCTCGTGTCGCTCCACGTTTGTCTACG
16437408 ATCGTTCGGTAAGTTTTAGATAAGTGATTTGTCTCCATATGTTAACTTTCTT
193 ATCGTTCGGTAAGTTTTAGATAAGTGATTTGTCTCCATATGTTAACTTTCTT
16437460 TTGAAGTGTT
Statistics
Matches: 226, Mismatches: 18, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
246 37 0.16
247 2 0.01
248 8 0.04
249 179 0.79
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.47
Consensus pattern (246 bp):
AAAATAAGGGATTAGGGTAGTTATCAAATATTCTGTTCATCTTTTTTTTCCTTTTTTTTACTTTC
CCCAAAATCCCTCCACACTCTTGTCGTTTTACTCTTCATTGCTGCCGAATTTCTGCTCTCTTTCA
CCCTTCATCTTCTTGATTTTTCTTTCCCCACTCTGCCTCGTGTCGCTCCACGTTTGTCTACGATC
GTTCGGTAAGTTTTAGATAAGTGATTTGTCTCCATATGTTAACTTTCTTCT
Found at i:16442839 original size:300 final size:300
Alignment explanation
Indices: 16442297--16442898 Score: 1195
Period size: 300 Copynumber: 2.0 Consensus size: 300
16442287 AACACATTAA
*
16442297 TTGGAATTATCACTTGATACGATAGGCAATAGCCGAAAGAATTGTAGATGTGATGAAAGTATCTT
1 TTGGAATTATCACTTGATACGATAGGCAACAGCCGAAAGAATTGTAGATGTGATGAAAGTATCTT
16442362 CTAAAGATAACCTTACGGATCCGTTTACTAAGACTCTTGTAACTAGGAGTTTTAACAAACACGTC
66 CTAAAGATAACCTTACGGATCCGTTTACTAAGACTCTTGTAACTAGGAGTTTTAACAAACACGTC
16442427 GAGGATATGGGAATGTGAAACATGACACATTTATTTCACTAAGGCAAGTGGGAGATTTTTTGGAA
131 GAGGATATGGGAATGTGAAACATGACACATTTATTTCACTAAGGCAAGTGGGAGATTTTTTGGAA
16442492 ATGTGTTCATATTGTAGTATACATGTAACTGTTTTCTATTTATTTGAATGATGAATAAATAAAGT
196 ATGTGTTCATATTGTAGTATACATGTAACTGTTTTCTATTTATTTGAATGATGAATAAATAAAGT
16442557 TAATTTCACATTTCACTATTATGTCTTTTGTATTTTTATC
261 TAATTTCACATTTCACTATTATGTCTTTTGTATTTTTATC
16442597 TTGGAATTATCACTTGATACGATAGGCAACAGCCGAAAGAATTGTAGATGTGATGAAAGTATCTT
1 TTGGAATTATCACTTGATACGATAGGCAACAGCCGAAAGAATTGTAGATGTGATGAAAGTATCTT
16442662 CTAAAGATAACCTTACGGATCCGTTTACTAAGACTCTTGTAACTAGGAGTTTTAACAAACACGTC
66 CTAAAGATAACCTTACGGATCCGTTTACTAAGACTCTTGTAACTAGGAGTTTTAACAAACACGTC
16442727 GAGGATATGGGAATGTGAAACATGACACATTTATTTCACTAAGGCAAGTGGGAGATTTTTTGGAA
131 GAGGATATGGGAATGTGAAACATGACACATTTATTTCACTAAGGCAAGTGGGAGATTTTTTGGAA
16442792 ATGTGTTCATATTGTAGTATACATGTAACTGTTTTCTATTTATTTGAATGATGAATAAATAAAGT
196 ATGTGTTCATATTGTAGTATACATGTAACTGTTTTCTATTTATTTGAATGATGAATAAATAAAGT
16442857 TAATTTCACATTTCACTATTATGTCTTTTGTATTTTTATC
261 TAATTTCACATTTCACTATTATGTCTTTTGTATTTTTATC
16442897 TT
1 TT
16442899 TCATATTTTG
Statistics
Matches: 301, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
300 301 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (300 bp):
TTGGAATTATCACTTGATACGATAGGCAACAGCCGAAAGAATTGTAGATGTGATGAAAGTATCTT
CTAAAGATAACCTTACGGATCCGTTTACTAAGACTCTTGTAACTAGGAGTTTTAACAAACACGTC
GAGGATATGGGAATGTGAAACATGACACATTTATTTCACTAAGGCAAGTGGGAGATTTTTTGGAA
ATGTGTTCATATTGTAGTATACATGTAACTGTTTTCTATTTATTTGAATGATGAATAAATAAAGT
TAATTTCACATTTCACTATTATGTCTTTTGTATTTTTATC
Found at i:16443837 original size:41 final size:41
Alignment explanation
Indices: 16443776--16443973 Score: 272
Period size: 41 Copynumber: 4.9 Consensus size: 41
16443766 TTCTGACCTT
**
16443776 TCGGGGCTTTAGCGATGTTTTTGAAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
**
16443817 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCAACGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
** * *
16443858 TCTAGTCTTTAGCGGCATTTTTG-AAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * *
16443898 TCTGGTCTTTAGTGGCGTTTTCGAAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
16443939 TCGGTGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
16443974 AAAAATATTT
Statistics
Matches: 137, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 34 0.25
41 103 0.75
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:16443918 original size:81 final size:82
Alignment explanation
Indices: 16443793--16443973 Score: 267
Period size: 81 Copynumber: 2.2 Consensus size: 82
16443783 TTTAGCGATG
*
16443793 TTTTTGAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAAAAGCAACGCTAATGC
1 TTTTTGAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTCGAAAAAGCAACGCTAATGC
16443858 TCTAGT-CTTTAGCGGCA
66 TC-AGTGCTTTAGCGGCA
* * * **
16443875 TTTTTG-AAAAGCGCCGCTAATGCTCTGGTCTTTAGTGGCGTTTTCGAAAAAGCGCCGCTAATGC
1 TTTTTGAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTCGAAAAAGCAACGCTAATGC
* *
16443939 TCGGTGCTTTAGCGGCG
66 TCAGTGCTTTAGCGGCA
16443956 TTTTTGAAAAAGCGCCGC
1 TTTTTGAAAAAGCGCCGC
16443974 AAAAATATTT
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
80 2 0.02
81 70 0.79
82 17 0.19
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.30
Consensus pattern (82 bp):
TTTTTGAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTCGAAAAAGCAACGCTAATGC
TCAGTGCTTTAGCGGCA
Found at i:16444364 original size:14 final size:15
Alignment explanation
Indices: 16444336--16444368 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
16444326 AAGGTTTATA
16444336 GATTATGGAATTAGG
1 GATTATGGAATTAGG
16444351 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
16444365 GATT
1 GATT
16444369 TTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:16444575 original size:81 final size:74
Alignment explanation
Indices: 16444423--16444595 Score: 193
Period size: 74 Copynumber: 2.2 Consensus size: 74
16444413 TGTTGGGAAT
* *
16444423 TTAGGGTTTAGGGTTTACATTAATTAGTATGTTTTAATTTATATTAAATAAGGTTTAAGGGTAAG
1 TTAGGGTTTAGGGTTTAGATTAATTAGTATGTTTTAATTTATATTAAATAAGATTTAAGGGTAAG
* *
16444488 GTATTTGGG
66 GGATTTGAG
* *
16444497 TTAGGGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGTTTATTTAATT
1 TTAGGGTTTAGGGTTTAGATTAATTAGTATGTTTTAA-TT-TATATTAAATAAG---ATTTAA--
* *
16444562 GGTTTAGGGATTTGAG
59 GGGTAAGGGATTTGAG
* *
16444578 TTAGAGTTTAGGGGTTAG
1 TTAGGGTTTAGGGTTTAG
16444596 GGATTCGGGT
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
74 34 0.41
75 2 0.02
76 13 0.16
79 5 0.06
81 28 0.34
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.47
Consensus pattern (74 bp):
TTAGGGTTTAGGGTTTAGATTAATTAGTATGTTTTAATTTATATTAAATAAGATTTAAGGGTAAG
GGATTTGAG
Found at i:16444620 original size:27 final size:27
Alignment explanation
Indices: 16444555--16444620 Score: 62
Period size: 27 Copynumber: 2.4 Consensus size: 27
16444545 AATAAGTTTA
*
16444555 TTTAATTGGTTTAGGGATTTGAGTTAGAG
1 TTTAA-TGG-TTAGGGATTCGAGTTAGAG
** *
16444584 TTTAGGGGTTAGGGATTCGGGTTA-AGG
1 TTTAATGGTTAGGGATTCGAGTTAGA-G
16444611 TTTAATGGTT
1 TTTAATGGTT
16444621 TAATGGTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
26 1 0.03
27 23 0.77
28 2 0.07
29 4 0.13
ACGTcount: A:0.21, C:0.02, G:0.35, T:0.42
Consensus pattern (27 bp):
TTTAATGGTTAGGGATTCGAGTTAGAG
Found at i:16444622 original size:8 final size:8
Alignment explanation
Indices: 16444605--16444644 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
16444595 GGGATTCGGG
16444605 TTAA-GGT
1 TTAATGGT
16444612 TTAATGGT
1 TTAATGGT
16444620 TTAATGGT
1 TTAATGGT
16444628 TTAATGGT
1 TTAATGGT
*
16444636 TTAAGGGT
1 TTAATGGT
16444644 T
1 T
16444645 GGGATTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
7 4 0.13
8 27 0.87
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (8 bp):
TTAATGGT
Found at i:16444659 original size:21 final size:21
Alignment explanation
Indices: 16444627--16444702 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
16444617 GGTTTAATGG
16444627 TTTAATGGTTTAAGGGTTGGGA
1 TTTAA-GGTTTAAGGGTTGGGA
* *
16444649 TTTAAGGTTTAGGGGTT-AGA
1 TTTAAGGTTTAAGGGTTGGGA
* * *
16444669 CTTTATGGGTTAAGAGTTAGGGA
1 -TTTAAGGTTTAAGGGTT-GGGA
*
16444692 TTTAGGGTTTA
1 TTTAAGGTTTA
16444703 GGGATTCAGG
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
20 2 0.05
21 24 0.57
22 14 0.33
23 2 0.05
ACGTcount: A:0.24, C:0.01, G:0.34, T:0.41
Consensus pattern (21 bp):
TTTAAGGTTTAAGGGTTGGGA
Found at i:16444705 original size:15 final size:15
Alignment explanation
Indices: 16444685--16444714 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16444675 GGGTTAAGAG
*
16444685 TTAGGGATTTAGGGT
1 TTAGGGATTCAGGGT
16444700 TTAGGGATTCAGGGT
1 TTAGGGATTCAGGGT
16444715 CGGGTTAGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.03, G:0.40, T:0.37
Consensus pattern (15 bp):
TTAGGGATTCAGGGT
Found at i:16445035 original size:23 final size:24
Alignment explanation
Indices: 16444997--16445187 Score: 167
Period size: 23 Copynumber: 7.7 Consensus size: 24
16444987 TTGATATATT
*
16444997 TAAATATTAATTTAAATAGAATTAA
1 TAAATA-TAGTTTAAATAGAATTAA
* *
16445022 TAAATA-AGTTTAAATAAAATATATT
1 TAAATATAGTTTAAATAGAAT-TA-A
16445047 TAAATATTAGTTTAAATAGAATTAA
1 TAAATA-TAGTTTAAATAGAATTAA
* *
16445072 TAAATA-AGTTTAAATAAAATATATT
1 TAAATATAGTTTAAATAGAAT-TA-A
*
16445097 TAAATATTAGTTAAAATAGAATTAA
1 TAAATA-TAGTTTAAATAGAATTAA
* * *
16445122 TTATTA-AGTTTAAATA-AAATACA
1 TAAATATAGTTTAAATAGAATTA-A
16445145 TTTAAATATTAGTTTAAATAGAATTAA
1 --TAAATA-TAGTTTAAATAGAATTAA
16445172 TAAATATA-TTTAAATA
1 TAAATATAGTTTAAATA
16445188 TTAGTTTAAA
Statistics
Matches: 135, Mismatches: 17, Indels: 30
0.74 0.09 0.16
Matches are distributed among these distances:
22 4 0.03
23 43 0.32
24 6 0.04
25 38 0.28
26 4 0.03
27 36 0.27
28 4 0.03
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.40
Consensus pattern (24 bp):
TAAATATAGTTTAAATAGAATTAA
Found at i:16445047 original size:50 final size:50
Alignment explanation
Indices: 16444990--16445187 Score: 335
Period size: 50 Copynumber: 4.0 Consensus size: 50
16444980 AAACCATTTG
*
16444990 ATATATTTAAATATTAATTTAAATAGAATTAATAAATAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
16445040 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
* * *
16445090 ATATATTTAAATATTAGTTAAAATAGAATTAATTATTAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
*
16445140 ATACATTTAAATATTAGTTTAAATAGAATTAATAAATATA-TTTAAATA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATA-AGTTTAAATA
16445188 TTAGTTTAAA
Statistics
Matches: 139, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
50 138 0.99
51 1 0.01
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.41
Consensus pattern (50 bp):
ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
Found at i:16445183 original size:35 final size:35
Alignment explanation
Indices: 16445138--16445205 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
16445128 AGTTTAAATA
*
16445138 AAATACATTTAAATATTAGTTTAAATAGAATTAAT
1 AAATACATTTAAATATTAGTTTAAATAAAATTAAT
*
16445173 AAATATATTTAAATATTAGTTTAAATAAAATTA
1 AAATACATTTAAATATTAGTTTAAATAAAATTA
16445206 TTTTTATTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (35 bp):
AAATACATTTAAATATTAGTTTAAATAAAATTAAT
Found at i:16449560 original size:86 final size:84
Alignment explanation
Indices: 16449387--16449575 Score: 204
Period size: 86 Copynumber: 2.2 Consensus size: 84
16449377 TTTTAACAGT
* * *
16449387 CATG-TTTTTAGTGGCGTTTGTGAAAAAGTGCCGCTAAAAGTTATTTTTATAGCGGTGTTTGTAA
1 CATGATTTTTAGTGGCGTTTGTGAAAAAGCGCCGCTAAAAGTCATTTTTATAGCGGCGTTTGTAA
* **
16449451 TAGAAGCGCCGCTAAAGGT
66 TAAAAGCGCCGCTAAAGAC
* * * *
16449470 CATGATTTTTATTGGCGTTTGTGGTAAAAGCGCGGCTAAAGGTCATGATTTT-TAGCGGCGTTTG
1 CATGATTTTTAGTGGCGTTTGT-GAAAAAGCGCCGCTAAAAGTCAT--TTTTATAGCGGCGTTTG
*
16449534 T-GTGAAAAGCGCCGCTAAAGAC
63 TAAT-AAAAGCGCCGCTAAAGAC
* *
16449556 CATGATCTTTAGTGACGTTT
1 CATGATTTTTAGTGGCGTTT
16449576 TTTTCGCATA
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
83 4 0.05
84 16 0.18
85 19 0.22
86 44 0.51
87 4 0.05
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (84 bp):
CATGATTTTTAGTGGCGTTTGTGAAAAAGCGCCGCTAAAAGTCATTTTTATAGCGGCGTTTGTAA
TAAAAGCGCCGCTAAAGAC
Found at i:16449575 original size:43 final size:43
Alignment explanation
Indices: 16449385--16449575 Score: 185
Period size: 43 Copynumber: 4.5 Consensus size: 43
16449375 TTTTTTAACA
* * *
16449385 GTCATG-TTTTTAGTGGCGTTTGT-GAAAAAGTGCCGCTAAAA
1 GTCATGATTTTTAGTGGCGTTTGTGGTAAAAGCGCCGCTAAAG
* * * ** *
16449426 GTTAT--TTTTATAGCGGTGTTTGTAATAGAAGCGCCGCTAAAG
1 GTCATGATTTT-TAGTGGCGTTTGTGGTAAAAGCGCCGCTAAAG
* *
16449468 GTCATGATTTTTATTGGCGTTTGTGGTAAAAGCGCGGCTAAAG
1 GTCATGATTTTTAGTGGCGTTTGTGGTAAAAGCGCCGCTAAAG
*
16449511 GTCATGATTTTTAGCGGCGTTTGT-GTGAAAAGCGCCGCTAAAG
1 GTCATGATTTTTAGTGGCGTTTGTGGT-AAAAGCGCCGCTAAAG
** * *
16449554 ACCATGATCTTTAGTGACGTTT
1 GTCATGATTTTTAGTGGCGTTT
16449576 TTTTCGCATA
Statistics
Matches: 121, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
40 4 0.03
41 15 0.12
42 19 0.16
43 79 0.65
44 4 0.03
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.35
Consensus pattern (43 bp):
GTCATGATTTTTAGTGGCGTTTGTGGTAAAAGCGCCGCTAAAG
Found at i:16450758 original size:67 final size:65
Alignment explanation
Indices: 16450615--16450764 Score: 162
Period size: 67 Copynumber: 2.2 Consensus size: 65
16450605 TATTATTTTA
*
16450615 ATAATTTAATATTAAATTTAATTTAATACTTATCTTATAATATTTTATTAATTTAATATTAAAGT
1 ATAATTTAATATTAAATTTAATTTAATACTTATCTTATAATATTATATTAATTTAATA-TAAAGT
16450680 G
65 G
* * *
16450681 ATTATCTTAATATTAAATTTAATTTAATATTTATCTTGTAAATAAATATTATATTATTTTAATA-
1 ATAAT-TTAATATTAAATTTAATTTAATACTTATC-T-T--AT-AATATTATATTAATTTAATAT
* *
16450745 AGA-TT
60 AAAGTG
16450750 A-AATTTAATATTAAA
1 ATAATTTAATATTAAA
16450765 GTGATTAAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
66 4 0.06
67 39 0.55
68 3 0.04
69 3 0.04
70 2 0.03
71 2 0.03
72 18 0.25
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (65 bp):
ATAATTTAATATTAAATTTAATTTAATACTTATCTTATAATATTATATTAATTTAATATAAAGTG
Found at i:16453288 original size:37 final size:35
Alignment explanation
Indices: 16453225--16453294 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 35
16453215 ATTTCAAAAA
16453225 TAATATTATTTTAAAAGTTTAATATTAAATTTAACG
1 TAATATTATTTTAAAAGTTTAATATT-AATTTAACG
* *
16453261 TAATACTTATTTTAATAGTATT-TTATTAATTTAA
1 TAATA-TTATTTTAAAAGT-TTAATATTAATTTAA
16453295 TATTAAAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 12 0.40
37 16 0.53
38 2 0.07
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.51
Consensus pattern (35 bp):
TAATATTATTTTAAAAGTTTAATATTAATTTAACG
Found at i:16455532 original size:86 final size:86
Alignment explanation
Indices: 16455364--16455617 Score: 294
Period size: 86 Copynumber: 3.0 Consensus size: 86
16455354 AAATACCGCC
* * * * * *
16455364 AAAGACCATGACCTTTAGC-AGCACTTTTATCAAAAACGTCGCTACAGACCATGACCTTTAGTGG
1 AAAGAACATGACCTATAGCGA-CACTTTTATCACAAACGCCGCTAAAGACCATGACCTTTAGCGG
*
16455428 CGCTTTTAACACAAACGCTGCT
65 CGCTTTTGACACAAACGCTGCT
** ** * * *
16455450 AAAGGTCATGGTCTATAGCGACGCTTTTGTCACAAACGCCGCTAAAGAACATGACCTTTAGCGGC
1 AAAGAACATGACCTATAGCGACACTTTTATCACAAACGCCGCTAAAGACCATGACCTTTAGCGGC
*
16455515 GCTTTTGGCACAAACGCTGCT
66 GCTTTTGACACAAACGCTGCT
* * * * * *
16455536 AAAGAACATGACCTTTAGTGGCATTTTTATCACAAACGCCGCTAAAGACCATGACCTTTAACGAC
1 AAAGAACATGACCTATAGCGACACTTTTATCACAAACGCCGCTAAAGACCATGACCTTTAGCGGC
*
16455601 GCTTTTGTCACAAACGC
66 GCTTTTGACACAAACGC
16455618 CGTTATTGAA
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
86 138 0.99
87 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (86 bp):
AAAGAACATGACCTATAGCGACACTTTTATCACAAACGCCGCTAAAGACCATGACCTTTAGCGGC
GCTTTTGACACAAACGCTGCT
Found at i:16455601 original size:129 final size:129
Alignment explanation
Indices: 16455359--16455671 Score: 362
Period size: 129 Copynumber: 2.4 Consensus size: 129
16455349 TGAAAAAATA
* * * * * * *
16455359 CCGCCAAAGACCATGACCTTTAGCAGCACTTTTATCAAAAACG-TCGCTACAGACCATGACCTTT
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTAGCAAAAACGCT-GCTAAAGAACATGACCTTT
* * ** ** *
16455423 AGTGGCGCTTTTAACACAAACGCTGCTAAAGGTCATGGTCTATAGCGACGCTTTTGTCACAAACG
65 AGTGGCACTTTTAACACAAACGCCGCTAAAGACCATGACCTATAACGACGCTTTTGTCACAAACG
* *
16455488 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGGCACAAACGCTGCTAAAGAACATGACCTTTA
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTAGCAAAAACGCTGCTAAAGAACATGACCTTTA
* * *
16455553 GTGGCATTTTTATCACAAACGCCGCTAAAGACCATGACCTTTAACGACGCTTTTGTCACAAACG
66 GTGGCACTTTTAACACAAACGCCGCTAAAGACCATGACCTATAACGACGCTTTTGTCACAAACG
* ** * * * *
16455617 CCGTTATTGAACA-AACCTTTAGCGGCGCTTCTCGCAAAAACGCCGCTAAA-AACAT
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTAGCAAAAACGCTGCTAAAGAACAT
16455672 AACATTTAAA
Statistics
Matches: 156, Mismatches: 27, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
127 5 0.03
128 32 0.21
129 118 0.76
130 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (129 bp):
CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTAGCAAAAACGCTGCTAAAGAACATGACCTTTA
GTGGCACTTTTAACACAAACGCCGCTAAAGACCATGACCTATAACGACGCTTTTGTCACAAACG
Found at i:16455618 original size:43 final size:43
Alignment explanation
Indices: 16455359--16455619 Score: 263
Period size: 43 Copynumber: 6.1 Consensus size: 43
16455349 TGAAAAAATA
* * *
16455359 CCGCCAAAGACCATGACCTTTAGC-AGCACTTTTATCAAAAACG
1 CCGCTAAAGACCATGACCTTTAGCGA-CGCTTTTATCACAAACG
* * * * *
16455402 TCGCTACAGACCATGACCTTTAGTGGCGCTTTTAACACAAACG
1 CCGCTAAAGACCATGACCTTTAGCGACGCTTTTATCACAAACG
* ** ** * *
16455445 CTGCTAAAGGTCATGGTCTATAGCGACGCTTTTGTCACAAACG
1 CCGCTAAAGACCATGACCTTTAGCGACGCTTTTATCACAAACG
* * **
16455488 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGGCACAAACG
1 CCGCTAAAGACCATGACCTTTAGCGACGCTTTTATCACAAACG
* * * * **
16455531 CTGCTAAAGAACATGACCTTTAGTGGCATTTTTATCACAAACG
1 CCGCTAAAGACCATGACCTTTAGCGACGCTTTTATCACAAACG
* *
16455574 CCGCTAAAGACCATGACCTTTAACGACGCTTTTGTCACAAACG
1 CCGCTAAAGACCATGACCTTTAGCGACGCTTTTATCACAAACG
16455617 CCG
1 CCG
16455620 TTATTGAACA
Statistics
Matches: 175, Mismatches: 42, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
43 175 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
CCGCTAAAGACCATGACCTTTAGCGACGCTTTTATCACAAACG
Found at i:16455629 original size:86 final size:85
Alignment explanation
Indices: 16455474--16455638 Score: 231
Period size: 86 Copynumber: 1.9 Consensus size: 85
16455464 ATAGCGACGC
* * * *
16455474 TTTTGTCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGGCACAAACGCTGCTAAA
1 TTTTATCACAAACGCCGCTAAAGAACATGACCTTTAACGACGCTTTTGGCACAAACGCCGCTAAA
*
16455539 GAACATGACCTTTAGTGGCAT
66 GAACA-AACCTTTAGTGGCAT
* * * **
16455560 TTTTATCACAAACGCCGCTAAAGACCATGACCTTTAACGACGCTTTTGTCACAAACGCCGTTATT
1 TTTTATCACAAACGCCGCTAAAGAACATGACCTTTAACGACGCTTTTGGCACAAACGCCGCTAAA
16455625 GAACAAACCTTTAG
66 GAACAAACCTTTAG
16455639 CGGCGCTTCT
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
85 8 0.12
86 61 0.88
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (85 bp):
TTTTATCACAAACGCCGCTAAAGAACATGACCTTTAACGACGCTTTTGGCACAAACGCCGCTAAA
GAACAAACCTTTAGTGGCAT
Found at i:16456094 original size:43 final size:43
Alignment explanation
Indices: 16456028--16456118 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
16456018 CACATTGCAA
* * *
16456028 GGTAATAAAAAATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCTT
* *
16456071 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCTT
16456114 -GTAAT
1 GGTAAT
16456119 GAACTCAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (43 bp):
GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:16461694 original size:7 final size:7
Alignment explanation
Indices: 16461682--16461760 Score: 52
Period size: 7 Copynumber: 11.0 Consensus size: 7
16461672 ACCAATTAAT
16461682 CTAAACC
1 CTAAACC
16461689 CTAAACCC
1 CTAAA-CC
16461697 CT-AACC
1 CTAAACC
* *
16461703 CCAATCTC
1 CTAAAC-C
16461711 CTAAACC
1 CTAAACC
*
16461718 CTAAATC
1 CTAAACC
* *
16461725 ATAAAAC
1 CTAAACC
*
16461732 ATAAACC
1 CTAAACC
*
16461739 TTAAACCC
1 CTAAA-CC
*
16461747 CTAACCC
1 CTAAACC
16461754 CTAAACC
1 CTAAACC
16461761 TACTTAAACC
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
6 3 0.05
7 39 0.70
8 14 0.25
ACGTcount: A:0.42, C:0.41, G:0.00, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:16461782 original size:24 final size:25
Alignment explanation
Indices: 16461738--16461784 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
16461728 AAACATAAAC
16461738 CTTAAACCCCTAACCCCTAAACCTA
1 CTTAAACCCCTAACCCCTAAACCTA
*
16461763 CTTAAACCCC-AACCCTTAAACC
1 CTTAAACCCCTAACCCCTAAACC
16461785 ATAATCCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.19
Consensus pattern (25 bp):
CTTAAACCCCTAACCCCTAAACCTA
Found at i:16461818 original size:15 final size:14
Alignment explanation
Indices: 16461779--16461827 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
16461769 CCCCAACCCT
*
16461779 TAAACCATAATCCA
1 TAAACCATAATCCC
*
16461793 TAATCCATAATCCC
1 TAAACCATAATCCC
*
16461807 TAAACACATAATCAC
1 TAAAC-CATAATCCC
16461822 TAAACC
1 TAAACC
16461828 TTAAAATAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 17 0.57
15 13 0.43
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:16462376 original size:41 final size:41
Alignment explanation
Indices: 16462316--16462435 Score: 168
Period size: 41 Copynumber: 2.9 Consensus size: 41
16462306 TAAAATGTTT
* *
16462316 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCAAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCAAGCA
* * * *
16462357 TTAGCGGCGCTTTTGCAAAAAAGCCACTAAAGCCCCGAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCAAGCA
* *
16462398 TTAGCGGTGCTTTTCCAAAAACGCTGCTAAAGCCCCAA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCAA
16462436 AAGGTCAGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (41 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCAAGCA
Found at i:16463252 original size:96 final size:93
Alignment explanation
Indices: 16463111--16463305 Score: 270
Period size: 96 Copynumber: 2.1 Consensus size: 93
16463101 TTAAAAAAAT
* *
16463111 AAAATATTTTAACATGATAATTATATATAATATTTTCATTATATAATTGCATATTTATTATTTT-
1 AAAATATTTTAACATAATAATTATATATAATATTTTCATTATATAATTACATATTTATTATTTTA
*
16463175 CTTATATAAATAAAAGT-GTTATTAATTA
66 CTTATATAAATAAAA-TACTTATTAATTA
*
16463203 AAAATATTTTTAACATAATGAATTATATCA-AATCTATTTTTATTATATAATTACATATTTATTA
1 AAAATA-TTTTAACATAAT-AATTATAT-ATAA--TATTTTCATTATATAATTACATATTTATTA
*
16463267 TTTTATTTATATAAATAAAATACTTATTAATTA
61 TTTTACTTATATAAATAAAATACTTATTAATTA
16463300 AAAATA
1 AAAATA
16463306 AAAATTAAAA
Statistics
Matches: 91, Mismatches: 5, Indels: 9
0.87 0.05 0.09
Matches are distributed among these distances:
92 6 0.07
93 11 0.12
94 10 0.11
95 1 0.01
96 33 0.36
97 30 0.33
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.48
Consensus pattern (93 bp):
AAAATATTTTAACATAATAATTATATATAATATTTTCATTATATAATTACATATTTATTATTTTA
CTTATATAAATAAAATACTTATTAATTA
Found at i:16463313 original size:13 final size:13
Alignment explanation
Indices: 16463295--16463321 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16463285 AATACTTATT
16463295 AATTAAAAATAAA
1 AATTAAAAATAAA
16463308 AATTAAAAATAAA
1 AATTAAAAATAAA
16463321 A
1 A
16463322 TAAAAAAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AATTAAAAATAAA
Found at i:16463327 original size:19 final size:18
Alignment explanation
Indices: 16463300--16463338 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
16463290 TTATTAATTA
*
16463300 AAAATAAAAATTAAAAAT
1 AAAATAAAAAGTAAAAAT
*
16463318 AAAATAAAAAAGTGAAAAT
1 AAAAT-AAAAAGTAAAAAT
16463337 AA
1 AA
16463339 CATGTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (18 bp):
AAAATAAAAAGTAAAAAT
Found at i:16463554 original size:59 final size:60
Alignment explanation
Indices: 16463481--16463642 Score: 191
Period size: 59 Copynumber: 2.7 Consensus size: 60
16463471 TTAATATAAT
* * * *
16463481 ATTTGGTATCTAAACTTGACACTTTCTCTTAATTTGATACCTAAACTTTTTT-TGGTCCA
1 ATTTGGTACCTAAACTTGACACTTTTTCTTAATTTGGTACCTAAACTTTTTTAAGGTCCA
* * * * ***
16463540 ATTTGGTACCTAAACTTGACACTTTTTATTAAGTTGGTACTTAATCTTTTTTAAGGTTTG
1 ATTTGGTACCTAAACTTGACACTTTTTCTTAATTTGGTACCTAAACTTTTTTAAGGTCCA
* * *
16463600 ATTTGGTACCTAAACATGACTCTTTTTCCTAATTTGGTACCTA
1 ATTTGGTACCTAAACTTGACACTTTTTCTTAATTTGGTACCTA
16463643 TTTTTTTTGT
Statistics
Matches: 85, Mismatches: 17, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
59 45 0.53
60 40 0.47
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (60 bp):
ATTTGGTACCTAAACTTGACACTTTTTCTTAATTTGGTACCTAAACTTTTTTAAGGTCCA
Found at i:16471286 original size:73 final size:71
Alignment explanation
Indices: 16471167--16471307 Score: 219
Period size: 73 Copynumber: 2.0 Consensus size: 71
16471157 TCGGGTTTAG
* *
16471167 AAAAGGGATCATGCCAGTAAGTTAGGACACAATCTTTTCTTAATTCCCGAGATCGTTTAAAAACT
1 AAAAAGGATCATGCCAGTAAGTTAGGACACAATCTCTTCTTAATTCCCGAGATCGTTT-AAAACT
16471232 TGAGGAA
65 TGAGGAA
* * *
16471239 AAAAAGGATTATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATTGTTTAAAACT
1 AAAAAGGATCATG-CCAGTAAGTTAGGACACAATCTCTTCTTAATTCCCGAGATCGTTTAAAACT
16471304 TGAG
65 TGAG
16471308 TTTAAAAAGA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
72 21 0.33
73 42 0.67
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (71 bp):
AAAAAGGATCATGCCAGTAAGTTAGGACACAATCTCTTCTTAATTCCCGAGATCGTTTAAAACTT
GAGGAA
Found at i:16471699 original size:12 final size:12
Alignment explanation
Indices: 16471677--16471715 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
16471667 ATGTAAAAGG
*
16471677 ATATATATATAT
1 ATATGTATATAT
*
16471689 GTATGTATATAT
1 ATATGTATATAT
*
16471701 ATATGTATGTAT
1 ATATGTATATAT
16471713 ATA
1 ATA
16471716 AAAATTATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:16471699 original size:16 final size:16
Alignment explanation
Indices: 16471678--16471715 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
16471668 TGTAAAAGGA
16471678 TATATATATATGTATG
1 TATATATATATGTATG
16471694 TATATATATATGTATG
1 TATATATATATGTATG
16471710 TATATA
1 TATATA
16471716 AAAATTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (16 bp):
TATATATATATGTATG
Found at i:16471858 original size:85 final size:86
Alignment explanation
Indices: 16471690--16471890 Score: 185
Period size: 85 Copynumber: 2.4 Consensus size: 86
16471680 TATATATATG
* * * * * *
16471690 TATGTATATATATATGTATGTATATAAAAATTATAAAATATAATATATATAAGTATGTATTTATA
1 TATGTATATACATATATATATATATAAAAATTATAAAATATAAAAAATATAAGTATGTATGTATA
**
16471755 TATTCATGAAAATAAAAAA-A
66 TATAAATGAAAATAAAAAATA
* * * * *
16471775 TATGTATATAGATATATATATGTATACAAATTATAAAATATAAAAAAATATGAGTTTGT-TGTAT
1 TATGTATATACATATATATATATATAAAAATTATAAAATAT-AAAAAATATAAGTATGTATGTAT
**
16471839 ATATAAAT-AAGTTATAAAAATA
65 ATATAAATGAAAATA-AAAAATA
* * * *
16471861 TATATGTGTACATATATATAT-TATGAAAAT
1 TATGTATATACATATATATATATATAAAAAT
16471891 GTATGTATGC
Statistics
Matches: 93, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
84 4 0.04
85 58 0.62
86 31 0.33
ACGTcount: A:0.50, C:0.01, G:0.08, T:0.40
Consensus pattern (86 bp):
TATGTATATACATATATATATATATAAAAATTATAAAATATAAAAAATATAAGTATGTATGTATA
TATAAATGAAAATAAAAAATA
Found at i:16471959 original size:3 final size:3
Alignment explanation
Indices: 16471944--16472036 Score: 62
Period size: 3 Copynumber: 29.7 Consensus size: 3
16471934 TGAATGAGTA
* *
16471944 AAT AAT TAT AAT AAT AAGGT AATT AAT AAT AAT AA- ATAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AA--T AA-T AAT AAT AAT AAT A-AT AAT AAT AAT
* * * * * *
16471992 AAT AGT AAT ATTT AAA AAT AAT AAT AAT AGT AAA AAT AAT GAT AA
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
16472037 CACTATTAAA
Statistics
Matches: 68, Mismatches: 17, Indels: 10
0.72 0.18 0.11
Matches are distributed among these distances:
2 1 0.01
3 58 0.85
4 6 0.09
5 3 0.04
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16473568 original size:44 final size:44
Alignment explanation
Indices: 16473518--16473832 Score: 156
Period size: 44 Copynumber: 7.1 Consensus size: 44
16473508 ACGACTTAGG
* * * *
16473518 GAGATAATGTTTGCTACTTCAACCTACTCTACTGCAACTTCAGA
1 GAGATAAAGTTTGCTACTTTAATCTGCTCTACTGCAACTTCAGA
* * * * *
16473562 GAGATAAAGTTTG--A-TATGATCTGCTCTGCTGTAACTTTAGA
1 GAGATAAAGTTTGCTACTTTAATCTGCTCTACTGCAACTTCAGA
* * *
16473603 GAGATGAGATCTGTTAT-CTATAGCTTTAATCTGTTCCACTGCAACTTCA-A
1 GAGAT-A-A--AGTT-TGC--TA-CTTTAATCTGCTCTACTGCAACTTCAGA
* * *
16473653 G-GAAATAAGATTTGCTATCTTTAATCTACT-TCACTGCAACTTCAGG
1 GAGATA-AAG-TTTGCTA-CTTTAATCTGCTCT-ACTGCAACTTCAGA
* * * *
16473699 GAGATAACA-CTTG-TATCTTCAA-CTTGCCCCACTGCAACTTCATG-
1 GAGATAA-AGTTTGCTA-CTTTAATC-TGCTCTACTGCAACTTCA-GA
* * *
16473743 GGGATAAGGTTTGCTACTTTAA-CATGCTCTACTGTAACTTCAGA
1 GAGATAAAGTTTGCTACTTTAATC-TGCTCTACTGCAACTTCAGA
* *
16473787 GAGATAAAGTTTG--A-TATGATCTGCTCTACTGCAACTTCAGA
1 GAGATAAAGTTTGCTACTTTAATCTGCTCTACTGCAACTTCAGA
16473828 GAGAT
1 GAGAT
16473833 GAGATATGCT
Statistics
Matches: 203, Mismatches: 44, Indels: 51
0.68 0.15 0.17
Matches are distributed among these distances:
41 51 0.25
42 4 0.02
43 3 0.01
44 75 0.37
45 33 0.16
46 5 0.02
47 7 0.03
48 2 0.01
49 3 0.01
50 2 0.01
51 18 0.09
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (44 bp):
GAGATAAAGTTTGCTACTTTAATCTGCTCTACTGCAACTTCAGA
Found at i:16473775 original size:225 final size:224
Alignment explanation
Indices: 16473461--16473904 Score: 635
Period size: 225 Copynumber: 2.0 Consensus size: 224
16473451 AGTCTGCTCT
** * * * *
16473461 ACTGCAACGTTAGGGAGATAAGGCTCGTTGCTTCGACTTGCTCCACTACGACTTAGGGAGATAAT
1 ACTGCAACGTTAGGGAGATAACACTCGTTGCTTCAACTTGCCCCACTACAACTTAGGGAGATAAG
* *
16473526 GTTTGCTACTTCAACCTACTCTACTGCAACTTCAGAGAGATAAAGTTTGATATGATCTGCTCTGC
66 GTTTGCTACTTCAACATACTCTACTGCAACTTCAGAGAGATAAAGTTTGATATGATCTGCTCTAC
* * * *
16473591 TGTAACTTTAGAGAGATGAGATCTGTTATCTATAGCTTTAATCTGTTCCACTGCAACTTCAAG-G
131 TGCAACTTCAGAGAGATGAGATATGCTATCTATAGCTTTAATCTGTTCCACTGCAA-TTCAAGAG
16473655 AAATAAGATTTGCTATCTTTAATCTACTTC
195 AAATAAGATTTGCTATCTTTAATCTACTTC
* *
16473685 ACTGCAAC-TTCAGGGAGATAACACTTGTAT-CTTCAACTTGCCCCACTGCAACTTCATGGG-GA
1 ACTGCAACGTT-AGGGAGATAACACTCGT-TGCTTCAACTTGCCCCACTACAACTT-A-GGGAGA
* * *
16473747 TAAGGTTTGCTACTTTAACATGCTCTACTGTAACTTCAGAGAGATAAAGTTTGATATGATCTGCT
62 TAAGGTTTGCTACTTCAACATACTCTACTGCAACTTCAGAGAGATAAAGTTTGATATGATCTGCT
* **
16473812 CTACTGCAACTTCAGAGAGATGAGATATGCTATTTATAGCTTTAATCTGTTCCACTGCAATTTTA
127 CTACTGCAACTTCAGAGAGATGAGATATGCTATCTATAGCTTTAATCTGTTCCACTGCAATTCAA
16473877 GAGAAATAAGATTTGCTATCTTTAATCT
192 GAGAAATAAGATTTGCTATCTTTAATCT
16473905 GCTTTGCTGT
Statistics
Matches: 195, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
223 2 0.01
224 46 0.24
225 144 0.74
226 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (224 bp):
ACTGCAACGTTAGGGAGATAACACTCGTTGCTTCAACTTGCCCCACTACAACTTAGGGAGATAAG
GTTTGCTACTTCAACATACTCTACTGCAACTTCAGAGAGATAAAGTTTGATATGATCTGCTCTAC
TGCAACTTCAGAGAGATGAGATATGCTATCTATAGCTTTAATCTGTTCCACTGCAATTCAAGAGA
AATAAGATTTGCTATCTTTAATCTACTTC
Found at i:16476063 original size:52 final size:48
Alignment explanation
Indices: 16476044--16476246 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
16476034 TGACAAGTGG
* *
16476044 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
16476090 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
16476142 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
16476188 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
16476234 AAAGTGATAAGTG
1 AAAGTGATAAGTG
16476247 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:16476098 original size:98 final size:98
Alignment explanation
Indices: 16475978--16476246 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
16475968 TTTGAGTACT
*
16475978 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
16476043 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
16476076 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
16476141 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
16476174 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
16476239 GATAAGTG
65 GAAAAGTG
16476247 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:16476254 original size:37 final size:37
Alignment explanation
Indices: 16476210--16476355 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
16476200 GATAGCTTTA
*
16476210 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
16476247 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
16476284 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
16476321 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
16476356 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:16477067 original size:45 final size:44
Alignment explanation
Indices: 16477007--16477503 Score: 263
Period size: 44 Copynumber: 11.1 Consensus size: 44
16476997 AAGACTGGTG
* * * * *
16477007 TCTTCGATCTTCTTCGCTATCAGTACAAGAAGGTAATATCTGTTA
1 TCTTCAATCTGCTTCGCTGTCAGTACAAGAAGGCAA-ATCTGCTA
* ** * *
16477052 TCTTCAATCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCTGGTG
1 TCTTCAATCTGCTTCGCTGTCAGTACAAGAAGGCAAATCTGCTA
* *
16477096 CCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTA
1 TCTTCAATCTGCTTCGCTGTCAGTACAAGAAGGCAA-ATCTGCTA
* * ** * *
16477141 TCTTCAGTCTG-TTCCGCTG-CA-AACACAGGGAA-GCAAGGCTGGTG
1 TCTTCAATCTGCTT-CGCTGTCAGTACA-A--GAAGGCAAATCTGCTA
* * * *
16477185 TCTTCGATCTGCTTCGTTGTCAGTAC-AGAAAGGCAATATTTGTTA
1 TCTTCAATCTGCTTCGCTGTCAGTACAAG-AAGGCAA-ATCTGCTA
* * * * * * ** * *
16477230 TCTTCAGTCTACTTCACTGTTAGTACAGGAAGGCGAGGCTGGTG
1 TCTTCAATCTGCTTCGCTGTCAGTACAAGAAGGCAAATCTGCTA
** * *
16477274 TCTTTGATCTGCTTCGCTATCAGTACAAGGAAGGCAAGATCTACTA
1 TCTTCAATCTGCTTCGCTGTCAGTACAA-GAAGGCAA-ATCTGCTA
* * * * ** *
16477320 TCTTTAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTAG-TG
1 TCTTCAATCTGCTTCGCTGTCAGTACAAGAAGGCAAATCT-GCTA
* * * * *
16477364 TCTTCGATCTGCTTCGCTGTCAGTATAGGAAAGCAAGATCTGTTA
1 TCTTCAATCTGCTTCGCTGTCAGTACAAGAAGGCAA-ATCTGCTA
* * ** * * * *
16477409 TCTTCAGTCTGCTCCATTGTCAGTAC-AGAAAGGTAAGGT-TGTTG
1 TCTTCAATCTGCTTCGCTGTCAGTACAAG-AAGGCAA-ATCTGCTA
* * * *
16477453 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTA
1 TCTTCAATCTGCTTCGCTGTCAGTACAAGAAGGCAA-ATCTGCTA
16477498 TCTTCA
1 TCTTCA
16477504 CTGATTTGTT
Statistics
Matches: 330, Mismatches: 102, Indels: 40
0.70 0.22 0.08
Matches are distributed among these distances:
42 1 0.00
43 5 0.02
44 153 0.46
45 139 0.42
46 32 0.10
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (44 bp):
TCTTCAATCTGCTTCGCTGTCAGTACAAGAAGGCAAATCTGCTA
Found at i:16477111 original size:89 final size:89
Alignment explanation
Indices: 16476988--16477503 Score: 608
Period size: 89 Copynumber: 5.8 Consensus size: 89
16476978 GCTACAAACC
* * * * * * *
16476988 CAGGGAGGCAAGACTGGTGTCTTCGATCTTCTTCGCTATCAGTACAAGAAGGTAATATCTGTTAT
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTAT
*
16477053 CTTCAATCTGCTTCGCTGTCAGTA
66 CTTCAGTCTGCTTCGCTGTCAGTA
*
16477077 CAGGAAGGCAAGGCTGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTAT
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTAT
**
16477142 CTTCAGTCTG-TTCCGCTG-CAAACA
66 CTTCAGTCTGCTT-CGCTGTC-AGTA
* * * *
16477166 CAGGGAA-GCAAGGCTGGTGTCTTCGATCTGCTTCGTTGTCAGTAC-AGAAAGGCAATATTTGTT
1 CA-GGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAAG-AAGGCAAGATCTGCT
* * *
16477229 ATCTTCAGTCTACTTCACTGTTAGTA
64 ATCTTCAGTCTGCTTCGCTGTCAGTA
* * * *
16477255 CAGGAAGGCGAGGCTGGTGTCTTTGATCTGCTTCGCTATCAGTACAAGGAAGGCAAGATCTACTA
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAA-GAAGGCAAGATCTGCTA
* *
16477320 TCTTTAGTCTGCTCCGCTGTCAGTA
65 TCTTCAGTCTGCTTCGCTGTCAGTA
* * * * *
16477345 CAGGAAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTATAGGAAAGCAAGATCTGTTAT
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTAT
* **
16477410 CTTCAGTCTGCTCCATTGTCAGTA
66 CTTCAGTCTGCTTCGCTGTCAGTA
* * * * * * *
16477434 CAGAAAGGTAAGGTTGTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTAT
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTAT
16477499 CTTCA
66 CTTCA
16477504 CTGATTTGTT
Statistics
Matches: 362, Mismatches: 56, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
88 9 0.02
89 272 0.75
90 80 0.22
91 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (89 bp):
CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTAT
CTTCAGTCTGCTTCGCTGTCAGTA
Found at i:16477257 original size:178 final size:178
Alignment explanation
Indices: 16476955--16477503 Score: 701
Period size: 178 Copynumber: 3.1 Consensus size: 178
16476945 GGGGTGTTAC
* * * * * * *
16476955 ATCTGCTATCTTTAGTTTGCTCCGCTACAAACCCAGGGAGGCAAGACTGGTGTCTTCGATCTTCT
1 ATCTGCTATCTTCAGTCTGCTCCGCTGCAAACACAGGGAAGCAAGGCTGGTGTCTTCGATCTGCT
* * * *
16477020 TCGCTATCAGTACA-AGAAGGTAATATCTGTTATCTTCAATCTGCTTCGCTGTCAGTACAGGAAG
66 TCGCTGTCAGTACAGA-AAGGCAATATCTGTTATCTTCAGTCTGCTTCACTGTCAGTACAGGAAG
*
16477084 GCAAGGCTGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAG
130 GCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAG
*
16477133 ATCTGCTATCTTCAGTCTGTTCCGCTGCAAACACAGGGAAGCAAGGCTGGTGTCTTCGATCTGCT
1 ATCTGCTATCTTCAGTCTGCTCCGCTGCAAACACAGGGAAGCAAGGCTGGTGTCTTCGATCTGCT
* * * *
16477198 TCGTTGTCAGTACAGAAAGGCAATATTTGTTATCTTCAGTCTACTTCACTGTTAGTACAGGAAGG
66 TCGCTGTCAGTACAGAAAGGCAATATCTGTTATCTTCAGTCTGCTTCACTGTCAGTACAGGAAGG
* * *
16477263 CGAGGCTGGTGTCTTTGATCTGCTTCGCTATCAGTACAAGGAAGGCAAG
131 CAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAA-GAAGGCAAG
* * ** *
16477312 ATCTACTATCTTTAGTCTGCTCCGCTGTC-AGTACA-GGAAGGCAAGGCTAGTGTCTTCGATCTG
1 ATCTGCTATCTTCAGTCTGCTCCGCTG-CAAACACAGGGAA-GCAAGGCTGGTGTCTTCGATCTG
* * * * *
16477375 CTTCGCTGTCAGTATAGGAAA-GCAAGATCTGTTATCTTCAGTCTGCTCCATTGTCAGTACAGAA
64 CTTCGCTGTCAGTACA-GAAAGGCAATATCTGTTATCTTCAGTCTGCTTCACTGTCAGTACAGGA
* * * * * *
16477439 AGGTAAGGTTGTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAG
128 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAG
16477490 ATCTGCTATCTTCA
1 ATCTGCTATCTTCA
16477504 CTGATTTGTT
Statistics
Matches: 320, Mismatches: 46, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
178 172 0.54
179 143 0.45
180 5 0.02
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.30
Consensus pattern (178 bp):
ATCTGCTATCTTCAGTCTGCTCCGCTGCAAACACAGGGAAGCAAGGCTGGTGTCTTCGATCTGCT
TCGCTGTCAGTACAGAAAGGCAATATCTGTTATCTTCAGTCTGCTTCACTGTCAGTACAGGAAGG
CAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAG
Found at i:16484223 original size:27 final size:27
Alignment explanation
Indices: 16484192--16484246 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
16484182 TTTGTTGATG
16484192 TAAGATTTTAAAATTAAAAAAGAATAC
1 TAAGATTTTAAAATTAAAAAAGAATAC
16484219 TAAGATTTTAAAATTAAAAAAGAATAC
1 TAAGATTTTAAAATTAAAAAAGAATAC
16484246 T
1 T
16484247 CATTTAGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (27 bp):
TAAGATTTTAAAATTAAAAAAGAATAC
Found at i:16485029 original size:11 final size:11
Alignment explanation
Indices: 16485009--16485056 Score: 53
Period size: 12 Copynumber: 4.3 Consensus size: 11
16484999 ATCATTTCTT
16485009 AATTTCCTCTCA
1 AATTT-CTCTCA
*
16485021 AATTACTCTC-
1 AATTTCTCTCA
*
16485031 AATTTCTTTCCA
1 AATTTCTCT-CA
16485043 AATTTCTCTCA
1 AATTTCTCTCA
16485054 AAT
1 AAT
16485057 CCATATTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
10 7 0.23
11 11 0.37
12 12 0.40
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTTCTCTCA
Found at i:16485034 original size:22 final size:22
Alignment explanation
Indices: 16485009--16485054 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
16484999 ATCATTTCTT
16485009 AATTTC-CTCTCAAATTACTCTC
1 AATTTCTCTC-CAAATTACTCTC
* *
16485031 AATTTCTTTCCAAATTTCTCTC
1 AATTTCTCTCCAAATTACTCTC
16485053 AA
1 AA
16485055 ATCCATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.43
Consensus pattern (22 bp):
AATTTCTCTCCAAATTACTCTC
Found at i:16485097 original size:51 final size:50
Alignment explanation
Indices: 16485016--16485115 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 50
16485006 CTTAATTTCC
16485016 TCTCAAATTACTCTCAATTTCTTTCCAAATTTCTCTCAAA-TCCATATTTAA
1 TCTCAAATTACTCTCAATTTCTTT-CAAATTTCTCTCAAATTCC-TATTTAA
* * *
16485067 TCTCAATTTGCTCTCAATTTCCTCTT-AAATTTCTCTTAAATTCCTATTT
1 TCTCAAATTACTCTCAATTT-CT-TTCAAATTTCTCTCAAATTCCTATTT
16485116 TTAATTATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
51 36 0.84
52 5 0.12
53 2 0.05
ACGTcount: A:0.27, C:0.25, G:0.01, T:0.47
Consensus pattern (50 bp):
TCTCAAATTACTCTCAATTTCTTTCAAATTTCTCTCAAATTCCTATTTAA
Found at i:16485126 original size:10 final size:10
Alignment explanation
Indices: 16485111--16485161 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
16485101 CTTAAATTCC
16485111 TATTTTTAAT
1 TATTTTTAAT
*
16485121 TATTTTTAAAA
1 TATTTTT-AAT
*
16485132 AATTTTTAAT
1 TATTTTTAAT
16485142 TATTTTTAAAT
1 TATTTTT-AAT
*
16485153 TTTTTTTAA
1 TATTTTTAA
16485162 ATCGTAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
10 17 0.50
11 17 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TATTTTTAAT
Found at i:16485161 original size:21 final size:21
Alignment explanation
Indices: 16485112--16485151 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
16485102 TTAAATTCCT
16485112 ATTTTTAATTATTTTTAAAAA
1 ATTTTTAATTATTTTTAAAAA
16485133 ATTTTTAATTATTTTTAAA
1 ATTTTTAATTATTTTTAAA
16485152 TTTTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAATTATTTTTAAAAA
Found at i:16485162 original size:11 final size:11
Alignment explanation
Indices: 16485111--16485163 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
16485101 CTTAAATTCC
16485111 TATTTTT-AAT
1 TATTTTTAAAT
*
16485121 TATTTTTAAAA
1 TATTTTTAAAT
*
16485132 AATTTTT-AAT
1 TATTTTTAAAT
16485142 TATTTTTAAAT
1 TATTTTTAAAT
*
16485153 TTTTTTTAAAT
1 TATTTTTAAAT
16485164 CGTAAAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
10 15 0.42
11 21 0.58
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTTTAAAT
Found at i:16487364 original size:56 final size:56
Alignment explanation
Indices: 16487302--16487422 Score: 215
Period size: 56 Copynumber: 2.2 Consensus size: 56
16487292 ATATTAATGT
16487302 AATAAAATACAAAATAGTTTAATTTGAATATTTTGATATTATTTGATGTAATAAAA
1 AATAAAATACAAAATAGTTTAATTTGAATATTTTGATATTATTTGATGTAATAAAA
*
16487358 AATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTGATGTAATAAAA
1 AATAAAATACAAAATAGTTTAATTTGAATATTTTGATATTATTTGATGTAATAAAA
* *
16487414 TACAAAATA
1 AATAAAATA
16487423 GTTAATATTC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.40
Consensus pattern (56 bp):
AATAAAATACAAAATAGTTTAATTTGAATATTTTGATATTATTTGATGTAATAAAA
Found at i:16488102 original size:11 final size:11
Alignment explanation
Indices: 16488086--16488123 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
16488076 ACATGGCCTC
16488086 CCTGCATCTGG
1 CCTGCATCTGG
*
16488097 CCTGCATC--C
1 CCTGCATCTGG
16488106 CCTGCATCTGG
1 CCTGCATCTGG
16488117 CCTGCAT
1 CCTGCAT
16488124 TACTCGCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.11, C:0.42, G:0.21, T:0.26
Consensus pattern (11 bp):
CCTGCATCTGG
Found at i:16488108 original size:20 final size:20
Alignment explanation
Indices: 16488085--16488123 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
16488075 TACATGGCCT
16488085 CCCTGCATCTGGCCTGCATC
1 CCCTGCATCTGGCCTGCATC
16488105 CCCTGCATCTGGCCTGCAT
1 CCCTGCATCTGGCCTGCAT
16488124 TACTCGCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.44, G:0.21, T:0.26
Consensus pattern (20 bp):
CCCTGCATCTGGCCTGCATC
Found at i:16490151 original size:124 final size:125
Alignment explanation
Indices: 16489931--16490465 Score: 896
Period size: 124 Copynumber: 4.3 Consensus size: 125
16489921 CCCAAACATG
* * *
16489931 CTACTGTAGCAAACGCGCGTCCATGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAACATCCTGC
* *
16489996 TTGAAGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGAAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
16490055 CTACTGTAGCAAAAGCGCGTCCAAGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAACATCCTGC
16490120 TTGAAGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * *
16490179 CTACTGTAGCAAAAGCGCGTCCACGTAGGAGCGATTTCAGAAATTCTTCTTATAAAACATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAACATCCTGC
16490244 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * *
16490304 CTACTGTAGCAAAAGCGCGTCCACGTAGGAGCGATTTCAGAAATTCTTCTTATAAAACATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAACATCCTGC
*
16490369 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTA-TTTTTCTGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * *
16490428 CTACTATATCAAAAACGCGTCCACGTGGGAGCGATTTC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
16490466 CTTAATAAAT
Statistics
Matches: 396, Mismatches: 14, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
124 232 0.59
125 164 0.41
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAACATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:16490368 original size:249 final size:248
Alignment explanation
Indices: 16489931--16490465 Score: 892
Period size: 249 Copynumber: 2.2 Consensus size: 248
16489921 CCCAAACATG
* * *
16489931 CTACTGTAGCAAACGCGCGTCCATGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAACATCCTGC
16489996 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGAACCTACTG
66 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGAACCTACTG
* *
16490061 TAGCAAAAGCGCGTCCAAGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGCTTGAAG
131 TAGCAAAAGCGCGTCCAAGTAGGAGCGATTTCAAAAATTCTTCTGATAAAACATCCTGCTTGAAG
16490126 CG-TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
196 CGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTA-TTTTTCAGGAC
* * *
16490179 CTACTGTAGCAAAAGCGCGTCCACGTAGGAGCGATTTCAGAAATTCTTCTTATAAAACATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAACATCCTGC
* *
16490244 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACT
66 TTGAAGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGAACCTACT
* * *
16490309 GTAGCAAAAGCGCGTCCACGTAGGAGCGATTTCAGAAATTCTTCTTATAAAACATCCTGCTTGAA
130 GTAGCAAAAGCGCGTCCAAGTAGGAGCGATTTCAAAAATTCTTCTGATAAAACATCCTGCTTGAA
*
16490374 GCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCTGGAC
195 GCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCAGGAC
* * *
16490428 CTACTATATCAAAAACGCGTCCACGTGGGAGCGATTTC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
16490466 CTTAATAAAT
Statistics
Matches: 267, Mismatches: 18, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
248 67 0.25
249 161 0.60
250 39 0.15
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (248 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAACATCCTGC
TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGAACCTACTG
TAGCAAAAGCGCGTCCAAGTAGGAGCGATTTCAAAAATTCTTCTGATAAAACATCCTGCTTGAAG
CGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCAGGAC
Found at i:16491166 original size:9 final size:9
Alignment explanation
Indices: 16491149--16491283 Score: 53
Period size: 9 Copynumber: 14.7 Consensus size: 9
16491139 TATAAACTTT
16491149 TAAAAATTA
1 TAAAAATTA
*
16491158 TAAATATTA
1 TAAAAATTA
16491167 TAAAAATTAA
1 TAAAAATT-A
*
16491177 TAAAACTTA
1 TAAAAATTA
*
16491186 TTTAAAA-TA
1 -TAAAAATTA
**
16491195 TTTAAATTA
1 TAAAAATTA
16491204 -AAAACA-TA
1 TAAAA-ATTA
* * *
16491212 TTAGAATTCT
1 TAAAAATT-A
* *
16491222 TTAAAATAA
1 TAAAAATTA
16491231 TAAAAATGTA
1 TAAAAAT-TA
*
16491241 -AAAAAATA
1 TAAAAATTA
*
16491249 TTAAAATTGA
1 TAAAAATT-A
*
16491259 TATAAACTTA
1 TA-AAAATTA
*
16491269 TAAAATTTA
1 TAAAAATTA
16491278 TAAAAA
1 TAAAAA
16491284 ATTTGAACTA
Statistics
Matches: 92, Mismatches: 23, Indels: 22
0.67 0.17 0.16
Matches are distributed among these distances:
8 12 0.13
9 51 0.55
10 24 0.26
11 5 0.05
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (9 bp):
TAAAAATTA
Found at i:16491186 original size:19 final size:19
Alignment explanation
Indices: 16491131--16491186 Score: 71
Period size: 18 Copynumber: 2.9 Consensus size: 19
16491121 CTTATTAAAT
*
16491131 AAAATTAATATAAACTTTTA
1 AAAATTAATA-AAACTTATA
16491151 AAAATT-ATAAATA-TTATA
1 AAAATTAATAAA-ACTTATA
16491169 AAAATTAATAAAACTTAT
1 AAAATTAATAAAACTTAT
16491187 TTAAAATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
18 13 0.41
19 13 0.41
20 6 0.19
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTAATAAAACTTATA
Found at i:16491736 original size:27 final size:28
Alignment explanation
Indices: 16491661--16491767 Score: 81
Period size: 27 Copynumber: 3.7 Consensus size: 28
16491651 TAAAAATTTC
* *
16491661 AAATATTAAAATTTTATTAAAAATTATAAAA
1 AAATA-TAAAATTATA-TAAAAA-CATAAAA
* * *
16491692 AAATTGTAAAATTTTATAAAAACGTAAAA
1 AAA-TATAAAATTATATAAAAACATAAAA
* *
16491721 AAATATAAAA-TATATAGAAATATAAAA
1 AAATATAAAATTATATAAAAACATAAAA
* *
16491748 AATTATAAAAATTTTATAAA
1 AAATAT-AAAATTATATAAA
16491768 TTGTTAAGAA
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
27 18 0.29
28 10 0.16
29 14 0.23
30 6 0.10
31 13 0.21
32 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.34
Consensus pattern (28 bp):
AAATATAAAATTATATAAAAACATAAAA
Found at i:16491767 original size:11 final size:10
Alignment explanation
Indices: 16491674--16491758 Score: 54
Period size: 10 Copynumber: 8.9 Consensus size: 10
16491664 TATTAAAATT
*
16491674 TTATTAAAAA
1 TTATAAAAAA
16491684 TTATAAAAAAA
1 TTAT-AAAAAA
* **
16491695 TTGTAAAATT
1 TTATAAAAAA
*
16491705 TTATAAAAAC
1 TTATAAAAAA
*
16491715 GTA-AAAAAA
1 TTATAAAAAA
*
16491724 -TATAAAATA
1 TTATAAAAAA
*
16491733 -TAT-AGAAA
1 TTATAAAAAA
16491741 -TATAAAAAA
1 TTATAAAAAA
16491750 TTATAAAAA
1 TTATAAAAA
16491759 TTTTATAAAT
Statistics
Matches: 58, Mismatches: 13, Indels: 8
0.73 0.16 0.10
Matches are distributed among these distances:
8 8 0.14
9 17 0.29
10 25 0.43
11 8 0.14
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.31
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:16491768 original size:27 final size:27
Alignment explanation
Indices: 16491689--16491768 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 27
16491679 AAAAATTATA
* *
16491689 AAAAAATTGTAAAATTTTATAAAAACGT
1 AAAAAATTATAAAATTTTATAAATAC-T
* * *
16491717 AAAAAAATATAAAATATATAGAAATA-T
1 AAAAAATTATAAAAT-TTTATAAATACT
16491744 AAAAAATTATAAAAATTTTATAAAT
1 AAAAAATTAT-AAAATTTTATAAAT
16491769 TGTTAAGAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
27 17 0.40
28 18 0.43
29 7 0.17
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (27 bp):
AAAAAATTATAAAATTTTATAAATACT
Found at i:16492032 original size:36 final size:36
Alignment explanation
Indices: 16491963--16492034 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
16491953 GGGGCCGTTA
* * *
16491963 ATTTTTATGATTTTTATAAAATTTTACAATTTTTTT
1 ATTTTTACGATTTTTATAAAAATCTACAATTTTTTT
16491999 ATTTTTACGATTTTTATAAAAAATCT--AATTTTTTT
1 ATTTTTACGATTTTTAT-AAAAATCTACAATTTTTTT
16492034 A
1 A
16492035 ATAAATTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 10 0.31
36 16 0.50
37 6 0.19
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (36 bp):
ATTTTTACGATTTTTATAAAAATCTACAATTTTTTT
Found at i:16492087 original size:19 final size:19
Alignment explanation
Indices: 16492063--16492113 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
16492053 ATATTTTTAT
16492063 TAAAATTTAATAACTTTTC
1 TAAAATTTAATAACTTTTC
** **
16492082 TAAAATTTTTTATTTTTTC
1 TAAAATTTAATAACTTTTC
*
16492101 TAATATTTAATAA
1 TAAAATTTAATAA
16492114 GAGCATGGGT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (19 bp):
TAAAATTTAATAACTTTTC
Found at i:16492210 original size:26 final size:27
Alignment explanation
Indices: 16492176--16492233 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
16492166 TTAAACGAAC
* *
16492176 AAATCTTTGTTCATGTTCGTTT-TTCA
1 AAATTTTTGATCATGTTCGTTTATTCA
*
16492202 AAATTTTTGATCATGTTCGTTTATTTA
1 AAATTTTTGATCATGTTCGTTTATTCA
16492229 AAATT
1 AAATT
16492234 ATATGTGTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.53
Consensus pattern (27 bp):
AAATTTTTGATCATGTTCGTTTATTCA
Found at i:16492326 original size:4 final size:4
Alignment explanation
Indices: 16492301--16492334 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
16492291 GTTAATGAAT
* *
16492301 AACA AACA AGCA AACA AGCA AACA AACA AACA AA
1 AACA AACA AACA AACA AACA AACA AACA AACA AA
16492335 TAATAAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.71, C:0.24, G:0.06, T:0.00
Consensus pattern (4 bp):
AACA
Found at i:16493011 original size:16 final size:15
Alignment explanation
Indices: 16492986--16493015 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
16492976 TTCAATTAAA
16492986 TAAAAAATTAAAAAT
1 TAAAAAATTAAAAAT
16493001 TAAAAATATTAAAAA
1 TAAAAA-ATTAAAAA
16493016 ATCGATTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAAAAATTAAAAAT
Found at i:16493151 original size:9 final size:9
Alignment explanation
Indices: 16493139--16493223 Score: 53
Period size: 9 Copynumber: 9.0 Consensus size: 9
16493129 TTTTATGATT
16493139 TTTTTATAA
1 TTTTTATAA
16493148 TTTTTATAA
1 TTTTTATAA
*
16493157 GTTTATATCAA
1 -TTTTTAT-AA
* *
16493168 TTTTAATAC
1 TTTTTATAA
* * **
16493177 TTCTAATTT
1 TTTTTATAA
16493186 TTTTTATAA
1 TTTTTATAA
16493195 TTTTTATGAA
1 TTTTTAT-AA
*
16493205 TTTTATAGAA
1 TTTT-TATAA
*
16493215 TTTTAATAA
1 TTTTTATAA
16493224 AATTTTAAAT
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
9 31 0.53
10 23 0.40
11 4 0.07
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:16494510 original size:17 final size:18
Alignment explanation
Indices: 16494488--16494526 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
16494478 TAATATTATT
*
16494488 TAAAATT-ATTATTAAAA
1 TAAAATTAAATATTAAAA
16494505 TAAAATTGAAATATTAAAA
1 TAAAATT-AAATATTAAAA
16494524 TAA
1 TAA
16494527 TAAATTGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
19 12 0.63
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
TAAAATTAAATATTAAAA
Found at i:16497845 original size:19 final size:19
Alignment explanation
Indices: 16497821--16497871 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
16497811 ACGTTCTATA
*
16497821 TGGTATCGATGCCCCTGCC
1 TGGTATCGATACCCCTGCC
*
16497840 TGGTATCGATACCCTTGCC
1 TGGTATCGATACCCCTGCC
* *
16497859 TAGTATCAATACC
1 TGGTATCGATACC
16497872 TGATCCTTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.29
Consensus pattern (19 bp):
TGGTATCGATACCCCTGCC
Found at i:16506343 original size:45 final size:45
Alignment explanation
Indices: 16506277--16506402 Score: 180
Period size: 45 Copynumber: 2.8 Consensus size: 45
16506267 GTTATACGCC
* **
16506277 TAAAAATTAGTAAGATTATAGCTGAAAGATGTTATGACGTCATGA
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGACGTCATGA
* *
16506322 TAAAAATGAGTAAGACCATAGCTGAAAGATATTATGGCGTCATGA
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGACGTCATGA
* * *
16506367 TAAAAATGAATAAGACCATAGCTAAAAAATGTTATG
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGTTATG
16506403 CCATCTTTTG
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.27
Consensus pattern (45 bp):
TAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGACGTCATGA
Found at i:16513635 original size:21 final size:21
Alignment explanation
Indices: 16513593--16513635 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
16513583 TATAAATATT
16513593 TTTAACTCAAATACATAAAAA
1 TTTAACTCAAATACATAAAAA
16513614 TTTAA-TCACAAT-CATAACAAA
1 TTTAACTCA-AATACATAA-AAA
16513635 T
1 T
16513636 CAACTTACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.30
Consensus pattern (21 bp):
TTTAACTCAAATACATAAAAA
Found at i:16517107 original size:35 final size:35
Alignment explanation
Indices: 16517050--16517238 Score: 202
Period size: 35 Copynumber: 5.4 Consensus size: 35
16517040 CATCGTCAAC
*
16517050 CCAACC-ATAACACACCAATGCTCATAAGAGCTAAT
1 CCAACCGA-AACACGCCAATGCTCATAAGAGCTAAT
* * * * *
16517085 TCAATCGAAACACGCTAGTGCTCATAAGAGCTAGT
1 CCAACCGAAACACGCCAATGCTCATAAGAGCTAAT
* *
16517120 CCAACCGAAACACGCCAGTGCTCATAAGAGCTAGT
1 CCAACCGAAACACGCCAATGCTCATAAGAGCTAAT
* * **
16517155 CCAACCGTAGCA-GAGTAATGCTCATAAGAGCTAAT
1 CCAACCGAAACACG-CCAATGCTCATAAGAGCTAAT
* *
16517190 CCAATCGTAACACGCCAATGCTCATAAGAGCTAAT
1 CCAACCGAAACACGCCAATGCTCATAAGAGCTAAT
* *
16517225 CTAACTGAAACACG
1 CCAACCGAAACACG
16517239 TCAAACAGAG
Statistics
Matches: 128, Mismatches: 23, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
34 1 0.01
35 125 0.98
36 2 0.02
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.19
Consensus pattern (35 bp):
CCAACCGAAACACGCCAATGCTCATAAGAGCTAAT
Found at i:16526073 original size:36 final size:37
Alignment explanation
Indices: 16526024--16526103 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
16526014 AGTACACAAG
* *
16526024 TAATCCACACG-AAACACGCCAAACGCTCATAAGAGC
1 TAATCCACACGAAAACACACCAAACGCTCAGAAGAGC
* *
16526060 TAATCCA-ATCGAAAACACACCAAATGCTCCGAAGAGC
1 TAATCCACA-CGAAAACACACCAAACGCTCAGAAGAGC
16526097 TAATCCA
1 TAATCCA
16526104 TCTATAAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 1 0.03
36 9 0.24
37 28 0.74
ACGTcount: A:0.42, C:0.31, G:0.12, T:0.14
Consensus pattern (37 bp):
TAATCCACACGAAAACACACCAAACGCTCAGAAGAGC
Found at i:16526095 original size:37 final size:37
Alignment explanation
Indices: 16526035--16526157 Score: 106
Period size: 37 Copynumber: 3.3 Consensus size: 37
16526025 AATCCACACG
* * *
16526035 AAACACGCCAAACGCTCATAAGAGCTAATCCAATCGA
1 AAACACACCAAATGCTCAGAAGAGCTAATCCAATCGA
* *
16526072 AAACACACCAAATGCTCCGAAGAGCTAATCC-ATCTA
1 AAACACACCAAATGCTCAGAAGAGCTAATCCAATCGA
* * ** * * *
16526108 TAAACACGCCAGATATTCTGAAGAGCTAAT-TAATTCGT
1 -AAACACACCAAATGCTCAGAAGAGCTAATCCAA-TCGA
16526146 AAACACACCAAA
1 AAACACACCAAA
16526158 ACAAGGAGTA
Statistics
Matches: 68, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
36 4 0.06
37 62 0.91
38 2 0.03
ACGTcount: A:0.43, C:0.27, G:0.12, T:0.18
Consensus pattern (37 bp):
AAACACACCAAATGCTCAGAAGAGCTAATCCAATCGA
Found at i:16536505 original size:21 final size:21
Alignment explanation
Indices: 16536465--16536505 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16536455 TGATAAAATA
* *
16536465 GATATTATTTTATCGCTTTTG
1 GATATTATTTAATCGATTTTG
*
16536486 GATATTATTTAATGGATTTT
1 GATATTATTTAATCGATTTT
16536506 TAAACTTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.05, G:0.15, T:0.56
Consensus pattern (21 bp):
GATATTATTTAATCGATTTTG
Found at i:16536934 original size:5 final size:5
Alignment explanation
Indices: 16536924--16536949 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
16536914 ATTTATCTCT
16536924 AATTA AATTA AATTA AATTA AATTA A
1 AATTA AATTA AATTA AATTA AATTA A
16536950 TAAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:16537415 original size:37 final size:34
Alignment explanation
Indices: 16537374--16537446 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 34
16537364 CTCGATGTTA
16537374 TTGAAGCAAACAACATTAATATCAAGAAAATAACCCT
1 TTGAAG-AAAC-A-ATTAATATCAAGAAAATAACCCT
*
16537411 TT---GAATCAATTAATATCAAGAAAATAACCCT
1 TTGAAGAAACAATTAATATCAAGAAAATAACCCT
16537442 TTGAA
1 TTGAA
16537447 TCAATCTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
31 25 0.78
32 1 0.03
33 3 0.09
34 1 0.03
37 2 0.06
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.26
Consensus pattern (34 bp):
TTGAAGAAACAATTAATATCAAGAAAATAACCCT
Found at i:16537426 original size:31 final size:31
Alignment explanation
Indices: 16537388--16537451 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
16537378 AGCAAACAAC
16537388 ATTAATATCAAGAAAATAACCCTTTGAATCA
1 ATTAATATCAAGAAAATAACCCTTTGAATCA
16537419 ATTAATATCAAGAAAATAACCCTTTGAATCA
1 ATTAATATCAAGAAAATAACCCTTTGAATCA
16537450 AT
1 AT
16537452 CTTAAATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.30
Consensus pattern (31 bp):
ATTAATATCAAGAAAATAACCCTTTGAATCA
Found at i:16537471 original size:37 final size:37
Alignment explanation
Indices: 16537390--16537508 Score: 160
Period size: 37 Copynumber: 3.4 Consensus size: 37
16537380 CAAACAACAT
16537390 TAATATCAAGAAAATAACCCTTTGAATCAA---T---
1 TAATATCAAGAAAATAACCCTTTGAATCAATCTTAAA
16537421 TAATATCAAGAAAATAACCCTTTGAATCAATCTTAAA
1 TAATATCAAGAAAATAACCCTTTGAATCAATCTTAAA
* * * *
16537458 TAATATTAAGAAAATAAACTTTTGAATCAATCTCAAA
1 TAATATCAAGAAAATAACCCTTTGAATCAATCTTAAA
16537495 TAATATCAAGAAAA
1 TAATATCAAGAAAA
16537509 CAACTCTCCA
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
31 30 0.39
34 1 0.01
37 46 0.60
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.29
Consensus pattern (37 bp):
TAATATCAAGAAAATAACCCTTTGAATCAATCTTAAA
Found at i:16540086 original size:2 final size:2
Alignment explanation
Indices: 16540081--16540111 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16540071 TATTTTAAAA
16540081 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
16540112 TTAGAGCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16541807 original size:30 final size:31
Alignment explanation
Indices: 16541773--16541834 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
16541763 AAATTAACAA
16541773 TCTAGCAACTTAAAT-AAAACTTTCAAATAG
1 TCTAGCAACTTAAATGAAAACTTTCAAATAG
** * * *
16541803 TCTAGTGACTTGAATGAAAATTTTCGAATAG
1 TCTAGCAACTTAAATGAAAACTTTCAAATAG
16541834 T
1 T
16541835 TCAGCGACCA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (31 bp):
TCTAGCAACTTAAATGAAAACTTTCAAATAG
Found at i:16544259 original size:96 final size:96
Alignment explanation
Indices: 16544096--16544411 Score: 415
Period size: 96 Copynumber: 3.3 Consensus size: 96
16544086 AACAACTACC
* * * *
16544096 TTTATTTGA-TTTTTCTTTAAAACCCTAAATACTAAACTCCAATCTAATTTTTTCAAAATTTATA
1 TTTATTTGATTTTTTCTTAAAAACCCTAAATACTAAACACTAATCTAATTTTTTTAAAATTTATA
16544160 ATTAATTTACTCAAGTAACCCTAAACCCTAA
66 ATTAATTTACTCAAGTAACCCTAAACCCTAA
** * *
16544191 TTTATTTGATTTTTTCCTTAAAAACCCTAAACCCTAAACACTAATC-AATTTTTTTTAAATTTAG
1 TTTATTTGATTTTTT-CTTAAAAACCCTAAATACTAAACACTAATCTAATTTTTTTAAAATTTAT
16544255 AATTAATTTACTCAAGTAACCCTAAACCCTAA
65 AATTAATTTACTCAAGTAACCCTAAACCCTAA
* * * *
16544287 TTTATTTGATTTTTTCCTTAAAAATCATAAATGCTAAACCCTAATCTAA--TTTTTAAAATTTAT
1 TTTATTTGATTTTTT-CTTAAAAACCCTAAATACTAAACACTAATCTAATTTTTTTAAAATTTAT
* * * * *
16544350 AATTAATTTAATTAAGAAAGCCTAAACCCTTA
65 AATTAATTTACTCAAGTAACCCTAAACCCTAA
* *
16544382 TTTATTTAATTTTTTCTTTAAAACCCTAAA
1 TTTATTTGATTTTTTCTTAAAAACCCTAAA
16544412 ATCTAAAAAC
Statistics
Matches: 194, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
94 12 0.06
95 62 0.32
96 93 0.48
97 27 0.14
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.42
Consensus pattern (96 bp):
TTTATTTGATTTTTTCTTAAAAACCCTAAATACTAAACACTAATCTAATTTTTTTAAAATTTATA
ATTAATTTACTCAAGTAACCCTAAACCCTAA
Found at i:16545669 original size:22 final size:21
Alignment explanation
Indices: 16545639--16545681 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
16545629 TTTTTCCCAC
**
16545639 GTTAGGTTTTTGGTTTTTAGG
1 GTTAGGTTTAGGGTTTTTAGG
16545660 GTTAGTGTTTAGGGTTTTTAGG
1 GTTAG-GTTTAGGGTTTTTAGG
16545682 ATTTTGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.12, C:0.00, G:0.35, T:0.53
Consensus pattern (21 bp):
GTTAGGTTTAGGGTTTTTAGG
Found at i:16546108 original size:126 final size:125
Alignment explanation
Indices: 16545803--16546108 Score: 427
Period size: 126 Copynumber: 2.4 Consensus size: 125
16545793 GATAAAATCA
* * * * * *
16545803 AAGCAGGATGCTTTATCAGAAGAAATTCT-AAAGTTACGCCTACGTGTACGCGCTTTTGCTACAG
1 AAGCAAGATGCTTTATCAGAAGAATTTGTGAAA-TCACGCCCACGTGGACGCGCTTTTGCTACAG
* * * *
16545867 TAGGTCGTGCAAAAATAATTTCGAGTTGATGTTTCTGAGCAAATAGTATAAAAAATGCTTC
65 TAGGTCCTGAAAAAAAAATTTCGAGTTGATGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * *
16545928 AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATCACGCCCTCGTGGACACGCTTTTGCTACAGT
1 AAGCAAGATGCTTTATCAGAAGAATTTGTGAAATCACGCCCACGTGGACGCGCTTTTGCTACAGT
16545993 AGGTCCTGGAAAAAAAAAATTTCGAGTTGATGTTTCTGAGCAAATAGTAT-AAAAACGCTTC
66 AGGTCCT-G-AAAAAAAAATTTCGAGTTGATGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * *
16546054 AAGCAATATGCTTTATCAGAAGAATTTGTGAAATCGCGCCCACGTGGATGCGCTT
1 AAGCAAGATGCTTTATCAGAAGAATTTGTGAAATCACGCCCACGTGGACGCGCTT
16546109 ATCAAGACGA
Statistics
Matches: 161, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
125 60 0.37
126 63 0.39
127 38 0.24
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (125 bp):
AAGCAAGATGCTTTATCAGAAGAATTTGTGAAATCACGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAAAAATTTCGAGTTGATGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:16546274 original size:51 final size:51
Alignment explanation
Indices: 16546206--16546305 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
16546196 AATTATTTAA
16546206 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAGATT
* * * * *
16546257 AAATATGGATTTGAGAGAAATTTGGAAGGAATTTGAGAGCAATTTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGA
16546306 GGAAATTGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.27, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:16546314 original size:11 final size:11
Alignment explanation
Indices: 16546265--16546314 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
16546255 TTAAATATGG
*
16546265 ATTTGAGAGAA
1 ATTTGAGAGGA
16546276 ATTTG-GAAGGA
1 ATTTGAG-AGGA
*
16546287 ATTTGAGAGCA
1 ATTTGAGAGGA
16546298 ATTTGAGAGGA
1 ATTTGAGAGGA
*
16546309 AATTGA
1 ATTTGA
16546315 TAAAATAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 1 0.03
11 31 0.94
12 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.30, T:0.28
Consensus pattern (11 bp):
ATTTGAGAGGA
Found at i:16546753 original size:9 final size:9
Alignment explanation
Indices: 16546741--16546765 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
16546731 AAAATGATAG
16546741 AAATTATTA
1 AAATTATTA
16546750 AAATTATTA
1 AAATTATTA
16546759 AAATTAT
1 AAATTAT
16546766 GTTTAGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AAATTATTA
Found at i:16552925 original size:25 final size:25
Alignment explanation
Indices: 16552897--16552944 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
16552887 GGGAAGCTAT
* * *
16552897 AGATAGCCATGTATTGAGAAGCTCC
1 AGATACCCACGTATCGAGAAGCTCC
*
16552922 AGATACCCACGTATCGGGAAGCT
1 AGATACCCACGTATCGAGAAGCT
16552945 TACAAAGAGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (25 bp):
AGATACCCACGTATCGAGAAGCTCC
Found at i:16553443 original size:6 final size:6
Alignment explanation
Indices: 16553432--16553464 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
16553422 ATTTAATAAA
16553432 ATTCAC ATTCAC ATTCAC ATTCA- ATTCA- ATTCA
1 ATTCAC ATTCAC ATTCAC ATTCAC ATTCAC ATTCA
16553465 ATTTACATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (6 bp):
ATTCAC
Found at i:16553449 original size:12 final size:11
Alignment explanation
Indices: 16553431--16553472 Score: 59
Period size: 12 Copynumber: 3.8 Consensus size: 11
16553421 AATTTAATAA
16553431 AATTCACATTC
1 AATTCACATTC
16553442 ACATTCACATTC
1 A-ATTCACATTC
16553454 AATTCA-ATTC
1 AATTCACATTC
*
16553464 AATTTACAT
1 AATTCACAT
16553473 ATTAGGCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 9 0.32
11 8 0.29
12 11 0.39
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (11 bp):
AATTCACATTC
Found at i:16555692 original size:61 final size:61
Alignment explanation
Indices: 16555627--16555751 Score: 223
Period size: 61 Copynumber: 2.0 Consensus size: 61
16555617 AGTACCACTA
16555627 TGAGCTTTATGTAAAATCTTCTGTATTAGCTCTGAATTCTTTGGAACACATACTCTGCCTT
1 TGAGCTTTATGTAAAATCTTCTGTATTAGCTCTGAATTCTTTGGAACACATACTCTGCCTT
* * *
16555688 TGAGCTTTATGTAAAATCTTTTGTATTAGCTCTGAATTTTTTGGAACACATACTCTGCTTT
1 TGAGCTTTATGTAAAATCTTCTGTATTAGCTCTGAATTCTTTGGAACACATACTCTGCCTT
16555749 TGA
1 TGA
16555752 ATAACAAACA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (61 bp):
TGAGCTTTATGTAAAATCTTCTGTATTAGCTCTGAATTCTTTGGAACACATACTCTGCCTT
Found at i:16556201 original size:83 final size:83
Alignment explanation
Indices: 16556062--16556243 Score: 364
Period size: 83 Copynumber: 2.2 Consensus size: 83
16556052 GTCTCAAGTT
16556062 TAAGTCTAAAATTCAACAATTAAAAGTAACATAAATTTATAGTTAAAACACAATCCAAGCTTTAG
1 TAAGTCTAAAATTCAACAATTAAAAGTAACATAAATTTATAGTTAAAACACAATCCAAGCTTTAG
16556127 TATGTAATGCTCTAGTAA
66 TATGTAATGCTCTAGTAA
16556145 TAAGTCTAAAATTCAACAATTAAAAGTAACATAAATTTATAGTTAAAACACAATCCAAGCTTTAG
1 TAAGTCTAAAATTCAACAATTAAAAGTAACATAAATTTATAGTTAAAACACAATCCAAGCTTTAG
16556210 TATGTAATGCTCTAGTAA
66 TATGTAATGCTCTAGTAA
16556228 TAAGTCTAAAATTCAA
1 TAAGTCTAAAATTCAA
16556244 ACATATTTTT
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 99 1.00
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (83 bp):
TAAGTCTAAAATTCAACAATTAAAAGTAACATAAATTTATAGTTAAAACACAATCCAAGCTTTAG
TATGTAATGCTCTAGTAA
Found at i:16561830 original size:95 final size:96
Alignment explanation
Indices: 16561623--16561959 Score: 360
Period size: 95 Copynumber: 3.6 Consensus size: 96
16561613 AGTAACCCTA
* * * *
16561623 AACCCCAAACCCTAATTTATTTGAGTTTTTACTGAAAAACCCTAAACACTAAACTCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGAGTTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAA-
* *
16561688 TTTTTAAAAATTTATAATTAATTTACTCAATT
65 TTTTTAAAAATTTATAATTAATTTACTTAACT
* * * * ** * *
16561720 AACCTTGAACTCTAATTTATTTGA-TTTTTTCTTAAAAACCCTTAACTTTAAACCCTAATATGAT
1 AACCCTAAACCCTAATTTATTTGAGTTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAAT
* * * *
16561784 TTTTAAAATTTTTTAATTAAATTACTTAAGT
66 TTTTAAAAATTTATAATTAATTTACTTAACT
* * ** *
16561815 AACCCTAAATCCTAATTTAATTGA-TTTTTTCTTAAAAACAATAAACACGAAA-CCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGAGTTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAAT
* * * *
16561878 TTTAAAAAATTTATAATTAATTTAATTGACA
66 TTTTAAAAATTTATAATTAATTTACTTAACT
* * *
16561909 AACCCTAAACCCT-ATTTATTTAATTTTTTTCTTTAAAACCCTAAAC-CTAAA
1 AACCCTAAACCCTAATTTATTTGAGTTTTTTCTTAAAAACCCTAAACACTAAA
16561960 AACACCAAAA
Statistics
Matches: 194, Mismatches: 45, Indels: 6
0.79 0.18 0.02
Matches are distributed among these distances:
93 12 0.06
94 63 0.32
95 68 0.35
96 31 0.16
97 20 0.10
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (96 bp):
AACCCTAAACCCTAATTTATTTGAGTTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAAT
TTTTAAAAATTTATAATTAATTTACTTAACT
Found at i:16562198 original size:22 final size:21
Alignment explanation
Indices: 16562171--16562226 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 21
16562161 AATTTGCCCA
16562171 AAATATA-CATTTAATTTAAT
1 AAATATATCATTTAATTTAAT
*
16562191 TAATATAT--TTT-ATTTAAT
1 AAATATATCATTTAATTTAAT
*
16562209 AAATAAATGCATTTAATT
1 AAATATAT-CATTTAATT
16562227 AAAATTACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
18 13 0.46
19 3 0.11
20 6 0.21
21 3 0.11
22 3 0.11
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (21 bp):
AAATATATCATTTAATTTAAT
Found at i:16566038 original size:169 final size:170
Alignment explanation
Indices: 16565752--16566090 Score: 644
Period size: 169 Copynumber: 2.0 Consensus size: 170
16565742 TCATTTCAAG
16565752 CATATACAGTTTTAAGCCTTTCGGATTTTGTTCCCAAAAAGAATGGTTGACAGAGACTGCAATCC
1 CATATACAGTTTTAAGCCTTTCGGATTTTGTTCCCAAAAAGAATGGTTGACAGAGACTGCAATCC
*
16565817 ACCATCTTCTCATACTCCATAATCTATATCTGTTACATTCTGGGCTGTTGAGAGCTTTACAGGCC
66 ACCATCTTCTCATACTCCATAATCTATATCTGTTACATTCTGGGCCGTTGAGAGCTTTACAGGCC
16565882 TTTCTTCTTCATCATATATATCAAGGTTTTCACAAGGCGC
131 TTTCTTCTTCATCATATATATCAAGGTTTTCACAAGGCGC
*
16565922 CATATACAGTTTTAAGCC-TTCGGATTTTGTTCCCAGAAAGAATGGTTGACAGAGACTGCAATCC
1 CATATACAGTTTTAAGCCTTTCGGATTTTGTTCCCAAAAAGAATGGTTGACAGAGACTGCAATCC
*
16565986 ACCATCTTCTCATACTCCATAATCTATCTCTGTTACATTCTGGGCCGTTGAGAGCTTTACAGGCC
66 ACCATCTTCTCATACTCCATAATCTATATCTGTTACATTCTGGGCCGTTGAGAGCTTTACAGGCC
16566051 TTTCTTCTTCATCATATATATCAAGGTTTTCACAAGGCGC
131 TTTCTTCTTCATCATATATATCAAGGTTTTCACAAGGCGC
16566091 GGGGAAGATG
Statistics
Matches: 166, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
169 148 0.89
170 18 0.11
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (170 bp):
CATATACAGTTTTAAGCCTTTCGGATTTTGTTCCCAAAAAGAATGGTTGACAGAGACTGCAATCC
ACCATCTTCTCATACTCCATAATCTATATCTGTTACATTCTGGGCCGTTGAGAGCTTTACAGGCC
TTTCTTCTTCATCATATATATCAAGGTTTTCACAAGGCGC
Found at i:16572116 original size:40 final size:39
Alignment explanation
Indices: 16572062--16572184 Score: 151
Period size: 40 Copynumber: 3.1 Consensus size: 39
16572052 CGTTTGGATA
16572062 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTTAC
1 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTT-C
* * * *
16572102 AAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCATTTTG
1 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGC-TTTTC
* *
16572142 AAAAACACCACTAAAAAT-AAGCATTAGCCGCG-TTTTCC
1 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTT-C
16572180 AAAAA
1 AAAAA
16572185 GTGCCGCAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
37 4 0.06
38 5 0.07
39 12 0.17
40 46 0.65
41 4 0.06
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.20
Consensus pattern (39 bp):
AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTTC
Found at i:16572299 original size:41 final size:41
Alignment explanation
Indices: 16572232--16572432 Score: 285
Period size: 41 Copynumber: 4.9 Consensus size: 41
16572222 AGAGTTTTTA
* * *
16572232 GGGCATTTAGTGGCGTTTTTGAAAAAGCGCTGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
16572273 GGGCCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
16572314 GGGCCTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
** * * *
16572355 GTACCTTTTGCGGCATTTTTGGAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
** *
16572396 GTACCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAAT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
16572433 AATAAAATCT
Statistics
Matches: 144, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 144 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.29
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:16573526 original size:7 final size:7
Alignment explanation
Indices: 16573516--16573571 Score: 51
Period size: 7 Copynumber: 8.1 Consensus size: 7
16573506 TTTTGAGTTC
16573516 AGGGTTT
1 AGGGTTT
16573523 AGGGTTT
1 AGGGTTT
16573530 A-GGTTT
1 AGGGTTT
*
16573536 AGGGCTT
1 AGGGTTT
* *
16573543 GGGGATT
1 AGGGTTT
*
16573550 GGGGTTT
1 AGGGTTT
*
16573557 AAGGTTT
1 AGGGTTT
*
16573564 AGAGTTT
1 AGGGTTT
16573571 A
1 A
16573572 CATTTTAGTG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
6 6 0.15
7 34 0.85
ACGTcount: A:0.18, C:0.02, G:0.41, T:0.39
Consensus pattern (7 bp):
AGGGTTT
Found at i:16574018 original size:24 final size:25
Alignment explanation
Indices: 16573982--16574029 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
16573972 TTAAAATGAA
16573982 TTTTAAAAGATTT-TAAACTTTTAT
1 TTTTAAAAGATTTATAAACTTTTAT
* * *
16574006 TTTTATAATATTTATATACTTTTA
1 TTTTAAAAGATTTATAAACTTTTA
16574030 AAGAAAAGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (25 bp):
TTTTAAAAGATTTATAAACTTTTAT
Found at i:16574304 original size:41 final size:41
Alignment explanation
Indices: 16574247--16574333 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 41
16574237 AAGTTCTACG
**
16574247 ATTTTGGGCCGACTTTGTTATACGGGCATATCCATATAAAA
1 ATTTTGGGCCGACTTTGTTATACGACCATATCCATATAAAA
*
16574288 ATTTTGGGCCGACTTTGTTATACGACCTTATCCATATAAAA
1 ATTTTGGGCCGACTTTGTTATACGACCATATCCATATAAAA
16574329 ATTTT
1 ATTTT
16574334 ATCCATATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (41 bp):
ATTTTGGGCCGACTTTGTTATACGACCATATCCATATAAAA
Found at i:16574897 original size:17 final size:17
Alignment explanation
Indices: 16574875--16574908 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16574865 GGCGTTTTTT
*
16574875 AAAAACACCGTAAAAGG
1 AAAAACACCGCAAAAGG
*
16574892 AAAAACGCCGCAAAAGG
1 AAAAACACCGCAAAAGG
16574909 TAAGCAATAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.21, G:0.21, T:0.03
Consensus pattern (17 bp):
AAAAACACCGCAAAAGG
Found at i:16578157 original size:42 final size:43
Alignment explanation
Indices: 16578066--16578173 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
16578056 ATAATTTTTT
* * *
16578066 TAAAGGTTATGTTTTTAGCGGCGTTTGTGACAAAAAGTGCCGT
1 TAAAGGTCATGTTTTTAGCGGCGTTTGTGACAAAAAGCGCCGC
**
16578109 TAAAGGTCATGTTTTTAGCGGCGTTTGTG-GGAAAAGCGCCGC
1 TAAAGGTCATGTTTTTAGCGGCGTTTGTGACAAAAAGCGCCGC
*
16578151 TAAAGGTCATGGTCTTTAGCGGC
1 TAAAGGTCAT-GTTTTTAGCGGC
16578174 CTTTATTTCT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 19 0.33
43 39 0.67
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (43 bp):
TAAAGGTCATGTTTTTAGCGGCGTTTGTGACAAAAAGCGCCGC
Found at i:16580624 original size:37 final size:37
Alignment explanation
Indices: 16580574--16580648 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
16580564 GTTCTAAGAG
16580574 TAAGTTTTCTACAAATTCTATTTTTAAGCCTCTACTT
1 TAAGTTTTCTACAAATTCTATTTTTAAGCCTCTACTT
16580611 TAAGTTTTCTACAAATTCTATTTTTAAGCCTCTACTT
1 TAAGTTTTCTACAAATTCTATTTTTAAGCCTCTACTT
16580648 T
1 T
16580649 CAGGACACGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.19, G:0.05, T:0.49
Consensus pattern (37 bp):
TAAGTTTTCTACAAATTCTATTTTTAAGCCTCTACTT
Found at i:16583646 original size:41 final size:41
Alignment explanation
Indices: 16583601--16583699 Score: 153
Period size: 41 Copynumber: 2.4 Consensus size: 41
16583591 GGCTCTGTGC
* *
16583601 CTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTACAT
1 CTAGCAGGCTTAATGCCGGTAAAATATTTCAGACTTCACAT
**
16583642 CTAGCAGGCTTAATGCCGGTAAAATATTTCAGACTTCATGT
1 CTAGCAGGCTTAATGCCGGTAAAATATTTCAGACTTCACAT
*
16583683 CTAGCAAGCTTAATGCC
1 CTAGCAGGCTTAATGCC
16583700 AGTGTTCTGA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTAAAATATTTCAGACTTCACAT
Found at i:16590452 original size:29 final size:29
Alignment explanation
Indices: 16590413--16590471 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
16590403 TTTATCTTGT
*
16590413 AGATAAATATTAAATTAAATATAATATTA
1 AGATAAATATTAAATAAAATATAATATTA
* *
16590442 AGATAAGTATTAAATAAAATCTAATATTA
1 AGATAAATATTAAATAAAATATAATATTA
16590471 A
1 A
16590472 ACTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (29 bp):
AGATAAATATTAAATAAAATATAATATTA
Found at i:16594108 original size:37 final size:39
Alignment explanation
Indices: 16594012--16594115 Score: 97
Period size: 37 Copynumber: 2.7 Consensus size: 39
16594002 ACACACCAGT
* **
16594012 TTGGCACCTAGTGCCTCATCGGATAATTCGAAGTAGTAAA
1 TTGGCACCTAGTGCTTCATCGGATAAACCGAAG-AGTAAA
* * * *
16594052 TTGACACCCAATG-TCTCATCGGTTAAACCG-A-AGTAAA
1 TTGGCACCTAGTGCT-TCATCGGATAAACCGAAGAGTAAA
*
16594089 TTGGCACCTAGTGCTTCATCGAATAAA
1 TTGGCACCTAGTGCTTCATCGGATAAA
16594116 TTCGAAGTGA
Statistics
Matches: 50, Mismatches: 12, Indels: 7
0.72 0.17 0.10
Matches are distributed among these distances:
37 26 0.52
38 1 0.02
39 1 0.02
40 22 0.44
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (39 bp):
TTGGCACCTAGTGCTTCATCGGATAAACCGAAGAGTAAA
Found at i:16601417 original size:40 final size:41
Alignment explanation
Indices: 16601348--16601427 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 41
16601338 ACGACCACTT
16601348 AATTTAATTCCATATCAAATAAATTGACTCAATTAAATTAAC
1 AATTTAATTCCA-ATCAAATAAATTGACTCAATTAAATTAAC
*
16601390 AATTTAATTCC-ATCGAATAAATTGACTCAATTAAATTA
1 AATTTAATTCCAATCAAATAAATTGACTCAATTAAATTA
16601428 TTCCCAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
40 26 0.70
42 11 0.30
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (41 bp):
AATTTAATTCCAATCAAATAAATTGACTCAATTAAATTAAC
Found at i:16602468 original size:16 final size:16
Alignment explanation
Indices: 16602447--16602477 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16602437 CTATGCATGC
*
16602447 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
16602463 AAAATACAAAAGACA
1 AAAATACAAAAGACA
16602478 TTATACTGAA
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:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:16611655 original size:19 final size:18
Alignment explanation
Indices: 16611631--16611683 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 18
16611621 AAATATTTTA
16611631 ATAATTTTTGATAAATTT
1 ATAATTTTTGATAAATTT
* * *
16611649 ATAAATTGTTAATAATTTT
1 AT-AATTTTTGATAAATTT
16611668 ATAA--TTTGATAAATTT
1 ATAATTTTTGATAAATTT
16611684 TTATAATTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
16 9 0.32
18 4 0.14
19 15 0.54
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (18 bp):
ATAATTTTTGATAAATTT
Done.