Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 58 of 230
Found at i:15856681 original size:20 final size:19
Alignment explanation
Indices: 15856658--15856716 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
15856648 ATTTTAACCT
*
15856658 TTTTATATATTTTTTTTGAAT
1 TTTT-TATATTTTTTTT-AAA
*
15856679 TTTTTAAATTTTTTTTAAA
1 TTTTTATATTTTTTTTAAA
* *
15856698 TTTTTATAATTTATTTAAA
1 TTTTTATATTTTTTTTAAA
15856717 AATATAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
19 18 0.55
20 11 0.33
21 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTTATATTTTTTTTAAA
Found at i:15856714 original size:11 final size:10
Alignment explanation
Indices: 15856657--15856714 Score: 55
Period size: 11 Copynumber: 5.6 Consensus size: 10
15856647 AATTTTAACC
15856657 TTTTTATATAT
1 TTTTTATA-AT
*
15856668 TTTTTTTGAAT
1 TTTTTAT-AAT
15856679 TTTTTA-AAT
1 TTTTTATAAT
* *
15856688 TTTTTTTAAA
1 TTTTTATAAT
15856698 TTTTTATAAT
1 TTTTTATAAT
15856708 TTATTTA
1 TT-TTTA
15856715 AAAATATAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 8 0.21
10 12 0.32
11 17 0.45
12 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:15856756 original size:28 final size:27
Alignment explanation
Indices: 15856725--15856778 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
15856715 AAAATATAAA
*
15856725 TTTAGAAATT-TTTATAAATATTTTGAAT
1 TTTAAAAATTATTT-TAAAT-TTTTGAAT
*
15856753 TTTAAAAATTATTTTGAATTTTTGAA
1 TTTAAAAATTATTTTAAATTTTTGAA
15856779 AATTATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 7 0.30
28 13 0.57
29 3 0.13
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (27 bp):
TTTAAAAATTATTTTAAATTTTTGAAT
Found at i:15856795 original size:20 final size:20
Alignment explanation
Indices: 15856731--15856794 Score: 89
Period size: 19 Copynumber: 3.4 Consensus size: 20
15856721 TAAATTTAGA
*
15856731 AATTTTTATAAA-TATTTTG
1 AATTTTTAAAAATTATTTTG
15856750 AA-TTTTAAAAATTATTTTG
1 AATTTTTAAAAATTATTTTG
*
15856769 AATTTTTGAAAATTATTTT-
1 AATTTTTAAAAATTATTTTG
15856788 AATTTTT
1 AATTTTT
15856795 TTTGTAATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.20
19 18 0.44
20 15 0.37
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
AATTTTTAAAAATTATTTTG
Found at i:15858254 original size:19 final size:19
Alignment explanation
Indices: 15858230--15858273 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
15858220 ATTAAGAACT
15858230 TTTAAATTT-TAAAAAATA
1 TTTAAATTTATAAAAAATA
*
15858248 TTATAAATTTATAAAAATTA
1 TT-TAAATTTATAAAAAATA
15858268 TTTAAA
1 TTTAAA
15858274 AAATAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 2 0.09
19 11 0.48
20 10 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTAAATTTATAAAAAATA
Found at i:15860371 original size:44 final size:44
Alignment explanation
Indices: 15860314--15860403 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 44
15860304 GTTGAAATAA
* * *
15860314 AATAGAATTTGTGATAATTATACATTTAAAAATATTTATAATTT
1 AATAGAATTTGTGATAATTACACATTTAAAAATAATTAGAATTT
*
15860358 AATAGAATTTGTGATAATTACACTTTTAAAAATAATTAGAATTT
1 AATAGAATTTGTGATAATTACACATTTAAAAATAATTAGAATTT
15860402 AA
1 AA
15860404 ATTACAATCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (44 bp):
AATAGAATTTGTGATAATTACACATTTAAAAATAATTAGAATTT
Found at i:15861465 original size:11 final size:10
Alignment explanation
Indices: 15861433--15861470 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
15861423 ATTCTTTGAT
15861433 AATCTTGCCA
1 AATCTTGCCA
15861443 AATCCTTG-CA
1 AAT-CTTGCCA
15861453 AATCTTGCCCA
1 AATCTTG-CCA
15861464 AATCTTG
1 AATCTTG
15861471 ATACCAATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.16
10 8 0.32
11 13 0.52
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.32
Consensus pattern (10 bp):
AATCTTGCCA
Found at i:15861758 original size:40 final size:40
Alignment explanation
Indices: 15861714--15861859 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
15861704 CATACCAGTG
* * *
15861714 TGTGGACAAGCCACCAGTATTGCAAATAAGCTGCCAATAT
1 TGTGGACAAGCCACCAGTATTGCAGATAAACTGCCAGTAT
* **
15861754 TGTGGACAAGCCACCAGTATTACAGATAAACTGCCAGCGT
1 TGTGGACAAGCCACCAGTATTGCAGATAAACTGCCAGTAT
* * * * *
15861794 TATGGACTAGCCATCAATATTGCAGATAAATTGCCAGTAT
1 TGTGGACAAGCCACCAGTATTGCAGATAAACTGCCAGTAT
**
15861834 TGTGGACAAGCCAATAGTATTGCAGA
1 TGTGGACAAGCCACCAGTATTGCAGA
15861860 CAAGCTTCCA
Statistics
Matches: 87, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 87 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (40 bp):
TGTGGACAAGCCACCAGTATTGCAGATAAACTGCCAGTAT
Found at i:15861774 original size:20 final size:20
Alignment explanation
Indices: 15861714--15861774 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
15861704 CATACCAGTG
15861714 TGTGGACAAGCCACCAGTAT
1 TGTGGACAAGCCACCAGTAT
*** * ** *
15861734 TGCAAATAAGCTGCCAATAT
1 TGTGGACAAGCCACCAGTAT
15861754 TGTGGACAAGCCACCAGTAT
1 TGTGGACAAGCCACCAGTAT
15861774 T
1 T
15861775 ACAGATAAAC
Statistics
Matches: 27, Mismatches: 14, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (20 bp):
TGTGGACAAGCCACCAGTAT
Found at i:15869917 original size:36 final size:36
Alignment explanation
Indices: 15869846--15869918 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 36
15869836 TTTAAATAGC
*
15869846 GGTGAAGTCGTAAAAGGAAGCCCGATAACCTTTTTT
1 GGTGAAGTCGGAAAAGGAAGCCCGATAACCTTTTTT
* *
15869882 GGTGAAGTCGGAAGTAGGAAGCCCGATGACCTTTTTT
1 GGTGAAGTCGGAA-AAGGAAGCCCGATAACCTTTTTT
15869919 AAATGACAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 12 0.36
37 21 0.64
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (36 bp):
GGTGAAGTCGGAAAAGGAAGCCCGATAACCTTTTTT
Found at i:15870950 original size:28 final size:28
Alignment explanation
Indices: 15870917--15870988 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 28
15870907 ATGTTTTCAT
15870917 TTTGGTCACTTAACTAAAAAAGTCATAA
1 TTTGGTCACTTAACTAAAAAAGTCATAA
* *
15870945 TTTGGTCACTTAACTAAAAAATTTATAA
1 TTTGGTCACTTAACTAAAAAAGTCATAA
*
15870973 TTTGGTCACTGAACTA
1 TTTGGTCACTTAACTA
15870989 TTCAAAAGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (28 bp):
TTTGGTCACTTAACTAAAAAAGTCATAA
Found at i:15871359 original size:31 final size:31
Alignment explanation
Indices: 15871322--15871381 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
15871312 TTAACAACCT
*
15871322 AGTGACTTGAATAAAAACTTTTTAATAGTTC
1 AGTGACTTGAATAAAAACTTTTGAATAGTTC
*
15871353 AGTGACTTGAATGAAAACTTTTGAATAGT
1 AGTGACTTGAATAAAAACTTTTGAATAGT
15871382 CCAATGACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (31 bp):
AGTGACTTGAATAAAAACTTTTGAATAGTTC
Found at i:15874027 original size:22 final size:22
Alignment explanation
Indices: 15873984--15874028 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
15873974 TGTTTGTTTT
* *
15873984 ATTATTAAAGGTTATAATTAAA
1 ATTATAAAAGGTTATAAATAAA
15874006 ATTATAAAAGG-TATAAAATAAA
1 ATTATAAAAGGTTAT-AAATAAA
15874028 A
1 A
15874029 CACGTGTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (22 bp):
ATTATAAAAGGTTATAAATAAA
Found at i:15884075 original size:13 final size:13
Alignment explanation
Indices: 15884057--15884083 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15884047 TTAATTTATA
15884057 TGTGTGAAAATTT
1 TGTGTGAAAATTT
15884070 TGTGTGAAAATTT
1 TGTGTGAAAATTT
15884083 T
1 T
15884084 ATCGTTTGTA
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:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:15885318 original size:43 final size:42
Alignment explanation
Indices: 15885161--15885319 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 42
15885151 TATGTGATAT
* * *
15885161 CGTGTAAGACCACGTTTGGGACGTTGGCATC-AATTTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGTATTT--GA-TTA
* * * * *
15885205 CGTGTAATACTATGTCTGGGACATTGGCATCGTATATGATTT
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTA
* * *
15885247 CGTGTAAGACCATGTCTGAGACAGTGGCATCGTTATTTGATTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCG-TATTTGATTA
* *
15885290 CATGTAAGACCACGTCTGGGACTTTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
15885320 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
42 30 0.32
43 35 0.37
44 26 0.28
45 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTA
Found at i:15895837 original size:25 final size:26
Alignment explanation
Indices: 15895777--15895979 Score: 108
Period size: 25 Copynumber: 8.2 Consensus size: 26
15895767 CCCATTATTA
*
15895777 GCTCTC-ATGAG-TATCCCAATAT-TG
1 GCTCTCTATGAGCT-TCCCGATATATG
* *
15895801 GATCTCT-TGAGCTTCCTGATATATG
1 GCTCTCTATGAGCTTCCCGATATATG
*
15895826 GCTCTCTA-GAGCTTCCCGAT-TAAAG
1 GCTCTCTATGAGCTTCCCGATAT-ATG
* * *
15895851 GTTCTTTCATGAGCTTCCTGAT-TAATG
1 GCTCTCT-ATGAGCTTCCCGATAT-ATG
** *
15895878 GCTCTC-CGGAGCTACCCGATAT-TG
1 GCTCTCTATGAGCTTCCCGATATATG
* * * *
15895902 GCTCGC-ATGAACTTTCTGAT-TATG
1 GCTCTCTATGAGCTTCCCGATATATG
* * *
15895926 CCTCT-TATGAGCTTCCCGTTACATG
1 GCTCTCTATGAGCTTCCCGATATATG
* *
15895951 GCTCAC-ATGAGCTTCCCGTTATATG
1 GCTCTCTATGAGCTTCCCGATATATG
15895976 GCTC
1 GCTC
15895980 GAAAGAGTTT
Statistics
Matches: 134, Mismatches: 33, Indels: 23
0.71 0.17 0.12
Matches are distributed among these distances:
23 1 0.01
24 47 0.35
25 65 0.49
26 2 0.01
27 19 0.14
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (26 bp):
GCTCTCTATGAGCTTCCCGATATATG
Found at i:15895991 original size:25 final size:25
Alignment explanation
Indices: 15895934--15895992 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
15895924 TGCCTCTTAT
*
15895934 GAGCTTCCCGTTACATGGCTCACAT
1 GAGCTTCCCGTTACATGGCTCACAA
*
15895959 GAGCTTCCCGTTATATGGCTCGA-AA
1 GAGCTTCCCGTTACATGGCTC-ACAA
*
15895984 GAGTTTCCC
1 GAGCTTCCC
15895993 ATTTATGTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 29 0.97
26 1 0.03
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (25 bp):
GAGCTTCCCGTTACATGGCTCACAA
Found at i:15902847 original size:30 final size:30
Alignment explanation
Indices: 15902813--15902875 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
15902803 ACTTAACAAT
15902813 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
15902843 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
15902873 CAA
1 CAA
15902876 TAAATGAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:15902924 original size:14 final size:14
Alignment explanation
Indices: 15902905--15902935 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
15902895 ATCCAAACAA
15902905 TAACAACAAAATAG
1 TAACAACAAAATAG
*
15902919 TAACAACATAATAG
1 TAACAACAAAATAG
15902933 TAA
1 TAA
15902936 AATGATAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:15906907 original size:13 final size:13
Alignment explanation
Indices: 15906889--15906913 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15906879 CCAAGACTCA
15906889 ATTTTTATTTTTT
1 ATTTTTATTTTTT
15906902 ATTTTTATTTTT
1 ATTTTTATTTTT
15906914 GAGAGGGCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:15916460 original size:3 final size:3
Alignment explanation
Indices: 15916452--15916486 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
15916442 AAATTAGTTA
15916452 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15916487 GAAAAAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:15922423 original size:34 final size:34
Alignment explanation
Indices: 15922351--15922424 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 34
15922341 GGTAGGCCAC
* * *
15922351 TTTTTTTTGCGCTTTTTTGCTTCTTTTTTTGCAG
1 TTTTTTTTGCGCGTTTTTACTTCTTTTTTTACAG
15922385 TTTTTTTTGCG-GTTTTTACTTCTTTTTTTACTA-
1 TTTTTTTTGCGCGTTTTTACTTCTTTTTTTAC-AG
15922418 TTTTTTT
1 TTTTTTT
15922425 AAAAGAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 24 0.67
34 12 0.33
ACGTcount: A:0.05, C:0.12, G:0.11, T:0.72
Consensus pattern (34 bp):
TTTTTTTTGCGCGTTTTTACTTCTTTTTTTACAG
Found at i:15923508 original size:13 final size:13
Alignment explanation
Indices: 15923492--15923516 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15923482 TGTTGTGGAA
15923492 AAGTGCTTTTGAG
1 AAGTGCTTTTGAG
15923505 AAGTGCTTTTGA
1 AAGTGCTTTTGA
15923517 AATGTTTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (13 bp):
AAGTGCTTTTGAG
Found at i:15927269 original size:13 final size:13
Alignment explanation
Indices: 15927251--15927287 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
15927241 CTTGCAAATC
15927251 TCAAACTTCAAGA
1 TCAAACTTCAAGA
15927264 TCAAACTTCAAGA
1 TCAAACTTCAAGA
15927277 T-AATACTTCAA
1 TCAA-ACTTCAA
15927288 TTTAGAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 2 0.09
13 21 0.91
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (13 bp):
TCAAACTTCAAGA
Found at i:15927775 original size:5 final size:6
Alignment explanation
Indices: 15927758--15927782 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15927748 AGAAACAATC
15927758 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
15927783 CATAGTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:15928054 original size:12 final size:13
Alignment explanation
Indices: 15928027--15928075 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 13
15928017 AAGAAAACAG
*
15928027 ATAA-AAATAATT
1 ATAACAAATAATA
15928039 ATAACAAATAA-A
1 ATAACAAATAATA
15928051 ATAACAAATAATA
1 ATAACAAATAATA
*
15928064 ATGAAAAAATAA
1 AT-AACAAATAA
15928076 GTTAAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 15 0.47
13 9 0.28
14 8 0.25
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (13 bp):
ATAACAAATAATA
Found at i:15932365 original size:21 final size:21
Alignment explanation
Indices: 15932339--15932379 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15932329 TGCCTAAAAT
*
15932339 ATGAATTGGATTGAATTGAAC
1 ATGAATTGGATTAAATTGAAC
*
15932360 ATGAATTGTATTAAATTGAA
1 ATGAATTGGATTAAATTGAA
15932380 TTAAATTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.37
Consensus pattern (21 bp):
ATGAATTGGATTAAATTGAAC
Found at i:15933626 original size:101 final size:102
Alignment explanation
Indices: 15933505--15933688 Score: 300
Period size: 101 Copynumber: 1.8 Consensus size: 102
15933495 AAAGTGATGG
* *
15933505 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGATAATGGTCACATGTGTAGT
15933568 ACTATGTGCAGGCTACTATACGTACTGGATAGTTTCGA
65 ACTATGTGCAGGCTACTATACGTACTGGATAGTTTCGA
* * *
15933606 TCACGTGTGTAGTACTATGTGCAGGCTAGTACGTGTATCGAATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
15933671 CTATGTGCAGGCTACTAT
66 CTATGTGCAGGCTACTAT
15933689 GTGAACCGAA
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
100 6 0.08
101 37 0.49
102 33 0.43
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATACGTACTGGATAGTTTCGA
Found at i:15933666 original size:51 final size:50
Alignment explanation
Indices: 15933501--15933691 Score: 217
Period size: 51 Copynumber: 3.8 Consensus size: 50
15933491 AGTGAAAGTG
* *
15933501 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTA-CGGAATGGT
* ** *
15933552 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTATACGTACTGG-ATAGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTAC-GGAATGGT
* * * * *
15933601 TTCGATCACGTGTGTAGTACTATGTGCAGGCTAGTACGTGTATC-GAATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTA-CGGAATGGT
15933652 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
15933692 AACCGAACAT
Statistics
Matches: 114, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
49 4 0.04
50 38 0.33
51 70 0.61
52 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.32
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACGGAATGGT
Found at i:15933749 original size:45 final size:45
Alignment explanation
Indices: 15933693--15933787 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
15933683 TACTATGTGA
* *
15933693 ACCGAACATCATTGATTAGTAAAGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
* *
15933738 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
15933783 ACCGA
1 ACCGA
15933788 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
Found at i:15936176 original size:24 final size:24
Alignment explanation
Indices: 15936142--15936213 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
15936132 TTTCTGATAT
*
15936142 ATGGCTATTCATAGCTTCCCATTA
1 ATGGCTCTTCATAGCTTCCCATTA
* * *
15936166 ATGGCTCTTCAGAGCTACCCGTTA
1 ATGGCTCTTCATAGCTTCCCATTA
* *
15936190 TTGGCTC-GCATGAGCTTCCCATTA
1 ATGGCTCTTCAT-AGCTTCCCATTA
15936214 TAAAGTCCCG
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
23 2 0.05
24 36 0.95
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (24 bp):
ATGGCTCTTCATAGCTTCCCATTA
Found at i:15943440 original size:21 final size:21
Alignment explanation
Indices: 15943399--15943443 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
15943389 TTTTGCCTAA
**
15943399 AATATGAATTGGATTGGATTG
1 AATATGAATTGGATTAAATTG
*
15943420 AATATGAATTGTATTAAATTG
1 AATATGAATTGGATTAAATTG
15943441 AAT
1 AAT
15943444 TAAATTTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (21 bp):
AATATGAATTGGATTAAATTG
Found at i:15944038 original size:24 final size:24
Alignment explanation
Indices: 15943987--15944039 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
15943977 TGGTTATCCG
* *
15943987 GAGCTTCCCATTAATGGCTCTTCA
1 GAGCTACCCATTAATGGCTCTGCA
*
15944011 GAGCTACCCATTATTGGCTC-GCA
1 GAGCTACCCATTAATGGCTCTGCA
15944034 TGAGCT
1 -GAGCT
15944040 TCCTGAGTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (24 bp):
GAGCTACCCATTAATGGCTCTGCA
Found at i:15950250 original size:18 final size:18
Alignment explanation
Indices: 15950207--15950250 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
15950197 ACCCAATCCA
* *
15950207 AACCCAAGTATCCAACCC
1 AACCCAATTAACCAACCC
15950225 AACCCAATTAACCAACCC
1 AACCCAATTAACCAACCC
*
15950243 GACCCAAT
1 AACCCAAT
15950251 CATAAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.41, C:0.43, G:0.05, T:0.11
Consensus pattern (18 bp):
AACCCAATTAACCAACCC
Found at i:15951221 original size:57 final size:57
Alignment explanation
Indices: 15951054--15951303 Score: 301
Period size: 57 Copynumber: 4.4 Consensus size: 57
15951044 TTTCTGTTTG
* * *
15951054 CATGCTGTCATAAATTGAATTAAAGCTGTTGTTTGAGTGTTTCAAATTGAGCATTTG
1 CATGCTGTCATAAATTGAATTAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
* * *
15951111 CATACTGTCTTAAATTGAA-TCAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
1 CATGCTGTCATAAATTGAATTAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
* * *
15951167 CATGCTGTCATAAATTGAATTAAAGTTGGTGTTTTAGTGTATCAAATTGAGCATTTT
1 CATGCTGTCATAAATTGAATTAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
* * * * * * *
15951224 CATGCGGTCTTAAATTAAATT-AAGCTGCT-ATTTAATTTTTCAAATTGAGTATTATT
1 CATGCTGTCATAAATTGAATTAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATT-TT
* *
15951280 -ATGCTGTCCTAAATTAAATTAAAG
1 CATGCTGTCATAAATTGAATTAAAG
15951304 TGTTGCTTCA
Statistics
Matches: 166, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
55 37 0.22
56 61 0.37
57 68 0.41
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (57 bp):
CATGCTGTCATAAATTGAATTAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
Found at i:15951252 original size:113 final size:113
Alignment explanation
Indices: 15951054--15951304 Score: 344
Period size: 113 Copynumber: 2.2 Consensus size: 113
15951044 TTTCTGTTTG
* * * *
15951054 CATGCTGTCATAAATTGAATTAAAGCTGTTGTTTGAGTGTTTCAAATTGAGCATTTGCATACTGT
1 CATGCTGTCATAAATTGAATTAAAGTTGGTGTTTGAGTGTATCAAATTGAGCATTTGCATACGGT
* * *
15951119 CTTAAATTGAATCAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATT-TT
66 CTTAAATTAAATCAAGCTGCT-ATTTAATGTTTCAAATTGAGCATTATT
* * *
15951167 CATGCTGTCATAAATTGAATTAAAGTTGGTGTTTTAGTGTATCAAATTGAGCATTTTCATGCGGT
1 CATGCTGTCATAAATTGAATTAAAGTTGGTGTTTGAGTGTATCAAATTGAGCATTTGCATACGGT
* * *
15951232 CTTAAATTAAATTAAGCTGCTATTTAATTTTTCAAATTGAGTATTATT
66 CTTAAATTAAATCAAGCTGCTATTTAATGTTTCAAATTGAGCATTATT
* *
15951280 -ATGCTGTCCTAAATTAAATTAAAGT
1 CATGCTGTCATAAATTGAATTAAAGT
15951305 GTTGCTTCAG
Statistics
Matches: 122, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
112 43 0.35
113 79 0.65
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (113 bp):
CATGCTGTCATAAATTGAATTAAAGTTGGTGTTTGAGTGTATCAAATTGAGCATTTGCATACGGT
CTTAAATTAAATCAAGCTGCTATTTAATGTTTCAAATTGAGCATTATT
Found at i:15951337 original size:56 final size:56
Alignment explanation
Indices: 15951055--15951338 Score: 279
Period size: 56 Copynumber: 5.1 Consensus size: 56
15951045 TTCTGTTTGC
* * *
15951055 ATGCTGTCATAAATTGAATTAAAGCTGTTGTTTGAGTGTTTCAAATTGAGCATTTGC
1 ATGCTGTCATAAATTGAATTAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTT-T
* * *
15951112 ATACTGTCTTAAATTGAA-TCAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
1 ATGCTGTCATAAATTGAATTAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
* * *
15951167 CATGCTGTCATAAATTGAATTAAAGTTGGTGTTTTAGTGTATCAAATTGAGCATTTT
1 -ATGCTGTCATAAATTGAATTAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
* * * * * * *
15951224 CATGCGGTCTTAAATTAAATT-AAGCTGCT-ATTTAATTTTTCAAATTGAGTATTATT
1 -ATGCTGTCATAAATTGAATTAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATT-TT
* * * * * * * *
15951280 ATGCTGTCCTAAATTAAATTAAAG-TGTTGCTTCAGTGTCTCAAAGTAAGCATTATT
1 ATGCTGTCATAAATTGAATTAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATT-TT
15951336 ATG
1 ATG
15951339 TTATTGAAAA
Statistics
Matches: 189, Mismatches: 33, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
55 40 0.21
56 82 0.43
57 67 0.35
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (56 bp):
ATGCTGTCATAAATTGAATTAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
Found at i:15952232 original size:9 final size:9
Alignment explanation
Indices: 15952218--15952259 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
15952208 CTTTTGAGAA
15952218 GTAATTCGG
1 GTAATTCGG
15952227 GTAATTCGG
1 GTAATTCGG
*
15952236 TTAATTCGG
1 GTAATTCGG
*
15952245 ATAATTCGG
1 GTAATTCGG
*
15952254 TTAATT
1 GTAATT
15952260 TTTAACCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (9 bp):
GTAATTCGG
Found at i:15952242 original size:18 final size:18
Alignment explanation
Indices: 15952219--15952259 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
15952209 TTTTGAGAAG
*
15952219 TAATTCGGGTAATTCGGT
1 TAATTCGGATAATTCGGT
15952237 TAATTCGGATAATTCGGT
1 TAATTCGGATAATTCGGT
15952255 TAATT
1 TAATT
15952260 TTTAACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (18 bp):
TAATTCGGATAATTCGGT
Found at i:15955197 original size:15 final size:16
Alignment explanation
Indices: 15955177--15955209 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
15955167 AGGCTCTTAG
15955177 TAAACAAATA-AAAAA
1 TAAACAAATAGAAAAA
15955192 TAAACAAATAGAAAAA
1 TAAACAAATAGAAAAA
15955208 TA
1 TA
15955210 GGGTCCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (16 bp):
TAAACAAATAGAAAAA
Found at i:15956539 original size:24 final size:23
Alignment explanation
Indices: 15956508--15956564 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 23
15956498 CTTATATATA
*
15956508 TATACATATATATATTATACTTTC
1 TATACATATATAT-TTATAATTTC
15956532 TATAC--ATAT-TTTATAATTTC
1 TATACATATATATTTATAATTTC
*
15956552 TATATATATATAT
1 TATACATATATAT
15956565 GCAATCATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 13 0.46
21 1 0.04
22 8 0.29
23 1 0.04
24 5 0.18
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.53
Consensus pattern (23 bp):
TATACATATATATTTATAATTTC
Found at i:15956541 original size:50 final size:49
Alignment explanation
Indices: 15956487--15956646 Score: 137
Period size: 50 Copynumber: 3.1 Consensus size: 49
15956477 TATGATTTAT
*
15956487 ATATTTATTACCTTATATATATATACATATATATATTATACTTTCTATAC
1 ATATTTATTAACTTATATATATATACATATATATATTATACTTTCTAT-C
* * * ** * *
15956537 ATATTT-TATAATTTCTATATATATATATGCA-ATCATTAT-CTTTATGGTC
1 ATATTTAT-TAACTTATATATATATACATATATAT-ATTATACTTTCT-ATC
15956586 TATATTTATTAACTTATATATATATGTACGTATATATATATTATACTTTCTATCC
1 -ATATTTATTAACTTATATATATA--TAC--ATATATATATTATACTTTCTAT-C
15956641 ATATTT
1 ATATTT
15956647 TTTTATAATT
Statistics
Matches: 83, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
49 9 0.11
50 48 0.58
51 1 0.01
52 2 0.02
54 15 0.18
55 8 0.10
ACGTcount: A:0.35, C:0.11, G:0.03, T:0.51
Consensus pattern (49 bp):
ATATTTATTAACTTATATATATATACATATATATATTATACTTTCTATC
Found at i:15963114 original size:25 final size:25
Alignment explanation
Indices: 15963080--15963132 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
15963070 AACCCGAAAA
*
15963080 GGGCGGCTCAAATATTGATCAGAAT
1 GGGCAGCTCAAATATTGATCAGAAT
* *
15963105 GGGCAGCTCAAATGTTGATTAGAAT
1 GGGCAGCTCAAATATTGATCAGAAT
15963130 GGG
1 GGG
15963133 GCATGCTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (25 bp):
GGGCAGCTCAAATATTGATCAGAAT
Found at i:15964371 original size:45 final size:44
Alignment explanation
Indices: 15964234--15964371 Score: 106
Period size: 45 Copynumber: 3.1 Consensus size: 44
15964224 ACAGATCAGT
* * * *
15964234 GAAGATAGCAGATCTTGCCTTCCTGCATCGACAG-CGAAGCAGCTC
1 GAAGATAGCAGATCTTGCCTTCCT-CATTGATAGTGGAA-CAGATC
* * * * *
15964279 GAA-A-A-CAAAGCCTTGCCTTCCTCAGTTG-TAGTGGAGCAGGTT
1 GAAGATAGCAGA-TCTTGCCTTCCTCA-TTGATAGTGGAACAGATC
*
15964321 AAAGATAGCAGATCTTGCCTTCCTACATTGATAGTGGAACAGATC
1 GAAGATAGCAGATCTTGCCTTCCT-CATTGATAGTGGAACAGATC
15964366 GAAGAT
1 GAAGAT
15964372 GACAGATTTT
Statistics
Matches: 70, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
42 13 0.19
43 17 0.24
44 16 0.23
45 24 0.34
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (44 bp):
GAAGATAGCAGATCTTGCCTTCCTCATTGATAGTGGAACAGATC
Found at i:15964605 original size:44 final size:43
Alignment explanation
Indices: 15964557--15964797 Score: 183
Period size: 44 Copynumber: 5.6 Consensus size: 43
15964547 CCGATAATCC
*
15964557 TATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCTTAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAACC-TAGATCT
* * ** *
15964601 TATCTCTCTGAAGTTGCAG-AGAGCAGATC-GCATCTAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAACCTAGATCT
* * *
15964641 TATCTCCCTGAAGTTGCAGTGGAGCAGACCAAATAAGCAAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATC-AA-AACCTAGATCT
* ** *
15964685 TATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGC-AAATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TCAA-A-ACCTAGATCT
* * *
15964730 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAACC--TAGATCT
*
15964774 TATCACCCTGAAGTTGCAGTGGAG
1 TATCTCCCTGAAGTTGCAGTGGAG
15964798 TGGATTAAAG
Statistics
Matches: 161, Mismatches: 22, Indels: 28
0.76 0.10 0.13
Matches are distributed among these distances:
40 21 0.13
41 11 0.07
42 4 0.02
43 12 0.07
44 81 0.50
45 29 0.18
46 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAACCTAGATCT
Found at i:15964628 original size:132 final size:132
Alignment explanation
Indices: 15964357--15964630 Score: 288
Period size: 132 Copynumber: 2.1 Consensus size: 132
15964347 ATTGATAGTG
* * *
15964357 GAACAGATCGAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCTAGTAA
1 GAACAGATCGAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGAAGTACATTAAAGCGAGTAA
* * * * * *
15964422 TTCTACTTCCCTGGACAACAGTGGAATAGATTAAAGATTTCAGATCTTATCTCCCTAAGTAGTAG
66 TCCTACTTCCCTGAACAACAGTGGAACAGATCAAAGACTTCAGATCTTATCTCCCTAAGTAGCAG
*
15964487 CG
131 CA
* *
15964489 GAACAGATTGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGAAGTACATTAAAGCCGA-TA
1 GAACAGATCGAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGAAGTACATTAAAG-CGAGTA
*** * * *
15964553 ATCCTA-TCTCCCTGAAGTTGCAGTGGAGCGGATCAAA-ACCTT-AGATCTTATCTCTCTGAAGT
65 ATCCTACT-TCCCTGAA-CAACAGTGGAACAGATCAAAGA-CTTCAGATCTTATCTCCCT-AAGT
*
15964615 TGCAG-A
126 AGCAGCA
*
15964621 GAGCAGATCG
1 GAACAGATCG
15964631 CATCTAGTCT
Statistics
Matches: 116, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
131 1 0.01
132 91 0.78
133 24 0.21
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (132 bp):
GAACAGATCGAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGAAGTACATTAAAGCGAGTAA
TCCTACTTCCCTGAACAACAGTGGAACAGATCAAAGACTTCAGATCTTATCTCCCTAAGTAGCAG
CA
Found at i:15964698 original size:84 final size:87
Alignment explanation
Indices: 15964552--15964757 Score: 228
Period size: 84 Copynumber: 2.4 Consensus size: 87
15964542 TAAAGCCGAT
* * * *
15964552 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCTTAGATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCAAAACCTAAGATCTTATCTCTCTGAAGTTG
*
15964617 CAGAGA-GCAGA-TCG-CAT-CT
66 CAGAGAGGCAGACT-GACATGCA
* *
15964636 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCAAATAAGC-AAG-TCTTATC-CTCCTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACC-AA-AACCTAAGATCTTATCTCT-CTGAAG
* *
15964698 TTGCAGTGAGGCAGACTGAAGATGGCA
63 TTGCAGAGAGGCAGACTG-ACAT-GCA
15964725 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
15964758 TTAAAGCCGA
Statistics
Matches: 103, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
83 2 0.02
84 52 0.50
85 10 0.10
86 4 0.04
87 2 0.02
89 33 0.32
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (87 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCAAAACCTAAGATCTTATCTCTCTGAAGTTG
CAGAGAGGCAGACTGACATGCA
Found at i:15965020 original size:15 final size:16
Alignment explanation
Indices: 15965000--15965032 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
15964990 AGGCTCTTAG
15965000 TAAACAAATA-AAAAA
1 TAAACAAATAGAAAAA
15965015 TAAACAAATAGAAAAA
1 TAAACAAATAGAAAAA
15965031 TA
1 TA
15965033 GAGTCCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (16 bp):
TAAACAAATAGAAAAA
Found at i:15966223 original size:18 final size:18
Alignment explanation
Indices: 15966202--15966253 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
15966192 TATATGTACA
*
15966202 TATATATATTATACTTTC
1 TATATATATTATAATTTC
*
15966220 TATACATATTTTATAATTTC
1 TAT--ATATATTATAATTTC
15966240 TATATATATGTATA
1 TATATATAT-TATA
15966254 TGCAATCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 8 0.29
19 4 0.14
20 16 0.57
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.54
Consensus pattern (18 bp):
TATATATATTATAATTTC
Found at i:15966233 original size:20 final size:20
Alignment explanation
Indices: 15966205--15966248 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
15966195 ATGTACATAT
*
15966205 ATATATTATACTTTCTATAC
1 ATATATTATAATTTCTATAC
* *
15966225 ATATTTTATAATTTCTATAT
1 ATATATTATAATTTCTATAC
15966245 ATAT
1 ATAT
15966249 GTATATGCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATTATAATTTCTATAC
Found at i:15967635 original size:21 final size:21
Alignment explanation
Indices: 15967587--15967635 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
15967577 TGATACATAA
*
15967587 GTGCCTAAAACGACACACAAG
1 GTGCCTGAAACGACACACAAG
* *
15967608 GTGCCTGATACGACACACGAG
1 GTGCCTGAAACGACACACAAG
15967629 GTGCCTG
1 GTGCCTG
15967636 GTCGGCAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.29, G:0.27, T:0.14
Consensus pattern (21 bp):
GTGCCTGAAACGACACACAAG
Found at i:15967776 original size:25 final size:26
Alignment explanation
Indices: 15967728--15967777 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
15967718 GGTCACCAAA
*
15967728 TTCACATTTCAATTCAATTCCACTTT
1 TTCACATTTCAATACAATTCCACTTT
15967754 TTCAC-TTTCAATCACAATT-CACTT
1 TTCACATTTCAAT-ACAATTCCACTT
15967778 CAAAATTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (26 bp):
TTCACATTTCAATACAATTCCACTTT
Found at i:15968832 original size:3 final size:3
Alignment explanation
Indices: 15968824--15968870 Score: 67
Period size: 3 Copynumber: 15.3 Consensus size: 3
15968814 AATTTATTCC
* *
15968824 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATTA ATA ATT ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA
15968870 A
1 A
15968871 CTATAAATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:15969803 original size:43 final size:43
Alignment explanation
Indices: 15969756--15969840 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
15969746 TTTATCCTAG
* *
15969756 AAAAAAAATTTAAAAATAGGAGAAGATAATCTTGGGTTGTTGA
1 AAAAAAAATTTAAAAAGAGGAGAAGATAATCTTAGGTTGTTGA
* *
15969799 AAAAAGAATTTAAAAAGATGAGAAGATAATCTTAGGTTGTTG
1 AAAAAAAATTTAAAAAGAGGAGAAGATAATCTTAGGTTGTTG
15969841 GATTTACCCT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.48, C:0.02, G:0.21, T:0.28
Consensus pattern (43 bp):
AAAAAAAATTTAAAAAGAGGAGAAGATAATCTTAGGTTGTTGA
Found at i:15971205 original size:19 final size:20
Alignment explanation
Indices: 15971183--15971221 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15971173 TCATTAATAA
15971183 ATTTATT-AATTTTTAACCG
1 ATTTATTGAATTTTTAACCG
*
15971202 ATTTATTGATTTTTTAACCG
1 ATTTATTGAATTTTTAACCG
15971222 CAATCTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.28, C:0.10, G:0.08, T:0.54
Consensus pattern (20 bp):
ATTTATTGAATTTTTAACCG
Found at i:15973696 original size:11 final size:11
Alignment explanation
Indices: 15973680--15973706 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
15973670 AATAATTTTT
15973680 TAAAATTTTAA
1 TAAAATTTTAA
15973691 TAAAATTTTAA
1 TAAAATTTTAA
15973702 TAAAA
1 TAAAA
15973707 AAAGGAGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAAAATTTTAA
Found at i:15983844 original size:578 final size:578
Alignment explanation
Indices: 15982692--15984390 Score: 2734
Period size: 578 Copynumber: 3.0 Consensus size: 578
15982682 ATCATATAAG
* ***
15982692 GGAGACATGTTGGAAGCTACACAAAAAATTGGTGGATTGAAAGTCAAGTTGATCAACCCAAGATA
1 GGAGACATGTTGGAAGCTACACAAAAAATTGGTGGATTGGAAGTCAAACAGATCAACCCAAGATA
* *
15982757 ACAATGCAAACTCAACCAATGTCACGGGGGAACGATAGTGCACAACTGAATCCAACCTCTTCACC
66 GCAATGCAAACTCAACCAATGTCACGGGGGAACGATAGTGCACAACTGAATCCAACCCCTTCACC
*
15982822 AAGGAACAACTAGATATGCTAAAATTGTTGCTGAACAACACTATAACACAACACTTTACCGCTAC
131 AAGGAACAACTAGATATGCTAAAATTGTTGCTGAACAACACTATAACACAACACTCTACCGCTAC
* *
15982887 ACCAGCCATAAGTTTACATGTTAAGTTAAGTAAATTACAATAAAAATAGTTGACCGTTGACTCAT
196 ACCAGCCATAAGTTTACATGTTAAGTTAGGTAAATTACAATAAAAATAGTTGATCGTTGACTCAT
* *
15982952 GAACATTGGATCATATGACAGGAAATGAGACACTTTTCGTTGACTATTAACTGTGTCACTTTAAT
261 GAACATTGGATCATATGACAGGAGATGAGACACTTTTCGTTGACTATCAACTGTGTCACTTTAAT
* * * *
15983017 CTTAAGGTTAAGATTACTAATGCACTTTATCTAAAGTGATGAGACCAGATCAGTTCAAACATCAC
326 CTCAAGGTTAAGATTGCTAATGCACTTTATCTAAAGTGATGAGACCAGATCAATTCAAATATCAC
*
15983082 CTGGAATCATTCTTAAATCTGTATTTTATGTTCCTAATCTTGATTGTAATATGATTTCCATCTGT
391 CTGGAATCATTCTTAAATCTGTGTTTTATGTTCCTAAT-TTGATTGTAATATGATTTCCATCTGT
* * * *
15983147 AAATCAACTCATGATAACCATTGTTTAACAAAATTCTTTCCAAATGTGTGTGTTTTTCTGGAATT
455 AAATTAACTCGTGATAACCATTGTTTAACAACATTCTTTCCAAATGTGTGTGTTTTTCAGGAATT
*
15983212 GGGTTCGAAGAGGAAGATTGGTAGTGTTGAGATGTGTCATGGATTACA-CCAAAAAATT
520 GGGTTCGAAGAGGAAGATTGGTAGTGTTGAGATGTGTCATGGATTATACCCAAAAAATT
* *
15983270 GGAGACATGTTGGAAGCTACACAAAAAATTGGTAGATTGGAAGTCAAACAGATCAACCAAAGATA
1 GGAGACATGTTGGAAGCTACACAAAAAATTGGTGGATTGGAAGTCAAACAGATCAACCCAAGATA
* * *
15983335 GCAATGCAAACTCAACCAATATCATGGGGGAACGATAGTGCACAACTGAATCCAACCCCTTCACT
66 GCAATGCAAACTCAACCAATGTCACGGGGGAACGATAGTGCACAACTGAATCCAACCCCTTCACC
* *
15983400 AAGGAAAAACTAGATATGCTAAAATTGTTTCTGAACAACACTATAACACAACACTCTACCGCTAC
131 AAGGAACAACTAGATATGCTAAAATTGTTGCTGAACAACACTATAACACAACACTCTACCGCTAC
* *
15983465 ACCAGCCATAAGTTTACATGTTAAGTTAGGTAAATTACAATAAAAATAATTGATCGTTGACTCAC
196 ACCAGCCATAAGTTTACATGTTAAGTTAGGTAAATTACAATAAAAATAGTTGATCGTTGACTCAT
* *
15983530 GAACATTGGATCATATGACAGGAGATGTGACACTTTTTGTTGACTATCAACTGTGTCACTTTAAT
261 GAACATTGGATCATATGACAGGAGATGAGACACTTTTCGTTGACTATCAACTGTGTCACTTTAAT
*
15983595 CTCAAGGTTAAGATTGCTAATGCACTTTATCTAAAGTGATAAGACCAGATCAATTCAAATATCAC
326 CTCAAGGTTAAGATTGCTAATGCACTTTATCTAAAGTGATGAGACCAGATCAATTCAAATATCAC
15983660 CTGGAATCATTCTTAAATCTGTGTTTTATGTTCCTAATTTTGATTGTAATATGATTTCCATCTGT
391 CTGGAATCATTCTTAAATCTGTGTTTTATGTTCCTAA-TTTGATTGTAATATGATTTCCATCTGT
* *
15983725 AAATTAACTCGTGATAGCCATT-TTTAACAACATTCTTACCAAATGTGTGTGTTTTTCAGGAATT
455 AAATTAACTCGTGATAACCATTGTTTAACAACATTCTTTCCAAATGTGTGTGTTTTTCAGGAATT
15983789 GGGTTCGAAGAGGAAGATTGGTAGTGTTGAGATGTGTCATGGATTATACCCAAAAAATT
520 GGGTTCGAAGAGGAAGATTGGTAGTGTTGAGATGTGTCATGGATTATACCCAAAAAATT
*
15983848 GGAGACATGTTGGAGGCTACACAAAAAATTGGTGGATTGGAAGTCAAACAGATCAACCCAAGATA
1 GGAGACATGTTGGAAGCTACACAAAAAATTGGTGGATTGGAAGTCAAACAGATCAACCCAAGATA
* *
15983913 GCAATGCAAACTCAACTAATGTAACGGGGGAACGATAGTGCACAACTGAATCCAACCCCTTCACC
66 GCAATGCAAACTCAACCAATGTCACGGGGGAACGATAGTGCACAACTGAATCCAACCCCTTCACC
* * *
15983978 AAGTAACAACTAGATATGCTAAAATTGTTGCTGAACAACACTATAACACAACATTCTACTGCTAC
131 AAGGAACAACTAGATATGCTAAAATTGTTGCTGAACAACACTATAACACAACACTCTACCGCTAC
* * *
15984043 ACTAGCCATAAGTTTACATGTTAAGTTAGGTAAATTACAATAAAAACAGTTGATCGTTAACTCAT
196 ACCAGCCATAAGTTTACATGTTAAGTTAGGTAAATTACAATAAAAATAGTTGATCGTTGACTCAT
* *
15984108 GAACATTGGATCATATGACAGGAGATGGGACACTTTTCGTTGACTATCAACTGTGTCACTCTAAT
261 GAACATTGGATCATATGACAGGAGATGAGACACTTTTCGTTGACTATCAACTGTGTCACTTTAAT
15984173 CTCAAGGTTAAG--TGCTAATGCACTTTATCTAAAGTGATGAGACCAGATCAATTCAAATATCAC
326 CTCAAGGTTAAGATTGCTAATGCACTTTATCTAAAGTGATGAGACCAGATCAATTCAAATATCAC
*
15984236 CTGGAATCATTCTTAAATCTGTGTTTTATG---C-----------T-CT-T-A-----A--TGTA
391 CTGGAATCATTCTTAAATCTGTGTTTTATGTTCCTAATTTGATTGTAATATGATTTCCATCTGTA
15984277 AATTAACTCGTGATAACCATTGTTTAACAACATTCTTTCCAAATGTGTGTGTTTTTCAGGAATTG
456 AATTAACTCGTGATAACCATTGTTTAACAACATTCTTTCCAAATGTGTGTGTTTTTCAGGAATTG
* * *
15984342 GTTTTGAAGAGGAAGATTGTTAGTGTTGAGATGTGTCATGGATTATACC
521 GGTTCGAAGAGGAAGATTGGTAGTGTTGAGATGTGTCATGGATTATACC
15984391 TCTTCAAGCC
Statistics
Matches: 1055, Mismatches: 63, Indels: 32
0.92 0.05 0.03
Matches are distributed among these distances:
551 24 0.02
552 88 0.08
553 1 0.00
558 1 0.00
559 1 0.00
560 1 0.00
561 1 0.00
573 1 0.00
576 80 0.08
577 86 0.08
578 770 0.73
579 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (578 bp):
GGAGACATGTTGGAAGCTACACAAAAAATTGGTGGATTGGAAGTCAAACAGATCAACCCAAGATA
GCAATGCAAACTCAACCAATGTCACGGGGGAACGATAGTGCACAACTGAATCCAACCCCTTCACC
AAGGAACAACTAGATATGCTAAAATTGTTGCTGAACAACACTATAACACAACACTCTACCGCTAC
ACCAGCCATAAGTTTACATGTTAAGTTAGGTAAATTACAATAAAAATAGTTGATCGTTGACTCAT
GAACATTGGATCATATGACAGGAGATGAGACACTTTTCGTTGACTATCAACTGTGTCACTTTAAT
CTCAAGGTTAAGATTGCTAATGCACTTTATCTAAAGTGATGAGACCAGATCAATTCAAATATCAC
CTGGAATCATTCTTAAATCTGTGTTTTATGTTCCTAATTTGATTGTAATATGATTTCCATCTGTA
AATTAACTCGTGATAACCATTGTTTAACAACATTCTTTCCAAATGTGTGTGTTTTTCAGGAATTG
GGTTCGAAGAGGAAGATTGGTAGTGTTGAGATGTGTCATGGATTATACCCAAAAAATT
Found at i:15985118 original size:20 final size:18
Alignment explanation
Indices: 15985071--15985177 Score: 60
Period size: 20 Copynumber: 5.8 Consensus size: 18
15985061 CAAGATAAAC
*
15985071 ATTAAATTAA-ATTTATT
1 ATTAAATTAATATTTAAT
15985088 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
15985108 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
*
15985127 ATTAAGATAAATA-TTAA-
1 ATTAA-ATTAATATTTAAT
*
15985144 ATTAAATTTAATATTAAACT
1 ATTAAA-TTAATATTTAA-T
*
15985164 ATTAAATTAGTATT
1 ATTAAATTAATATT
15985178 ATTTTTATAA
Statistics
Matches: 69, Mismatches: 11, Indels: 18
0.70 0.11 0.18
Matches are distributed among these distances:
16 1 0.01
17 18 0.26
18 6 0.09
19 18 0.26
20 26 0.38
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:15985119 original size:11 final size:11
Alignment explanation
Indices: 15985103--15985178 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
15985093 GATAATCACT
15985103 TTAATATTAAA
1 TTAATATTAAA
15985114 TTAATA--AAA
1 TTAATATTAAA
*
15985123 -TACTATTAAGA
1 TTAATATTAA-A
*
15985134 TAAATATTAAA
1 TTAATATTAAA
15985145 TTAA-ATTTAATA
1 TTAATA-TTAA-A
15985157 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
15985170 TTAGTATTA
1 TTAATATTA
15985179 TTTTTATAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 3 0.06
11 20 0.39
12 11 0.22
13 5 0.10
14 4 0.08
15 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:15985156 original size:17 final size:17
Alignment explanation
Indices: 15985071--15985161 Score: 57
Period size: 17 Copynumber: 5.4 Consensus size: 17
15985061 CAAGATAAAC
*
15985071 ATTAAATTAAATTTATT
1 ATTAAATTAAATTTAAT
15985088 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAA--A-TTTAAT
**
15985108 ATTAAATT-AATAAAAT
1 ATTAAATTAAATTTAAT
* *
15985124 ACT--ATTAAGA-TAAAT
1 ATTAAATTAA-ATTTAAT
15985139 ATTAAATTAAATTTAAT
1 ATTAAATTAAATTTAAT
15985156 ATTAAA
1 ATTAAA
15985162 CTATTAAATT
Statistics
Matches: 57, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
14 3 0.05
15 7 0.12
16 8 0.14
17 24 0.42
18 1 0.02
19 3 0.05
20 11 0.19
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (17 bp):
ATTAAATTAAATTTAAT
Found at i:15988248 original size:81 final size:81
Alignment explanation
Indices: 15988111--15988275 Score: 276
Period size: 81 Copynumber: 2.0 Consensus size: 81
15988101 TTCACATGAT
* * *
15988111 TTATTCAGTCGTGATAAAGATTATGAATAACATGAGTGACCAAGTCCCTTGCGGGAGATTAACAA
1 TTATTCAATCATGATAAAGATTATGAATAACATGAGTGACCAAATCCCTTGCGGGAGATTAACAA
*
15988176 GTGGATGGGAATGTGA
66 GTGGATGAGAATGTGA
* *
15988192 TTATTCAATCATGATAAAGATTATGAATAACATGAGTGACTAAATCCCTTGGGGGAGATTAACAA
1 TTATTCAATCATGATAAAGATTATGAATAACATGAGTGACCAAATCCCTTGCGGGAGATTAACAA
15988257 GTGGATGAGAATGTGA
66 GTGGATGAGAATGTGA
15988273 TTA
1 TTA
15988276 ACGGAGGATT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (81 bp):
TTATTCAATCATGATAAAGATTATGAATAACATGAGTGACCAAATCCCTTGCGGGAGATTAACAA
GTGGATGAGAATGTGA
Found at i:15998322 original size:18 final size:17
Alignment explanation
Indices: 15998298--15998350 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
15998288 TATTGATTTA
*
15998298 TTTTATTTGTTTACTTT
1 TTTTATTTATTTACTTT
15998315 TCTTTATTTATTT-CTTT
1 T-TTTATTTATTTACTTT
*
15998332 TTGGTATTTATTTACTTT
1 TT-TTATTTATTTACTTT
15998350 T
1 T
15998351 ATCTCTTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 1 0.03
17 15 0.48
18 15 0.48
ACGTcount: A:0.13, C:0.08, G:0.06, T:0.74
Consensus pattern (17 bp):
TTTTATTTATTTACTTT
Found at i:16026167 original size:43 final size:44
Alignment explanation
Indices: 16026107--16026193 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 44
16026097 CATGTTATAA
16026107 TCATATACGATGCCAATGTCTCAGACATGGTCTTACACGAAATC
1 TCATATACGATGCCAATGTCTCAGACATGGTCTTACACGAAATC
*
16026151 TCATAT-CGATGCCAATGTCTCAGACATGGTCTTACATGAAATC
1 TCATATACGATGCCAATGTCTCAGACATGGTCTTACACGAAATC
16026194 ATACCTCGGA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 36 0.86
44 6 0.14
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (44 bp):
TCATATACGATGCCAATGTCTCAGACATGGTCTTACACGAAATC
Found at i:16029205 original size:26 final size:26
Alignment explanation
Indices: 16029165--16029255 Score: 84
Period size: 26 Copynumber: 3.6 Consensus size: 26
16029155 CTTATGAACG
16029165 TCCCG-TTATATGGCTCTTCGTGAGCT
1 TCCCGATTA-ATGGCTCTTCGTGAGCT
*
16029191 TCCCGATTCAA-GGCTCTTTGTGAGCT
1 TCCCGATT-AATGGCTCTTCGTGAGCT
** * *
16029217 TCATGATTAATGGCTCTCCG-AAGCT
1 TCCCGATTAATGGCTCTTCGTGAGCT
16029242 TCCCGA-T-ATGGCTC
1 TCCCGATTAATGGCTC
16029256 GCTTGAACTT
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
23 7 0.13
24 1 0.02
25 10 0.19
26 32 0.59
27 3 0.06
28 1 0.02
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.34
Consensus pattern (26 bp):
TCCCGATTAATGGCTCTTCGTGAGCT
Found at i:16029403 original size:25 final size:25
Alignment explanation
Indices: 16029329--16029418 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 25
16029319 TCACATAATT
* **
16029329 TTCCTGATA-ATGGCTCTTATGAGC
1 TTCCTGTTATATGGCTCACATGAGC
* ** * * *
16029353 TTTCTGTTATACAGCCCAGATTAGC
1 TTCCTGTTATATGGCTCACATGAGC
16029378 TTCCTGTTATATGGCTCACATGAGC
1 TTCCTGTTATATGGCTCACATGAGC
16029403 TTCCTGTTATATGGCT
1 TTCCTGTTATATGGCT
16029419 TGAGAGAAGG
Statistics
Matches: 51, Mismatches: 14, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
24 7 0.14
25 44 0.86
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (25 bp):
TTCCTGTTATATGGCTCACATGAGC
Found at i:16033970 original size:41 final size:41
Alignment explanation
Indices: 16033921--16034142 Score: 327
Period size: 41 Copynumber: 5.4 Consensus size: 41
16033911 AGATTCACTG
* * * *
16033921 GCACTTAGCTTGTTAGGCTTAAAGCCTAATTCAGATCACCA
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCA
* * * *
16033962 GCATTTAGCCTGCTAGGCTTATAGCCTAATCCAGTTCACCA
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCA
16034003 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCA
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCA
* * *
16034044 GCACTTAGCCTGCTAGGCTTATAGCCTGGTTCAAATCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCA
* *
16034085 GCACTTAGCCTGCTAGGCTTATAGCCTGATTTAGATCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCA
16034126 GCACTTAGCCTGCTAGG
1 GCACTTAGCCTGCTAGG
16034143 TTTTAAAACC
Statistics
Matches: 165, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 165 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCA
Found at i:16040692 original size:35 final size:35
Alignment explanation
Indices: 16040615--16040698 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 35
16040605 CTTATTATAA
* *
16040615 CTAAATGTATATATGTATTTATCACTTGCACATAT
1 CTAAATGCATATATGTACTTATCACTTGCACATAT
* * *
16040650 CTAAATGCATATATGTGCTTATCGCTTGCACTTCAT
1 CTAAATGCATATATGTACTTATCACTTGCACAT-AT
*
16040686 C-GAATGCATATAT
1 CTAAATGCATATAT
16040699 ATATTATTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 39 0.93
36 3 0.07
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (35 bp):
CTAAATGCATATATGTACTTATCACTTGCACATAT
Found at i:16041037 original size:41 final size:41
Alignment explanation
Indices: 16040981--16041213 Score: 340
Period size: 41 Copynumber: 5.7 Consensus size: 41
16040971 TTAATATAAA
* * * *
16040981 CAGAGTCACTGGCACTTAGCTTGTTAGGCTTAAAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* * * *
16041023 CAGATCACCAGCACTTAGCATGCTAGGCTTATAGCCTAATC
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
16041064 CAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* *
16041105 CAGATCACCAGCACTTAGCCTGCTAGGCTTATAGCCTGGTT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
16041146 CAAATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
16041187 TAGATCACCGGCACTTAGCCTGCTAGG
1 CAGATCACCGGCACTTAGCCTGCTAGG
16041214 TTTTAAAACC
Statistics
Matches: 171, Mismatches: 20, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 167 0.98
42 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:16043860 original size:292 final size:293
Alignment explanation
Indices: 16043330--16044426 Score: 1593
Period size: 292 Copynumber: 3.8 Consensus size: 293
16043320 GGCTGTTACA
* * * * * *
16043330 CTATCTGCACTTGTTTAGAA-TTTTTTCCTATCTTTTTTCGAACAACATTACAGTGTTGTTGCAT
1 CTATCTACACTTGTTTAGAAGGTTTTCCCTAT-TCTTTTCAAACAACATTAGAGTGTTGTTGCAT
* * * *
16043394 AATTTGCCTTGTTGTCACAACCTTTTTCCCCTTCCACTTCAATTTAAGGCCTTTCTATGAATATT
65 AATTTGCCTTGTTGTCACAACCTTTTTCCCCTTCCACTTCAATCTAGGGCCTTTCCATGAATTTT
* *
16043459 GATATTGGGATGTATCAGATTATCCAATCTTCCTTACAGTAGTAATGTTTCACAGATTTGTTAAG
130 GATATTGGGATGTATCAGATTATCCAATCTTCCTTATAGTAGTAATGTTTCAAAGATTTGTTAAG
*
16043524 TTCTTGCCCACATCATGGTTTTGAAATTAAAAGTAATCTAGCATCAATTTGTACTTCAATCATAT
195 TTCTTGCCCACATCATGGTTTTGAAATTAAAAGTAATCTAGCATCAATTTGTACTTCAATCATCT
* * *
16043589 ATTATAATAGAATCTGTTTGGCTTTCTTATGTCT
260 ATTATAATAGAATCTGTTTGGCTTACTTGTGTCC
* * * * * *
16043623 CTATATGCACTTGTTTAGAAGGTTTTTCCCT-TTCTTTTCGAATAGCATCAGAGTGTTGTT-CAT
1 CTATCTACACTTGTTTAGAAGG-TTTTCCCTATTCTTTTCAAACAACATTAGAGTGTTGTTGCAT
* * *
16043686 AATTTGTCTTGTCGCCACAACCTTTTTCCCCTTCCACTTCAATCTAGGGCCTTTCCATGAATTTT
65 AATTTGCCTTGTTGTCACAACCTTTTTCCCCTTCCACTTCAATCTAGGGCCTTTCCATGAATTTT
* *
16043751 GATATTGGGATGTATCAGATTATCCAATCTTTCTTATAGTAGTAATGTTTCAAAGATTTATTAAG
130 GATATTGGGATGTATCAGATTATCCAATCTTCCTTATAGTAGTAATGTTTCAAAGATTTGTTAAG
*
16043816 TTCTTGCCCACATCATGGTTTTGAAATTAAAAGTTAGT-TAGCATCAATTT-TCACTTCAATCAT
195 TTCTTGCCCACATCATGGTTTTGAAATTAAAAG-TAATCTAGCATCAATTTGT-ACTTCAATCAT
* * *
16043879 CTATTATAATAGAATCTATTTGGCTTGCTTGTATCC
258 CTATTATAATAGAATCTGTTTGGCTTACTTGTGTCC
* * *
16043915 CTATCTACACTTGTTTAAAAGGTTTT-CC-ATTCTTCTATCAAACAATATTAGAGTTTTGTTGCA
1 CTATCTACACTTGTTTAGAAGGTTTTCCCTATTCTT-T-TCAAACAACATTAGAGTGTTGTTGCA
* * * *
16043978 TAATTTGCCTTGTTGTCATAGA--TTTTTCCCCTCCCACTTCAATCTAGGGCCTTTTCATGAATG
64 TAATTTGCCTTGTTGTCACA-ACCTTTTTCCCCTTCCACTTCAATCTAGGGCCTTTCCATGAATT
* *
16044041 TTGATATTGGGATGTATCAGATTATTCAATCTTCCTTATAGTAATAATGTTTCAAAGATTTGTTA
128 TTGATATTGGGATGTATCAGATTATCCAATCTTCCTTATAGTAGTAATGTTTCAAAGATTTGTTA
* * *
16044106 AGTTCTTGCCCACATCATGGTTTTGAAATTAAACGTAATCTAGCATCAATTTGCACTTCAATAAT
193 AGTTCTTGCCCACATCATGGTTTTGAAATTAAAAGTAATCTAGCATCAATTTGTACTTCAATCAT
*
16044171 CTATTATAATAGAATTTGTTTGGCTTACTTGTGTCC
258 CTATTATAATAGAATCTGTTTGGCTTACTTGTGTCC
* * *
16044207 CTATCTACACTTGTTTAGAAGGTTTTCCTCTCTTC-TTTCAAATAGCATTAGAGTGTTGTTGCAT
1 CTATCTACACTTGTTTAGAAGGTTTTCC-CTATTCTTTTCAAACAACATTAGAGTGTTGTTGCAT
* * * *
16044271 AATTTGCCTTGTTTTCATAGCCTTTTTCCCCTTCCACTTCAATCTAGGGCTTTTCCATGAATTTT
65 AATTTGCCTTGTTGTCACAACCTTTTTCCCCTTCCACTTCAATCTAGGGCCTTTCCATGAATTTT
16044336 GATATTGGGATGTATCAGATTATCCAATCTTCCTTATAGTAGTAATGTTTCAAAGATTTGTTAAG
130 GATATTGGGATGTATCAGATTATCCAATCTTCCTTATAGTAGTAATGTTTCAAAGATTTGTTAAG
16044401 TTCTTGCCCACATCATGGTTTTGAAA
195 TTCTTGCCCACATCATGGTTTTGAAA
16044427 ATTGGCGGAC
Statistics
Matches: 720, Mismatches: 68, Indels: 32
0.88 0.08 0.04
Matches are distributed among these distances:
290 7 0.01
291 9 0.01
292 497 0.69
293 193 0.27
294 4 0.01
295 10 0.01
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (293 bp):
CTATCTACACTTGTTTAGAAGGTTTTCCCTATTCTTTTCAAACAACATTAGAGTGTTGTTGCATA
ATTTGCCTTGTTGTCACAACCTTTTTCCCCTTCCACTTCAATCTAGGGCCTTTCCATGAATTTTG
ATATTGGGATGTATCAGATTATCCAATCTTCCTTATAGTAGTAATGTTTCAAAGATTTGTTAAGT
TCTTGCCCACATCATGGTTTTGAAATTAAAAGTAATCTAGCATCAATTTGTACTTCAATCATCTA
TTATAATAGAATCTGTTTGGCTTACTTGTGTCC
Found at i:16048277 original size:21 final size:21
Alignment explanation
Indices: 16048251--16048293 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
16048241 AATTGAAGCA
16048251 TACTCTGTTTCGTTTTCCTAT
1 TACTCTGTTTCGTTTTCCTAT
16048272 TACTCTGTTTCGTTTTCCTAT
1 TACTCTGTTTCGTTTTCCTAT
16048293 T
1 T
16048294 TTCCTATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.23, G:0.09, T:0.58
Consensus pattern (21 bp):
TACTCTGTTTCGTTTTCCTAT
Found at i:16050971 original size:25 final size:25
Alignment explanation
Indices: 16050943--16050996 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
16050933 CCAACTGGAT
* *
16050943 AGTTTATCAAACAATAAAG-TAAAAG
1 AGTTTACCAAAAAATAAAGCT-AAAG
*
16050968 AGTTTCCCAAAAAATAAAGCTAAAG
1 AGTTTACCAAAAAATAAAGCTAAAG
16050993 AGTT
1 AGTT
16050997 AAAAAGACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.52, C:0.11, G:0.13, T:0.24
Consensus pattern (25 bp):
AGTTTACCAAAAAATAAAGCTAAAG
Found at i:16061671 original size:21 final size:20
Alignment explanation
Indices: 16061626--16061664 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
16061616 TTTATAATTT
16061626 TACTTGTAAACTCCTAAAAA
1 TACTTGTAAACTCCTAAAAA
16061646 TACTTGTAAACT-CTAAAAA
1 TACTTGTAAACTCCTAAAAA
16061665 ATAACTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.46, C:0.18, G:0.05, T:0.31
Consensus pattern (20 bp):
TACTTGTAAACTCCTAAAAA
Found at i:16069260 original size:118 final size:118
Alignment explanation
Indices: 16069052--16069285 Score: 414
Period size: 118 Copynumber: 2.0 Consensus size: 118
16069042 TGTTGAGCTA
* *
16069052 GCGAAGAGACCAATCGCACATATACAATTAGGCTCGAGTAATTGCAATTATGTCCAGAAGCATTG
1 GCGAAGAGACCAATCGAACATATACAATTAGGCTCGAGTAATTGCAATTATGTCCAGAAGCATCG
*
16069117 TTTCGATAATTCACAATTTACTTAATTATGGAGTCAGTCCACAATAAGTAATT
66 TTCCGATAATTCACAATTTACTTAATTATGGAGTCAGTCCACAATAAGTAATT
* *
16069170 GCGAAGAGACCAATCGAACTTATACAATTAGGCTCGAGTAATTGTAATTATGTCCAGAAGCATCG
1 GCGAAGAGACCAATCGAACATATACAATTAGGCTCGAGTAATTGCAATTATGTCCAGAAGCATCG
*
16069235 TTCCGATAATTCACGATTTACTTAATTATGGAGTCAGTCCACAATAAGTAA
66 TTCCGATAATTCACAATTTACTTAATTATGGAGTCAGTCCACAATAAGTAA
16069286 CATGATTGGA
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 110 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (118 bp):
GCGAAGAGACCAATCGAACATATACAATTAGGCTCGAGTAATTGCAATTATGTCCAGAAGCATCG
TTCCGATAATTCACAATTTACTTAATTATGGAGTCAGTCCACAATAAGTAATT
Found at i:16071185 original size:31 final size:29
Alignment explanation
Indices: 16071150--16071207 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
16071140 AATAATATTT
*
16071150 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
16071181 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
16071208 GTAGATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Found at i:16073938 original size:57 final size:57
Alignment explanation
Indices: 16073869--16073999 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 57
16073859 ATCACTTTAA
* * * *
16073869 TATTAAATTAATATAATA-TTTATC-AAGATAAATATT-ATTAAATTTAATATTAAATCT
1 TATTAAAATAATATAA-AGTTTATCTAAGATAAACATTAATTAAATTAAATATTAAA--G
*
16073926 TATTAAAATAATAGAAAGTTTATCTATAAGATAAACATTAAATTAAATTAAATATTAAAG
1 TATTAAAATAATATAAAGTTTATC--TAAGATAAACATT-AATTAAATTAAATATTAAAG
16073986 TATTAAAATAATAT
1 TATTAAAATAATAT
16074000 TATTTTTGGA
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
56 1 0.02
57 20 0.32
60 24 0.39
62 17 0.27
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (57 bp):
TATTAAAATAATATAAAGTTTATCTAAGATAAACATTAATTAAATTAAATATTAAAG
Found at i:16075697 original size:50 final size:49
Alignment explanation
Indices: 16075632--16075726 Score: 127
Period size: 50 Copynumber: 1.9 Consensus size: 49
16075622 AGCTCTTTCA
* * **
16075632 TGAGCTTCTTGATTAATGGCTCTTTAGAGCTACCCGATATATGGCTCGCT
1 TGAGCTTCCTAATTAATGGCTCTCCAGAGCTACCCGATAT-TGGCTCGCT
* *
16075682 TGAGCTTCCTAATTAATGGCTCTCCGGAGCTTCCCGATATTGGCT
1 TGAGCTTCCTAATTAATGGCTCTCCAGAGCTACCCGATATTGGCT
16075727 TGCAAGAGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 5 0.13
50 34 0.87
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (49 bp):
TGAGCTTCCTAATTAATGGCTCTCCAGAGCTACCCGATATTGGCTCGCT
Found at i:16075784 original size:25 final size:25
Alignment explanation
Indices: 16075708--16075776 Score: 99
Period size: 24 Copynumber: 2.8 Consensus size: 25
16075698 TGGCTCTCCG
16075708 GAGCTTCCCGA-TAT-TGGCTTGCAA
1 GAGCTTCCCGATTATAT-GCTTGCAA
*
16075732 GAGCTTCCCG-TTATATGCTTGGAA
1 GAGCTTCCCGATTATATGCTTGCAA
16075756 GAGCTTCCCGATTATATGCTT
1 GAGCTTCCCGATTATATGCTT
16075777 ACATGAGCAT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
24 30 0.73
25 11 0.27
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (25 bp):
GAGCTTCCCGATTATATGCTTGCAA
Found at i:16082308 original size:41 final size:41
Alignment explanation
Indices: 16082248--16082377 Score: 206
Period size: 41 Copynumber: 3.1 Consensus size: 41
16082238 CTTAATTTAA
*
16082248 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGTTTATAGCCTGATT
* * * *
16082290 CAGATCATCGGCAGTTAGCTTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAGCCTGATT
16082331 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAGCCTGATT
16082372 CAGATC
1 CAGATC
16082378 GCATAAGATA
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 75 0.95
42 4 0.05
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGTTTATAGCCTGATT
Found at i:16084220 original size:17 final size:17
Alignment explanation
Indices: 16084198--16084231 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
16084188 CCTTTAGGGA
16084198 TTTTCGTCCCCGAAAAT
1 TTTTCGTCCCCGAAAAT
16084215 TTTTCGTCCCCGAAAAT
1 TTTTCGTCCCCGAAAAT
16084232 CTTACCGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (17 bp):
TTTTCGTCCCCGAAAAT
Found at i:16089193 original size:24 final size:25
Alignment explanation
Indices: 16089149--16089196 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
16089139 ATAGAATTCT
*
16089149 ATTTAATGGCTCTCTTAAGCTTCCC
1 ATTTAATGGCTCTATTAAGCTTCCC
16089174 ATTT-ATGGCTCATATT-AGCTTCC
1 ATTTAATGGCTC-TATTAAGCTTCC
16089197 AGATAATTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (25 bp):
ATTTAATGGCTCTATTAAGCTTCCC
Found at i:16089283 original size:25 final size:25
Alignment explanation
Indices: 16089250--16089320 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
16089240 TGAGCTTTAT
*
16089250 GATTAATGGCT-TTTTGGAGCTACCC
1 GATTAATGGCTCTCTT-GAGCTACCC
*
16089275 GA-TATATGGCTCTCTTGAGCTTCCC
1 GATTA-ATGGCTCTCTTGAGCTACCC
* *
16089300 GATTAATGGCTCACATGAGCT
1 GATTAATGGCTCTCTTGAGCT
16089321 TCTCATTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 2 0.05
25 32 0.82
26 5 0.13
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (25 bp):
GATTAATGGCTCTCTTGAGCTACCC
Found at i:16089321 original size:25 final size:26
Alignment explanation
Indices: 16089266--16089369 Score: 110
Period size: 25 Copynumber: 4.2 Consensus size: 26
16089256 TGGCTTTTTG
* * *
16089266 GAGCTACCCGA-TATATGGCTCTCTT
1 GAGCTTCCCGATTATATGGCTCACAT
16089291 GAGCTTCCCGATTA-ATGGCTCACAT
1 GAGCTTCCCGATTATATGGCTCACAT
* * *
16089316 GAGCTTCTC-ATTATAAGGCTCGA-AA
1 GAGCTTCCCGATTATATGGCTC-ACAT
16089341 GAGCTTCCCGATTATAT-GCTCACAT
1 GAGCTTCCCGATTATATGGCTCACAT
16089366 GAGC
1 GAGC
16089370 ATTCTTGAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
24 5 0.08
25 51 0.78
26 9 0.14
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (26 bp):
GAGCTTCCCGATTATATGGCTCACAT
Found at i:16091852 original size:11 final size:12
Alignment explanation
Indices: 16091822--16091854 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
16091812 ATCACAAGTG
16091822 AATTAATTCACA
1 AATTAATTCACA
*
16091834 AATGAATTCA-A
1 AATTAATTCACA
16091845 AATTAATTCA
1 AATTAATTCA
16091855 GCTTGGGTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (12 bp):
AATTAATTCACA
Found at i:16100855 original size:30 final size:30
Alignment explanation
Indices: 16100821--16100880 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
16100811 CTTATATAAA
16100821 GTTTTATGTTCTTAATATGTCAATTAAGGG
1 GTTTTATGTTCTTAATATGTCAATTAAGGG
16100851 GTTTTATGTTCTTAATATGTCAATTAAGGG
1 GTTTTATGTTCTTAATATGTCAATTAAGGG
16100881 AAATAAGAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (30 bp):
GTTTTATGTTCTTAATATGTCAATTAAGGG
Found at i:16103101 original size:48 final size:49
Alignment explanation
Indices: 16103043--16103139 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 49
16103033 AGTCATTTTC
* * * *
16103043 ATTTTGGAGAAAATCATATTCATTTCCAAATGATTT-T-ATTTCTCCATT
1 ATTTTAGAGAAAACCATAATCATTTCCAAATG-TTTCTCATTTATCCATT
*
16103091 ATTTTAGAGAAAACCTTAATCATTTCCAAATGTTTCTCATTTATCCATT
1 ATTTTAGAGAAAACCATAATCATTTCCAAATGTTTCTCATTTATCCATT
16103140 TTCACCATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
47 3 0.07
48 29 0.69
49 10 0.24
ACGTcount: A:0.32, C:0.16, G:0.07, T:0.44
Consensus pattern (49 bp):
ATTTTAGAGAAAACCATAATCATTTCCAAATGTTTCTCATTTATCCATT
Found at i:16103737 original size:18 final size:21
Alignment explanation
Indices: 16103691--16103732 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
16103681 TATTTAGATA
*
16103691 GTTTCAATTTATTATTGGTGT
1 GTTTCAATTTATTAGTGGTGT
16103712 GTTTCAATTTATTAGTGGTGT
1 GTTTCAATTTATTAGTGGTGT
16103733 TCAATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.05, G:0.21, T:0.55
Consensus pattern (21 bp):
GTTTCAATTTATTAGTGGTGT
Found at i:16107334 original size:48 final size:49
Alignment explanation
Indices: 16107223--16107356 Score: 135
Period size: 48 Copynumber: 2.8 Consensus size: 49
16107213 ATCGCATTGA
* * * * * * *
16107223 AACTCAGGCCCTCAGTTCACGGTAGTTATACGGTCGCGAGTTGAAGTAT
1 AACTCGGGCCCCCAGTTAACGGTGGTTATGCAGTCACGAGTTGAAGTAT
* * **
16107272 AATTAGGGTTCCCAGTT-ACGGTGGTTATGCAGTCACGAGTTGAAGTAT
1 AACTCGGGCCCCCAGTTAACGGTGGTTATGCAGTCACGAGTTGAAGTAT
** *
16107320 AACTCGGGCCCCCAGTTAACAATGGTCATGCAGTCAC
1 AACTCGGGCCCCCAGTTAACGGTGGTTATGCAGTCAC
16107357 AGGTTCAAGT
Statistics
Matches: 67, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
48 40 0.60
49 27 0.40
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (49 bp):
AACTCGGGCCCCCAGTTAACGGTGGTTATGCAGTCACGAGTTGAAGTAT
Found at i:16133315 original size:5 final size:5
Alignment explanation
Indices: 16133300--16133332 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
16133290 AGAAATAAAA
16133300 GGGTT -GGTT GGGTT GGGTT GGGTT GGGTT GGGT
1 GGGTT GGGTT GGGTT GGGTT GGGTT GGGTT GGGT
16133333 CGGTTTTCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.00, C:0.00, G:0.61, T:0.39
Consensus pattern (5 bp):
GGGTT
Found at i:16133325 original size:15 final size:14
Alignment explanation
Indices: 16133300--16133337 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
16133290 AGAAATAAAA
16133300 GGGTTGGTTGGGTT
1 GGGTTGGTTGGGTT
16133314 GGGTTGGGTTGGGTT
1 GGGTT-GGTTGGGTT
*
16133329 GGGTCGGTT
1 GGGTTGGTT
16133338 TTCCCATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.00, C:0.03, G:0.58, T:0.39
Consensus pattern (14 bp):
GGGTTGGTTGGGTT
Found at i:16135532 original size:16 final size:15
Alignment explanation
Indices: 16135495--16135526 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
16135485 GTATAAGTAT
16135495 ATATAAATATATAAA
1 ATATAAATATATAAA
16135510 ATATAAAGTATATAAA
1 ATATAAA-TATATAAA
16135526 A
1 A
16135527 GTTAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
ATATAAATATATAAA
Found at i:16135534 original size:24 final size:26
Alignment explanation
Indices: 16135489--16135540 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
16135479 AGAAATGTAT
*
16135489 AAGTATATATAAATATATAAAATATA
1 AAGTATATATAAATATATAAAAAATA
16135515 AAGTATATA-AAAGT-TA-AAAAAATA
1 AAGTATATATAAA-TATATAAAAAATA
16135539 AA
1 AA
16135541 AAAATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 9 0.38
25 5 0.21
26 10 0.42
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (26 bp):
AAGTATATATAAATATATAAAAAATA
Found at i:16135743 original size:12 final size:12
Alignment explanation
Indices: 16135726--16135763 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
16135716 TATAGAAAAT
16135726 ATGATAATAATA
1 ATGATAATAATA
*
16135738 ATGATAGTAAATA
1 ATGATAAT-AATA
16135751 ATG-TAATAATA
1 ATGATAATAATA
16135762 AT
1 AT
16135764 AGTAATGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 6 0.26
12 10 0.43
13 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (12 bp):
ATGATAATAATA
Found at i:16135749 original size:24 final size:24
Alignment explanation
Indices: 16135717--16135763 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
16135707 ATGTATATGT
16135717 ATAGAAAAT-ATGATAATAATAATG
1 ATAGAAAATAATG-TAATAATAATG
*
16135741 ATAGTAAATAATGTAATAATAAT
1 ATAGAAAATAATGTAATAATAAT
16135764 AGTAATGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (24 bp):
ATAGAAAATAATGTAATAATAATG
Found at i:16137334 original size:44 final size:44
Alignment explanation
Indices: 16137210--16138676 Score: 1785
Period size: 44 Copynumber: 32.9 Consensus size: 44
16137200 AAGACTTGTA
* * * **
16137210 TCTTCGATCTA-TT-TCGCCAATATATGGGAAGACAATATCTACTT
1 TCTTCGATCTACTTCACGCCAATACAT--GAAGACAAGATCTGTTT
* *
16137254 TCTTCGATCTACTTTGC-CCCCAATACATAAAGACAAGATCTGTTT
1 TCTTCGATCTAC-TT-CACGCCAATACATGAAGACAAGATCTGTTT
* * *
16137299 TCTTCGATCTACTTTACGCCAATACATGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* * *
16137343 TCTTCGATCTACTTCACGTCAATACATGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* * * *** * * *
16137387 TCTTCGATCTACTTTACCACCAGTATGGGAAAACAAGATCTGCTA
1 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGTTT
** * * ** *
16137432 TCTTTAATCTACTTCATGTCAATACATGAAGACAAGATCCATTA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* * * *
16137476 TC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTA
1 TCTTC-GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
*
16137520 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* * * *** * *
16137564 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGTTT
* *
16137609 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
*
16137653 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
*
16137697 TCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* * *
16137741 TCTTCGATCTACTTCACACCGATACATGAAGACAAGATCTATTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
*
16137785 TCTTCGATCTACTTCACGCCGATACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* *
16137829 TCCTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGTTTTCGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC-----T-GTTT
* *
16137879 TCTTCGATCTACTTCACGCCGATACATGAAGACAAGATCTATTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* *
16137923 TCTTCAATCTACTTCACTCCAATACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
** *
16137967 TCTTCGATCTACTTCACGCTGATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* * *** *
16138011 TCTTCAATCTACTTCACCACCAATATGGGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGTTT
* *
16138056 TCTTCGATCTACTTCACGCCAATACATGAAGGCAAGATTTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
16138100 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* *
16138144 TCTTCGATCTACTTCACGCCAATGCATGAAGAGAAGATCTGTTTTCGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC-----T-GTTT
*
16138194 TCTTCGATCTACTTCACGCCGATACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* *
16138238 TCTTCGATTTACTTCACGCCAATACATGAAGACAAGATTTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* * **
16138282 TCTTCGATCTACTTCACGACGATACATGAAGACAAGATCTACTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* * * **
16138326 TCTTCAATCTACTTCA--CCACTAGTATGGGAAGACAAGATCTACTT
1 TCTTCGATCTACTTCACGCCAATA-CAT--GAAGACAAGATCTGTTT
*
16138371 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATATGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* *
16138415 TCTTCGATCTACTTCACGCCAATACATGAAGACAATATATGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* *
16138459 TCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCAGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* * * * *
16138503 TTTTTGATCTACTTCACACCGATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* *** **
16138547 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTAATT
1 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGTTT
*
16138592 TCTTCGATCTATTTCACGCCAATACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
*
16138636 TCTTCGATCTACTTCACGCCAATATATGAAGACAAGATCTG
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
16138677 CTGCCTTTCA
Statistics
Matches: 1245, Mismatches: 150, Indels: 56
0.86 0.10 0.04
Matches are distributed among these distances:
42 3 0.00
43 3 0.00
44 933 0.75
45 206 0.17
46 4 0.00
47 14 0.01
49 2 0.00
50 80 0.06
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (44 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
Found at i:16137401 original size:133 final size:132
Alignment explanation
Indices: 16137210--16138678 Score: 1811
Period size: 133 Copynumber: 11.0 Consensus size: 132
16137200 AAGACTTGTA
* * * *
16137210 TCTTCGATCTA-TT-TCGCCAATATATGGGAAGACAATATCTACTTTCTTCGATCTACTTTGC-C
1 TCTTCGATCTACTTCACGCCAATACAT--GAAGACAAGATCTGCTTTCTTCGATCTAC-TT-CAC
* * *
16137272 CCCAATACATAAAGACAAGATCTGTTTTCTTCGATCTACTTTACGCCAATACATGAAGACAAGAT
62 GCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
*
16137337 CTGCTA
127 CTGCTT
* * * *
16137343 TCTTCGATCTACTTCACGTCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTTACCACC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCA-CGCC
* *** * * * ** * *
16137408 AGTATGGGAAAACAAGATCTGCTATCTTTAATCTACTTCATGTCAATACATGAAGACAAGATC--
65 AATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
16137471 CATT
130 C-TT
* * *
16137475 ATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGC
1 -TCTTC-GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGC
* * * * ***
16137539 CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATC
64 CAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATC
*
16137604 TGCTA
128 TGCTT
*
16137609 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA
* * *
16137674 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGT
66 ATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
16137739 TT
131 TT
* * ** *
16137741 TCTTCGATCTACTTCACACCGATACATGAAGACAAGATCTATTTTCTTCGATCTACTTCACGCCG
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA
* *
16137806 ATACATGAAGACAAGATCTGTTTTCCTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGT
66 ATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG-
16137871 TTTCGTTT
130 ---C--TT
* ** * *
16137879 TCTTCGATCTACTTCACGCCGATACATGAAGACAAGATCTATTTTCTTCAATCTACTTCACTCCA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA
**
16137944 ATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCTGATACATGAAGACAAGATCTGC
66 ATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
16138009 TT
131 TT
* * ***
16138011 TCTTCAATCTACTTCACCACCAATATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCC
1 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCC
* *
16138076 AATACATGAAGGCAAGATTTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
65 AATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
*
16138141 TTT
130 CTT
* *
16138144 TCTTCGATCTACTTCACGCCAATGCATGAAGAGAAGATCTGTTTTCGTTTTCTTCGATCTACTTC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG----C--TTTCTTCGATCTACTTC
* *
16138209 ACGCCGATACATGAAGACAAGATCTGTTTTCTTCGATTTACTTCACGCCAATACATGAAGACAAG
60 ACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAG
* *
16138274 ATTTGTTT
125 ATCTGCTT
* * * *
16138282 TCTTCGATCTACTTCACGACGATACATGAAGACAAGATCTACTTTCTTCAATCTACTTCA--CCA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA
* * ** *
16138345 CTAGTATGGGAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATA
66 ATA-CAT--GAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
*
16138410 TGTTT
128 TGCTT
* * *
16138415 TCTTCGATCTACTTCACGCCAATACATGAAGACAATATATGTTTTCTTCGATCTACTTCACGCCA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA
* * * * * *
16138480 ATACATGAAGATAAGATCAGTTTTTTTTGATCTACTTCACACCGATACATGAAGACAAGATCTGC
66 ATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
16138545 TT
131 TT
* *** ** *
16138547 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTAATTTCTTCGATCTATTTCACGCC
1 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCC
*
16138612 AATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATATATGAAGACAAGATCTG
65 AATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
16138677 CT
130 CT
16138679 GCCTTTCAAC
Statistics
Matches: 1161, Mismatches: 145, Indels: 60
0.85 0.11 0.04
Matches are distributed among these distances:
130 4 0.00
131 3 0.00
132 300 0.26
133 585 0.50
134 9 0.01
135 15 0.01
136 1 0.00
138 244 0.21
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (132 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA
ATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
TT
Found at i:16137504 original size:177 final size:175
Alignment explanation
Indices: 16137237--16138676 Score: 1765
Period size: 177 Copynumber: 8.1 Consensus size: 175
16137227 CAATATATGG
* ** * *
16137237 GAAGACAATATCTACTTTCTTCGATCTACTTTGC-CCCCAATACATAAAGACAAGATCTGTTTTC
1 GAAGACAAGATCTGTTTTCTTCGATCTAC-TT-CACGCCAATACATGAAGACAAGATCTG-TTTC
* * *
16137301 TTCGATCTACTTTACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGTCAAT
63 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAAT
* * * * ***
16137366 ACATGAAGACAAGATCTGCTATCTTCGATCTACTTTACCACCAGTATGG
128 ACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCA-CACCAATACAT
* * * ** * * **
16137415 GAAAACAAGATCTGCTATCTTTAATCTACTTCATGTCAATACATGAAGACAAGATCCATTATC-T
1 GAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTT-TCTT
* * *
16137479 CTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATA
65 C-GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATA
* * * ***
16137544 CATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
129 CATGAAGACAAGATCTGTTTTCTTCGATCTACTTC-ACACCAATACAT
* * *
16137592 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG-TTTCTT
*
16137657 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACACCAATAC
65 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATAC
*
16137722 ATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACACCGATACAT
130 ATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACACCAATACAT
* * *
16137768 GAAGACAAGATCTATTTTCTTCGATCTACTTCACGCCGATACATGAAGACAAGATCTGTTTTCCT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG-TTTCTT
*
16137833 CGATCTACTTCACGCCAATACATGAAGATAAGATCTGTTTTCGTTTTCTTCGATCTACTTCACGC
65 CGATCTACTTCACGCCAATACATGAAGACAAGATCTG----C--TTTCTTCGATCTACTTCACGC
* * * *
16137898 CGATACATGAAGACAAGATCTATTTTCTTCAATCTACTTCACTCCAATACAT
124 CAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACACCAATACAT
**
16137950 GAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCTGATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG-TTTCTT
* * ***
16138015 CAATCTACTTCACCACCAATATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATA
65 CGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATA
* * *
16138080 CATGAAGGCAAGATTTGTTTTCTTCGATCTACTTCACGCCAATACAT
129 CATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACACCAATACAT
* *
16138127 GAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATGCATGAAGAGAAGATCTGTTTTCGT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC-----T-G-
* * *
16138192 TTTCTTCGATCTACTTCACGCCGATACATGAAGACAAGATCTGTTTTCTTCGATTTACTTCACGC
59 TTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGC
* *
16138257 CAATACATGAAGACAAGATTTGTTTTCTTCGATCTACTTCACGA-CGATACAT
124 CAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCAC-ACCAATACAT
** * * * *
16138309 GAAGACAAGATCTACTTTCTTCAATCTACTTCA--CCACTAGTATGGGAAGACAAGATCTACTTT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATA-CAT--GAAGACAAGATCT-GTTT
* *
16138372 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATATGTTTTCTTCGATCTACTTCACGCCAA
62 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAA
* * *
16138437 TACATGAAGACAATATATGTTTTCTTCGATCTACTTCACGCCAATACAT
127 TACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACACCAATACAT
* * * * * *
16138486 GAAGATAAGATCAGTTTTTTTTGATCTACTTCACACCGATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG-TTTCTT
* *** ** *
16138551 CGATCTACTTCACCACCAATATGGGAAGACAAGATCTAATTTCTTCGATCTATTTCACGCCAATA
65 CGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATA
* *
16138616 CATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATATAT
129 CATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACACCAATACAT
16138663 GAAGACAAGATCTG
1 GAAGACAAGATCTG
16138677 CTGCCTTTCA
Statistics
Matches: 1110, Mismatches: 124, Indels: 57
0.86 0.10 0.04
Matches are distributed among these distances:
176 136 0.12
177 626 0.56
178 29 0.03
179 5 0.00
180 5 0.00
181 2 0.00
182 258 0.23
183 49 0.04
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (175 bp):
GAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTCTTC
GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACA
TGAAGACAAGATCTGTTTTCTTCGATCTACTTCACACCAATACAT
Found at i:16144664 original size:18 final size:18
Alignment explanation
Indices: 16144641--16144675 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16144631 TTAAATTGTG
* *
16144641 TATATATGTATTTACAAA
1 TATATATATATATACAAA
16144659 TATATATATATATACAA
1 TATATATATATATACAA
16144676 GCACATACAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (18 bp):
TATATATATATATACAAA
Found at i:16145133 original size:12 final size:12
Alignment explanation
Indices: 16145116--16145153 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
16145106 TATAGAAAAT
16145116 ATGATAATAATA
1 ATGATAATAATA
*
16145128 ATGATAGTAAATA
1 ATGATAAT-AATA
16145141 ATG-TAATAATA
1 ATGATAATAATA
16145152 AT
1 AT
16145154 AGTAATGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 6 0.26
12 10 0.43
13 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (12 bp):
ATGATAATAATA
Found at i:16145139 original size:24 final size:24
Alignment explanation
Indices: 16145107--16145153 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
16145097 ATGTATATGT
16145107 ATAGAAAAT-ATGATAATAATAATG
1 ATAGAAAATAATG-TAATAATAATG
*
16145131 ATAGTAAATAATGTAATAATAAT
1 ATAGAAAATAATGTAATAATAAT
16145154 AGTAATGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (24 bp):
ATAGAAAATAATGTAATAATAATG
Found at i:16148362 original size:25 final size:27
Alignment explanation
Indices: 16148334--16148405 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
16148324 CTTATGAGCA
16148334 TCCCGATTAATGGCTCTC-CA-AAGCT
1 TCCCGATTAATGGCTCTCTCATAAGCT
* * *
16148359 TCCCGATAAAAAGGCTCTCTCATGAGCT
1 TCCCGAT-TAATGGCTCTCTCATAAGCT
**
16148387 TCTTGATTAATGGCTCTCT
1 TCCCGATTAATGGCTCTCT
16148406 AGTGCTTCCC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 7 0.19
26 9 0.24
27 12 0.32
28 9 0.24
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.32
Consensus pattern (27 bp):
TCCCGATTAATGGCTCTCTCATAAGCT
Found at i:16148386 original size:28 final size:27
Alignment explanation
Indices: 16148322--16148388 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 27
16148312 CGTTATTTAG
* * * *
16148322 CTCTTATGAGCATCCCGATTAATGGCT
1 CTCTCATGAGCTTCCCGATAAAAGGCT
*
16148349 CTC-CA-AAGCTTCCCGATAAAAAGGCT
1 CTCTCATGAGCTTCCCGAT-AAAAGGCT
16148375 CTCTCATGAGCTTC
1 CTCTCATGAGCTTC
16148389 TTGATTAATG
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
25 10 0.32
26 10 0.32
27 5 0.16
28 6 0.19
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.28
Consensus pattern (27 bp):
CTCTCATGAGCTTCCCGATAAAAGGCT
Found at i:16148437 original size:24 final size:24
Alignment explanation
Indices: 16148409--16148463 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
16148399 GCTCTCTAGT
*
16148409 GCTTCCCAA-TATTGACTCACATGA
1 GCTTCCCAATTA-CGACTCACATGA
* *
16148433 GCTTCCCGATTACGACTCTCATGA
1 GCTTCCCAATTACGACTCACATGA
16148457 GCTTCCC
1 GCTTCCC
16148464 GTTAGATGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.29
Consensus pattern (24 bp):
GCTTCCCAATTACGACTCACATGA
Found at i:16149012 original size:12 final size:12
Alignment explanation
Indices: 16148997--16149033 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
16148987 CACTATCCAT
*
16148997 CGGCCTAGTACA
1 CGGCCTAGCACA
16149009 CGGCCTAGCACA
1 CGGCCTAGCACA
*
16149021 CAGCCTAGCACA
1 CGGCCTAGCACA
16149033 C
1 C
16149034 AAGCGTGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.27, C:0.41, G:0.22, T:0.11
Consensus pattern (12 bp):
CGGCCTAGCACA
Found at i:16153419 original size:51 final size:51
Alignment explanation
Indices: 16153364--16153587 Score: 340
Period size: 51 Copynumber: 4.3 Consensus size: 51
16153354 GATCACATTT
*
16153364 ATCACTTGTCACTTGTCCCTGATCAGATAAGTGTAGCTAAAGCTACCACTC
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
16153415 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
* *
16153466 ATCGCTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTTATC
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC---TC
* *
16153520 ACTTGTCACTTGTCACTAGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 A----TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
16153575 ATCACTTGTCACT
1 ATCACTTGTCACT
16153588 GATCAGAAGT
Statistics
Matches: 159, Mismatches: 7, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
51 109 0.69
54 3 0.02
55 2 0.01
58 45 0.28
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
Found at i:16153489 original size:102 final size:104
Alignment explanation
Indices: 16153364--16153587 Score: 344
Period size: 109 Copynumber: 2.1 Consensus size: 104
16153354 GATCACATTT
*
16153364 ATCACTTGTCACTTGTCCCTGATCAGATAAGTGTAGCTAAAGCTACCAC-TCA-TCACTTGTCAC
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTCATTCACTTGTCAC
*
16153427 TTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
66 TAGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
* *
16153466 ATCGCTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTGTCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC-T-TCA--T-TCACTT
*
16153531 GTCACTAGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
61 GTCACTAGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
16153575 ATCACTTGTCACT
1 ATCACTTGTCACT
16153588 GATCAGAAGT
Statistics
Matches: 109, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
102 46 0.42
105 3 0.03
109 60 0.55
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (104 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTCATTCACTTGTCAC
TAGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
Found at i:16166990 original size:40 final size:40
Alignment explanation
Indices: 16166930--16167434 Score: 836
Period size: 40 Copynumber: 12.6 Consensus size: 40
16166920 CAAGCTCAAT
* * * * *
16166930 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
16166970 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
*
16167010 TGCCTTCGGGTCTTAGCCTGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
16167050 CGCCGTT-GGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCC-TTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
16167090 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
16167130 TGCCTTCGGGTCTTATCCCGGATATATCAAATCGGC-CAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTC-GCACAAA
16167170 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
16167210 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
16167250 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
16167290 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
16167330 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
16167370 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
16167410 TGCCTTCAGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
16167435 CATTCAAATG
Statistics
Matches: 439, Mismatches: 20, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
39 6 0.01
40 428 0.97
41 5 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:16174499 original size:20 final size:21
Alignment explanation
Indices: 16174462--16174500 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16174452 TTAATTTTTC
* *
16174462 TATTTTTAATGATTATTAATT
1 TATTTTTAATAATAATTAATT
16174483 TATTTTTAA-AATAATTAA
1 TATTTTTAATAATAATTAA
16174501 ACCGTGGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (21 bp):
TATTTTTAATAATAATTAATT
Found at i:16176300 original size:19 final size:18
Alignment explanation
Indices: 16176262--16176300 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
16176252 ATTAAAAATT
*
16176262 ATATAAAAAAATAATTTG
1 ATATAAAAAAATAATATG
*
16176280 ATATAAATAAAATAGTATG
1 ATATAAA-AAAATAATATG
16176299 AT
1 AT
16176301 TTTTGAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (18 bp):
ATATAAAAAAATAATATG
Found at i:16178850 original size:11 final size:12
Alignment explanation
Indices: 16178834--16179012 Score: 55
Period size: 11 Copynumber: 15.3 Consensus size: 12
16178824 CTTAATCACT
16178834 TTAATATTAA-A
1 TTAATATTAATA
16178845 TTAATA-TAATA
1 TTAATATTAATA
*
16178856 TAAATATTAGATA
1 TTAATATTA-ATA
*
16178869 -AAAT-TTAATA
1 TTAATATTAATA
16178879 TTAA-ATCT--TA
1 TTAATAT-TAATA
16178889 TTAA-ATTAATA
1 TTAATATTAATA
* * *
16178900 -GAATATTTATC
1 TTAATATTAATA
* * *
16178911 TATAAGATAAACA
1 T-TAATATTAATA
16178924 TTAA-ATTAA-A
1 TTAATATTAATA
*
16178934 TTTAATATTAAGA
1 -TTAATATTAATA
16178947 -TAATCACTCTAATA
1 TTAAT-A-T-TAATA
16178961 TTAA-ATTAATAAA
1 TTAATATTAAT--A
* *
16178974 ATACTATTAATA
1 TTAATATTAATA
*
16178986 TAAATATTAA-A
1 TTAATATTAATA
16178997 TTAA-ATTAAATA
1 TTAATATT-AATA
16179009 TTAA
1 TTAA
16179013 ATCTATTAAA
Statistics
Matches: 126, Mismatches: 19, Indels: 45
0.66 0.10 0.24
Matches are distributed among these distances:
9 1 0.01
10 20 0.16
11 47 0.37
12 30 0.24
13 15 0.12
14 10 0.08
15 3 0.02
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (12 bp):
TTAATATTAATA
Found at i:16179006 original size:17 final size:17
Alignment explanation
Indices: 16178918--16179014 Score: 62
Period size: 17 Copynumber: 5.7 Consensus size: 17
16178908 ATCTATAAGA
*
16178918 TAAACATTAAATTAAAT
1 TAAATATTAAATTAAAT
*
16178935 TTAATATTAAGA-TAATCACT
1 TAAATATTAA-ATTAA--A-T
16178955 CT-AATATTAAATT-AAT
1 -TAAATATTAAATTAAAT
* *
16178971 AAAATACT--ATT-AAT
1 TAAATATTAAATTAAAT
16178985 ATAAATATTAAATTAAAT
1 -TAAATATTAAATTAAAT
16179003 TAAATATTAAAT
1 TAAATATTAAAT
16179015 CTATTAAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
14 6 0.10
15 6 0.10
16 6 0.10
17 27 0.43
18 4 0.06
19 3 0.05
20 10 0.16
21 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (17 bp):
TAAATATTAAATTAAAT
Found at i:16179024 original size:17 final size:16
Alignment explanation
Indices: 16178957--16179028 Score: 69
Period size: 17 Copynumber: 4.4 Consensus size: 16
16178947 TAATCACTCT
*
16178957 AATATTAAATTAATAA
1 AATATTAAATTAATTA
*
16178973 AATACT--ATTAATATA
1 AATATTAAATTAAT-TA
16178988 AATATTAAATTAAATTA
1 AATATTAAATT-AATTA
16179005 AATATTAAATCT-ATTAA
1 AATATTAAAT-TAATT-A
16179022 AATATTA
1 AATATTA
16179029 CTATTATTGG
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
14 6 0.13
15 6 0.13
16 8 0.17
17 23 0.49
18 4 0.09
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
AATATTAAATTAATTA
Found at i:16183429 original size:97 final size:97
Alignment explanation
Indices: 16183258--16183454 Score: 315
Period size: 97 Copynumber: 2.0 Consensus size: 97
16183248 ATCAGACACA
* * *
16183258 ATAACATGTTCAGATATCACATGTCCTCATCCAACACAGCAACACAGAAATGAATCATCAAAATT
1 ATAACATATTCAAATATCACATGTCCTCATCCAAAACAGCAACACAGAAATGAATCATCAAAATT
*
16183323 AACAAAGCATGGATTATACCTGAATAAATCAC
66 AACAAAGCATGGATCATACCTGAATAAATCAC
*
16183355 ATAACATATTCAAATATCACATGT-CTACATCCAAAATAGCAACACAGAAATGAATCATCAAAAT
1 ATAACATATTCAAATATCACATGTCCT-CATCCAAAACAGCAACACAGAAATGAATCATCAAAAT
* *
16183419 TAACAGAGCATGGATCCTACCTGAATAAATCAC
65 TAACAAAGCATGGATCATACCTGAATAAATCAC
16183452 ATA
1 ATA
16183455 CCTTAAACAT
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
96 2 0.02
97 90 0.98
ACGTcount: A:0.46, C:0.22, G:0.10, T:0.23
Consensus pattern (97 bp):
ATAACATATTCAAATATCACATGTCCTCATCCAAAACAGCAACACAGAAATGAATCATCAAAATT
AACAAAGCATGGATCATACCTGAATAAATCAC
Found at i:16195038 original size:73 final size:74
Alignment explanation
Indices: 16194961--16195108 Score: 280
Period size: 74 Copynumber: 2.0 Consensus size: 74
16194951 TGGCATGACC
*
16194961 ATCATGCTGCCAACATTTTTTTTA-TTTTTTAAAATTATTTTCAGGCTTAATAACTAAATTTGTC
1 ATCATGCTGCCAACATTTTTTTTATTTTTTTAAAATTATTTTCAGACTTAATAACTAAATTTGTC
16195025 AAAAATTAA
66 AAAAATTAA
16195034 ATCATGCTGCCAACATTTTTTTTATTTTTTTAAAATTATTTTCAGACTTAATAACTAAATTTGTC
1 ATCATGCTGCCAACATTTTTTTTATTTTTTTAAAATTATTTTCAGACTTAATAACTAAATTTGTC
16195099 AAAAATTAA
66 AAAAATTAA
16195108 A
1 A
16195109 AAACAAAATC
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
73 24 0.33
74 49 0.67
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (74 bp):
ATCATGCTGCCAACATTTTTTTTATTTTTTTAAAATTATTTTCAGACTTAATAACTAAATTTGTC
AAAAATTAA
Found at i:16200416 original size:14 final size:13
Alignment explanation
Indices: 16200386--16200423 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
16200376 ATGTATGTAC
*
16200386 AAAAAA-GAAGAT
1 AAAAAACGAAAAT
16200398 GAAAAAACGAAAAT
1 -AAAAAACGAAAAT
16200412 AAAAAACGAAAA
1 AAAAAACGAAAA
16200424 GAATAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.76, C:0.05, G:0.13, T:0.05
Consensus pattern (13 bp):
AAAAAACGAAAAT
Found at i:16201136 original size:50 final size:49
Alignment explanation
Indices: 16201080--16201538 Score: 184
Period size: 49 Copynumber: 9.6 Consensus size: 49
16201070 CGCCAATGAT
* *
16201080 GTGAGATTCGCTGTTGTAGCTTCAATCTATTTGACTGCAATGTTGGGGAA
1 GTGAGATTCGCCGTTGTAGCTTCAATCT-TTTAACTGCAATGTTGGGGAA
* * * ** * ** **
16201130 GCGAGATTCGCCATCGTAGCTTCAATCTGTTCCACTACACCG-TAAGGAA
1 GTGAGATTCGCCGTTGTAGCTTCAATCT-TTTAACTGCAATGTTGGGGAA
* * * * *
16201179 ATGAGATTCGCCGTTATGGCTTCAATCTTTTAATTGCAATGTCGGGGAA
1 GTGAGATTCGCCGTTGTAGCTTCAATCTTTTAACTGCAATGTTGGGGAA
* *** *
16201228 GTGAGACTT-GCTGTTGTAGCTTCAATCTGTTGCGCTGC-ATCGCCT--GGAA
1 GTGAGA-TTCGCCGTTGTAGCTTCAATCT-TTTAACTGCAAT-G-TTGGGGAA
* * * *
16201277 GTAAGATTCGCCGTTGTGGCTTCGATC---TATC-GCAA---TGGGGAA
1 GTGAGATTCGCCGTTGTAGCTTCAATCTTTTAACTGCAATGTTGGGGAA
* *** *****
16201319 GTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGC-ATCACCTGGAA
1 GTGAGATTCGCCGTTGTAGCTTCAATCT-TTTAACTGCAATGTTGGGGAA
* * * * *
16201368 ATAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAA---TGGGGAA
1 GTGAGATTCGCCGTTGTAGCTTCAATCTTTT-AACTGCAATGTTGGGGAA
* * *** ***** *
16201415 GTGAGACTCGCCGTTGTAGCTTCAATATGTTCCGCTGC-ATCCCCTGAAA
1 GTGAGATTCGCCGTTGTAGCTTCAATCT-TTTAACTGCAATGTTGGGGAA
* * * *
16201464 GTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAA---TGGGGAA
1 GTGAGATTCGCCGTTGTAGCTTCAATCTTTT-AACTGCAATGTTGGGGAA
*
16201511 GTGAGACTCGCCGTTGTAGCTTCAATCT
1 GTGAGATTCGCCGTTGTAGCTTCAATCT
16201539 GTTCCGCTGC
Statistics
Matches: 287, Mismatches: 97, Indels: 53
0.66 0.22 0.12
Matches are distributed among these distances:
40 1 0.00
42 27 0.09
44 2 0.01
45 2 0.01
46 3 0.01
47 58 0.20
48 15 0.05
49 137 0.48
50 42 0.15
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (49 bp):
GTGAGATTCGCCGTTGTAGCTTCAATCTTTTAACTGCAATGTTGGGGAA
Found at i:16201447 original size:96 final size:96
Alignment explanation
Indices: 16201123--16201600 Score: 645
Period size: 96 Copynumber: 5.0 Consensus size: 96
16201113 ACTGCAATGT
* * * * * *
16201123 TGGGGAAGCGAGATTCGCCATCGTAGCTTCAATCTGTTCCACT--A-CACCGTAAGGAAATGAGA
1 TGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACC-T--GGAAATAAGA
* *
16201185 TTCGCCGTTATGGCTTCAATCTTTT-AATTGCAA
63 TTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAA
* * * * *
16201218 TGTCGGGGAAGTGAGACTTGCTGTTGTAGCTTCAATCTGTTGCGCTGCATCGCCTGGAAGTAAGA
1 --T-GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGGAAATAAGA
*
16201283 TTCGCCGTTGTGGCTTCGATC---T--ATCGCAA
63 TTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAA
16201312 TGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGGAAATAAGATTC
1 TGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGGAAATAAGATTC
16201377 GCCGTTGTGGCTTCGATCTTTTAAATTGCAA
66 GCCGTTGTGGCTTCGATCTTTTAAATTGCAA
* *
16201408 TGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATATGTTCCGCTGCATCCCCT-GAAAGTAAGATT
1 TGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGGAAA-TAAGATT
16201472 CGCCGTTGTGGCTTCGATCTTTTAAATTGCAA
65 CGCCGTTGTGGCTTCGATCTTTTAAATTGCAA
*
16201504 TGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT-GAAAGTAAGATT
1 TGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGGAAA-TAAGATT
*
16201568 CGCCATTGTGGCTTCGATCTTTTAAATTGCAA
65 CGCCGTTGTGGCTTCGATCTTTTAAATTGCAA
16201600 T
1 T
16201601 CTATGGTTAC
Statistics
Matches: 346, Mismatches: 25, Indels: 21
0.88 0.06 0.05
Matches are distributed among these distances:
91 77 0.22
92 1 0.00
94 7 0.02
95 5 0.01
96 189 0.55
97 1 0.00
98 61 0.18
100 2 0.01
101 3 0.01
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (96 bp):
TGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGGAAATAAGATTC
GCCGTTGTGGCTTCGATCTTTTAAATTGCAA
Found at i:16202861 original size:14 final size:14
Alignment explanation
Indices: 16202842--16202869 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16202832 TTGGCCTCTC
16202842 CCCTTTTTTTTAAG
1 CCCTTTTTTTTAAG
16202856 CCCTTTTTTTTAAG
1 CCCTTTTTTTTAAG
16202870 TGAAATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
CCCTTTTTTTTAAG
Found at i:16205572 original size:40 final size:40
Alignment explanation
Indices: 16205517--16205597 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
16205507 ATGCGAAGAC
16205517 ATCTTTGAACTCTCGAAGCAATTCAATGAGGTCTTGTTTT
1 ATCTTTGAACTCTCGAAGCAATTCAATGAGGTCTTGTTTT
16205557 ATCTTTGAACTCTCGAAGCAATTCAATGAGGTCTTGTTTT
1 ATCTTTGAACTCTCGAAGCAATTCAATGAGGTCTTGTTTT
16205597 A
1 A
16205598 CTTCTTCAGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (40 bp):
ATCTTTGAACTCTCGAAGCAATTCAATGAGGTCTTGTTTT
Found at i:16213424 original size:15 final size:15
Alignment explanation
Indices: 16213401--16213438 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
16213391 GAAATGTAGA
16213401 AACAATAATAATAAT
1 AACAATAATAATAAT
*
16213416 AACATTAATAATAAT
1 AACAATAATAATAAT
*
16213431 AGCAATAA
1 AACAATAA
16213439 CACAATGAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.63, C:0.08, G:0.03, T:0.26
Consensus pattern (15 bp):
AACAATAATAATAAT
Found at i:16214205 original size:14 final size:13
Alignment explanation
Indices: 16214175--16214212 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
16214165 ATGTATGTAC
*
16214175 AAAAAA-GAAGAT
1 AAAAAACGAAAAT
16214187 GAAAAAACGAAAAT
1 -AAAAAACGAAAAT
16214201 AAAAAACGAAAA
1 AAAAAACGAAAA
16214213 GAATAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.76, C:0.05, G:0.13, T:0.05
Consensus pattern (13 bp):
AAAAAACGAAAAT
Done.