Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 62 of 141
Found at i:18382686 original size:22 final size:20
Alignment explanation
Indices: 18382511--18383410 Score: 300
Period size: 21 Copynumber: 42.9 Consensus size: 20
18382501 TTAAACCCCA
18382511 AACCTAAAAACCCTACACAC-T
1 AACCTAAAAACCCTA-AC-CTT
* *
18382532 AAACTTAAAACCCTAAACCCTT
1 AACCTAAAAACCCT-AA-CCTT
*
18382554 CACCT-AAAACCCTAACCCTT
1 AACCTAAAAACCCTAA-CCTT
* *
18382574 AACCT--AAAGCC---CCTA
1 AACCTAAAAACCCTAACCTT
* * *
18382589 AACCAAAAAACACTAACCCTC
1 AACCTAAAAACCCTAA-CCTT
* *
18382610 AACCTAAAAATCTTAAACCCTT
1 AACCTAAAAACCCT-AA-CCTT
*
18382632 AACCTTAAAACCCT-A----
1 AACCTAAAAACCCTAACCTT
* * *
18382647 AACCAAAAAACACTAACCATC
1 AACCTAAAAACCCTAACC-TT
18382668 AACCTAAAAACCCTAAACCCTT
1 AACCTAAAAACCCT-AA-CCTT
18382690 AACCTAAAAACCCTAACCTTT
1 AACCTAAAAACCCTAACC-TT
* *
18382711 AACTTAAAAACCATTAACTCTT
1 AACCTAAAAACC-CTAAC-CTT
** *
18382733 AACCTAAATTCCATAAACTCTT
1 AACCTAAAAACCCT-AAC-CTT
*
18382755 AACCTAAAAACCCTAACTCTC
1 AACCTAAAAACCCTAAC-CTT
18382776 AACCTAAAAACCCTAAACCTTT
1 AACCTAAAAACCCT-AACC-TT
* * *
18382798 AACTTAAATTATATAAACCATAAACCCTA
1 AAC-----CTA-A-AAACCCT-AA-CCTT
** *
18382827 AATCCTAAATTCCATAAATCCTT
1 AA-CCTAAAAACCCT-AA-CCTT
18382850 AACCT-AAAACCCTAACCCTT
1 AACCTAAAAACCCTAA-CCTT
*
18382870 AACCT-AAACCCCATAAACCCTT
1 AACCTAAAAACCC-T-AA-CCTT
* *
18382892 AACCT-AAGACCGTAAACCTTT
1 AACCTAAAAACCCT-AACC-TT
* *
18382913 AACATAAAAACCCTAATCCTA
1 AACCTAAAAACCCTAA-CCTT
*
18382934 AACC-ATAAAACCATAAACCCTT
1 AACCTA-AAAACCCT-AA-CCTT
** *
18382956 AACCTAAATTCCATAAACCCTT
1 AACCTAAAAACCCT-AA-CCTT
*
18382978 AACCT-AAAACCTTAAACTCTT
1 AACCTAAAAACCCT-AAC-CTT
* *
18382999 AACAT-AAAACCTTAAACCCTT
1 AACCTAAAAACCCT-AA-CCTT
*
18383020 AACCT-AAAACCCTAACTCTA
1 AACCTAAAAACCCTAAC-CTT
* * *
18383040 AACTTAAAAACCTTAACCCTC
1 AACCTAAAAACCCTAA-CCTT
* * *
18383061 AATC-GAAAACACTAAACCTTT
1 AACCTAAAAACCCT-AACC-TT
** *
18383082 AACCTAAATTCCATAAACCCTT
1 AACCTAAAAACCCT-AA-CCTT
18383104 AACCCT--AAACCCTAACCATT
1 AA-CCTAAAAACCCTAACC-TT
* *
18383124 AACCTAAAAACCTTAAACTT
1 AACCTAAAAACCCTAACCTT
*
18383144 ----T--AAACCCTAAACTTT
1 AACCTAAAAACCCT-AACCTT
*
18383159 AAACTTAAAAACCCTAAACCCTT
1 -AACCTAAAAACCCT-AA-CCTT
*
18383182 AACCTAAAAACACTAACCTTT
1 AACCTAAAAACCCTAACC-TT
*
18383203 AACCTAAAAACCTTAACCTT
1 AACCTAAAAACCCTAACCTT
18383223 GAACCCT-AAAACCCTAAACCATT
1 -AA-CCTAAAAACCCT-AACC-TT
** * *
18383246 AACCTAAATTCCATAAACTTTT
1 AACCTAAAAACCCT-AAC-CTT
*
18383268 AACCT--AAACCCTAAACCCTA
1 AACCTAAAAACCCT-AA-CCTT
18383288 AACCTAAAAACCCTAACCTTT
1 AACCTAAAAACCCTAACC-TT
*
18383309 AA-CTTAAAACCCTAACCTT
1 AACCTAAAAACCCTAACCTT
* *
18383328 AAACC-ATAAAACTCTAAACCCTA
1 -AACCTA-AAAACCCT-AA-CCTT
* *
18383351 AACCTAAAAACTCTAACCCTC
1 AACCTAAAAACCCTAA-CCTT
18383372 AACCTAAAAACCCTAAACCCTT
1 AACCTAAAAACCCT-AA-CCTT
*
18383394 AACATAAAAACCCTAAC
1 AACCTAAAAACCCTAAC
18383411 ATAAAGGCTT
Statistics
Matches: 682, Mismatches: 116, Indels: 163
0.71 0.12 0.17
Matches are distributed among these distances:
14 6 0.01
15 22 0.03
16 2 0.00
17 4 0.01
19 13 0.02
20 96 0.14
21 252 0.37
22 235 0.34
23 31 0.05
24 1 0.00
25 2 0.00
27 2 0.00
28 1 0.00
29 12 0.02
30 3 0.00
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.22
Consensus pattern (20 bp):
AACCTAAAAACCCTAACCTT
Found at i:18382887 original size:94 final size:94
Alignment explanation
Indices: 18382718--18382894 Score: 243
Period size: 94 Copynumber: 1.9 Consensus size: 94
18382708 TTTAACTTAA
* * * *
18382718 AAACCATTAACTCTTAACCTAAATTCCATAAACTCTTAACCTAAAAACCCTAACTCTCAACCTAA
1 AAACCATAAACCCTAAACCTAAATTCCATAAACTCTTAACCTAAAAACCCTAACCCTCAACCTAA
*
18382783 AAACCCTAAACCTTTAACTTAAATTATAT
66 AAACCCTAAACCCTTAACTTAAATTATAT
*
18382812 AAACCATAAACCCTAAATCCTAAATTCCATAAA-TCCTTAACCT-AAAACCCTAACCCTTAACCT
1 AAACCATAAACCCTAAA-CCTAAATTCCATAAACT-CTTAACCTAAAAACCCTAACCCTCAACCT
*
18382875 -AAACCCCATAAACCCTTAAC
64 AAAAACCC-TAAACCCTTAAC
18382895 CTAAGACCGT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
93 6 0.08
94 44 0.60
95 23 0.32
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (94 bp):
AAACCATAAACCCTAAACCTAAATTCCATAAACTCTTAACCTAAAAACCCTAACCCTCAACCTAA
AAACCCTAAACCCTTAACTTAAATTATAT
Found at i:18383135 original size:35 final size:36
Alignment explanation
Indices: 18383096--18383189 Score: 95
Period size: 35 Copynumber: 2.7 Consensus size: 36
18383086 TAAATTCCAT
*
18383096 AAACCCTTAACCCTAAACCCTAACCATT-AACCTAA
1 AAACCCTTAACCCTAAACCCTAAACATTAAACCTAA
** * *
18383131 AAA-CCTTAAACTTTAAACCCTAAACTTTAAACTTAA
1 AAACCCTT-AACCCTAAACCCTAAACATTAAACCTAA
* *
18383167 AAACCCTAAACCCTTAA-CCTAAA
1 AAACCCTTAACCCTAAACCCTAAA
18383190 AACACTAACC
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
34 4 0.09
35 25 0.53
36 15 0.32
37 3 0.06
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (36 bp):
AAACCCTTAACCCTAAACCCTAAACATTAAACCTAA
Found at i:18383146 original size:21 final size:22
Alignment explanation
Indices: 18382668--18383405 Score: 363
Period size: 21 Copynumber: 34.5 Consensus size: 22
18382658 ACTAACCATC
*
18382668 AACCTAAAAACCCTAAACCCTT
1 AACCTAAAAACCATAAACCCTT
* *
18382690 AACCTAAAAACCCT-AACCTTT
1 AACCTAAAAACCATAAACCCTT
* * *
18382711 AACTTAAAAACCATTAACTCTT
1 AACCTAAAAACCATAAACCCTT
** *
18382733 AACCTAAATTCCATAAACTCTT
1 AACCTAAAAACCATAAACCCTT
* * *
18382755 AACCTAAAAACCCT-AACTCTC
1 AACCTAAAAACCATAAACCCTT
*
18382776 AACCTAAAAACCCTAAACCTTTAACTT
1 AACCTAAAAACCATAAACC-----CTT
** *
18382803 AAATTATATAAACCATAAACCCTA
1 AACCTA-A-AAACCATAAACCCTT
** *
18382827 AATCCTAAATTCCATAAATCCTT
1 AA-CCTAAAAACCATAAACCCTT
*
18382850 AACCT-AAAACCCT-AACCCTT
1 AACCTAAAAACCATAAACCCTT
**
18382870 AACCTAAACCCCATAAACCCTT
1 AACCTAAAAACCATAAACCCTT
* * *
18382892 AACCT-AAGACCGTAAACCTTT
1 AACCTAAAAACCATAAACCCTT
* * * *
18382913 AACATAAAAACCCT-AATCCTA
1 AACCTAAAAACCATAAACCCTT
18382934 AACC-ATAAAACCATAAACCCTT
1 AACCTA-AAAACCATAAACCCTT
**
18382956 AACCTAAATTCCATAAACCCTT
1 AACCTAAAAACCATAAACCCTT
* *
18382978 AACCT-AAAACCTTAAACTCTT
1 AACCTAAAAACCATAAACCCTT
* *
18382999 AACAT-AAAACCTTAAACCCTT
1 AACCTAAAAACCATAAACCCTT
* * *
18383020 AACCT-AAAACCCT-AACTCTA
1 AACCTAAAAACCATAAACCCTT
* * *
18383040 AACTTAAAAACC-TTAACCCTC
1 AACCTAAAAACCATAAACCCTT
* * *
18383061 AATC-GAAAA-CACTAAACCTTT
1 AACCTAAAAACCA-TAAACCCTT
**
18383082 AACCTAAATTCCATAAACCCTT
1 AACCTAAAAACCATAAACCCTT
* *
18383104 AACCCT--AAACCCT-AACCATT
1 AA-CCTAAAAACCATAAACCCTT
* *
18383124 AACCTAAAAACCTTAAA-CTTT
1 AACCTAAAAACCATAAACCCTT
**
18383145 AAACCCT--AAACTTTAAA--C-T
1 -AA-CCTAAAAACCATAAACCCTT
*
18383164 ----TAAAAACCCTAAACCCTT
1 AACCTAAAAACCATAAACCCTT
*
18383182 AACCTAAAAA-CACT-AACCTTT
1 AACCTAAAAACCA-TAAACCCTT
*
18383203 AACCTAAAAACC-TTAA-CCTT
1 AACCTAAAAACCATAAACCCTT
* *
18383223 GAACCCT-AAAACCCTAAACCATT
1 -AA-CCTAAAAACCATAAACCCTT
** **
18383246 AACCTAAATTCCATAAACTTTT
1 AACCTAAAAACCATAAACCCTT
* *
18383268 AACCT--AAACCCTAAACCCTA
1 AACCTAAAAACCATAAACCCTT
* *
18383288 AACCTAAAAACCCT-AACCTTT
1 AACCTAAAAACCATAAACCCTT
* *
18383309 AA-CTTAAAACCCT-AA-CCTT
1 AACCTAAAAACCATAAACCCTT
*
18383328 AAACC-ATAAAACTC-TAAACCCTA
1 -AACCTA-AAAAC-CATAAACCCTT
*
18383351 AACCTAAAAACTC-T-AACCCTC
1 AACCTAAAAAC-CATAAACCCTT
*
18383372 AACCTAAAAACCCTAAACCCTT
1 AACCTAAAAACCATAAACCCTT
*
18383394 AACATAAAAACC
1 AACCTAAAAACC
18383406 CTAACATAAA
Statistics
Matches: 553, Mismatches: 107, Indels: 112
0.72 0.14 0.15
Matches are distributed among these distances:
13 1 0.00
15 8 0.01
17 1 0.00
18 1 0.00
19 8 0.01
20 67 0.12
21 226 0.41
22 187 0.34
23 29 0.05
24 5 0.01
25 2 0.00
27 6 0.01
28 1 0.00
29 11 0.02
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.23
Consensus pattern (22 bp):
AACCTAAAAACCATAAACCCTT
Found at i:18383293 original size:6 final size:7
Alignment explanation
Indices: 18382811--18383358 Score: 59
Period size: 7 Copynumber: 77.6 Consensus size: 7
18382801 TTAAATTATA
*
18382811 TAAACCA
1 TAAACCC
18382818 TAAACCC
1 TAAACCC
*
18382825 TAAATCC
1 TAAACCC
*
18382832 TAAATTCCA
1 TAAA--CCC
*
18382841 TAAATCC
1 TAAACCC
*
18382848 TTAA-CC
1 TAAACCC
18382854 TAAAACCC
1 T-AAACCC
18382862 T-AACCC
1 TAAACCC
*
18382868 TTAA-CC
1 TAAACCC
18382874 TAAACCCC
1 TAAA-CCC
18382882 ATAAACCC
1 -TAAACCC
*
18382890 TTAA-CC
1 TAAACCC
*
18382896 TAAGACCG
1 TAA-ACCC
*
18382904 TAAACCT
1 TAAACCC
* *
18382911 TTAA-CA
1 TAAACCC
18382917 TAAAAACCC
1 T--AAACCC
*
18382926 T-AATCC
1 TAAACCC
*
18382932 TAAACCA
1 TAAACCC
*
18382939 TAAAACCA
1 T-AAACCC
18382947 TAAACCC
1 TAAACCC
*
18382954 TTAA-CC
1 TAAACCC
*
18382960 TAAATTCCA
1 TAAA--CCC
18382969 TAAACCC
1 TAAACCC
*
18382976 TTAA-CC
1 TAAACCC
*
18382982 TAAAACCT
1 T-AAACCC
*
18382990 TAAACTC
1 TAAACCC
* *
18382997 TTAA-CA
1 TAAACCC
*
18383003 TAAAACCT
1 T-AAACCC
18383011 TAAACCC
1 TAAACCC
*
18383018 TTAA-CC
1 TAAACCC
18383024 TAAAACCC
1 T-AAACCC
*
18383032 T-AACTC
1 TAAACCC
*
18383038 TAAA-CT
1 TAAACCC
*
18383044 TAAAAACC
1 T-AAACCC
*
18383052 TTAACCC
1 TAAACCC
* * *
18383059 TCAATCG
1 TAAACCC
* *
18383066 AAAACAC
1 TAAACCC
*
18383073 TAAACCT
1 TAAACCC
*
18383080 TTAA-CC
1 TAAACCC
*
18383086 TAAATTCCA
1 TAAA--CCC
18383095 TAAACCC
1 TAAACCC
*
18383102 TTAACCC
1 TAAACCC
18383109 TAAACCC
1 TAAACCC
*
18383116 T-AACCA
1 TAAACCC
*
18383122 TTAA-CC
1 TAAACCC
*
18383128 TAAAAACCT
1 T--AAACCC
**
18383137 TAAACTT
1 TAAACCC
18383144 TAAACCC
1 TAAACCC
**
18383151 TAAACTT
1 TAAACCC
*
18383158 TAAA-CT
1 TAAACCC
18383164 TAAAAACCC
1 T--AAACCC
18383173 TAAACCC
1 TAAACCC
*
18383180 TTAA-CC
1 TAAACCC
*
18383186 TAAAAACAC
1 T--AAACCC
*
18383195 T-AACCT
1 TAAACCC
*
18383201 TTAA-CC
1 TAAACCC
*
18383207 TAAAAACC
1 T-AAACCC
* *
18383215 TTAACCT
1 TAAACCC
*
18383222 TGAACCC
1 TAAACCC
18383229 TAAAACCC
1 T-AAACCC
*
18383237 TAAACCA
1 TAAACCC
*
18383244 TTAA-CC
1 TAAACCC
*
18383250 TAAATTCCA
1 TAAA--CCC
**
18383259 TAAACTT
1 TAAACCC
*
18383266 TTAA-CC
1 TAAACCC
18383272 TAAACCC
1 TAAACCC
18383279 TAAACCC
1 TAAACCC
18383286 TAAA-CC
1 TAAACCC
18383292 TAAAAACCC
1 T--AAACCC
*
18383301 T-AACCT
1 TAAACCC
* *
18383307 TTAA-CT
1 TAAACCC
18383313 TAAAACCC
1 T-AAACCC
*
18383321 T-AACCT
1 TAAACCC
*
18383327 TAAACCA
1 TAAACCC
*
18383334 TAAAACTC
1 T-AAACCC
18383342 TAAACCC
1 TAAACCC
18383349 TAAA-CC
1 TAAACCC
18383355 TAAA
1 TAAA
18383359 AACTCTAACC
Statistics
Matches: 380, Mismatches: 105, Indels: 113
0.64 0.18 0.19
Matches are distributed among these distances:
6 94 0.25
7 195 0.51
8 56 0.15
9 35 0.09
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.23
Consensus pattern (7 bp):
TAAACCC
Found at i:18383304 original size:106 final size:105
Alignment explanation
Indices: 18383166--18383410 Score: 305
Period size: 106 Copynumber: 2.3 Consensus size: 105
18383156 TTTAAACTTA
* * * *
18383166 AAAACCCTAAACCCTTAACCTAAAAACACTAACCTTTAACCTAAAAACCTTAACCTTGAACCCTA
1 AAAACCCTAAACCCTTAACCTAAAAACCCTAACCTTTAA-CTAAAAACCCTAACCTTAAACCATA
* ** ** *
18383231 AAACCCTAAACCATTAACCTAAATTC-CATAAACTTTTAACCT
65 AAACCCTAAACCATAAACCTAAAAACTC-T-AACCCTCAACCT
* *
18383273 -AAACCCTAAACCCTAAACCTAAAAACCCTAACCTTTAACTTAAAACCCTAACCTTAAACCATAA
1 AAAACCCTAAACCCTTAACCTAAAAACCCTAACCTTTAACTAAAAACCCTAACCTTAAACCATAA
* *
18383337 AACTCTAAACCCTAAACCTAAAAACTCTAACCCTCAACCT
66 AACCCTAAACCATAAACCTAAAAACTCTAACCCTCAACCT
*
18383377 AAAAACCCTAAACCCTTAACATAAAAACCCTAAC
1 -AAAACCCTAAACCCTTAACCTAAAAACCCTAAC
18383411 ATAAAGGCTT
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
104 9 0.08
105 43 0.36
106 67 0.56
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (105 bp):
AAAACCCTAAACCCTTAACCTAAAAACCCTAACCTTTAACTAAAAACCCTAACCTTAAACCATAA
AACCCTAAACCATAAACCTAAAAACTCTAACCCTCAACCT
Found at i:18383412 original size:14 final size:15
Alignment explanation
Indices: 18383386--18383415 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
18383376 TAAAAACCCT
18383386 AAACCCTTAACATAA
1 AAACCCTTAACATAA
18383401 AAACCC-TAACATAA
1 AAACCCTTAACATAA
18383415 A
1 A
18383416 GGCTTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.57, C:0.27, G:0.00, T:0.17
Consensus pattern (15 bp):
AAACCCTTAACATAA
Found at i:18386811 original size:125 final size:124
Alignment explanation
Indices: 18386572--18386936 Score: 484
Period size: 125 Copynumber: 2.9 Consensus size: 124
18386562 CATGGTACTC
* * *
18386572 TAGCAAAAGCGCATCCACGTGGGCGCGATTTCATAAATTCTTCTCATAAAGCAGT-CTGCTAGAA
1 TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCA-TCCTGCTAGAA
* * *
18386636 GCCATTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTCTTTCAGGACCAACTG
65 GCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTT-TTTCAGGACCAACTG
* * ** *
18386697 TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTCAGATCGCATCCTGCTTGAAG
1 TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTAGAAG
* * * *
18386762 CGTTTTTTATACTATTTGCTCAGAAACGTTAACTCGAAATAATTTTTTCAGGACCTATTG
66 CG-ATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTCAGGACCAACTG
* * * *
18386822 TAGCAAAAACGTGTCCACGTA-GGCGCAATTTCACAAATTCTTCTCATAAAGCATCTTAG-TAGA
1 TAGCAAAAGCGCGTCCACG-AGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCT-GCTAGA
*
18386885 ATCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTCAG
64 AGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTCAG
18386937 AACCCGAAAA
Statistics
Matches: 210, Mismatches: 26, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
124 47 0.22
125 123 0.59
126 40 0.19
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (124 bp):
TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTAGAAG
CGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTCAGGACCAACTG
Found at i:18387329 original size:20 final size:20
Alignment explanation
Indices: 18387291--18387348 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
18387281 ATAATGTGTG
* **
18387291 GATTATATTTTTTTCTGATA
1 GATTATATTTTATAATGATA
*
18387311 GATTATATTTTATAATGATT
1 GATTATATTTTATAATGATA
* *
18387331 GATTTTA-ATTATAATGAT
1 GATTATATTTTATAATGAT
18387349 TTTGTTGTAG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 10 0.31
20 22 0.69
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (20 bp):
GATTATATTTTATAATGATA
Found at i:18391026 original size:153 final size:153
Alignment explanation
Indices: 18390591--18391254 Score: 945
Period size: 153 Copynumber: 4.4 Consensus size: 153
18390581 ATTTAGTGTG
* * * *
18390591 TTTTTATTGAAAGTAAT-AAA-TCCGGAAAAAATACAAACAAAGGGCCAAAATAAGGGTTTTTTT
1 TTTTTATTGAAAGTAATAAAATTCAGGAAAAAATACGAACAAATGGCCGAAATAA-GGTTTTTTT
*
18390654 TAAATTTATTTACAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
65 TAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
*
18390719 ATAATAAAATTAGAAAATAGTATA
130 ATAATAAAATTAGAAAATAATATA
* * *
18390743 TTTTTA---AAAGTAATAAAATCCAAGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTT
1 TTTTTATTGAAAGTAATAAAATTC-AGGAAAAAATACGAACAAATGGCCGAAATAAGG-TTTTTT
* * * * *
18390805 TACTAAATTTATTTAAAAAACACAATTAATTAAAACATTTCAAACATAATGTACTAAAATAATTT
64 T--TAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGT
18390870 AAAATAATAAAA-TACGAAAATAATATA
127 AAAATAATAAAATTA-GAAAATAATATA
* *
18390897 TTTTTATTGAAAGTAATAAAATTCGGGAAAAAATACGAATAAATGGCCGAAATAAGGTTTTTTTT
1 TTTTTATTGAAAGTAATAAAATTCAGGAAAAAATACGAACAAATGGCCGAAATAAGGTTTTTTTT
*
18390962 -AATTTATTTAAAAAAACACACTAAATGATTACATTTCAAACATAATGTACTAAAATAATGTAAA
66 AAATTTATTT-AAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
18391026 ATAATAAAATTAGAAAATAATATA
130 ATAATAAAATTAGAAAATAATATA
* * *
18391050 TTTTTATTGAAAGTAATAAAATCCAGGAAAAAGTACGAACAAATGGCAGAAATAAGAGTTTTTTT
1 TTTTTATTGAAAGTAATAAAATTCAGGAAAAAATACGAACAAATGGCCGAAATAAG-GTTTTTTT
*
18391115 T-AATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAA
65 TAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
18391179 ATAATAAAATTAGAAAATAATATA
130 ATAATAAAATTAGAAAATAATATA
* * * *
18391203 -TTTT-TTAAAAGTAATAAAA-TCTGGGAAAAAATACGAACAAATGACCAAAATA
1 TTTTTATTGAAAGTAATAAAATTC-AGGAAAAAATACGAACAAATGGCCGAAATA
18391255 CGAACAATTG
Statistics
Matches: 461, Mismatches: 37, Indels: 29
0.87 0.07 0.06
Matches are distributed among these distances:
149 8 0.02
150 4 0.01
151 42 0.09
152 53 0.11
153 199 0.43
154 105 0.23
155 7 0.02
156 29 0.06
157 14 0.03
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.30
Consensus pattern (153 bp):
TTTTTATTGAAAGTAATAAAATTCAGGAAAAAATACGAACAAATGGCCGAAATAAGGTTTTTTTT
AAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
TAATAAAATTAGAAAATAATATA
Found at i:18394268 original size:19 final size:19
Alignment explanation
Indices: 18394244--18394284 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
18394234 CTCATATACA
18394244 AGAAAAGCAGTCAATAGTC
1 AGAAAAGCAGTCAATAGTC
*
18394263 AGAAAAGCGGTCAATAGTC
1 AGAAAAGCAGTCAATAGTC
18394282 AGA
1 AGA
18394285 CTTAAGCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.46, C:0.15, G:0.24, T:0.15
Consensus pattern (19 bp):
AGAAAAGCAGTCAATAGTC
Found at i:18394803 original size:89 final size:89
Alignment explanation
Indices: 18394698--18394876 Score: 322
Period size: 89 Copynumber: 2.0 Consensus size: 89
18394688 TGCATGATTC
*
18394698 TCAACCAACCCAAATTCTTCTGGAAAAACCAACAACTTCCACTCGATGAGAAAACTAAAAACCCA
1 TCAACCAACCCAAATTCTTCTGGAAAAACCAACAACTTCCACTCGATAAGAAAACTAAAAACCCA
18394763 ATTTGGCAATAATGTTATCCACTT
66 ATTTGGCAATAATGTTATCCACTT
* *
18394787 TCAACCAACCCAAATTCTTCTGGAAAAACCAACAACTTCCACTCGATAAGAAAACTGAAAATCCA
1 TCAACCAACCCAAATTCTTCTGGAAAAACCAACAACTTCCACTCGATAAGAAAACTAAAAACCCA
*
18394852 ATTTGGCAATAATGTTATCTACTT
66 ATTTGGCAATAATGTTATCCACTT
18394876 T
1 T
18394877 TAAGCCACTG
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 86 1.00
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.25
Consensus pattern (89 bp):
TCAACCAACCCAAATTCTTCTGGAAAAACCAACAACTTCCACTCGATAAGAAAACTAAAAACCCA
ATTTGGCAATAATGTTATCCACTT
Found at i:18395565 original size:57 final size:58
Alignment explanation
Indices: 18395470--18395582 Score: 210
Period size: 57 Copynumber: 1.9 Consensus size: 58
18395460 TATAGAGTTT
18395470 GGAGCCATACCTGATAAAAAAAAACCTTCTCAAGAGAAATATTATCGTTGCGAATTAAA
1 GGAGCCATACCTGAT-AAAAAAAACCTTCTCAAGAGAAATATTATCGTTGCGAATTAAA
18395529 GGAGCCATACCTGAT-AAAAAAACCTTCTCAAGAGAAATATTATCGTTGCGAATT
1 GGAGCCATACCTGATAAAAAAAACCTTCTCAAGAGAAATATTATCGTTGCGAATT
18395583 GAATTTGAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
57 39 0.72
59 15 0.28
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.25
Consensus pattern (58 bp):
GGAGCCATACCTGATAAAAAAAACCTTCTCAAGAGAAATATTATCGTTGCGAATTAAA
Found at i:18397507 original size:12 final size:12
Alignment explanation
Indices: 18397490--18397520 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
18397480 GTTTAAATAT
18397490 AAAATTATAAAA
1 AAAATTATAAAA
*
18397502 AAAATTGTAAAA
1 AAAATTATAAAA
18397514 AAAATTA
1 AAAATTA
18397521 ACTCTAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (12 bp):
AAAATTATAAAA
Found at i:18398432 original size:42 final size:42
Alignment explanation
Indices: 18398354--18398435 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
18398344 TTAGACAAGA
* *
18398354 TAAGATTTATTCAAGGAAAGAACAGCTATAATGCAACAAAAT
1 TAAGATTTATTCAAGGAAAGAACAGCAATAACGCAACAAAAT
* ***
18398396 TAAGATTTATTTAAGGAAAGAGTTGCAATAACGCAACAAA
1 TAAGATTTATTCAAGGAAAGAACAGCAATAACGCAACAAA
18398436 TTCTTTATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (42 bp):
TAAGATTTATTCAAGGAAAGAACAGCAATAACGCAACAAAAT
Found at i:18398741 original size:20 final size:22
Alignment explanation
Indices: 18398713--18398755 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
18398703 AAATATAACT
18398713 TTAAGCATATT-TAAA-ACATG
1 TTAAGCATATTATAAACACATG
*
18398733 TTAATCATATTATAAACACATG
1 TTAAGCATATTATAAACACATG
18398755 T
1 T
18398756 GTACTTACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 4 0.20
22 6 0.30
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (22 bp):
TTAAGCATATTATAAACACATG
Found at i:18399488 original size:2 final size:2
Alignment explanation
Indices: 18399481--18399506 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18399471 TGACTAAACT
18399481 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
18399507 CAGACAGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:18403579 original size:24 final size:24
Alignment explanation
Indices: 18403551--18403603 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
18403541 TTTCTAGAAG
*
18403551 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
* *
18403575 ATTTAGCATTTATTAGTATAGTTT
1 ATTTAGCATTTATTAGTATAATAT
18403599 ATTTA
1 ATTTA
18403604 ACTTACTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAATAT
Found at i:18403898 original size:34 final size:34
Alignment explanation
Indices: 18403855--18403924 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
18403845 ATTTGTGTGT
18403855 TTAACTTTTCAATTTCTTCTACTATTTTTACTTG
1 TTAACTTTTCAATTTCTTCTACTATTTTTACTTG
18403889 TTAACTTTTCAATTTCTTCTACTATTTTTACTTG
1 TTAACTTTTCAATTTCTTCTACTATTTTTACTTG
18403923 TT
1 TT
18403925 CGTTGCTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.20, C:0.17, G:0.03, T:0.60
Consensus pattern (34 bp):
TTAACTTTTCAATTTCTTCTACTATTTTTACTTG
Found at i:18404960 original size:17 final size:17
Alignment explanation
Indices: 18404938--18404973 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18404928 AGGTATGTAC
18404938 CTGATTTACAAAAAAAT
1 CTGATTTACAAAAAAAT
* *
18404955 CTGATTTATAAAAGAAT
1 CTGATTTACAAAAAAAT
18404972 CT
1 CT
18404974 CATCCCCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.33
Consensus pattern (17 bp):
CTGATTTACAAAAAAAT
Found at i:18405541 original size:24 final size:24
Alignment explanation
Indices: 18405513--18405565 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
18405503 TTTCTAGAAA
*
18405513 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
* *
18405537 ATTTAGCATTTATTAGTATAGTTT
1 ATTTAGCATTTATTAGTATAATAT
18405561 ATTTA
1 ATTTA
18405566 ACTTACTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAATAT
Found at i:18426336 original size:24 final size:25
Alignment explanation
Indices: 18426309--18426367 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
18426299 ATTAAATGCT
**
18426309 TTTTATA-ATTTTTATTTATATTTA
1 TTTTATATATTTTTATAAATATTTA
*
18426333 TTTT-TATATTTTTATAAATTTTTA
1 TTTTATATATTTTTATAAATATTTA
18426357 TTTTATATATT
1 TTTTATATATT
18426368 GAAAATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.07
24 22 0.73
25 6 0.20
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTTATATATTTTTATAAATATTTA
Found at i:18427802 original size:33 final size:33
Alignment explanation
Indices: 18427712--18427904 Score: 163
Period size: 34 Copynumber: 5.6 Consensus size: 33
18427702 GAACTGTTAG
* *
18427712 GCGAACCCTCATGTTATGTAGTATGATATAGTAT
1 GCGAACCC-CATGTTATATAGTATGACATAGTAT
18427746 GCGAACCCAACCCTCATGTTATATAGTATGACATAGTAT
1 GCG-----AACCC-CATGTTATATAGTATGACATAGTAT
* * *
18427785 GTGAACCCCATGTTATATAATATGACATAGAAT
1 GCGAACCCCATGTTATATAGTATGACATAGTAT
* *
18427818 GCGAACCCCCACGTTATATAGAATGACATAGTAT
1 GCGAA-CCCCATGTTATATAGTATGACATAGTAT
* * * * *
18427852 GCAAATCCTCATGTTCTATTGAATGACAT-GTAT
1 GCGAA-CCCCATGTTATATAGTATGACATAGTAT
* *
18427885 GCAAACACACATGTTATATA
1 GCGAAC-CCCATGTTATATA
18427905 ATATTTGATT
Statistics
Matches: 133, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
32 1 0.01
33 46 0.35
34 55 0.41
39 31 0.23
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (33 bp):
GCGAACCCCATGTTATATAGTATGACATAGTAT
Found at i:18427901 original size:67 final size:67
Alignment explanation
Indices: 18427760--18427904 Score: 159
Period size: 67 Copynumber: 2.2 Consensus size: 67
18427750 ACCCAACCCT
* ** * *
18427760 CATGTTATATAGTATGACATAGTATGTGAACCCCATGTTATATAATATGACATAGAATGCGAACC
1 CATGTTATATAGAATGACATAGTATGCAAACCCCATGTTATATAATATGACATAGAATGCAAACA
*
18427825 CC
66 CA
* * * * *
18427827 CACGTTATATAGAATGACATAGTATGCAAATCCTCATGTTCTATTGA-ATGACAT-GTATGCAAA
1 CATGTTATATAGAATGACATAGTATGCAAA-CCCCATGTTATA-TAATATGACATAGAATGCAAA
18427890 CACA
64 CACA
18427894 CATGTTATATA
1 CATGTTATATA
18427905 ATATTTGATT
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
67 45 0.70
68 17 0.27
69 2 0.03
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (67 bp):
CATGTTATATAGAATGACATAGTATGCAAACCCCATGTTATATAATATGACATAGAATGCAAACA
CA
Found at i:18428214 original size:17 final size:17
Alignment explanation
Indices: 18428189--18428254 Score: 55
Period size: 17 Copynumber: 3.7 Consensus size: 17
18428179 AATAATATTG
*
18428189 ATAAGTTTTTATATTTT
1 ATAATTTTTTATATTTT
18428206 ATAATTTTTTCA-AGTTTAT
1 ATAATTTTTT-ATA-TTT-T
*
18428225 ATAATTTTTTTTTATTTT
1 ATAA-TTTTTTATATTTT
18428243 -TAATATTTTTAT
1 ATAAT-TTTTTAT
18428255 GGGAAAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
16 1 0.03
17 19 0.47
18 5 0.12
19 8 0.20
20 7 0.17
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.67
Consensus pattern (17 bp):
ATAATTTTTTATATTTT
Found at i:18428673 original size:23 final size:23
Alignment explanation
Indices: 18428643--18428688 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
18428633 ATTTATCTTG
* *
18428643 ACTTTTTTTATGAATAAGATTTC
1 ACTTTTTTTATCAATAACATTTC
18428666 ACTTTTTTTATCAATAACATTTC
1 ACTTTTTTTATCAATAACATTTC
18428689 TTGAGTCCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.13, G:0.04, T:0.52
Consensus pattern (23 bp):
ACTTTTTTTATCAATAACATTTC
Found at i:18429095 original size:9 final size:9
Alignment explanation
Indices: 18429083--18429128 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
18429073 TTGTTTTTTT
18429083 AATTTTAAA
1 AATTTTAAA
18429092 AATTTTAAA
1 AATTTTAAA
*
18429101 ATTTTTAAA
1 AATTTTAAA
**
18429110 AATTCAAAA
1 AATTTTAAA
*
18429119 AATTATAAA
1 AATTTTAAA
18429128 A
1 A
18429129 TTTATTTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (9 bp):
AATTTTAAA
Found at i:18431953 original size:17 final size:17
Alignment explanation
Indices: 18431931--18431964 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18431921 ATAAAACGCA
*
18431931 TTAAAGCATCAAAAAGC
1 TTAAAGAATCAAAAAGC
*
18431948 TTAAAGAATCAATAAGC
1 TTAAAGAATCAAAAAGC
18431965 ATATGAACAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.21
Consensus pattern (17 bp):
TTAAAGAATCAAAAAGC
Found at i:18439993 original size:29 final size:28
Alignment explanation
Indices: 18439936--18439991 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
18439926 TTAGGGCCTT
*
18439936 GGGGAAAATGTAATTATGCAAAAGTTTA
1 GGGGAAAATGTAATTATGAAAAAGTTTA
*
18439964 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGG-AAAA-TGTAATTATGAAAAAGTT
18439992 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.41, C:0.04, G:0.25, T:0.30
Consensus pattern (28 bp):
GGGGAAAATGTAATTATGAAAAAGTTTA
Found at i:18440298 original size:50 final size:50
Alignment explanation
Indices: 18440223--18440374 Score: 180
Period size: 50 Copynumber: 3.0 Consensus size: 50
18440213 ACTATGAATA
* * *
18440223 ACCGAGACGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGC
1 ACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGC
* *
18440273 ACCGAGATGAGAGGTCCC-TCGTAAGACCATGTCTGGGACATGACATGGGC
1 ACCGAGATGAGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGC
* ** * * *
18440323 ACCGACATGAGAACATCCCATGTAAGATCATGCCTGGGACATGGCTTTGGC
1 ACCGAGATGAG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGC
18440374 A
1 A
18440375 TGTTATTATC
Statistics
Matches: 86, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 53 0.62
51 31 0.36
52 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (50 bp):
ACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGC
Found at i:18445009 original size:23 final size:22
Alignment explanation
Indices: 18444982--18445026 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
18444972 CCTATGTTTA
18444982 TACTT-TTAGGAATTTAATATTTT
1 TACTTCTTA-GAATTTAA-ATTTT
*
18445005 TACTTCTTAGATTTTAAATTTT
1 TACTTCTTAGAATTTAAATTTT
18445027 AAATCAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 12 0.60
24 3 0.15
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.58
Consensus pattern (22 bp):
TACTTCTTAGAATTTAAATTTT
Found at i:18448754 original size:11 final size:11
Alignment explanation
Indices: 18448740--18448798 Score: 57
Period size: 11 Copynumber: 5.3 Consensus size: 11
18448730 TAAATATATC
18448740 TAAAATAATAA
1 TAAAATAATAA
18448751 TAAAATTAATAA
1 TAAAA-TAATAA
*
18448763 TAAAATAAAAA
1 TAAAATAATAA
* *
18448774 CT-ATATAATAT
1 -TAAAATAATAA
*
18448785 TCAAATAATAA
1 TAAAATAATAA
18448796 TAA
1 TAA
18448799 TAAAATGACA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
10 1 0.03
11 25 0.66
12 12 0.32
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:18448762 original size:12 final size:12
Alignment explanation
Indices: 18448740--18448768 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18448730 TAAATATATC
18448740 TAAAA-TAATAA
1 TAAAATTAATAA
18448751 TAAAATTAATAA
1 TAAAATTAATAA
18448763 TAAAAT
1 TAAAAT
18448769 AAAAACTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:18471283 original size:21 final size:21
Alignment explanation
Indices: 18471259--18471314 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
18471249 ATAACTTTTA
*
18471259 AATAATATATAAT-TAATATGT
1 AATAATAAATAATATAA-ATGT
*
18471280 AATAAAAAATAATATAAATGT
1 AATAATAAATAATATAAATGT
*
18471301 AAAAATAAA-AATAT
1 AATAATAAATAATAT
18471315 TTGTTTCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 5 0.17
21 22 0.73
22 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (21 bp):
AATAATAAATAATATAAATGT
Found at i:18474578 original size:42 final size:42
Alignment explanation
Indices: 18474527--18474858 Score: 373
Period size: 42 Copynumber: 7.9 Consensus size: 42
18474517 GTTTACAAAC
* *
18474527 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
18474569 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
18474611 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AA
* * *
18474653 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
18474695 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA-A
* * * ****
18474737 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-CTTAGAA
** * * * ****
18474780 CTAATCGCCGCTAAAGAACATGTTCTTTAGTGGC-ATTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * *
18474821 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
18474859 TTATACAAAA
Statistics
Matches: 255, Mismatches: 29, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
41 40 0.16
42 181 0.71
43 34 0.13
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:18474679 original size:126 final size:126
Alignment explanation
Indices: 18474538--18474774 Score: 422
Period size: 126 Copynumber: 1.9 Consensus size: 126
18474528 AAAACGCCGT
*
18474538 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGC
1 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
18474603 GCTT-AGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
66 GCTTAAG-AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
18474664 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
1 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
** *
18474729 GCTTAAGGGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
66 GCTTAAGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTT
18474775 TTTTTCTAAT
Statistics
Matches: 106, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
126 104 0.98
127 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (126 bp):
TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
GCTTAAGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
Found at i:18474949 original size:14 final size:14
Alignment explanation
Indices: 18474926--18474959 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
18474916 GCCCTCCTGT
*
18474926 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
18474940 AGCAACATTTCAAA
1 AGCAACATTTCAAA
18474954 AGCAAC
1 AGCAAC
18474960 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:18475251 original size:21 final size:21
Alignment explanation
Indices: 18475183--18475253 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
18475173 TTTTGCTCTG
* *
18475183 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
18475204 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
18475225 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
18475246 CTCTGCTT
1 CTCTGCTT
18475254 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:18480752 original size:11 final size:9
Alignment explanation
Indices: 18480704--18480944 Score: 72
Period size: 7 Copynumber: 28.0 Consensus size: 9
18480694 AATTGCAATG
18480704 GTAAGTTAT
1 GTAAGTTAT
18480713 GTAAGTTAT
1 GTAAGTTAT
18480722 GTAAGTTAAAT
1 GTAAGTT--AT
18480733 GT-A-TTAT
1 GTAAGTTAT
18480740 GTAAGTTAAAT
1 GTAAGTT--AT
18480751 GTAAG-T-T
1 GTAAGTTAT
18480758 GTAAGTTAT
1 GTAAGTTAT
*
18480767 -TATGTATTAT
1 GTAAG--TTAT
18480777 GTAAG-T-T
1 GTAAGTTAT
18480784 GTAAGTTATAT
1 GTAAG-T-TAT
*
18480795 GT-A-TTGT
1 GTAAGTTAT
18480802 GTAAG-T-T
1 GTAAGTTAT
18480809 GTAAGTTAAAT
1 GTAAGTT--AT
18480820 GT-A-TTAT
1 GTAAGTTAT
18480827 GTAAG-T-T
1 GTAAGTTAT
18480834 GTAAGTTAT
1 GTAAGTTAT
*
18480843 -TATGTATTAT
1 GTAAG--TTAT
18480853 GTAAG-T-T
1 GTAAGTTAT
18480860 GTAAGTTAAAT
1 GTAAGTT--AT
*
18480871 GT-A-TTGT
1 GTAAGTTAT
18480878 GTAAG-T-T
1 GTAAGTTAT
18480885 GTAAGTATAAT
1 GTAAGT-T-AT
18480896 GT-A-TTAT
1 GTAAGTTAT
18480903 GTAAG-T-T
1 GTAAGTTAT
18480910 GTAAGTTAT
1 GTAAGTTAT
*
18480919 -TATGTATTAT
1 GTAAG--TTAT
18480929 GTAAG-T-T
1 GTAAGTTAT
18480936 GTAAGTTAT
1 GTAAGTTAT
18480945 TATGTATTGT
Statistics
Matches: 177, Mismatches: 8, Indels: 94
0.63 0.03 0.34
Matches are distributed among these distances:
7 67 0.38
8 29 0.16
9 30 0.17
10 19 0.11
11 32 0.18
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:18480804 original size:25 final size:25
Alignment explanation
Indices: 18480749--18481101 Score: 470
Period size: 25 Copynumber: 14.1 Consensus size: 25
18480739 TGTAAGTTAA
18480749 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
18480775 ATGTAAGTTGTAAGTTATATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
* *
18480800 GTGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
18480825 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
*
18480851 ATGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
*
18480876 GTGTAAGTTGTAAG-TATAATGTATT
1 ATGTAAGTTGTAAGTTAT-ATGTATT
18480901 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
18480927 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
* *
18480953 GTGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
* *
18480978 ATGTCA---GTCA---A-ATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
* *
18480996 ATGTAAGTTGTAAGTAAAATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
18481021 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
*
18481047 ATGTAAGTAATGTAAGTTAAATGTATT
1 ATGTAAGT--TGTAAGTTATATGTATT
18481074 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
18481100 AT
1 AT
18481102 TTAATAAAAT
Statistics
Matches: 293, Mismatches: 19, Indels: 30
0.86 0.06 0.09
Matches are distributed among these distances:
18 12 0.04
19 1 0.00
21 3 0.01
22 3 0.01
24 3 0.01
25 130 0.44
26 116 0.40
27 16 0.05
28 9 0.03
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (25 bp):
ATGTAAGTTGTAAGTTATATGTATT
Found at i:18480846 original size:76 final size:77
Alignment explanation
Indices: 18480749--18481099 Score: 510
Period size: 76 Copynumber: 4.7 Consensus size: 77
18480739 TGTAAGTTAA
18480749 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATATGTATTGTGTAAGTTGTAAG
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATATGTATTGTGTAAGTTGTAAG
18480814 TTA-AATGTATT
66 TTATAATGTATT
*
18480825 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAGTTGTAAG
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATATGTATTGTGTAAGTTGTAAG
18480890 -TATAATGTATT
66 TTATAATGTATT
18480901 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAA
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-TATGTATTGTGTAAGTTGTAA
18480966 GTTA-AATGTATT
65 GTTATAATGTATT
* * * * *
18480978 ATGTCA---GTCA---A--ATGTATTATGTAAGTTGTAAGTAAAATGTATTATGTAAGTTGTAAG
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATATGTATTGTGTAAGTTGTAAG
*
18481035 TTATTATGTATT
66 TTATAATGTATT
*
18481047 ATGTAAGTAATGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-TATGTATT
18481100 ATTTAATAAA
Statistics
Matches: 249, Mismatches: 12, Indels: 25
0.87 0.04 0.09
Matches are distributed among these distances:
68 23 0.09
69 35 0.14
71 1 0.00
74 6 0.02
75 2 0.01
76 115 0.46
77 35 0.14
78 25 0.10
79 7 0.03
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (77 bp):
ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATATGTATTGTGTAAGTTGTAAG
TTATAATGTATT
Found at i:18481072 original size:53 final size:51
Alignment explanation
Indices: 18480749--18481101 Score: 474
Period size: 51 Copynumber: 7.0 Consensus size: 51
18480739 TGTAAGTTAA
**
18480749 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-TATGTATT
1 ATGTAAGTTGTAAG-TAAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
* *
18480800 GTGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTAAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
* * *
18480851 ATGTAAGTTGTAAGTTAAATGTATTGTGTAAGTTGTAAG-TATAATGTATT
1 ATGTAAGTTGTAAGTAAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
**
18480901 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAG-TAAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
* * * *
18480953 GTGTAAGTTGTAAGTTAAATGTATTATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTAAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
18480996 ATGTAAGTTGTAAGTAAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTAAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
*
18481047 ATGTAAGTAATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGT--TGTAAGTAAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
18481100 AT
1 AT
18481102 TTAATAAAAT
Statistics
Matches: 266, Mismatches: 23, Indels: 24
0.85 0.07 0.08
Matches are distributed among these distances:
43 35 0.13
45 1 0.00
46 3 0.01
48 3 0.01
49 1 0.00
50 49 0.18
51 107 0.40
52 23 0.09
53 44 0.17
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (51 bp):
ATGTAAGTTGTAAGTAAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
Found at i:18481247 original size:39 final size:39
Alignment explanation
Indices: 18481109--18481253 Score: 111
Period size: 39 Copynumber: 3.8 Consensus size: 39
18481099 TATTTAATAA
* ** ** *
18481109 AATAATATATAATTTAATAACATTACTATTATAATTATT
1 AATAATATTTAATAAAATAACATTTTTTTTATAATTATT
* *
18481148 AATAATATTTAATAAAATAACATTTTATTT-TAA-TAGT
1 AATAATATTTAATAAAATAACATTTTTTTTATAATTATT
* **** *
18481185 --CAAT-TTTAATATTCCACATATTTTTTTTATAATTATT
1 AATAATATTTAATAAAATA-ACATTTTTTTTATAATTATT
18481222 AATAATATTTAATAAAATAACATTTTATTTTA
1 AATAATATTTAATAAAATAACATTTT-TTTTA
18481254 ATAGTCAATT
Statistics
Matches: 77, Mismatches: 22, Indels: 13
0.69 0.20 0.12
Matches are distributed among these distances:
34 8 0.10
35 12 0.16
36 3 0.04
37 6 0.08
38 3 0.04
39 32 0.42
40 13 0.17
ACGTcount: A:0.45, C:0.06, G:0.01, T:0.49
Consensus pattern (39 bp):
AATAATATTTAATAAAATAACATTTTTTTTATAATTATT
Found at i:18481295 original size:74 final size:74
Alignment explanation
Indices: 18481137--18481285 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
18481127 AACATTACTA
18481137 TTATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCAC
1 TTATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCAC
18481202 ATATTTTTT
66 ATATTTTTT
18481211 TTATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCAC
1 TTATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCAC
18481276 ATATTTTTT
66 ATATTTTTT
18481285 T
1 T
18481286 ATATTTTATT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (74 bp):
TTATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCAC
ATATTTTTT
Found at i:18481453 original size:13 final size:13
Alignment explanation
Indices: 18481435--18481505 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
18481425 ATTTATAATT
18481435 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
18481448 ATTTAAGTAACAT
1 ATTTAAGTAATAA
18481461 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
18481474 ATTTAAGTAACAT
1 ATTTAAGTAATAA
18481487 ATTTAAGTAATAA
1 ATTTAAGTAATAA
18481500 ATTTAA
1 ATTTAA
18481506 ACAAATTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAAGTAATAA
Found at i:18481464 original size:26 final size:26
Alignment explanation
Indices: 18481434--18481505 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
18481424 TATTTATAAT
18481434 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
18481460 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
18481486 TATTTAAGTAATAAATTTAA
1 TATTTAAGTAATAAATTTAA
18481506 ACAAATTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (26 bp):
TATTTAAGTAATAAATTTAAGTAACA
Found at i:18481532 original size:17 final size:17
Alignment explanation
Indices: 18481510--18481553 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
18481500 ATTTAAACAA
18481510 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
18481527 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
18481544 ATTTTAGTAA
1 ATTTTAGTAA
18481554 TAAATTTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (17 bp):
ATTTTAGTAAGTAATGT
Found at i:18484874 original size:23 final size:24
Alignment explanation
Indices: 18484848--18484898 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
18484838 TAATTTAAAT
18484848 ATTATCAA-TATTTAAAATTATT-A
1 ATTATCAATTATTT-AAATTATTCA
* *
18484871 ATTATTAATTATTTATATTATTCA
1 ATTATCAATTATTTAAATTATTCA
18484895 ATTA
1 ATTA
18484899 ATGTATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTATCAATTATTTAAATTATTCA
Found at i:18484882 original size:14 final size:17
Alignment explanation
Indices: 18484863--18484898 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
18484853 CAATATTTAA
18484863 AATTA-TTA-ATTATT-
1 AATTATTTATATTATTC
18484877 AATTATTTATATTATTC
1 AATTATTTATATTATTC
18484894 AATTA
1 AATTA
18484899 ATGTATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.26
15 3 0.16
16 6 0.32
17 5 0.26
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTATTTATATTATTC
Found at i:18486158 original size:190 final size:190
Alignment explanation
Indices: 18485835--18486195 Score: 616
Period size: 190 Copynumber: 1.9 Consensus size: 190
18485825 GCGTTTTTCA
18485835 ATAAGCGCCACTAATTCTAATATACATCAATACCAAACTCTGCGTTTTGGTGTGCATATCTTGCG
1 ATAAGCGCCACTAATTCTAATATACATCAATACCAAACTCTGCGTTTTGGTGTGCATATCTTGCG
* *
18485900 GCGCTTAACGTTAAGTGCCGCTAATACTGTTATGTAGCGGCGTTTTATTGTAAACGCCACTAATT
66 GCGCTTAACGTAAAGCGCCGCTAATACTGTTATGTAGCGGCGTTTTATTGTAAACGCCACTAATT
*
18485965 ATAGTATACATCAAGACCAAAACGTTGAGTTTTAGTTAAGAAATATAGCGGCGCTTTCCC
131 ATAGTATACATCAAGACCAAAACGCTGAGTTTTAGTTAAGAAATATAGCGGCGCTTTCCC
*
18486025 ATAAGCGCCACTAATTCTAATATACCTCAATACCAAACTCTGCGTTTTGGTGTGCATATCTTGCG
1 ATAAGCGCCACTAATTCTAATATACATCAATACCAAACTCTGCGTTTTGGTGTGCATATCTTGCG
* *
18486090 GCGCTTAAC-TGAAAGCGCCGCTAATACTGTTATTTAGCGGCGTTTTATTGTAAGCGCCACTAAT
66 GCGCTTAACGT-AAAGCGCCGCTAATACTGTTATGTAGCGGCGTTTTATTGTAAACGCCACTAAT
* * * *
18486154 TATAGTATACATCGATACCAAAACGCTGCGTTTTGGTTAAGA
130 TATAGTATACATCAAGACCAAAACGCTGAGTTTTAGTTAAGA
18486196 TTTTTGCGGC
Statistics
Matches: 160, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
189 1 0.01
190 159 0.99
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (190 bp):
ATAAGCGCCACTAATTCTAATATACATCAATACCAAACTCTGCGTTTTGGTGTGCATATCTTGCG
GCGCTTAACGTAAAGCGCCGCTAATACTGTTATGTAGCGGCGTTTTATTGTAAACGCCACTAATT
ATAGTATACATCAAGACCAAAACGCTGAGTTTTAGTTAAGAAATATAGCGGCGCTTTCCC
Found at i:18486222 original size:114 final size:112
Alignment explanation
Indices: 18486010--18486342 Score: 334
Period size: 114 Copynumber: 2.9 Consensus size: 112
18486000 TTAAGAAATA
* ** * * * *
18486010 TAGCGGCGCTTTCCCATAAGCGCCACTAATTCTAATATACCTCAATACC-AAACTCTGCGTTTTG
1 TAGCGGCGTTTTATCATAAGCGCCACTAATTATAGTATACATCAATACCAAAACGCTGCGTTTTG
* **
18486074 GTGT-GCATATCTTGCGGCGCTTAACTGAAAGCGCCGCTAATACTGTTA-TT
66 GT-TAG-AT-TTTTGCGGCGCTTAACACAAAGCGCCGCTAATAC--TTACTT
** *
18486124 TAGCGGCGTTTTATTGTAAGCGCCACTAATTATAGTATACATCGATACCAAAACGCTGCGTTTTG
1 TAGCGGCGTTTTATCATAAGCGCCACTAATTATAGTATACATCAATACCAAAACGCTGCGTTTTG
** * *
18486189 GTTAAGATTTTTGCGGCGCTTCCCACAATGCGCCGCTATTACTTACTT
66 GTT-AGATTTTTGCGGCGCTTAACACAAAGCGCCGCTAATACTTACTT
* * * *
18486237 TAGCGGCGTTTTATCATAATCGCCACTAATTATTGTATACATCAATACAAAAACGATGCGTTTTG
1 TAGCGGCGTTTTATCATAAGCGCCACTAATTATAGTATACATCAATACCAAAACGCTGCGTTTTG
* *
18486302 GTCTTGAGA-TTTTGCGGCGCATAAC-CAAAAACGCCGCTAAT
66 G--TT-AGATTTTTGCGGCGCTTAACAC-AAAGCGCCGCTAAT
18486343 TATGTTCTTT
Statistics
Matches: 181, Mismatches: 31, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
112 3 0.02
113 62 0.34
114 92 0.51
115 23 0.13
116 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (112 bp):
TAGCGGCGTTTTATCATAAGCGCCACTAATTATAGTATACATCAATACCAAAACGCTGCGTTTTG
GTTAGATTTTTGCGGCGCTTAACACAAAGCGCCGCTAATACTTACTT
Found at i:18489027 original size:26 final size:27
Alignment explanation
Indices: 18488998--18489058 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
18488988 AACTATTTAC
*
18488998 AAATATTTAAATATTATT-AAAA-TAAA
1 AAATATTTAAA-ACTATTGAAAATTAAA
*
18489024 AAATA-GTAAAACTATTGAAAATTAAA
1 AAATATTTAAAACTATTGAAAATTAAA
*
18489050 TAATATTTA
1 AAATATTTA
18489059 GTAATTAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
24 5 0.18
25 8 0.29
26 13 0.46
27 2 0.07
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (27 bp):
AAATATTTAAAACTATTGAAAATTAAA
Found at i:18496524 original size:3 final size:3
Alignment explanation
Indices: 18496516--18496541 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18496506 ATGCAGAGCA
18496516 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
18496542 TGAATCGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:18503972 original size:52 final size:48
Alignment explanation
Indices: 18503953--18504155 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
18503943 TGACAAGTGG
* *
18503953 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
18503999 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
18504051 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
18504097 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
18504143 AAAGTGATAAGTG
1 AAAGTGATAAGTG
18504156 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:18504007 original size:98 final size:98
Alignment explanation
Indices: 18503887--18504155 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
18503877 TTTGAGTACT
*
18503887 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
18503952 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
18503985 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
18504050 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
18504083 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
18504148 GATAAGTG
65 GAAAAGTG
18504156 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:18504163 original size:37 final size:37
Alignment explanation
Indices: 18504119--18504264 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
18504109 GATAGCTTTA
*
18504119 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
18504156 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
18504193 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
18504230 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
18504265 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:18510531 original size:61 final size:58
Alignment explanation
Indices: 18510385--18510547 Score: 166
Period size: 61 Copynumber: 2.7 Consensus size: 58
18510375 TATTAATTTT
* * * * *
18510385 TTAATATTATATATTATGATTTTTTTAATTCATACTTTAATAAAAATTATATTAAGAATGTTA
1 TTAA-ATTATATATTAT--TTTATTAAATT-ATA-TTTAATAATAATTATATTAAGAATATAA
* *
18510448 TTAAATTATATATTATTTTATTAAATTGTATTTAATAATAATTATGTTAA-AATATAA
1 TTAAATTATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAGAATATAA
*
18510505 TTAAATTATTTATTTTCATTTTTATTAAATTATATTTAATAAT
1 TTAAATTA--TATATT-A-TTTTATTAAATTATATTTAATAAT
18510548 TATCTTTTTA
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
57 13 0.15
58 18 0.21
59 7 0.08
60 10 0.11
61 23 0.26
62 12 0.14
63 4 0.05
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (58 bp):
TTAAATTATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAGAATATAA
Found at i:18511651 original size:20 final size:21
Alignment explanation
Indices: 18511626--18511667 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18511616 AGTGAATTAC
*
18511626 CTTGGA-TTCTATAGTAAAAA
1 CTTGGATTTCTATAGGAAAAA
*
18511646 CTTGGATTTTTATAGGAAAAA
1 CTTGGATTTCTATAGGAAAAA
18511667 C
1 C
18511668 ATTTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (21 bp):
CTTGGATTTCTATAGGAAAAA
Found at i:18523369 original size:24 final size:24
Alignment explanation
Indices: 18523342--18523397 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
18523332 GGTATACTTT
*
18523342 AATAATAATAACATAAACT-AAATA
1 AATAA-AATAACATAAAATAAAATA
* *
18523366 AATAAAGTAACTTAAAATAAAATA
1 AATAAAATAACATAAAATAAAATA
18523390 AATGAAAA
1 AAT-AAAA
18523398 ATACACGATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 10 0.38
24 13 0.50
25 3 0.12
ACGTcount: A:0.68, C:0.05, G:0.04, T:0.23
Consensus pattern (24 bp):
AATAAAATAACATAAAATAAAATA
Found at i:18525103 original size:44 final size:43
Alignment explanation
Indices: 18525036--18525944 Score: 363
Period size: 44 Copynumber: 19.8 Consensus size: 43
18525026 TTCAATCTTC
* *
18525036 AATCTACTCCACTGTAACTTCAGGGAGATGAGATTTGTGACTTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-ACTTT
*
18525080 AATATACTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTA-CTTT
* * * * * * * * *
18525124 AATTTGCTCTACTGCAACTTCAGAGAGATGATACTCGTATCTTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTA-CTTT
* * * * *
18525168 AATCTATTCCATTGTAACTTCAGGGAGATGAGATTTGTAACTTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-ACTTT
* *
18525212 AATATACTCCACTACAACTTCAGGGAGATAAGATTTGTGACTTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-ACTTT
* *
18525256 AATCTACTCCATTGCAACTTTAGGGAGATAAGATTTGTAACTTGTAGCTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-AC---T---TT
** * * * *
18525306 CAATCTGTTCCACTGC-ACTTCAGGGAAATAAGAATCGCTATCTTC
1 -AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TA-CTTT
* * * *
18525351 AATCTGCTCCATTGCATCTTTAGGGAGATAAGATTTGTGACTTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-ACTTT
* * *
18525395 AATCTACTCCATTGTAACTTTAGGGAGATAAGATTTGTAACTTGT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-ACTT-T
* * * * *
18525440 AGCATCAATCTGTTCCACTGC-ACTTTAGGGAAATAAGATTCGCTATCTTC
1 A--ATCTA-C---TCCACTGCAACTTCAGGGAGATAAGATTTG-TA-CTTT
* * * * * *
18525490 AATTTGCTCCATTGCATCTACAGAGAGATAAGATTTGTAACTTGTAGCTTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGA----T---TTGTA-CTTT
** * * * * *
18525541 AATCTGTTCCACTGTAAATTCAGGGAAATAAGATTCGCTA-TAATC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TACT--TT
* ** * *
18525586 AATCTGCTTTACTACAACTTTAGGGAGATAAGATTTGTAACTTGTAGCTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-AC---T---TT
** * * * * *
18525636 CAATCTGTTTCACTGC-ACTTCAGAGAAATAAGATTCGCTATCTTC
1 -AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TA-CTTT
* * *
18525681 AATC-AGCTCCACTACATCTTCAGGGAGATAAGATTTATAACTTTTAGCTTT
1 AATCTA-CTCCACTGCAACTTCAGGGAGATAAG----AT---TTGTA-CTTT
* * * * * *
18525732 AATCTATTCCATTGCAACTTCAGGGAAATAATATTCGTTATATTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TA-CTTT
* ** * * * *
18525777 AATTTGTTTCACTGCAACTTTAGGGAGATAAGACTTATAGCTTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTA-CTTT
* ** * * * * *
18525821 AATTTGTTCTACTACAATTTCAGAGAGATAAGATTTGCTATCTTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TA-CTTT
* *
18525866 AATCTACTCCGCTGTAACTTCAGGGAGAT-AGAATTTGTGACTTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAG-ATTTGT-ACTTT
** * *
18525910 AATCTTTTCCACTGCCACTTCAGGAAGATAAGATT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATT
18525945 CGTCACGGTG
Statistics
Matches: 644, Mismatches: 164, Indels: 114
0.70 0.18 0.12
Matches are distributed among these distances:
43 2 0.00
44 320 0.50
45 144 0.22
47 9 0.01
48 5 0.01
49 4 0.01
50 60 0.09
51 96 0.15
52 4 0.01
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (43 bp):
AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTACTTT
Found at i:18525272 original size:132 final size:135
Alignment explanation
Indices: 18525030--18525532 Score: 478
Period size: 139 Copynumber: 3.7 Consensus size: 135
18525020 TGTTGCTTCA
* * *
18525030 ATCTTCAATCTACTCCACTGTAACTTCAGGGAGATGAGATTTGTGACTTTAATATACTCCACTGC
1 ATCTTCAATCTATTCCACTGTAACTTCAGGGAGATGAGATTTGTAACTTCAATATACTCCACTGC
* * * * * *
18525095 AACTTCAGGGAGATAAGATTTGT-AGCTTTAATTTGCTCTACTGCAACTTCAGAGAGAT-GA-T-
66 AACTTCAGGGAGATAAGATTTGTGA-CTTTAATCTACTCCATTGCAACTTTAGGGAGATAGATTA
18525156 ACTCGT
130 ACTCGT
* *
18525162 ATCTTCAATCTATTCCATTGTAACTTCAGGGAGATGAGATTTGTAACTTCAATATACTCCACTAC
1 ATCTTCAATCTATTCCACTGTAACTTCAGGGAGATGAGATTTGTAACTTCAATATACTCCACTGC
18525227 AACTTCAGGGAGATAAGATTTGTGACTTTAATCTACTCCATTGCAACTTTAGGGAGATAAGATTT
66 AACTTCAGGGAGATAAGATTTGTGACTTTAATCTACTCCATTGCAACTTTAGGGAGAT-AGA--T
*
18525292 GTAACTTGT
128 -TAACTCGT
* * * * * * * * * * *
18525301 AGCTTCAATCTGTTCCACTG-CACTTCAGGGAAATAAGAATCGCTATCTTCAATCTGCTCCATTG
1 ATCTTCAATCTATTCCACTGTAACTTCAGGGAGATGAGATTTG-TAACTTCAATATACTCCACTG
* * *
18525365 CATCTTTAGGGAGATAAGATTTGTGACTTTAATCTACTCCATTGTAACTTTAGGGAGATAAGATT
65 CAACTTCAGGGAGATAAGATTTGTGACTTTAATCTACTCCATTGCAACTTTAGGGAGAT-AGA--
*
18525430 TGTAACTTGT
127 T-TAACTCGT
* * * * * * * * * * * *
18525440 AGCATCAATCTGTTCCACTG-CACTTTAGGGAAATAAGATTCGCTATCTTCAATTTGCTCCATTG
1 ATCTTCAATCTATTCCACTGTAACTTCAGGGAGATGAGATTTG-TAACTTCAATATACTCCACTG
* * * *
18525504 CATCTACAGAGAGATAAGATTTGTAACTT
65 CAACTTCAGGGAGATAAGATTTGTGACTT
18525533 GTAGCTTTAA
Statistics
Matches: 326, Mismatches: 36, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
132 110 0.34
133 1 0.00
134 2 0.01
138 18 0.06
139 195 0.60
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (135 bp):
ATCTTCAATCTATTCCACTGTAACTTCAGGGAGATGAGATTTGTAACTTCAATATACTCCACTGC
AACTTCAGGGAGATAAGATTTGTGACTTTAATCTACTCCATTGCAACTTTAGGGAGATAGATTAA
CTCGT
Found at i:18525381 original size:139 final size:139
Alignment explanation
Indices: 18525232--18525532 Score: 521
Period size: 139 Copynumber: 2.2 Consensus size: 139
18525222 ACTACAACTT
18525232 CAGGGAGATAAGATTTGTGACTTTAATCTACTCCATTGCAACTTTAGGGAGATAAGATTTGTAAC
1 CAGGGAGATAAGATTTGTGACTTTAATCTACTCCATTGCAACTTTAGGGAGATAAGATTTGTAAC
*
18525297 TTGTAGCTTCAATCTGTTCCACTGCACTTCAGGGAAATAAGAATCGCTATCTTCAATCTGCTCCA
66 TTGTAGCATCAATCTGTTCCACTGCACTTCAGGGAAATAAGAATCGCTATCTTCAATCTGCTCCA
*
18525362 TTGCATCTT
131 TTGCATCTA
* *
18525371 TAGGGAGATAAGATTTGTGACTTTAATCTACTCCATTGTAACTTTAGGGAGATAAGATTTGTAAC
1 CAGGGAGATAAGATTTGTGACTTTAATCTACTCCATTGCAACTTTAGGGAGATAAGATTTGTAAC
* * *
18525436 TTGTAGCATCAATCTGTTCCACTGCACTTTAGGGAAATAAGATTCGCTATCTTCAATTTGCTCCA
66 TTGTAGCATCAATCTGTTCCACTGCACTTCAGGGAAATAAGAATCGCTATCTTCAATCTGCTCCA
18525501 TTGCATCTA
131 TTGCATCTA
* *
18525510 CAGAGAGATAAGATTTGTAACTT
1 CAGGGAGATAAGATTTGTGACTT
18525533 GTAGCTTTAA
Statistics
Matches: 152, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
139 152 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (139 bp):
CAGGGAGATAAGATTTGTGACTTTAATCTACTCCATTGCAACTTTAGGGAGATAAGATTTGTAAC
TTGTAGCATCAATCTGTTCCACTGCACTTCAGGGAAATAAGAATCGCTATCTTCAATCTGCTCCA
TTGCATCTA
Found at i:18525448 original size:95 final size:94
Alignment explanation
Indices: 18525347--18525762 Score: 331
Period size: 95 Copynumber: 4.4 Consensus size: 94
18525337 GAATCGCTAT
* * *
18525347 CTTCAATCTGCTCCATTGCATCTTTAGGGAGATAAGATTTGTGACTTTAATCTACTCCATTGTAA
1 CTTCAATCTGTTCCACTGCA-CTTTAGGGAAATAAGATTTGTGACTTTAATCTACTCCATTGTAA
18525412 CTTTAGGGAGATAAGATTTGTAACTTGTAG
65 CTTTAGGGAGATAAGATTTGTAACTTGTAG
* * * * * *
18525442 CATCAATCTGTTCCACTGCACTTTAGGGAAATAAGATTCGCT-ATCTTCAATTTGCTCCATTGCA
1 CTTCAATCTGTTCCACTGCACTTTAGGGAAATAAGATTTG-TGA-CTTTAATCTACTCCATTGTA
* ** *
18525506 TCTACAGAGAGATAAGATTTGTAACTTGTAG
64 ACTTTAGGGAGATAAGATTTGTAACTTGTAG
* * * * * * * * * *
18525537 CTTTAATCTGTTCCACTGTAAATTCAGGGAAATAAGA-TT-CG-CTATAATCAATCTGCTTTACT
1 CTTCAATCTGTTCCACTG-CACTTTAGGGAAATAAGATTTGTGACTTTAATCTA-CTCCATT-GT
18525599 ACAACTTTAGGGAGATAAGATTTGTAACTTGTAG
63 --AACTTTAGGGAGATAAGATTTGTAACTTGTAG
* * * * * * **
18525633 CTTCAATCTGTTTCACTGCACTTCAGAGAAATAAGATTCGCT-ATCTTCAATC-AGCTCCACTAC
1 CTTCAATCTGTTCCACTGCACTTTAGGGAAATAAGATTTG-TGA-CTTTAATCTA-CTCCATTGT
* * * *
18525696 ATCTTCAGGGAGATAAGATTTATAACTTTTAG
63 AACTTTAGGGAGATAAGATTTGTAACTTGTAG
* * * *
18525728 CTTTAATCTATTCCATTGCAACTTCAGGGAAATAA
1 CTTCAATCTGTTCCACTGC-ACTTTAGGGAAATAA
18525763 TATTCGTTAT
Statistics
Matches: 250, Mismatches: 57, Indels: 27
0.75 0.17 0.08
Matches are distributed among these distances:
92 5 0.02
93 5 0.02
94 19 0.08
95 136 0.54
96 74 0.30
98 5 0.02
99 6 0.02
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (94 bp):
CTTCAATCTGTTCCACTGCACTTTAGGGAAATAAGATTTGTGACTTTAATCTACTCCATTGTAAC
TTTAGGGAGATAAGATTTGTAACTTGTAG
Found at i:18525621 original size:191 final size:191
Alignment explanation
Indices: 18525410--18525809 Score: 586
Period size: 191 Copynumber: 2.1 Consensus size: 191
18525400 ACTCCATTGT
* *
18525410 AACTTTAGGGAGATAAGATTTGTAACTTGTAGCATCAATCTGTTCCACTGCACTTTAGGGAAATA
1 AACTTTAGGGAGATAAGATTTGTAACTTGTAGCATCAATCTGTTCCACTGCACTTCAGAGAAATA
** * * *
18525475 AGATTCGCTATCTTCAATTTGCTCCATTGCATCTACAGAGAGATAAGATTTGTAACTTGTAGCTT
66 AGATTCGCTATCTTCAATCAGCTCCACTACATCTACAGAGAGATAAGATTTATAACTTGTAGCTT
* *
18525540 TAATCTGTTCCACTGTAAATTCAGGGAAATAAGATTCGCTATAATCAATCTGCTTT-ACTAC
131 TAATCTATTCCACTGCAAATTCAGGGAAATAAGATTCGCTATAATCAATCTG-TTTCACTAC
* *
18525601 AACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTTTCACTGCACTTCAGAGAAATA
1 AACTTTAGGGAGATAAGATTTGTAACTTGTAGCATCAATCTGTTCCACTGCACTTCAGAGAAATA
* * *
18525666 AGATTCGCTATCTTCAATCAGCTCCACTACATCTTCAGGGAGATAAGATTTATAACTTTTAGCTT
66 AGATTCGCTATCTTCAATCAGCTCCACTACATCTACAGAGAGATAAGATTTATAACTTGTAGCTT
* * * * * * * *
18525731 TAATCTATTCCATTGCAACTTCAGGGAAATAATATTCGTTATATTTAATTTGTTTCACTGC
131 TAATCTATTCCACTGCAAATTCAGGGAAATAAGATTCGCTATAATCAATCTGTTTCACTAC
18525792 AACTTTAGGGAGATAAGA
1 AACTTTAGGGAGATAAGA
18525810 CTTATAGCTT
Statistics
Matches: 186, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
190 3 0.02
191 183 0.98
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (191 bp):
AACTTTAGGGAGATAAGATTTGTAACTTGTAGCATCAATCTGTTCCACTGCACTTCAGAGAAATA
AGATTCGCTATCTTCAATCAGCTCCACTACATCTACAGAGAGATAAGATTTATAACTTGTAGCTT
TAATCTATTCCACTGCAAATTCAGGGAAATAAGATTCGCTATAATCAATCTGTTTCACTAC
Found at i:18525815 original size:96 final size:95
Alignment explanation
Indices: 18525410--18525809 Score: 476
Period size: 96 Copynumber: 4.2 Consensus size: 95
18525400 ACTCCATTGT
* *
18525410 AACTTTAGGGAGATAAGATTTGTAACTTGTAGCATCAATCTGTTCCACTGCACTTTAGGGAAATA
1 AACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTTCCACTGCACTTCAGGGAAATA
* * * *
18525475 AGATTCGCTATCTTCAATTTGCTCCATTGC
66 AGATTCGCTATATTCAATCTGCTCCACTAC
* ** * * * *
18525505 ATCTACAGAGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGTAAATTCAGGGAAAT
1 AACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTTCCACTG-CACTTCAGGGAAAT
* **
18525570 AAGATTCGCTATAATCAATCTGCTTTACTAC
65 AAGATTCGCTATATTCAATCTGCTCCACTAC
* *
18525601 AACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTTTCACTGCACTTCAGAGAAATA
1 AACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTTCCACTGCACTTCAGGGAAATA
* *
18525666 AGATTCGCTATCTTCAATCAGCTCCACTAC
66 AGATTCGCTATATTCAATCTGCTCCACTAC
* * * * * * *
18525696 ATCTTCAGGGAGATAAGATTTATAACTTTTAGCTTTAATCTATTCCATTGCAACTTCAGGGAAAT
1 AACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTTCCACTGC-ACTTCAGGGAAAT
* * * * * * *
18525761 AATATTCGTTATATTTAATTTGTTTCACTGC
65 AAGATTCGCTATATTCAATCTGCTCCACTAC
18525792 AACTTTAGGGAGATAAGA
1 AACTTTAGGGAGATAAGA
18525810 CTTATAGCTT
Statistics
Matches: 253, Mismatches: 50, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
95 124 0.49
96 129 0.51
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (95 bp):
AACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTTCCACTGCACTTCAGGGAAATA
AGATTCGCTATATTCAATCTGCTCCACTAC
Found at i:18532189 original size:42 final size:42
Alignment explanation
Indices: 18532142--18532467 Score: 271
Period size: 42 Copynumber: 7.7 Consensus size: 42
18532132 CAAAAACGCT
*
18532142 GCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCC
1 GCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCC
* *
18532184 GCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGAC
1 GCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCC
*
18532226 GCTAAAGAACATGATT-TTTAGCGGCGTTTTTTTTTAAGCGCC
1 GCTAAAGAACATG-TTCTTTAGCGGCGTTTTTTTCTAAGCGCC
* * * * * *
18532268 ACTGAAGGACATGATCTTTAGAGGCGTTTTTTTCTAAGCGCT
1 GCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCC
* * * * * *** * *
18532310 GCTAAAGGACATGATCTTTAGTGGCATTTGTGAATATGTGCC
1 GCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCC
** * * *** *
18532352 GCTAAAGAACATGTTCTTTAATGGCGCTTTGTAGAAAACGCC
1 GCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCC
* * * * * *
18532394 GTTAGAGATCATAATT-TTTTGCGGCGCTTTTTTTAC-AAACGCC
1 GCTAAAGAACAT-GTTCTTTAGCGGCG-TTTTTTT-CTAAGCGCC
* *
18532437 GCTAAAGAACATATTCTTTAGCGGCATTTTT
1 GCTAAAGAACATGTTCTTTAGCGGCGTTTTT
18532468 GTACAAAAAC
Statistics
Matches: 225, Mismatches: 53, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
41 1 0.00
42 193 0.86
43 31 0.14
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (42 bp):
GCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCC
Found at i:18532872 original size:21 final size:21
Alignment explanation
Indices: 18532848--18532898 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
18532838 TTCTTTTGAA
* *
18532848 CCTCTGCTTCTCTCGCTGTAG
1 CCTCTGCTTCCCTCGCTGCAG
*
18532869 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
18532890 CCTCTGCTT
1 CCTCTGCTT
18532899 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.02, C:0.45, G:0.18, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:18534466 original size:45 final size:44
Alignment explanation
Indices: 18534408--18534511 Score: 113
Period size: 45 Copynumber: 2.3 Consensus size: 44
18534398 TGCAGAAACT
* *
18534408 CATATGCTTAACATTC-GAA-ATGTTTAACATTCAAAACATAGCTTAA
1 CATA-GCTTAACATTCAAAACATGCTTAACATTC-AAA-AT-GCTTAA
* *
18534454 CATAGCTAAACATTCAAAACTATGCTTAACATTCAAAATGTTTAA
1 CATAGCTTAACATTCAAAAC-ATGCTTAACATTCAAAATGCTTAA
18534499 CATAGCTTAACAT
1 CATAGCTTAACAT
18534512 AGTTTTCAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
45 27 0.54
46 8 0.16
47 3 0.06
48 12 0.24
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (44 bp):
CATAGCTTAACATTCAAAACATGCTTAACATTCAAAATGCTTAA
Found at i:18534663 original size:39 final size:38
Alignment explanation
Indices: 18534620--18534698 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 38
18534610 CTGAAGAAAC
18534620 TGTGCCAAAACAGA-ATACCAAAAAAAGAATACCAAGTAA
1 TGTGCCAAAACA-ACATACC-AAAAAAGAATACCAAGTAA
* *
18534659 TGTGCCAAAACAATCCTACCAAAACAGAATACCAAGTAA
1 TGTGCCAAAACAA-CATACCAAAAAAGAATACCAAGTAA
18534698 T
1 T
18534699 CCACAAAGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
38 1 0.03
39 31 0.86
40 4 0.11
ACGTcount: A:0.52, C:0.22, G:0.11, T:0.15
Consensus pattern (38 bp):
TGTGCCAAAACAACATACCAAAAAAGAATACCAAGTAA
Found at i:18536037 original size:12 final size:12
Alignment explanation
Indices: 18536020--18536046 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18536010 AAATTATGAA
18536020 ATTATTAATATT
1 ATTATTAATATT
18536032 ATTATTAATATT
1 ATTATTAATATT
18536044 ATT
1 ATT
18536047 TAAAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTATTAATATT
Found at i:18536599 original size:13 final size:13
Alignment explanation
Indices: 18536581--18536638 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
18536571 AAAGCAACCT
18536581 AAACCCCAAATCC
1 AAACCCCAAATCC
*
18536594 AAACCCCAAATCTT
1 AAACCCCAAATC-C
*
18536608 AAACCCAAAACTCC
1 AAACCCCAAA-TCC
* *
18536622 TAAACCCTAAACCC
1 -AAACCCCAAATCC
18536636 AAA
1 AAA
18536639 ACACTAACGC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
13 15 0.41
14 11 0.30
15 11 0.30
ACGTcount: A:0.48, C:0.40, G:0.00, T:0.12
Consensus pattern (13 bp):
AAACCCCAAATCC
Found at i:18536613 original size:14 final size:13
Alignment explanation
Indices: 18536579--18536628 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
18536569 CTAAAGCAAC
18536579 CTAAACCCCAAAT
1 CTAAACCCCAAAT
*
18536592 CCAAACCCCAAAT
1 CTAAACCCCAAAT
*
18536605 CTTAAACCCAAAACT
1 C-TAAACCCCAAA-T
18536620 CCTAAACCC
1 -CTAAACCC
18536629 TAAACCCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 13 0.42
14 9 0.29
15 8 0.26
16 1 0.03
ACGTcount: A:0.44, C:0.42, G:0.00, T:0.14
Consensus pattern (13 bp):
CTAAACCCCAAAT
Found at i:18537730 original size:23 final size:23
Alignment explanation
Indices: 18537704--18537755 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
18537694 AGGGCTGGCT
18537704 TTGGATGCTATTCTTTATAGCTG
1 TTGGATGCTATTCTTTATAGCTG
18537727 TTGGATGCTATTCTTTATAGCTG
1 TTGGATGCTATTCTTTATAGCTG
18537750 TTGGAT
1 TTGGAT
18537756 TCAAAATGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.17, C:0.12, G:0.23, T:0.48
Consensus pattern (23 bp):
TTGGATGCTATTCTTTATAGCTG
Found at i:18539946 original size:18 final size:17
Alignment explanation
Indices: 18539918--18539952 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18539908 ATTATTAAGA
*
18539918 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18539935 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18539953 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18540090 original size:18 final size:17
Alignment explanation
Indices: 18540062--18540096 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18540052 ATTATTAAGA
*
18540062 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18540079 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18540097 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18540307 original size:44 final size:45
Alignment explanation
Indices: 18540258--18540352 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
18540248 TTACACCTCT
* *
18540258 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
18540302 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
18540347 ATTACA
1 ATTACA
18540353 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:18540352 original size:16 final size:16
Alignment explanation
Indices: 18540331--18540363 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18540321 TTGATTTGCT
*
18540331 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
18540347 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
18540363 A
1 A
18540364 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:18540373 original size:21 final size:21
Alignment explanation
Indices: 18540344--18540386 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
18540334 ACACCTCTAT
*
18540344 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
18540365 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
18540386 T
1 T
18540387 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:18541308 original size:114 final size:113
Alignment explanation
Indices: 18540693--18541360 Score: 703
Period size: 114 Copynumber: 5.9 Consensus size: 113
18540683 ACCTACATGT
* * * *
18540693 GTTTTTACATGAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGAT
1 GTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCGTTTTGGTTAAGAT
* * * ** * *
18540758 ATTTTGCGGCGATTCTTACAAAGCGCCTTTAATACTCTGCTTTAGCGGC
66 ATTTTGCGGCGTTTC-TAAAAAACGCCGCTAATACTATGCTATAGCGGC
* * ** * * * *
18540807 CTTTTTCCGTACCCGCCACTAATTTTTATATTCATCAAGACCAAACGATGCGTTTTGGTTAAGAT
1 GTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCGTTTTGGTTAAGAT
* * *
18540872 ATCTTGCGGCGTTTCATACAAAACGCCGCTAATACTATGCTATAGCGGT
66 ATTTTGCGGCGTTTC-TAAAAAACGCCGCTAATACTATGCTATAGCGGC
* * * *
18540921 GTTTTTCCACAAGCGCCACTAATTCTAATATACATTAAGACCAAACGCTGCGTTTTGGTTAAGAT
1 GTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCGTTTTGGTTAAGAT
* * * * * * *
18540986 ATTTTACGACGTTTCTCAAAAAGCGCCTCTAATACTCTCCTTTAGCGGC
66 ATTTTGCGGCGTTTCT-AAAAAACGCCGCTAATACTATGCTATAGCGGC
* * * * *
18541035 ATTTTTCCGTAACCGCCACTAATTCTTATATACCTCAAGACCAAACGATGCATTTTGGTTAAGAT
1 GTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCGTTTTGGTTAAGAT
** *
18541100 ATTTTGCGGCGTTTTCTGTAAAACGCCGCTAATACTGTGCTATAGCGGC
66 ATTTTGCGGCG-TTTCTAAAAAACGCCGCTAATACTATGCTATAGCGGC
* * **
18541149 GTTTTTACATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTTTATTAAGA
1 GTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCG-TTTTGGTTAAGA
* * *
18541214 TATTTTGTGGCGTTTACTAAAAAACGCCGCTAATAATATACTATAGCGGC
65 TATTTTGCGGCGTTT-CTAAAAAACGCCGCTAATACTATGCTATAGCGGC
* * * ** * * * *
18541264 G-TTTTCCATAAACGCCACCAAATCTAATATACCTCGGGAACAAACAATGCGTTTTGGCTAACA-
1 GTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCGTTTTGGTTAAGAT
* *
18541327 ATTTTTGCGGCGCTTAC-AAATAAGCGCCGCTAAT
66 A-TTTTGCGGCG-TTTCTAAA-AAACGCCGCTAAT
18541361 TGTGCTATAT
Statistics
Matches: 459, Mismatches: 88, Indels: 15
0.82 0.16 0.03
Matches are distributed among these distances:
112 4 0.01
113 31 0.07
114 368 0.80
115 56 0.12
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.32
Consensus pattern (113 bp):
GTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCGTTTTGGTTAAGAT
ATTTTGCGGCGTTTCTAAAAAACGCCGCTAATACTATGCTATAGCGGC
Found at i:18541335 original size:228 final size:226
Alignment explanation
Indices: 18540693--18541338 Score: 828
Period size: 228 Copynumber: 2.8 Consensus size: 226
18540683 ACCTACATGT
*
18540693 GTTTTTACATGAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGAT
1 GTTTTTACATAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGAT
* * * * *
18540758 ATTTTGCGGCGATTCTTACAAAGCGCCTTTAATACTCTGCTTTAGCGGCCTTTTTCCGTACCCGC
66 ATTTTGCGGCGTTTC-TAAAAAGCGCCTCTAATACTCTACTTTAGCGG-CTTTTTCCGTAACCGC
* * * *
18540823 CACTAATTTTTATATTCATCAAGACCAAACGATGCGTTTTGGTTAAGATATCTTGCGGCGTTTCA
129 CACTAATTCTTATATACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGTTTCA
*
18540888 TACAAAACGCCGCTAATACTATGCTATAGCGGT
194 TACAAAACGCCGCTAATACTATGCTATAGCGGC
* * *
18540921 GTTTTTCCACAAGCGCCACTAATTCTAATATACATTAAGACCAAACGCTGCGTTTTGGTTAAGAT
1 GTTTTTACATAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGAT
* * *
18540986 ATTTTACGACGTTTCTCAAAAAGCGCCTCTAATACTCTCCTTTAGCGGCATTTTTCCGTAACCGC
66 ATTTTGCGGCGTTTCT-AAAAAGCGCCTCTAATACTCTACTTTAGCGGC-TTTTTCCGTAACCGC
*
18541051 CACTAATTCTTATATACCTCAAGACCAAACGATGCATTTTGGTTAAGATATTTTGCGGCGTTTTC
129 CACTAATTCTTATATACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCG-TTTC
** *
18541116 -TGTAAAACGCCGCTAATACTGTGCTATAGCGGC
193 ATACAAAACGCCGCTAATACTATGCTATAGCGGC
* **
18541149 GTTTTTACATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTTTATTAAGA
1 GTTTTTACATAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCG-TTTTGGTTAAGA
* * * * * * * * *
18541214 TATTTTGTGGCGTTTACTAAAAAACGCCGCTAATAATATACTATAGCGGCGTTTTCCATAAACGC
65 TATTTTGCGGCGTTT-CTAAAAAGCGCCTCTAATACTCTACTTTAGCGGCTTTTTCCGTAACCGC
* * * ** * * * *
18541279 CACCAAATCTAATATACCTCGGGAACAAACAATGCGTTTTGGCTAACA-ATTTTTGCGGCG
129 CACTAATTCTTATATACCTCAAGACCAAACGATGCGTTTTGGTTAAGATA-TTTTGCGGCG
18541339 CTTACAAATA
Statistics
Matches: 364, Mismatches: 48, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
227 3 0.01
228 307 0.84
229 52 0.14
230 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.33
Consensus pattern (226 bp):
GTTTTTACATAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGAT
ATTTTGCGGCGTTTCTAAAAAGCGCCTCTAATACTCTACTTTAGCGGCTTTTTCCGTAACCGCCA
CTAATTCTTATATACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGTTTCATA
CAAAACGCCGCTAATACTATGCTATAGCGGC
Found at i:18541354 original size:342 final size:342
Alignment explanation
Indices: 18540706--18541360 Score: 809
Period size: 342 Copynumber: 1.9 Consensus size: 342
18540696 TTTACATGAG
* *
18540706 CGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGAT
1 CGCCACTAATTCTAATATACATCAAGACCAAACGATGCATTTTGGTTAAGATATTTTGCGGCGAT
** * * * * * *
18540771 TCTTACAAAGCGCCTTTAATACTCTGCTTTAGCGGCCTTTTTCCGTACCCGCCACTAATTTTTAT
66 TCTTACAAAGCGCCGCTAATACTCTGCTATAGCGGCCTTTTTACATAACCGCCACTAATTCTAAT
* * *
18540836 ATTCATCAAGACCAAACGATGCGTTTTGGTTAAGATATCTTGCGGCGTTTCATACAAAACGCCGC
131 ATACATCAAGACCAAACGATGCGTTTTGATTAAGATATCTTGCGGCGTTTCATAAAAAACGCCGC
* * * * * * * *
18540901 TAATACTATGCTATAGCGGTGTTTTTCCACAAGCGCCACTAATTCTAATATACATTAAGACCAAA
196 TAATAATATACTATAGCGGCGTTTTTCCACAAACGCCACCAAATCTAATATACATCAAGAACAAA
** * * * * *
18540966 CGCTGCGTTTTGGTTAAGATATTTTACGACGTTTCTCAAAAAGCGCCTCTAATACTCTCCTTTAG
261 CAATGCGTTTTGGCTAAAATATTTTACGACGCTTCACAAAAAGCGCCGCTAATACTCTCCTTTAG
18541031 CGGCATTTTTCCGTAAC
326 CGGCATTTTTCCGTAAC
* * *
18541048 CGCCACTAATTCTTATATACCTCAAGACCAAACGATGCATTTTGGTTAAGATATTTTGCGGCGTT
1 CGCCACTAATTCTAATATACATCAAGACCAAACGATGCATTTTGGTTAAGATATTTTGCGGCG-A
* * *
18541113 TTCTGTA-AAA-CGCCGCTAATACTGTGCTATAGCGGCGTTTTTACATAAGCGCCACTAATTCTA
65 TTCT-TACAAAGCGCCGCTAATACTCTGCTATAGCGGCCTTTTTACATAACCGCCACTAATTCTA
* * * * *
18541176 ATATACCTCAAGACCAAACGCTGCGTTTTTTATTAAGATATTTTGTGGCGTTT-ACTAAAAAACG
129 ATATACATCAAGACCAAACGATGCG-TTTTGATTAAGATATCTTGCGGCGTTTCA-TAAAAAACG
* * **
18541240 CCGCTAATAATATACTATAGCGGCG-TTTTCCATAAACGCCACCAAATCTAATATACCTCGGGAA
192 CCGCTAATAATATACTATAGCGGCGTTTTTCCACAAACGCCACCAAATCTAATATACATCAAGAA
* *
18541304 CAAACAATGCGTTTTGGCTAACAAT-TTTTGCGGCGCTT-ACAAATAAGCGCCGCTAAT
257 CAAACAATGCGTTTTGGCTAA-AATATTTTACGACGCTTCACAAA-AAGCGCCGCTAAT
18541361 TGTGCTATAT
Statistics
Matches: 262, Mismatches: 45, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
341 4 0.02
342 194 0.74
343 62 0.24
344 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (342 bp):
CGCCACTAATTCTAATATACATCAAGACCAAACGATGCATTTTGGTTAAGATATTTTGCGGCGAT
TCTTACAAAGCGCCGCTAATACTCTGCTATAGCGGCCTTTTTACATAACCGCCACTAATTCTAAT
ATACATCAAGACCAAACGATGCGTTTTGATTAAGATATCTTGCGGCGTTTCATAAAAAACGCCGC
TAATAATATACTATAGCGGCGTTTTTCCACAAACGCCACCAAATCTAATATACATCAAGAACAAA
CAATGCGTTTTGGCTAAAATATTTTACGACGCTTCACAAAAAGCGCCGCTAATACTCTCCTTTAG
CGGCATTTTTCCGTAAC
Found at i:18550636 original size:3 final size:3
Alignment explanation
Indices: 18550623--18550723 Score: 193
Period size: 3 Copynumber: 33.3 Consensus size: 3
18550613 AAATATAAGA
18550623 AAT ACAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18550669 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18550717 AAT AAT A
1 AAT AAT A
18550724 CGCGTAGTAG
Statistics
Matches: 97, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
3 94 0.97
4 3 0.03
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18551263 original size:19 final size:19
Alignment explanation
Indices: 18551239--18551280 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
18551229 AAATACAACC
* *
18551239 TTTTGTTATTTCTTTTTGT
1 TTTTGTTATATATTTTTGT
*
18551258 TTTTGTTGTATATTTTTGT
1 TTTTGTTATATATTTTTGT
18551277 TTTT
1 TTTT
18551281 TCTTTGCATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.07, C:0.02, G:0.12, T:0.79
Consensus pattern (19 bp):
TTTTGTTATATATTTTTGT
Found at i:18551890 original size:22 final size:21
Alignment explanation
Indices: 18551853--18551894 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
18551843 TATGATTTTA
18551853 ATAAATTTAAAATTAAATTAG
1 ATAAATTTAAAATTAAATTAG
*
18551874 ATAAATTATTAAATTAAATTA
1 ATAAATT-TAAAATTAAATTA
18551895 AATATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
ATAAATTTAAAATTAAATTAG
Found at i:18551900 original size:17 final size:17
Alignment explanation
Indices: 18551854--18551900 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
18551844 ATGATTTTAA
18551854 TAAATTTAAA-ATTAAAT
1 TAAA-TTAAATATTAAAT
*
18551871 TAGA-TAAATTATTAAAT
1 TAAATTAAA-TATTAAAT
18551888 TAAATTAAATATT
1 TAAATTAAATATT
18551901 TTAAATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 4 0.16
17 17 0.68
18 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
TAAATTAAATATTAAAT
Found at i:18561703 original size:3 final size:3
Alignment explanation
Indices: 18561647--18561686 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
18561637 AAACTGATAA
* *
18561647 ATT ATT ATT ATT ATC ATT ATT ATT ATT GTT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
18561687 GTTTTTGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:18564233 original size:14 final size:15
Alignment explanation
Indices: 18564214--18564242 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18564204 AGATATAGTA
18564214 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
18564228 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
18564243 GTCACATGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:18566639 original size:18 final size:18
Alignment explanation
Indices: 18566606--18566641 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18566596 TTCATAATTG
**
18566606 AATAACTCAATTTTTTCT
1 AATAACTCAAGCTTTTCT
18566624 AATAACTCAAGCTTTTCT
1 AATAACTCAAGCTTTTCT
18566642 TGGAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.19, G:0.03, T:0.44
Consensus pattern (18 bp):
AATAACTCAAGCTTTTCT
Found at i:18566684 original size:17 final size:16
Alignment explanation
Indices: 18566664--18566697 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
18566654 AAAATTAATT
*
18566664 TTAAAAACTAAAGAAAA
1 TTAAAAAATAAA-AAAA
18566681 TTAAAAAATAAAAAAA
1 TTAAAAAATAAAAAAA
18566697 T
1 T
18566698 GTTTGGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (16 bp):
TTAAAAAATAAAAAAA
Found at i:18583574 original size:9 final size:9
Alignment explanation
Indices: 18583511--18583576 Score: 50
Period size: 9 Copynumber: 7.4 Consensus size: 9
18583501 TTTCGGTTAA
18583511 ATTAATTATT
1 ATTAA-TATT
*
18583521 -TTAACATT
1 ATTAATATT
18583529 ATTAATATT
1 ATTAATATT
18583538 ATT-ATATT
1 ATTAATATT
* *
18583546 GCATCATTATT
1 --ATTAATATT
18583557 ATT--TATT
1 ATTAATATT
18583564 ATTAATATT
1 ATTAATATT
18583573 ATTA
1 ATTA
18583577 TCCTTATCTC
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
7 7 0.16
8 8 0.18
9 24 0.53
10 2 0.04
11 4 0.09
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (9 bp):
ATTAATATT
Found at i:18583821 original size:47 final size:48
Alignment explanation
Indices: 18583768--18583870 Score: 113
Period size: 49 Copynumber: 2.2 Consensus size: 48
18583758 GATATACAAG
* * *
18583768 TACATACTTATATATATTT-TCCATATTTCGTAATTTTAAAATATATA
1 TACATACATATATATATTTATACATATTTCATAATTTTAAAATATATA
* * * *
18583815 TACATACATATGTTTCTTTCATATATATTTCATAATTTTAAAATATATA
1 TACATACATATATATATTT-ATACATATTTCATAATTTTAAAATATATA
18583864 -A-ATACAT
1 TACATACAT
18583871 GCATACATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
47 21 0.45
48 1 0.02
49 25 0.53
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.48
Consensus pattern (48 bp):
TACATACATATATATATTTATACATATTTCATAATTTTAAAATATATA
Found at i:18585299 original size:3 final size:3
Alignment explanation
Indices: 18585291--18585328 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
18585281 CTTTCTAACT
18585291 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
18585329 CCCTAACATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:18585685 original size:24 final size:23
Alignment explanation
Indices: 18585639--18585685 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
18585629 TTAATTATGG
18585639 AATTAATTAAATTTACTTTAAATT
1 AATTAATTAAATTTA-TTTAAATT
18585663 AATTAATTAATATTT-TTTGAAAT
1 AATTAATTAA-ATTTATTT-AAAT
18585686 GGAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 14 0.67
25 4 0.19
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
AATTAATTAAATTTATTTAAATT
Found at i:18590153 original size:29 final size:29
Alignment explanation
Indices: 18590121--18590176 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
18590111 TGGTTAAATG
18590121 TATA-ATTTTATACATG-AATTTTGATTT
1 TATATATTTTATACATGAAATTTTGATTT
18590148 TATATATTTTATACATGAAATTTTGATTT
1 TATATATTTTATACATGAAATTTTGATTT
18590177 AATCCAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 4 0.15
28 12 0.44
29 11 0.41
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (29 bp):
TATATATTTTATACATGAAATTTTGATTT
Found at i:18594139 original size:14 final size:14
Alignment explanation
Indices: 18594120--18594149 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
18594110 TTGTTACAGG
18594120 TTTTCTTTCTTTTC
1 TTTTCTTTCTTTTC
18594134 TTTTCTTTCTTTTC
1 TTTTCTTTCTTTTC
18594148 TT
1 TT
18594150 GTAGATTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTCTTTCTTTTC
Found at i:18601804 original size:3 final size:3
Alignment explanation
Indices: 18601791--18601858 Score: 70
Period size: 3 Copynumber: 23.0 Consensus size: 3
18601781 TTATTTACTC
* * *
18601791 ATT ATT A-T ATT ATT -GT ATT A-T ACT ATT AGTT TTGT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT AT-T ATT ATT ATT
18601835 ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT
18601859 TACTCATTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
2 5 0.09
3 46 0.84
4 4 0.07
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:18613726 original size:6 final size:6
Alignment explanation
Indices: 18613715--18613739 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18613705 TTCTCCAATT
18613715 GTTATG GTTATG GTTATG GTTATG G
1 GTTATG GTTATG GTTATG GTTATG G
18613740 AATTTGGGAA
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:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (6 bp):
GTTATG
Found at i:18615672 original size:18 final size:18
Alignment explanation
Indices: 18615649--18615694 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
18615639 AGAAGTTTTG
18615649 ATAATTATACATTTAA-AA
1 ATAATTATA-ATTTAATAA
18615667 ATAATTATAATTTAATAA
1 ATAATTATAATTTAATAA
*
18615685 AAAATTATAA
1 ATAATTATAA
18615695 GTACACATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAATTATAATTTAATAA
Found at i:18615676 original size:24 final size:24
Alignment explanation
Indices: 18615649--18615721 Score: 86
Period size: 24 Copynumber: 3.3 Consensus size: 24
18615639 AGAAGTTTTG
18615649 ATAATTATACATTTAAAAATAATT
1 ATAATTATACATTTAAAAATAATT
18615673 ATAATT-TA-A--T-AAAA-AATT
1 ATAATTATACATTTAAAAATAATT
* *
18615691 ATAAGTACACATTTAAAAATAATT
1 ATAATTATACATTTAAAAATAATT
18615715 ATAATTA
1 ATAATTA
18615722 ATAATTATTG
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
18 9 0.22
19 5 0.12
20 2 0.05
22 2 0.05
23 6 0.15
24 16 0.40
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.38
Consensus pattern (24 bp):
ATAATTATACATTTAAAAATAATT
Found at i:18618186 original size:28 final size:28
Alignment explanation
Indices: 18618123--18618179 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
18618113 GGGTTTGGGT
* *
18618123 TTAGGATTTAAGGTTCAAGGTTCGAAGT
1 TTAGGATTTAAGATTCAAGGTTCGAAGG
18618151 TTAGGATTTAAGATTCAAGGTTC-AAGG
1 TTAGGATTTAAGATTCAAGGTTCGAAGG
18618178 TT
1 TT
18618180 CGTGATTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (28 bp):
TTAGGATTTAAGATTCAAGGTTCGAAGG
Found at i:18621439 original size:30 final size:30
Alignment explanation
Indices: 18621393--18621516 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
18621383 TTTTATTATG
*
18621393 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
18621424 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
18621454 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
18621484 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
18621514 CCA
1 CCA
18621517 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:18621448 original size:15 final size:15
Alignment explanation
Indices: 18621403--18621510 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
18621393 CCAATATCTC
18621403 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
18621418 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
18621433 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
18621448 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
18621463 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
18621478 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
18621493 GATACCCATATCTTT
1 GATACCCATATCTTT
18621508 GAT
1 GAT
18621511 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:18623985 original size:96 final size:96
Alignment explanation
Indices: 18623821--18624012 Score: 323
Period size: 96 Copynumber: 2.0 Consensus size: 96
18623811 CTGCCACCCC
18623821 GTTCTGTGGTGGTGTAGCTCAAACAGTGAAGTGTCGCACAATGCCCTCATCTTAACATACTTGTA
1 GTTCTGTGGTGGTGTAGCTCAAACAGTGAAGTGTCGCACAATGCCCTCATCTTAACATACTTGTA
*
18623886 GAAATGGATCATTCTTGTATTCAGTACCATT
66 GAAATGGATCATTCTTGTACTCAGTACCATT
* * *
18623917 GTTCTGCT-GTGGTGTATCTCGAACAGTGAAGTGTCGCACAATGCCCTCATCTTGACATACTTGT
1 GTTCTG-TGGTGGTGTAGCTCAAACAGTGAAGTGTCGCACAATGCCCTCATCTTAACATACTTGT
*
18623981 AGAAATGGATCATTTTTGTACTCAGTACCATT
65 AGAAATGGATCATTCTTGTACTCAGTACCATT
18624013 ATCTGATCGA
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
96 89 0.99
97 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (96 bp):
GTTCTGTGGTGGTGTAGCTCAAACAGTGAAGTGTCGCACAATGCCCTCATCTTAACATACTTGTA
GAAATGGATCATTCTTGTACTCAGTACCATT
Found at i:18626223 original size:31 final size:30
Alignment explanation
Indices: 18626188--18626276 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
18626178 ATTTCTTATG
18626188 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TCGATACCCATATCTTTGACTTT
*
18626219 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTCGATACCCATATCTTTGACTTT
* *
18626249 ---AT-TT-GATACTCATATATTTGACTTT
1 CCAATATTCGATACCCATATCTTTGACTTT
18626274 CCA
1 CCA
18626277 TAAATATGGA
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
25 19 0.37
26 2 0.04
27 2 0.04
30 22 0.42
31 7 0.13
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.43
Consensus pattern (30 bp):
CCAATATTCGATACCCATATCTTTGACTTT
Found at i:18626234 original size:30 final size:30
Alignment explanation
Indices: 18626188--18626276 Score: 107
Period size: 25 Copynumber: 3.1 Consensus size: 30
18626178 ATTTCTTATG
*
18626188 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
18626219 CCAATATTTGATACCCATATCTTTGAC-TT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
18626248 ----TATTTGATACTCATATATTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
18626274 CCA
1 CCA
18626277 TAAATATGGA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
25 21 0.41
26 2 0.04
29 2 0.04
30 19 0.37
31 7 0.14
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:18626243 original size:15 final size:15
Alignment explanation
Indices: 18626198--18626244 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
18626188 CCAATATCTC
18626198 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
18626213 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
18626228 GATACCCATATCTTT
1 GATACCCATATCTTT
18626243 GA
1 GA
18626245 CTTTATTTGA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:18629151 original size:11 final size:11
Alignment explanation
Indices: 18629135--18629160 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18629125 TCAAGTGTTT
18629135 GAGTAAAACTA
1 GAGTAAAACTA
18629146 GAGTAAAACTA
1 GAGTAAAACTA
18629157 GAGT
1 GAGT
18629161 CCAATGGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.23, T:0.19
Consensus pattern (11 bp):
GAGTAAAACTA
Found at i:18631927 original size:23 final size:25
Alignment explanation
Indices: 18631893--18632196 Score: 227
Period size: 28 Copynumber: 11.6 Consensus size: 25
18631883 ACATTATTTG
* *
18631893 ATTAAAATCCCTAA-C-CCTACTTA
1 ATTAAAAACCCTAACCACCTAATTA
*
18631916 ATTAAAAACCCT-A--ATCTAATTTA
1 ATTAAAAACCCTAACCACCTAA-TTA
18631939 ATTAAAAACCCTAACCTAACCTAATTTA
1 ATTAAAAACCCTAACC--ACCTAA-TTA
18631967 ATTAAAAACCCTAACCTAACCTAATTAA
1 ATTAAAAACCCTAACC--ACCTAATT-A
18631995 ATTAAAAACCCTAACCTAACCTAATTAA
1 ATTAAAAACCCTAACC--ACCTAATT-A
18632023 ATTAAAAACCCTAACCCTAACCTAACCTAATTTA
1 ATT--AAA----AACCCTAACC--ACCTAA-TTA
18632057 ATTAAAAACCCT-A--ACCTAATTTA
1 ATTAAAAACCCTAACCACCTAA-TTA
**
18632080 ATTAAAAACCCTAACCTTATTTAATTAA
1 ATTAAAAACCCTAACC--ACCTAATT-A
18632108 ATTAAAAACCCTAA--ACCTAATTTA
1 ATTAAAAACCCTAACCACCTAA-TTA
18632132 ATTAAAAACCCTAACCTAACCTAATTAA
1 ATTAAAAACCCTAACC--ACCTAATT-A
*
18632160 ATTAAAAACCCTAA-C-CCTATTTA
1 ATTAAAAACCCTAACCACCTAATTA
18632183 ATTAAAAACCCTAA
1 ATTAAAAACCCTAA
18632197 TTAAATTGTA
Statistics
Matches: 245, Mismatches: 9, Indels: 54
0.80 0.03 0.18
Matches are distributed among these distances:
22 4 0.02
23 63 0.26
24 27 0.11
25 2 0.01
27 8 0.03
28 111 0.45
30 3 0.01
32 3 0.01
34 22 0.09
35 2 0.01
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (25 bp):
ATTAAAAACCCTAACCACCTAATTA
Found at i:18631956 original size:28 final size:28
Alignment explanation
Indices: 18631925--18632196 Score: 320
Period size: 28 Copynumber: 10.0 Consensus size: 28
18631915 AATTAAAAAC
*
18631925 CCTAATCTAATTTAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAAAACCCTAA
18631953 CCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
18631981 CCTAACCTAATTAAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
18632009 CCTAACCTAATTAAATTAAAAACCCTAACCCTAA
1 CCTAACCTAATTTAATT--AAA----AACCCTAA
18632043 CCTAACCTAATTTAATTAAAAA--C---
1 CCTAACCTAATTTAATTAAAAACCCTAA
18632066 CCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAAAACCCTAA
* ** *
18632094 CCTTATTTAATTAAATTAAAAACCCT-A
1 CCTAACCTAATTTAATTAAAAACCCTAA
18632121 ---AACCTAATTTAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
18632146 CCTAACCTAATTAAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAAAACCCTAA
18632174 -C---CCT-ATTTAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAAAACCCTAA
18632197 TTAAATTGTA
Statistics
Matches: 216, Mismatches: 13, Indels: 35
0.82 0.05 0.13
Matches are distributed among these distances:
23 40 0.19
24 22 0.10
25 2 0.01
26 1 0.00
27 2 0.01
28 119 0.55
30 3 0.01
32 3 0.01
34 24 0.11
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (28 bp):
CCTAACCTAATTTAATTAAAAACCCTAA
Found at i:18631976 original size:51 final size:53
Alignment explanation
Indices: 18631913--18632196 Score: 249
Period size: 51 Copynumber: 5.3 Consensus size: 53
18631903 CTAACCCTAC
18631913 TTAATTAAAAACCCTAA-T-CTAATTTAATTAAAAACCCTAACCTAACCTAAT
1 TTAATTAAAAACCCTAACTACTAATTTAATTAAAAACCCTAACCTAACCTAAT
*
18631964 TTAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTAACCTAAT
1 TTAATTAAAAACCCTAA-CT-A-CTAATTTAATTAAAAACCCTAACCTAACCTAAT
*
18632020 TAAATTAAAAACCCTAACCCTAACCTAACCTAATTTAATTAAAAA--C---CCTAACCTAAT
1 TTAATT--AAA----AACCCTAA-CT-A-CTAATTTAATTAAAAACCCTAACCTAACCTAAT
* *
18632077 TTAATTAAAAACCCTAACCTTATTTAATTAAATTAAAAACCCT-A---AACCTAAT
1 TTAATTAAAAACCCTAA-C-TA-CTAATTTAATTAAAAACCCTAACCTAACCTAAT
*
18632129 TTAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAA-C---CCT-AT
1 TTAATTAAAAACCCTAA-CT-A-CTAATTTAATTAAAAACCCTAACCTAACCTAAT
18632180 TTAATTAAAAACCCTAA
1 TTAATTAAAAACCCTAA
18632197 TTAAATTGTA
Statistics
Matches: 205, Mismatches: 9, Indels: 38
0.81 0.04 0.15
Matches are distributed among these distances:
51 62 0.30
52 51 0.25
53 3 0.01
55 3 0.01
56 37 0.18
57 16 0.08
58 3 0.01
60 1 0.00
62 29 0.14
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (53 bp):
TTAATTAAAAACCCTAACTACTAATTTAATTAAAAACCCTAACCTAACCTAAT
Found at i:18632092 original size:18 final size:20
Alignment explanation
Indices: 18632047--18632108 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 20
18632037 CCCTAACCTA
18632047 ACCTAATTTAATTAAAAACCC
1 ACCTAATTTAATTAAAAA-CC
18632068 TAACCTAATTTAATTAAAAACCC
1 --ACCTAATTTAATTAAAAA-CC
*
18632091 TAACCTTATTTAATTAAA
1 --ACCTAATTTAATTAAA
18632109 TTAAAAACCC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (20 bp):
ACCTAATTTAATTAAAAACC
Found at i:18632096 original size:85 final size:88
Alignment explanation
Indices: 18631945--18632175 Score: 308
Period size: 90 Copynumber: 2.7 Consensus size: 88
18631935 TTTAATTAAA
18631945 AACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAAC
1 AACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAA-CT-ATTAAATTAAAAACCCTAAC
18632010 CTAACCTAATTAAATTAAAAACCCT
64 CTAACCTAATTAAATTAAAAACCCT
18632035 AACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAA-T-TT-AATTAAAAACCCTAACCT
1 AACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAACTATTAAATTAAAAACCCTAACCT
* **
18632097 TATTTAATTAAATT--AAA----
66 AACCTAATTAAATTAAAAACCCT
18632114 AACCCT-A---AACCTAATTTAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAAC
1 AACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAA-CT-ATTAAATTAAAAACCCTAAC
18632175 C
64 C
18632176 CTATTTAATT
Statistics
Matches: 133, Mismatches: 3, Indels: 20
0.85 0.02 0.13
Matches are distributed among these distances:
75 30 0.23
77 1 0.01
78 1 0.01
79 8 0.06
80 17 0.13
83 3 0.02
85 29 0.22
86 2 0.02
88 1 0.01
90 41 0.31
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (88 bp):
AACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAACTATTAAATTAAAAACCCTAACCT
AACCTAATTAAATTAAAAACCCT
Found at i:18632406 original size:112 final size:112
Alignment explanation
Indices: 18632277--18632500 Score: 439
Period size: 112 Copynumber: 2.0 Consensus size: 112
18632267 TAGTAATTTG
18632277 ATAATTTAACCAAAATTTAATACAATTATCAATACATAATTGAATAAAAGGTAATTTCTTCTATA
1 ATAATTTAACCAAAATTTAATACAATTATCAATACATAATTGAATAAAAGGTAATTTCTTCTATA
18632342 ATTACATTCAACTATTGCGATTAGGACATGATCGACTTGTATGGCCT
66 ATTACATTCAACTATTGCGATTAGGACATGATCGACTTGTATGGCCT
18632389 ATAATTTAACCAAAATTTAATACAATTATCAATACATAATTGAATAAAAGGTAATTTCTTCTATA
1 ATAATTTAACCAAAATTTAATACAATTATCAATACATAATTGAATAAAAGGTAATTTCTTCTATA
*
18632454 ATTACATTCAACTATTGCGATTAGGGCATGATCGACTTGTATGGCCT
66 ATTACATTCAACTATTGCGATTAGGACATGATCGACTTGTATGGCCT
18632501 GGGTTCCTAC
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 111 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (112 bp):
ATAATTTAACCAAAATTTAATACAATTATCAATACATAATTGAATAAAAGGTAATTTCTTCTATA
ATTACATTCAACTATTGCGATTAGGACATGATCGACTTGTATGGCCT
Found at i:18636193 original size:72 final size:71
Alignment explanation
Indices: 18636104--18636245 Score: 266
Period size: 72 Copynumber: 2.0 Consensus size: 71
18636094 TCACCTTCCG
*
18636104 TTGGAATAGGCTCCGGTTTAGAAAATAATCCCACCTCTGCACCATCCGGCCCGGGCTCTCGAGGT
1 TTGGAATAGGCTCCGGTTCAGAAAATAATCCCACCTCTGCACCATCCGGCCCGGGCTCTCGAGGT
18636169 GGATCNA
66 GGATC-A
18636176 TTGGAATAGGCTCCGGTTCAGAAAATAATCCCACCTCTGCACCATCCGGCCCGGGCTCTCGAGGT
1 TTGGAATAGGCTCCGGTTCAGAAAATAATCCCACCTCTGCACCATCCGGCCCGGGCTCTCGAGGT
18636241 GGATC
66 GGATC
18636246 CACATCGGAC
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.22, C:0.30, G:0.25, T:0.22
Consensus pattern (71 bp):
TTGGAATAGGCTCCGGTTCAGAAAATAATCCCACCTCTGCACCATCCGGCCCGGGCTCTCGAGGT
GGATCA
Found at i:18641946 original size:85 final size:85
Alignment explanation
Indices: 18641803--18642090 Score: 544
Period size: 85 Copynumber: 3.4 Consensus size: 85
18641793 CAAACTTGCT
18641803 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
18641868 AATTATTTCCTACATGACCA
66 AATTATTTCCTACATGACCA
*
18641888 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAAAAACGTCAAAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
18641953 AATTATTTCCTACATGACCA
66 AATTATTTCCTACATGACCA
*
18641973 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCGGAAACGTC--AAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
18642036 AATTATTTCCTACATGACCA
66 AATTATTTCCTACATGACCA
18642056 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
18642091 CACAATTTCT
Statistics
Matches: 200, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
83 60 0.30
85 140 0.70
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.23
Consensus pattern (85 bp):
ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
AATTATTTCCTACATGACCA
Found at i:18642221 original size:125 final size:124
Alignment explanation
Indices: 18642024--18642255 Score: 351
Period size: 125 Copynumber: 1.9 Consensus size: 124
18642014 ATTTGCTCGG
* *
18642024 AAACGTCAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGTCCACGAGGGCGCGAT
1 AAACGTCAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGTCCACGAGGCCACGAT
* * **
18642089 TTCACAATTTCTTCTCATATAGCATCCTGGTATCAGCGATTTTATACTATTTCCTCAAA
66 TTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCGATTTTATACTATTTCCTCAAA
18642148 AAACGTCAAAAAAAAATTATTT-CTCACATGACC-ACTGTAGCGAAATCGCGTCCACGAGGCCAC
1 AAACGTC--AAAAAAATTATTTCCT-ACATGACCAACTGTAGCGAAATCGCGTCCACGAGGCCAC
* *
18642211 TATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAAGCGATTT
63 GATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCGATTT
18642256 CCCACTATTT
Statistics
Matches: 97, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
124 7 0.07
125 69 0.71
126 21 0.22
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (124 bp):
AAACGTCAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGTCCACGAGGCCACGAT
TTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCGATTTTATACTATTTCCTCAAA
Found at i:18642263 original size:125 final size:124
Alignment explanation
Indices: 18642001--18642265 Score: 347
Period size: 125 Copynumber: 2.1 Consensus size: 124
18641991 CCACGAGGGC
* * **
18642001 GCGATTTGACACTATTTGCTC-GGAAACGTCAAAAAAATTATTTCCTACATGACCAACTGTAGCG
1 GCGATTTCACACTATTTCCTCAAAAAACGTCAAAAAAATTATTTCCTACATGACCAACTGTAGCG
* * * * **
18642065 AAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
66 AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
* *
18642124 GCGATTTTATACTATTTCCTCAAAAAACGTCAAAAAAAAATTATTT-CTCACATGACC-ACTGTA
1 GCGATTTCACACTATTTCCTCAAAAAACGTC--AAAAAAATTATTTCCT-ACATGACCAACTGTA
* *
18642187 GCGAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAA
63 GCGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
*
18642249 GCGATTTCCCACTATTT
1 GCGATTTCACACTATTT
18642266 AACCAGAAAT
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
123 18 0.15
124 7 0.06
125 76 0.62
126 21 0.17
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (124 bp):
GCGATTTCACACTATTTCCTCAAAAAACGTCAAAAAAATTATTTCCTACATGACCAACTGTAGCG
AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
Found at i:18650196 original size:109 final size:109
Alignment explanation
Indices: 18648556--18650172 Score: 3044
Period size: 109 Copynumber: 14.9 Consensus size: 109
18648546 AAAATATAAG
* * * *
18648556 AGGATATTTGGCTATGTGGTCCAACGAG--AAAT-GAAACGTCCAGC-CATTAGGGCACGTTTTT
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAAC--CCAGCACATTAGGGCATGTTTTC
* *
18648617 TCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAA
64 TCGAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
* *
18648663 AGGATATTCGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
* *
18648728 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
* *
18648772 AGGATATTCGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
18648837 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
18648881 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
18648946 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
18648990 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
18649055 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
18649099 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
18649164 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
18649208 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
18649273 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
18649317 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
18649382 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
18649426 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
18649491 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
18649535 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
18649600 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
18649644 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
18649709 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
18649753 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
18649818 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
18649862 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
18649927 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
18649971 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
18650036 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
* *
18650080 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGCTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
* *
18650145 GAATTTCTAAACGCAAAACATTGCCTTA
66 GAATTTCCAAACGCAAAATATTGCCTTA
18650173 CTGTGAATTT
Statistics
Matches: 1492, Mismatches: 14, Indels: 6
0.99 0.01 0.00
Matches are distributed among these distances:
107 24 0.02
108 5 0.00
109 1458 0.98
110 5 0.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (109 bp):
AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
Found at i:18652508 original size:41 final size:42
Alignment explanation
Indices: 18652445--18652642 Score: 161
Period size: 41 Copynumber: 4.6 Consensus size: 42
18652435 CTTCAGTCTA
*
18652445 CTCCATTGCAACTTCAGGGAGATAAGACTGG-ATGCGATCTG
1 CTCCATTGCAACTTCAAGGAGATAAGACTGGTATGCGATCTG
* * *** *
18652486 CTCTATTGCAACTTCAAAGAGATAAGAGCTGTGGCT-TTTAATCCG
1 CTCCATTGCAACTTCAAGGAGATAAGA-C--TGG-TATGCGATCTG
* * * * * *
18652531 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTG-TCTG
1 CTCCATTGCAACTTCAAGGAGATAAGACTGG--TATGC-GATCTG
*
18652575 CTCCACTGCAACTTCAAGGAGATAAGACTGG-ATGCGATCTG
1 CTCCATTGCAACTTCAAGGAGATAAGACTGGTATGCGATCTG
* *
18652616 CTCTATTGCAACTTCAAAGAGATAAGA
1 CTCCATTGCAACTTCAAGGAGATAAGA
18652643 TCTGTGGTTT
Statistics
Matches: 123, Mismatches: 25, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
40 1 0.01
41 54 0.44
42 4 0.03
43 1 0.01
44 36 0.29
45 27 0.22
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (42 bp):
CTCCATTGCAACTTCAAGGAGATAAGACTGGTATGCGATCTG
Found at i:18652585 original size:130 final size:132
Alignment explanation
Indices: 18652391--18652734 Score: 440
Period size: 130 Copynumber: 2.6 Consensus size: 132
18652381 GGATTTCTCG
* * * ** * * *
18652391 TTTTAATCCGCTACACTGCAACTTTAGAGAGATAGGATTAGTAGCTTCAGTCTACTCCATTGCAA
1 TTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAA
18652456 CTTCAGGGAGATAAGACTGGATGCGATCTGCTCTATTGCAACTTCAAAGAGATAAGAGCTGTGG-
66 CTTCAGGGAGATAAGACTGGATGCGATCTGCTCTATTGCAACTTCAAAGAGATAAGAGCTGTGGT
18652520 C-
131 CT
*
18652521 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAA
1 TTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAA
* *
18652586 CTTCAAGGAGATAAGACTGGATGCGATCTGCTCTATTGCAACTTCAAAGAGATAAGATCTGTGGT
66 CTTCAGGGAGATAAGACTGGATGCGATCTGCTCTATTGCAACTTCAAAGAGATAAGAGCTGTGG-
18652651 TTTTTTTTCTT
130 -------TC-T
* * * * * *
18652662 TTTTAATCCGCTCCATTGGAGCTTTAGGGAGGTAGGATTGGTTTCTTTTGTCTGCTTCACTGCAA
1 TTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAA
18652727 CTTCAGGG
66 CTTCAGGG
18652735 GTATGGGTAA
Statistics
Matches: 184, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
130 118 0.64
139 1 0.01
141 65 0.35
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (132 bp):
TTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAA
CTTCAGGGAGATAAGACTGGATGCGATCTGCTCTATTGCAACTTCAAAGAGATAAGAGCTGTGGT
CT
Done.