Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 42 of 135
Found at i:16455070 original size:43 final size:43
Alignment explanation
Indices: 16455000--16455198 Score: 251
Period size: 43 Copynumber: 4.6 Consensus size: 43
16454990 TTATGTGAAA
* *
16455000 AAACGCCGCTAAAGAACGTGA-CATTTAGCGACGC-TTTACCCAC
1 AAACGCCGCTAAAGAACATGATC-TTTAGCGGCGCTTTTA-CCAC
* *
16455043 AAACGCCGCTAAAGAACATGATCTTTAGCTGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTACCAC
* * *
16455086 AAACGCAGCTAAAGAACATGATCTTTAGTGGCGC-CTTACCTAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTACC-AC
* * * *
16455129 AAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTACCAC
16455172 AAACGCCGCTAAAGAACATGATCTTTA
1 AAACGCCGCTAAAGAACATGATCTTTA
16455199 ACATGTTCTT
Statistics
Matches: 133, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
42 4 0.03
43 120 0.90
44 9 0.07
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTACCAC
Found at i:16455113 original size:86 final size:86
Alignment explanation
Indices: 16455000--16455198 Score: 292
Period size: 86 Copynumber: 2.3 Consensus size: 86
16454990 TTATGTGAAA
* * *
16455000 AAACGCCGCTAAAGAACGTGA-CATTTAGCGACGCTTTACCCACAAACGCCGCTAAAGAACATGA
1 AAACGCCGCTAAAGAACATGATC-TTTAGCGACGCCTTACCCACAAACGCCACTAAAGAACATGA
*
16455064 TCTTTAGCTGCGCTTTTATCAC
65 TCTTTAGCGGCGCTTTTATCAC
* * * * * *
16455086 AAACGCAGCTAAAGAACATGATCTTTAGTGGCGCCTTACCTACAAACGCCACTAAAGATCATGTT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGACGCCTTACCCACAAACGCCACTAAAGAACATGAT
16455151 CTTTAGCGGCGCTTTTATCAC
66 CTTTAGCGGCGCTTTTATCAC
16455172 AAACGCCGCTAAAGAACATGATCTTTA
1 AAACGCCGCTAAAGAACATGATCTTTA
16455199 ACATGTTCTT
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
86 100 0.99
87 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (86 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGACGCCTTACCCACAAACGCCACTAAAGAACATGAT
CTTTAGCGGCGCTTTTATCAC
Found at i:16463448 original size:42 final size:41
Alignment explanation
Indices: 16463356--16463479 Score: 114
Period size: 42 Copynumber: 3.1 Consensus size: 41
16463346 ACGACACCGT
**
16463356 TTTGC-AC-AAAACGCCACTATTGCTTGACTTTTAGCGGCG
1 TTTGCAACAAAAACGCCACTATTGCTCAACTTTTAGCGGCG
* * *
16463395 TTTAG-ACCAAAAACGCTACTATTGCTCAACTTTTTTGCGGCG
1 TTT-GCAACAAAAACGCCACTATTGCTCAAC-TTTTAGCGGCG
* * *
16463437 TTTGCAACAAAAACGACGCTATTGCT-TACTGTTT-GCGGCG
1 TTTGCAACAAAAACGCCACTATTGCTCAACT-TTTAGCGGCG
16463477 TTT
1 TTT
16463480 TTTTCATGAA
Statistics
Matches: 69, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
39 3 0.04
40 12 0.17
41 24 0.35
42 30 0.43
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (41 bp):
TTTGCAACAAAAACGCCACTATTGCTCAACTTTTAGCGGCG
Found at i:16463819 original size:7 final size:7
Alignment explanation
Indices: 16463807--16464041 Score: 68
Period size: 7 Copynumber: 33.0 Consensus size: 7
16463797 AACTAATTAA
16463807 CCTAAAC
1 CCTAAAC
16463814 CCTAAAC
1 CCTAAAC
16463821 CCTAAAC
1 CCTAAAC
16463828 TCCT-AAC
1 -CCTAAAC
* *
16463835 CCTCATC
1 CCTAAAC
16463842 TCCTAAAC
1 -CCTAAAC
* *
16463850 CCTGAAT
1 CCTAAAC
* *
16463857 CATAAAA
1 CCTAAAC
*
16463864 CATAAAC
1 CCTAAAC
*
16463871 CATGAAA-
1 CCT-AAAC
16463878 CCTAAAC
1 CCTAAAC
*
16463885 CCTCAAC
1 CCTAAAC
* *
16463892 TCTTAACC
1 -CCTAAAC
16463900 CCT-AAC
1 CCTAAAC
*
16463906 CCTTAAAT
1 CC-TAAAC
*
16463914 CTTAAA-
1 CCTAAAC
*
16463920 CCTCAAC
1 CCTAAAC
16463927 CCTTAAAC
1 CC-TAAAC
* *
16463935 CATAAAT
1 CCTAAAC
*
16463942 CATAAAC
1 CCTAAAC
* *
16463949 CATAATC
1 CCTAAAC
*
16463956 CATAAAC
1 CCTAAAC
*
16463963 CCATAATC
1 CC-TAAAC
*
16463971 CATAAAC
1 CCTAAAC
*
16463978 CTTAAA-
1 CCTAAAC
*
16463984 -ATAGTAAC
1 CCTA--AAC
*
16463992 TCTTAAAC
1 -CCTAAAC
*
16464000 CTTAAAC
1 CCTAAAC
16464007 CCTAAAC
1 CCTAAAC
* *
16464014 CATATAC
1 CCTAAAC
16464021 CCTAAAC
1 CCTAAAC
*
16464028 CATAAAC
1 CCTAAAC
*
16464035 CTTAAAC
1 CCTAAAC
16464042 TATAATGATA
Statistics
Matches: 172, Mismatches: 40, Indels: 32
0.70 0.16 0.13
Matches are distributed among these distances:
5 2 0.01
6 14 0.08
7 123 0.72
8 31 0.18
10 2 0.01
ACGTcount: A:0.43, C:0.33, G:0.01, T:0.23
Consensus pattern (7 bp):
CCTAAAC
Found at i:16463824 original size:14 final size:14
Alignment explanation
Indices: 16463807--16464046 Score: 87
Period size: 14 Copynumber: 16.9 Consensus size: 14
16463797 AACTAATTAA
*
16463807 CCTAAACCCTAAAC
1 CCTAAACCATAAAC
*
16463821 CCTAAACTCCT-AAC
1 CCTAAAC-CATAAAC
* * *
16463835 CCTCATCTCCTAAAC
1 CCTAAAC-CATAAAC
* * *
16463850 CCTGAATCATAAAA
1 CCTAAACCATAAAC
*
16463864 CATAAACCATGAAA-
1 CCTAAACCAT-AAAC
* *
16463878 CCTAAACCCTCAAC
1 CCTAAACCATAAAC
* * *
16463892 TCTTAACCCCT-AAC
1 -CCTAAACCATAAAC
* *
16463906 CCTTAAATCTTAAA-
1 CC-TAAACCATAAAC
* *
16463920 CCTCAACCCTTAAAC
1 CCT-AAACCATAAAC
* *
16463935 CATAAATCATAAAC
1 CCTAAACCATAAAC
* *
16463949 CATAATCCATAAAC
1 CCTAAACCATAAAC
*
16463963 CCATAATCCATAAAC
1 CC-TAAACCATAAAC
*
16463978 CTTAAA--ATAGTAAC
1 CCTAAACCATA--AAC
* *
16463992 TCTTAAACCTTAAAC
1 -CCTAAACCATAAAC
*
16464007 CCTAAACCATATAC
1 CCTAAACCATAAAC
16464021 CCTAAACCATAAAC
1 CCTAAACCATAAAC
* *
16464035 CTTAAACTATAA
1 CCTAAACCATAA
16464047 TGATAAATAA
Statistics
Matches: 174, Mismatches: 37, Indels: 30
0.72 0.15 0.12
Matches are distributed among these distances:
12 3 0.02
13 4 0.02
14 118 0.68
15 47 0.27
17 2 0.01
ACGTcount: A:0.43, C:0.33, G:0.01, T:0.23
Consensus pattern (14 bp):
CCTAAACCATAAAC
Found at i:16463983 original size:22 final size:22
Alignment explanation
Indices: 16463931--16464035 Score: 58
Period size: 22 Copynumber: 4.9 Consensus size: 22
16463921 CTCAACCCTT
*
16463931 AAACCATAAATCATAAA-CCAT
1 AAACCATAAACCATAAACCCAT
* *
16463952 AATCCATAAACCCAT-AATCCAT
1 AAACCATAAA-CCATAAACCCAT
* * *
16463974 AAACCTTAAA--ATAGTAACTCTT
1 AAACCATAAACCATA--AACCCAT
* *
16463996 AAACCTTAAACCCTAAA-CCAT
1 AAACCATAAACCATAAACCCAT
* *
16464017 ATACCCTAAACCATAAACC
1 AAACCATAAACCATAAACC
16464036 TTAAACTATA
Statistics
Matches: 63, Mismatches: 13, Indels: 15
0.69 0.14 0.16
Matches are distributed among these distances:
19 2 0.03
21 27 0.43
22 32 0.51
24 2 0.03
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.22
Consensus pattern (22 bp):
AAACCATAAACCATAAACCCAT
Found at i:16465270 original size:7 final size:7
Alignment explanation
Indices: 16465261--16465420 Score: 72
Period size: 7 Copynumber: 22.4 Consensus size: 7
16465251 TTCTATCCCT
*
16465261 TAAACCT
1 TAAACCA
*
16465268 TAAATCA
1 TAAACCA
*
16465275 TAAAACA
1 TAAACCA
* *
16465282 TAACCCC
1 TAAACCA
*
16465289 TAAACCC
1 TAAACCA
*
16465296 TAAACCCT
1 TAAA-CCA
*
16465304 TAAACCC
1 TAAACCA
* *
16465311 TAACCCT
1 TAAACCA
16465318 TAAACCA
1 TAAACCA
16465325 TAAACCA
1 TAAACCA
*
16465332 TAAATCA
1 TAAACCA
* *
16465339 TAATCCC
1 TAAACCA
16465346 TAAACCCA
1 TAAA-CCA
*
16465354 TAATCCA
1 TAAACCA
*
16465361 TAAACCT
1 TAAACCA
16465368 TAAA--A
1 TAAACCA
*
16465373 TAGTAACTCC
1 TA--AAC-CA
*
16465383 TAAACCT
1 TAAACCA
*
16465390 TAAACCG
1 TAAACCA
*
16465397 TCAACCA
1 TAAACCA
*
16465404 TAAACCC
1 TAAACCA
*
16465411 TAAACTA
1 TAAACCA
16465418 TAA
1 TAA
16465421 TGATAATTAA
Statistics
Matches: 114, Mismatches: 32, Indels: 14
0.71 0.20 0.09
Matches are distributed among these distances:
5 2 0.02
7 96 0.84
8 14 0.12
10 2 0.02
ACGTcount: A:0.46, C:0.31, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:16465298 original size:57 final size:57
Alignment explanation
Indices: 16465231--16465352 Score: 172
Period size: 57 Copynumber: 2.1 Consensus size: 57
16465221 ACTAATTAAT
*** * * *
16465231 CTAAACCCTAAACCCTTAATTTCTATCCCTTAAACCTTAAATCATAAAACATAACCC
1 CTAAACCCTAAACCCTTAAACCCTAACCCTTAAACCATAAACCATAAAACATAACCC
* *
16465288 CTAAACCCTAAACCCTTAAACCCTAACCCTTAAACCATAAACCATAAATCATAATCC
1 CTAAACCCTAAACCCTTAAACCCTAACCCTTAAACCATAAACCATAAAACATAACCC
16465345 CTAAACCC
1 CTAAACCC
16465353 ATAATCCATA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.24
Consensus pattern (57 bp):
CTAAACCCTAAACCCTTAAACCCTAACCCTTAAACCATAAACCATAAAACATAACCC
Found at i:16465307 original size:15 final size:15
Alignment explanation
Indices: 16465283--16465330 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
16465273 CATAAAACAT
*
16465283 AACCCCTAAACCCTA
1 AACCCTTAAACCCTA
16465298 AACCCTTAAACCCT-
1 AACCCTTAAACCCTA
*
16465312 AACCCTTAAACCATA
1 AACCCTTAAACCCTA
16465327 AACC
1 AACC
16465331 ATAAATCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 13 0.43
15 17 0.57
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.17
Consensus pattern (15 bp):
AACCCTTAAACCCTA
Found at i:16465319 original size:50 final size:50
Alignment explanation
Indices: 16465261--16465371 Score: 132
Period size: 50 Copynumber: 2.2 Consensus size: 50
16465251 TTCTATCCCT
* * * * *
16465261 TAAACCTTAAATCATAAAACATAACCCCTAAACCCTAAACCCTTAAACCC
1 TAAACCTTAAACCATAAAACATAAACCATAAACCCTAAACCCATAAACCA
* * * * *
16465311 TAACCCTTAAACCATAAACCATAAATCATAATCCCTAAACCCATAATCCA
1 TAAACCTTAAACCATAAAACATAAACCATAAACCCTAAACCCATAAACCA
16465361 TAAACCTTAAA
1 TAAACCTTAAA
16465372 ATAGTAACTC
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.22
Consensus pattern (50 bp):
TAAACCTTAAACCATAAAACATAAACCATAAACCCTAAACCCATAAACCA
Found at i:16465354 original size:29 final size:29
Alignment explanation
Indices: 16465255--16465364 Score: 100
Period size: 29 Copynumber: 3.8 Consensus size: 29
16465245 CTTAATTTCT
* *
16465255 ATCCCTTAAACCTTAAATCATAAAACATA
1 ATCCCTTAAACCATAAACCATAAAACATA
* * * * *
16465284 A-CCCCTAAACCCTAAACCCTTAAACCCTA
1 ATCCCTTAAACCATAAA-CCATAAAACATA
*
16465313 A-CCCTTAAACCATAAACCATAAATCATA
1 ATCCCTTAAACCATAAACCATAAAACATA
*
16465341 ATCCC-TAAACCCATAATCCATAAA
1 ATCCCTTAAA-CCATAAACCATAAA
16465365 CCTTAAAATA
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
28 27 0.41
29 39 0.59
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (29 bp):
ATCCCTTAAACCATAAACCATAAAACATA
Found at i:16465365 original size:57 final size:57
Alignment explanation
Indices: 16465231--16465366 Score: 157
Period size: 57 Copynumber: 2.4 Consensus size: 57
16465221 ACTAATTAAT
* *** * * *
16465231 CTAAACCCTAAACCCTTAATTTCTATCCCTTAAACCTTAAATCATAAAACATAACCC
1 CTAAACCCTAAACCCATAAACCCTAACCCTTAAACCATAAACCATAAAACATAACCC
* * *
16465288 CTAAACCCTAAACCCTTAAACCCTAACCCTTAAACCATAAACCATAAATCATAATCC
1 CTAAACCCTAAACCCATAAACCCTAACCCTTAAACCATAAACCATAAAACATAACCC
*
16465345 CTAAACCC-ATAATCCATAAACC
1 CTAAACCCTA-AACCCATAAACC
16465367 TTAAAATAGT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
56 1 0.01
57 67 0.99
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.24
Consensus pattern (57 bp):
CTAAACCCTAAACCCATAAACCCTAACCCTTAAACCATAAACCATAAAACATAACCC
Found at i:16465457 original size:24 final size:24
Alignment explanation
Indices: 16465430--16465479 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
16465420 ATGATAATTA
16465430 ATTCAATATTTGAAAATTAATACT
1 ATTCAATATTTGAAAATTAATACT
16465454 ATTCAATATTTGAAAATTAATACT
1 ATTCAATATTTGAAAATTAATACT
16465478 AT
1 AT
16465480 CTCTTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (24 bp):
ATTCAATATTTGAAAATTAATACT
Found at i:16465845 original size:157 final size:158
Alignment explanation
Indices: 16465674--16465993 Score: 624
Period size: 157 Copynumber: 2.0 Consensus size: 158
16465664 AATATTCAAT
16465674 TAAAAATAAATTATATTTTAATTAATATAAATAAACCAGTTAAAAAATAAATAGATAGATAAAAT
1 TAAAAATAAATTATATTTTAATTAATATAAATAAACCAGTTAAAAAATAAATAGATAGATAAAAT
*
16465739 GTTTTTTTGTGGCGTTTTTGATAAAGCGCCACTAAAGCTCGATCTATAGCGGCGTTTTTCAAAAA
66 GCTTTTTTGTGGCGTTTTTGATAAAGCGCCACTAAAGCTCGATCTATAGCGGCGTTTTTCAAAAA
16465804 GCGCCGCTAATGATACTAAA-CTCAACA
131 GCGCCGCTAATGATACTAAAGCTCAACA
16465831 TAAAAATAAATTATATTTTAATTAATATAAATAAACCAGTTAAAAAATAAATAGATAGATAAAAT
1 TAAAAATAAATTATATTTTAATTAATATAAATAAACCAGTTAAAAAATAAATAGATAGATAAAAT
16465896 GCTTTTTTGTGGCGTTTTTGATAAAGCGCCACTAAAGCTCGATCTATAGCGGCGTTTTTCAAAAA
66 GCTTTTTTGTGGCGTTTTTGATAAAGCGCCACTAAAGCTCGATCTATAGCGGCGTTTTTCAAAAA
16465961 GCGCCGCTAATGATACTAAAGCTCAACA
131 GCGCCGCTAATGATACTAAAGCTCAACA
16465989 TAAAA
1 TAAAA
16465994 CGACGGCGTT
Statistics
Matches: 161, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
157 149 0.93
158 12 0.07
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (158 bp):
TAAAAATAAATTATATTTTAATTAATATAAATAAACCAGTTAAAAAATAAATAGATAGATAAAAT
GCTTTTTTGTGGCGTTTTTGATAAAGCGCCACTAAAGCTCGATCTATAGCGGCGTTTTTCAAAAA
GCGCCGCTAATGATACTAAAGCTCAACA
Found at i:16466083 original size:40 final size:40
Alignment explanation
Indices: 16466024--16466494 Score: 360
Period size: 40 Copynumber: 11.9 Consensus size: 40
16466014 TTTTTTGCGA
* * *
16466024 CGTTTTGCAAAAAGCGCCGCTAATGCTGGATCTATAGCGG
1 CGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGAGG
* * *
16466064 CGATTTTT-GAAAAGTGCCGCTAATGCTCGATCTATAGAAG
1 CG-TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGAGG
* *
16466104 CGTTTTTCAAAAAGCGCTGCTAATGCTCGATCTATAGTGG
1 CGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGAGG
* * *
16466144 CGTCTTTT-AAAAA-CTGCCACTAATGCTCGATTTATAGAAG
1 CGT-TTTTCAAAAAGC-GCCGCTAATGCTCGATCTATAGAGG
*
16466184 CGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGGGG
1 CGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGAGG
* *
16466224 CGTCATTT-AAAAATCGCCGCTAATGC-C-A-CTA-A-A-G
1 CGT-TTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGAGG
*** * ** ** * * * *
16466258 C--TCAACATAAAATGACGGCG-TTGTGCTTAATGTTTTTGCA-C
1 CGTTTTTCA-AAAA-G-CGCCGCTAATGCTCGAT-CTATAG-AGG
* * *
16466299 CATTTTCCAAAAAGTGCCGCTAATGCTCGATCTATAGCA-G
1 CGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAG-AGG
* * * * *
16466339 CGTTGTTCAAAAAGCACCACTAATGCTCCATCTATAGCGG
1 CGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGAGG
* * *
16466379 AGTTTTTCAAAAAGCGCCGCTAATGCTCGATCAATAGCGG
1 CGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGAGG
* * * *
16466419 CGTTGTTCAAAAAGCGTCGCTAATGCTCAATCTATAGCGG
1 CGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGAGG
* *
16466459 CGTTTTTCAAAAAGTGTCGCTAATGCTCGATCTATA
1 CGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
16466495 ATGGCATTTT
Statistics
Matches: 338, Mismatches: 71, Indels: 44
0.75 0.16 0.10
Matches are distributed among these distances:
32 1 0.00
33 4 0.01
34 6 0.02
35 4 0.01
36 2 0.01
37 3 0.01
38 2 0.01
39 11 0.03
40 276 0.82
41 22 0.07
42 4 0.01
43 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (40 bp):
CGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGAGG
Found at i:16466403 original size:275 final size:276
Alignment explanation
Indices: 16465907--16466494 Score: 756
Period size: 275 Copynumber: 2.1 Consensus size: 276
16465897 CTTTTTTGTG
* * * * *
16465907 GCGTTTTTGATAAAGCGCCACTAAAGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAAT
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTATTTCAAAAAGCGCCGCTAAT
* * * *
16465972 GATACTAAAGCTCAACATAAAACGACGGCGTTGTGCTTAAATTTTTTTGCGACGTTTTGCAAAAA
66 GACACTAAAGCTCAACATAAAACGACGGCGTTGTGCTTAAATGTTTTTGCGACATTTTCCAAAAA
* * ** ** * *
16466037 GCGCCGCTAATGCTGGATCTATAGCGGCGATTTTTGAAAAGTGCCGCTAATGCTCGATCTATAGA
131 GCGCCGCTAATGCTCGATCTATAGCAGCGATTTTCAAAAAGCACCACTAATGCTCCATCTATAGA
* * * * *
16466102 AGCGTTTTTCAAAAAGCGCTGCTAATGCTCGATCTATAGTGGCGTCT-TTTAAAAA-CTGCCACT
196 AGAGTTTTTCAAAAAGCGCCGCTAATGCTCGATCAATAGCGGCGT-TGTTCAAAAAGC-GCCACT
* *
16466165 AATGCTCGATTTATAGAA
259 AATGCTCAATCTATAGAA
* *
16466183 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGGGGCGTCATTT-AAAAATCGCCGCTAA
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGT-ATTTCAAAAAGCGCCGCTAA
* *
16466247 TGCCACTAAAGCTCAACATAAAATGACGGCGTTGTGCTT-AATGTTTTTGC-ACCATTTTCCAAA
65 TGACACTAAAGCTCAACATAAAACGACGGCGTTGTGCTTAAATGTTTTTGCGA-CATTTTCCAAA
*
16466310 AAGTGCCGCTAATGCTCGATCTATAGCAGCG-TTGTTCAAAAAGCACCACTAATGCTCCATCTAT
129 AAGCGCCGCTAATGCTCGATCTATAGCAGCGATT-TTCAAAAAGCACCACTAATGCTCCATCTAT
** * *
16466374 AGCGGAGTTTTTCAAAAAGCGCCGCTAATGCTCGATCAATAGCGGCGTTGTTCAAAAAGCGTCGC
193 AGAAGAGTTTTTCAAAAAGCGCCGCTAATGCTCGATCAATAGCGGCGTTGTTCAAAAAGCGCCAC
**
16466439 TAATGCTCAATCTATAGCG
258 TAATGCTCAATCTATAGAA
* *
16466458 GCGTTTTTCAAAAAGTGTCGCTAATGCTCGATCTATA
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
16466495 ATGGCATTTT
Statistics
Matches: 270, Mismatches: 37, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
274 4 0.01
275 173 0.64
276 90 0.33
277 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (276 bp):
GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTATTTCAAAAAGCGCCGCTAAT
GACACTAAAGCTCAACATAAAACGACGGCGTTGTGCTTAAATGTTTTTGCGACATTTTCCAAAAA
GCGCCGCTAATGCTCGATCTATAGCAGCGATTTTCAAAAAGCACCACTAATGCTCCATCTATAGA
AGAGTTTTTCAAAAAGCGCCGCTAATGCTCGATCAATAGCGGCGTTGTTCAAAAAGCGCCACTAA
TGCTCAATCTATAGAA
Found at i:16477376 original size:60 final size:60
Alignment explanation
Indices: 16477311--16477435 Score: 178
Period size: 60 Copynumber: 2.1 Consensus size: 60
16477301 AGGGACATTG
* * * * * *
16477311 AAGTGTATACAGGGGCATTGGAGTGCGAACATGAGCATAGATGTGAAAATAGAGACACCA
1 AAGTGTATACAGGGGCATCGAAGTGCGAACAGGAGCACAAATGTGAAAATAAAGACACCA
* *
16477371 AAGTGTATACAGGGGCATCGAAGTGCGAACAGGAGCACAAATGTGCAAATAAAGACACGA
1 AAGTGTATACAGGGGCATCGAAGTGCGAACAGGAGCACAAATGTGAAAATAAAGACACCA
16477431 AAGTG
1 AAGTG
16477436 CAAACTGGGG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.40, C:0.14, G:0.30, T:0.16
Consensus pattern (60 bp):
AAGTGTATACAGGGGCATCGAAGTGCGAACAGGAGCACAAATGTGAAAATAAAGACACCA
Found at i:16479334 original size:60 final size:60
Alignment explanation
Indices: 16479269--16479393 Score: 178
Period size: 60 Copynumber: 2.1 Consensus size: 60
16479259 AGGGACATTG
* * * * * *
16479269 AAGTGTATACAGGGGCATTGGAGTGCGAACATGAGCATAGATGTGAAAATAGAGACACCA
1 AAGTGTATACAGGGGCATCGAAGTGCGAACAGGAGCACAAATGTGAAAATAAAGACACCA
* *
16479329 AAGTGTATACAGGGGCATCGAAGTGCGAACAGGAGCACAAATGTGCAAATAAAGACACGA
1 AAGTGTATACAGGGGCATCGAAGTGCGAACAGGAGCACAAATGTGAAAATAAAGACACCA
16479389 AAGTG
1 AAGTG
16479394 CAAACTGGGG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.40, C:0.14, G:0.30, T:0.16
Consensus pattern (60 bp):
AAGTGTATACAGGGGCATCGAAGTGCGAACAGGAGCACAAATGTGAAAATAAAGACACCA
Found at i:16480591 original size:94 final size:95
Alignment explanation
Indices: 16480430--16480619 Score: 373
Period size: 94 Copynumber: 2.0 Consensus size: 95
16480420 TGGAGAAGAA
16480430 CCATTTTAGAAGATGATACATTTTGTCATCTTTTACATTAATTGCTATTTACCTATTTACTATTT
1 CCATTTTAGAAGATGATACATTTTGTCATCTTTTACATTAATTGCTATTTACCTATTTACTATTT
16480495 TAACCTTTAAAATTCATG-AATTTACCATG
66 TAACCTTTAAAATTCATGAAATTTACCATG
16480524 CCATTTTAGAAGATGATACATTTTGTCATCTTTTACATTAATTGCTATTTACCTATTTACTATTT
1 CCATTTTAGAAGATGATACATTTTGTCATCTTTTACATTAATTGCTATTTACCTATTTACTATTT
16480589 TAACCTTTAAAATTCATGAAATTTACCATG
66 TAACCTTTAAAATTCATGAAATTTACCATG
16480619 C
1 C
16480620 AACCTATCCA
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
94 83 0.87
95 12 0.13
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.45
Consensus pattern (95 bp):
CCATTTTAGAAGATGATACATTTTGTCATCTTTTACATTAATTGCTATTTACCTATTTACTATTT
TAACCTTTAAAATTCATGAAATTTACCATG
Found at i:16481340 original size:5 final size:5
Alignment explanation
Indices: 16481303--16482272 Score: 1780
Period size: 5 Copynumber: 194.0 Consensus size: 5
16481293 CAAATCAGAG
* * * * *
16481303 CATAT CTTAT CATTT CATAA CGTAT CAGAT CATAT CATA- CTATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT C-ATAT CATAT
*** * * * *
16481353 CATAT TGGAT CATAT CAGAT CATAT CACAC CATAT CATAT CATAT CAGAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
* *
16481403 CAGAT CATAT CATAT CATAT CATAT CATAT CATAC CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
16481453 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
16481503 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
16481553 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
16481603 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
16481653 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
16481703 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
16481753 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
16481803 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
16481853 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
16481903 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
16481953 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
16482003 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
16482053 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
16482103 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
16482153 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
*
16482203 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAA CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
*
16482253 TATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT
16482273 AATGTCCTAC
Statistics
Matches: 933, Mismatches: 30, Indels: 4
0.96 0.03 0.00
Matches are distributed among these distances:
4 1 0.00
5 931 1.00
6 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.01, T:0.39
Consensus pattern (5 bp):
CATAT
Found at i:16499267 original size:43 final size:43
Alignment explanation
Indices: 16499185--16499269 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
16499175 TTATCCTAGA
* *
16499185 AAAAAATAATTTAAAAAGAGGAGAAGATAATCTTAGGTTGTTG
1 AAAAAATAATTTAAAAAGAGGAGAAGATAAACATAGGTTGTTG
*
16499228 AAAAAATAATTTAAAAAGAGGAGAAGATAAACATGGGTTGTT
1 AAAAAATAATTTAAAAAGAGGAGAAGATAAACATAGGTTGTT
16499270 CGATTTACCC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.51, C:0.02, G:0.21, T:0.26
Consensus pattern (43 bp):
AAAAAATAATTTAAAAAGAGGAGAAGATAAACATAGGTTGTTG
Found at i:16502874 original size:15 final size:15
Alignment explanation
Indices: 16502854--16502883 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16502844 AACCATAATC
16502854 GGAAAAAATAAAAGA
1 GGAAAAAATAAAAGA
*
16502869 GGAAAAAGTAAAAGA
1 GGAAAAAATAAAAGA
16502884 AGAAGAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (15 bp):
GGAAAAAATAAAAGA
Found at i:16508745 original size:30 final size:29
Alignment explanation
Indices: 16508711--16509008 Score: 229
Period size: 30 Copynumber: 9.9 Consensus size: 29
16508701 GTGTGCTAAA
* *
16508711 CGATGGTCGAAGCCATCCTTTTTCATTAAC
1 CGATGGTCGAA-CCATCCCTTTTCATTAAT
* * *
16508741 CGATGGT-TATCACCATCACTTTTAATTAAT
1 CGATGGTCGA--ACCATCCCTTTTCATTAAT
* * * *
16508771 CGATGGTCGTCACTATCCCTTTTTCGTAAAAT
1 CGATGGTCG-AACCATCCC-TTTTCAT-TAAT
*
16508803 CGGTGGTCGAAACCATCCCTTTTCATTAAT
1 CGATGGTCG-AACCATCCCTTTTCATTAAT
* * *
16508833 CGATGGTCGTCACCATCCCTTTTAATAAAT
1 CGATGGTCG-AACCATCCCTTTTCATTAAT
* * *
16508863 CGATGGTCAAAATCATCCCTTTTCATTATT
1 CGATGGTC-GAACCATCCCTTTTCATTAAT
* * * *
16508893 TGATGATCGTCACCATCCCTTTTCATAAAT
1 CGATGGTCG-AACCATCCCTTTTCATTAAT
* *
16508923 CAATGGTCAAAACCATCCCTTTTCATTAAT
1 CGATGGTC-GAACCATCCCTTTTCATTAAT
* * * * *
16508953 TGATGGTTGTCACCATCCCTTTTCATAAAC
1 CGATGGTCG-AACCATCCCTTTTCATTAAT
16508983 CGATGGTCGAAGCCATCCCTTTTCAT
1 CGATGGTCGAA-CCATCCCTTTTCAT
16509009 ATTCAATAGT
Statistics
Matches: 205, Mismatches: 52, Indels: 22
0.73 0.19 0.08
Matches are distributed among these distances:
29 2 0.01
30 173 0.84
31 12 0.06
32 18 0.09
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.36
Consensus pattern (29 bp):
CGATGGTCGAACCATCCCTTTTCATTAAT
Found at i:16508881 original size:92 final size:92
Alignment explanation
Indices: 16508714--16508885 Score: 238
Period size: 92 Copynumber: 1.9 Consensus size: 92
16508704 TGCTAAACGA
* * * *
16508714 TGGTCGAAGCCATCCTTTTTCATTAACCGATGGTTATCACCATCACTTTTAATTAATCGATGGTC
1 TGGTCGAAACCATCCCTTTTCATTAACCGATGGTCATCACCATCACTTTTAATAAATCGATGGTC
***
16508779 GTCACTATCCCTTTTTCGTAAAATCGG
66 AAAACTATCCCTTTTTCGTAAAATCGG
* * *
16508806 TGGTCGAAACCATCCCTTTTCATTAATCGATGGTCGTCACCATCCCTTTTAATAAATCGATGGTC
1 TGGTCGAAACCATCCCTTTTCATTAACCGATGGTCATCACCATCACTTTTAATAAATCGATGGTC
16508871 AAAA-TCATCCCTTTT
66 AAAACT-ATCCCTTTT
16508886 CATTATTTGA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
91 1 0.01
92 68 0.99
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (92 bp):
TGGTCGAAACCATCCCTTTTCATTAACCGATGGTCATCACCATCACTTTTAATAAATCGATGGTC
AAAACTATCCCTTTTTCGTAAAATCGG
Found at i:16508903 original size:60 final size:60
Alignment explanation
Indices: 16508723--16509008 Score: 347
Period size: 60 Copynumber: 4.7 Consensus size: 60
16508713 ATGGTCGAAG
* * * * ** * *
16508723 CCATCCTTTTTCATTAACCGATGGTTATCACCATCACTTTTAATTAATCGATGGTCGTCA
1 CCATCCCTTTTCATAAATCGATGGTCAAAACCATCCCTTTTCATTAATCGATGGTCGTCA
* * * *
16508783 CTATCCCTTTTTCGTAAAATCGGTGGTCGAAACCATCCCTTTTCATTAATCGATGGTCGTCA
1 CCATCCC-TTTTCAT-AAATCGATGGTCAAAACCATCCCTTTTCATTAATCGATGGTCGTCA
* * * * *
16508845 CCATCCCTTTTAATAAATCGATGGTCAAAATCATCCCTTTTCATTATTTGATGATCGTCA
1 CCATCCCTTTTCATAAATCGATGGTCAAAACCATCCCTTTTCATTAATCGATGGTCGTCA
* * *
16508905 CCATCCCTTTTCATAAATCAATGGTCAAAACCATCCCTTTTCATTAATTGATGGTTGTCA
1 CCATCCCTTTTCATAAATCGATGGTCAAAACCATCCCTTTTCATTAATCGATGGTCGTCA
* * *
16508965 CCATCCCTTTTCATAAACCGATGGTCGAAGCCATCCCTTTTCAT
1 CCATCCCTTTTCATAAATCGATGGTCAAAACCATCCCTTTTCAT
16509009 ATTCAATAGT
Statistics
Matches: 193, Mismatches: 31, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
60 139 0.72
61 11 0.06
62 43 0.22
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (60 bp):
CCATCCCTTTTCATAAATCGATGGTCAAAACCATCCCTTTTCATTAATCGATGGTCGTCA
Found at i:16508999 original size:90 final size:90
Alignment explanation
Indices: 16508707--16509009 Score: 313
Period size: 90 Copynumber: 3.4 Consensus size: 90
16508697 CAAAGTGTGC
* * * * *
16508707 TAAA-CGATGGTCGAAGCCATCCTTTTTCATTAACCGATGGTTATCACCATCACTTTTAATTAAT
1 TAAATCGATGGTCGAAGCCATCCCTTTTCATAAATCGATGGTCATCACCATCCCTTTTAATTAAT
* *
16508771 CGATGGTCGTCACTATCCCTTTTTCG
66 CGATGGTCGTCACCATCCC-TTTTCA
* * * * *
16508797 TAAAATCGGTGGTCGAAACCATCCCTTTTCATTAATCGATGGTCGTCACCATCCCTTTTAATAAA
1 T-AAATCGATGGTCGAAGCCATCCCTTTTCATAAATCGATGGTCATCACCATCCCTTTTAATTAA
*** *
16508862 TCGATGGTCAAAATCATCCCTTTTCA
65 TCGATGGTCGTCACCATCCCTTTTCA
* * * * * * ** *
16508888 TTATTTGATGATCGTCA-CCATCCCTTTTCATAAATCAATGGTCAAAACCATCCCTTTTCATTAA
1 TAAATCGATGGTCG-AAGCCATCCCTTTTCATAAATCGATGGTCATCACCATCCCTTTTAATTAA
* *
16508952 TTGATGGTTGTCACCATCCCTTTTCA
65 TCGATGGTCGTCACCATCCCTTTTCA
*
16508978 TAAACCGATGGTCGAAGCCATCCCTTTTCATA
1 TAAATCGATGGTCGAAGCCATCCCTTTTCATA
16509010 TTCAATAGTC
Statistics
Matches: 170, Mismatches: 39, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
89 1 0.01
90 93 0.55
91 10 0.06
92 66 0.39
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.35
Consensus pattern (90 bp):
TAAATCGATGGTCGAAGCCATCCCTTTTCATAAATCGATGGTCATCACCATCCCTTTTAATTAAT
CGATGGTCGTCACCATCCCTTTTCA
Found at i:16518902 original size:17 final size:16
Alignment explanation
Indices: 16518882--16518913 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
16518872 TCAAAACTTT
16518882 CTCTTTCTTCTCTCATG
1 CTCTTTCTTC-CTCATG
16518899 CTCTTTCTTCCTCAT
1 CTCTTTCTTCCTCAT
16518914 TCTTTCCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.06, C:0.38, G:0.03, T:0.53
Consensus pattern (16 bp):
CTCTTTCTTCCTCATG
Found at i:16519275 original size:19 final size:20
Alignment explanation
Indices: 16519222--16519268 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
16519212 AATGAGAAAA
16519222 AATAAAAATTAGTAAATGTT
1 AATAAAAATTAGTAAATGTT
* *
16519242 -ATAAAAATTATTAAATTTT
1 AATAAAAATTAGTAAATGTT
16519261 AATAAAAA
1 AATAAAAA
16519269 CTATAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (20 bp):
AATAAAAATTAGTAAATGTT
Found at i:16519297 original size:29 final size:29
Alignment explanation
Indices: 16519241--16519296 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
16519231 TAGTAAATGT
*
16519241 TATAAAAATTATTAAATTTTAATAAAAAC
1 TATAAAAATTATTAAAATTTAATAAAAAC
16519270 TATAAAAA-TATTTAAAATTT-ATAAAAA
1 TATAAAAATTA-TTAAAATTTAATAAAAA
16519297 ATNNNNNNNN
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
TATAAAAATTATTAAAATTTAATAAAAAC
Found at i:16519823 original size:91 final size:90
Alignment explanation
Indices: 16519623--16519889 Score: 292
Period size: 91 Copynumber: 2.9 Consensus size: 90
16519613 TTAACGATCA
* * * *
16519623 AAGGGCCTTTTTGATACATTT-AATATTTCAAGTATCCAATTGAGTGCAAAAAAATAATAATTAA
1 AAGGG-CTTTTTGATGCATTTGAA-AGTTCAAGTACCCAATTGAGTG--AAAAAA-AA-AA-TAG
* * *
16519687 GGGCTTAATTGC-TTTTTCTGAAAAAAGTTTG
59 GGGCTTAATTGCATTTTTTTAAAAAAAATTTG
*
16519718 AAGGGCTTTTTGATGCATTTCGAAAGTTCAAGTACCCAATTGAGTGAAAAAAAAAGTAGGGGCTT
1 AAGGGCTTTTTGATGCATTT-GAAAGTTCAAGTACCCAATTGAGTGAAAAAAAAAATAGGGGCTT
16519783 AATTGCATTTTTTTAAAAAAAATTTG
65 AATTGCATTTTTTTAAAAAAAATTTG
* * * *
16519809 -AGGGTCTTTTTGATGTATTTTGAAAGTTCAAGTACCCAATTGAATGTAAAAGAAAATAGGGGCT
1 AAGGG-CTTTTTGATGCA-TTTGAAAGTTCAAGTACCCAATTGAGTGAAAAAAAAAATAGGGGCT
16519873 TAATT--ATTATTTTTAAA
64 TAATTGCATT-TTTTTAAA
16519890 TGTTTGAAGA
Statistics
Matches: 153, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
89 3 0.02
90 26 0.17
91 72 0.47
92 5 0.03
93 6 0.04
94 14 0.09
95 25 0.16
96 2 0.01
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (90 bp):
AAGGGCTTTTTGATGCATTTGAAAGTTCAAGTACCCAATTGAGTGAAAAAAAAAATAGGGGCTTA
ATTGCATTTTTTTAAAAAAAATTTG
Found at i:16522604 original size:76 final size:75
Alignment explanation
Indices: 16522519--16522682 Score: 190
Period size: 76 Copynumber: 2.1 Consensus size: 75
16522509 TAAAAGTATA
** *** *
16522519 AGGGAAAAATAAAAAGTTTTGGGGGTTTTTAGGGGAGTAAAATTTT-AGTAGGAAAGTGGAA-GA
1 AGGG-AAAATAAAAAGTTTTAAGGGTTTTTAACAGAGTAAAATTTTGAG--GGAAAGT-AAAGGA
16522582 GAGTAAAAGTTTTGG
62 GAGTAAAA-TTTTGG
16522597 -GGGAAAATAAAAAGTTTTAAGGGTTTTTAACAGAGTAAAATTTTGAGGGAAAGTAAATGGGAGA
1 AGGGAAAATAAAAAGTTTTAAGGGTTTTTAACAGAGTAAAATTTTGAGGGAAAGTAAA--GGAGA
16522661 GTAAAATTTTGG
64 GTAAAATTTTGG
16522673 AGGGAAAATA
1 AGGGAAAATA
16522683 TTCAAAAAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 11
0.82 0.07 0.12
Matches are distributed among these distances:
74 2 0.03
75 7 0.09
76 42 0.56
77 24 0.32
ACGTcount: A:0.41, C:0.01, G:0.30, T:0.27
Consensus pattern (75 bp):
AGGGAAAATAAAAAGTTTTAAGGGTTTTTAACAGAGTAAAATTTTGAGGGAAAGTAAAGGAGAGT
AAAATTTTGG
Found at i:16523260 original size:17 final size:17
Alignment explanation
Indices: 16523221--16523280 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
16523211 TTTACGTTTA
*
16523221 ATAACTAAAATTAAATT
1 ATAATTAAAATTAAATT
*
16523238 ATAATTAAATTTAAA-T
1 ATAATTAAAATTAAATT
16523254 ATCAATTAATAGATATAAATT
1 AT-AATTAA-A-AT-TAAATT
16523275 A-AATTA
1 ATAATTA
16523281 TGATAATACT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
16 3 0.09
17 19 0.54
18 1 0.03
19 6 0.17
20 4 0.11
21 2 0.06
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (17 bp):
ATAATTAAAATTAAATT
Found at i:16532604 original size:27 final size:28
Alignment explanation
Indices: 16532567--16532789 Score: 259
Period size: 27 Copynumber: 8.3 Consensus size: 28
16532557 TGCGATTCTT
* *
16532567 GGGTAAAATGACT-AAAATACCCTCGAT
1 GGGTAAAATGACTCGAAATACCCTCGAA
* * *
16532594 GGGTAAAATGA-TGGAAATA-CCTTGAT
1 GGGTAAAATGACTCGAAATACCCTCGAA
*
16532620 GGGTAAAATGA-TCGAAATACCCTTGAA
1 GGGTAAAATGACTCGAAATACCCTCGAA
**
16532647 GGGTAAAATGA-TCGAAATACCCTTAAA
1 GGGTAAAATGACTCGAAATACCCTCGAA
* *
16532674 GGGTAAAATGAC-CAAAATACCCTCGAT
1 GGGTAAAATGACTCGAAATACCCTCGAA
*
16532701 GGGTAAAAT-AATCGAAATACCCTCGAA
1 GGGTAAAATGACTCGAAATACCCTCGAA
*
16532728 GGGTAAAATGACT-GAAATACCCCCGAA
1 GGGTAAAATGACTCGAAATACCCTCGAA
*
16532755 GGGTAAAATGACT-GAAATACCC-CAAA
1 GGGTAAAATGACTCGAAATACCCTCGAA
16532781 GGGTAAAAT
1 GGGTAAAAT
16532790 AACTTTTATA
Statistics
Matches: 176, Mismatches: 15, Indels: 11
0.87 0.07 0.05
Matches are distributed among these distances:
26 38 0.22
27 136 0.77
28 2 0.01
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.20
Consensus pattern (28 bp):
GGGTAAAATGACTCGAAATACCCTCGAA
Found at i:16532737 original size:81 final size:81
Alignment explanation
Indices: 16532567--16532791 Score: 294
Period size: 81 Copynumber: 2.8 Consensus size: 81
16532557 TGCGATTCTT
* * ** * *
16532567 GGGTAAAATGACTAAAATACCCTCGATGGGTAAAATGATGGAAATA-CCTTGATGGGTAAAATGA
1 GGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGATGGGTAAAATAA
*
16532631 TCGAAATACCCTTGAA
66 TCGAAATACCCTCGAA
** *
16532647 GGGTAAAATGA-TCGAAATACCCTTAAAGGGTAAAATGACCAAAATACCCTCGATGGGTAAAATA
1 GGGTAAAATGACT-GAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGATGGGTAAAATA
16532711 ATCGAAATACCCTCGAA
65 ATCGAAATACCCTCGAA
* * * *
16532728 GGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATGACTGAAATACCC-CAAAGGGTAAAATAA
1 GGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGATGGGTAAAATAA
16532792 CTTTTATACC
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
79 1 0.01
80 50 0.40
81 73 0.58
82 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (81 bp):
GGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGATGGGTAAAATAA
TCGAAATACCCTCGAA
Found at i:16533055 original size:26 final size:26
Alignment explanation
Indices: 16533026--16533126 Score: 121
Period size: 26 Copynumber: 3.9 Consensus size: 26
16533016 TTGCCACATA
16533026 TACTGTTACTGGCAGCTTTGCTGTGT
1 TACTGTTACTGGCAGCTTTGCTGTGT
* * * * ***
16533052 TACTGATACTGGTAGCTCTGGTACAT
1 TACTGTTACTGGCAGCTTTGCTGTGT
*
16533078 TACTGTTACTGGTAGCTTTGCTGTGT
1 TACTGTTACTGGCAGCTTTGCTGTGT
*
16533104 TACTATTACTGGCAGCTTTGCTG
1 TACTGTTACTGGCAGCTTTGCTG
16533127 CGATATTGGT
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 60 1.00
ACGTcount: A:0.16, C:0.19, G:0.25, T:0.41
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGTGT
Found at i:16533088 original size:52 final size:53
Alignment explanation
Indices: 16533021--16533120 Score: 159
Period size: 52 Copynumber: 1.9 Consensus size: 53
16533011 TGGCTTTGCC
*
16533021 ACATATACTGTTACTGGCAGCTTTGCTGTGTTACTGA-TACTGGTAGCTCTGGT
1 ACATATACTGTTACTGGCAGCTTTGCTGTGTTACT-ATTACTGGCAGCTCTGGT
*
16533074 ACAT-TACTGTTACTGGTAGCTTTGCTGTGTTACTATTACTGGCAGCT
1 ACATATACTGTTACTGGCAGCTTTGCTGTGTTACTATTACTGGCAGCT
16533121 TTGCTGCGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
51 1 0.02
52 39 0.89
53 4 0.09
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (53 bp):
ACATATACTGTTACTGGCAGCTTTGCTGTGTTACTATTACTGGCAGCTCTGGT
Found at i:16533277 original size:29 final size:29
Alignment explanation
Indices: 16533236--16533349 Score: 111
Period size: 30 Copynumber: 3.9 Consensus size: 29
16533226 TGCATTTGCA
*
16533236 CTGTTACTGTATTGGGCTAAGGCCCCACT
1 CTGTTACTATATTGGGCTAAGGCCCCACT
* * *
16533265 CTATTACTATATTAGGCTAAGGGCCACACT
1 CTGTTACTATATTGGGCTAA-GGCCCCACT
* * * *
16533295 CTGTTATTGTATTGGGCTATGGCCCACACA
1 CTGTTACTATATTGGGCTAAGGCCC-CACT
* * *
16533325 CTGCTACTATATAGGGCTCAGGCCC
1 CTGTTACTATATTGGGCTAAGGCCC
16533350 AGACTGATTC
Statistics
Matches: 66, Mismatches: 17, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
29 21 0.32
30 45 0.68
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (29 bp):
CTGTTACTATATTGGGCTAAGGCCCCACT
Found at i:16542710 original size:13 final size:13
Alignment explanation
Indices: 16542692--16542718 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16542682 CATCGGTAAA
16542692 ATATAGATTTGGT
1 ATATAGATTTGGT
16542705 ATATAGATTTGGT
1 ATATAGATTTGGT
16542718 A
1 A
16542719 ATAAACTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (13 bp):
ATATAGATTTGGT
Found at i:16542999 original size:14 final size:15
Alignment explanation
Indices: 16542976--16543004 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
16542966 TATTTAGATG
16542976 TTTTGATTATTAAAT
1 TTTTGATTATTAAAT
16542991 TTTTG-TTATTAAAT
1 TTTTGATTATTAAAT
16543005 ATTCTTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (15 bp):
TTTTGATTATTAAAT
Found at i:16546073 original size:23 final size:22
Alignment explanation
Indices: 16546030--16546144 Score: 70
Period size: 19 Copynumber: 5.6 Consensus size: 22
16546020 AAAAGGTATC
* *
16546030 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
16546051 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
16546074 TGCATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
* *
16546093 TGCATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
* *
16546112 TGCATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
*
16546131 TACATATCATATCT
1 TACAAATCATATCT
16546145 AAGATTGCAT
Statistics
Matches: 84, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
19 56 0.67
21 3 0.04
22 15 0.18
23 10 0.12
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.37
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:16546090 original size:19 final size:19
Alignment explanation
Indices: 16546066--16546159 Score: 179
Period size: 19 Copynumber: 4.9 Consensus size: 19
16546056 AATCATATCT
16546066 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
16546085 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
16546104 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
16546123 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
16546142 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
16546160 TGAAGATTAT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 73 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:16546112 original size:38 final size:38
Alignment explanation
Indices: 16546043--16546159 Score: 180
Period size: 38 Copynumber: 3.0 Consensus size: 38
16546033 AAATTAAATC
*
16546043 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTGCATATCATA
*
16546085 TCTAAGATTGCATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
16546123 TCTAAGATTACATATCATATCTAAGATTGCATATCAT
1 TCTAAGATTACATATCATATCTAAGATTGCATATCAT
16546160 TGAAGATTAT
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 55 0.76
41 7 0.10
42 10 0.14
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:16553884 original size:55 final size:56
Alignment explanation
Indices: 16553800--16553910 Score: 161
Period size: 55 Copynumber: 2.0 Consensus size: 56
16553790 AAAGGGGTCT
* * *
16553800 TTTTTTTTTAGCTACGGTTTATAATTTGGGCAAACCAAAAT-ATTAAAATTTGAAA
1 TTTTTTTTTAACTACCGTTTATAATTTGGGCAAACCAAAATAATCAAAATTTGAAA
* * *
16553855 TTTTTTTTTAATTACCGTTTATAATTTGGGTAAACTAAAATAATCAAAATTTGAAA
1 TTTTTTTTTAACTACCGTTTATAATTTGGGCAAACCAAAATAATCAAAATTTGAAA
16553911 AGGAATTCTT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
55 36 0.73
56 13 0.27
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (56 bp):
TTTTTTTTTAACTACCGTTTATAATTTGGGCAAACCAAAATAATCAAAATTTGAAA
Found at i:16553943 original size:62 final size:55
Alignment explanation
Indices: 16553800--16553946 Score: 159
Period size: 55 Copynumber: 2.5 Consensus size: 55
16553790 AAAGGGGTCT
* *
16553800 TTTTTTTTTAGCTACGGTTTATAATTTGGGCAAACCAAAATATTAAAATTTGAAA
1 TTTTTTTTTAACTACGGTTTATAATTTGGGCAAACCAAAATATCAAAATTTGAAA
* * * *
16553855 TTTTTTTTTAATTACCGTTTATAATTTGGGTAAACTAAAATAATCAAAATTTGAAAAGGAA
1 TTTTTTTTTAACTACGGTTTATAATTTGGGCAAACCAAAAT-ATCAAAATTTG---A--AA
* *
16553916 TTCTTTTTTAAACTACGGTTTAAAATTTGGG
1 TT-TTTTTTTAACTACGGTTTATAATTTGGG
16553947 AATAGAAATT
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
55 36 0.48
56 10 0.13
59 1 0.01
61 4 0.05
62 24 0.32
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (55 bp):
TTTTTTTTTAACTACGGTTTATAATTTGGGCAAACCAAAATATCAAAATTTGAAA
Found at i:16559694 original size:16 final size:16
Alignment explanation
Indices: 16559673--16559710 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
16559663 TTTTGAATCG
*
16559673 ATTTAGATGGAACACT
1 ATTTAGATGGAACACA
16559689 ATTTAGATGGAACACA
1 ATTTAGATGGAACACA
16559705 ATTTAG
1 ATTTAG
16559711 TGTGAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (16 bp):
ATTTAGATGGAACACA
Found at i:16570017 original size:45 final size:45
Alignment explanation
Indices: 16569953--16570047 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 45
16569943 TAACATATAC
* *
16569953 TCGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGTTGT
1 TCGGTGGATTCAGCACATAGCAACCACCTTACTAATCAATGATGT
*
16569998 TCGGTGGAATT-AGCACATAGCAACCACCTTACTAATGAATGATGT
1 TCGGTGG-ATTCAGCACATAGCAACCACCTTACTAATCAATGATGT
16570043 TCGGT
1 TCGGT
16570048 TCCCATAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 43 0.93
46 3 0.07
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (45 bp):
TCGGTGGATTCAGCACATAGCAACCACCTTACTAATCAATGATGT
Found at i:16578043 original size:21 final size:20
Alignment explanation
Indices: 16577996--16578048 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
16577986 CTAAATGAAC
*
16577996 AAATTCAATTCAATTCAATA
1 AAATTCTATTCAATTCAATA
*
16578016 ATTATTCTATTCAATTCAATCA
1 A-AATTCTATTCAATTCAAT-A
16578038 AAATTCATATT
1 AAATTC-TATT
16578049 TTATCAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 20 0.74
22 6 0.22
ACGTcount: A:0.43, C:0.15, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATTCTATTCAATTCAATA
Found at i:16578755 original size:237 final size:239
Alignment explanation
Indices: 16578320--16579034 Score: 1172
Period size: 238 Copynumber: 3.0 Consensus size: 239
16578310 TGGCAAAACT
** *
16578320 CTAACCTT-TTAACAGGTTTGCAAATTAGTCTTCAGGCTAGCTAGATTAAGCTACAACGATTCTA
1 CTAA-CTTATTAACAGGTTTGCAAATTAGTCCCCGGGCTAGCTAGATTAAGCTACAACGATTCTA
16578384 AAAACATAGAAATCATT-AAAATCAGGACGAAAAATACTCACATGCAAGCAAAATAAGGATGGCC
65 AAAACATAGAAATCATTAAAAAT-AGGACGAAAAATACTCACATGCAAGCAAAATAAGGATGGCC
* *
16578448 GAATGTTCAAGCTTCT-TGGTTTCTTTTCCTTCAACTTTCGGTGGTGTTTAACAAATTAAAAAAG
129 GAATGTTCAAGCTTCTATGGTTTCTTTTCGTTCAATTTTCGGTGGTGTTTAACAAATTAAAAAAG
* *
16578512 ATGATACATTATTTATTTTATTTTAATTCACTTATTAACTAATTTA
194 ATGATACATTATTTCTTTTGTTTTAATTCACTTATTAACTAATTTA
* * * *
16578558 CTAACTTATTAATAGGTTAGCAAATTAGTCCCCGGGCTTGCTAGATTAAGCTACAATGATTCTAA
1 CTAACTTATTAACAGGTTTGCAAATTAGTCCCCGGGCTAGCTAGATTAAGCTACAACGATTCTAA
* * *
16578623 AAATATA-AAATTATTAAAAATAGGAC-AAAAATACTCACATGCAATCAAAATAAGGATGGCCGA
66 AAACATAGAAATCATTAAAAATAGGACGAAAAATACTCACATGCAAGCAAAATAAGGATGGCCGA
*
16578686 ATGTTCAAGCTTCTATGGTTTCTTTTCGTTCAATTTTCGGTGGTGTTTAACAAATTAAAGAAGAT
131 ATGTTCAAGCTTCTATGGTTTCTTTTCGTTCAATTTTCGGTGGTGTTTAACAAATTAAAAAAGAT
*
16578751 GATACATTATTTCTTTTGTTTTAATTCACTTATTAACTAAATTA
196 GATACATTATTTCTTTTGTTTTAATTCACTTATTAACTAATTTA
*
16578795 CTAACTTATTAACATGTTTGCAAATTAGT-CCCGGGCTAGCTAGATTAAGCTACAACGATTCTAA
1 CTAACTTATTAACAGGTTTGCAAATTAGTCCCCGGGCTAGCTAGATTAAGCTACAACGATTCTAA
* * * *
16578859 AAACATAGAAATCATTAATAACAAGACGAAAAATACTCACATGCAAGCAAAATAAGGATGGTCGA
66 AAACATAGAAATCATTAAAAATAGGACGAAAAATACTCACATGCAAGCAAAATAAGGATGGCCGA
*
16578924 ATGTTCAAGCTTCTATGGTTTCTTTTCGTTCAATTTTTGGTGGTGTTTAACAAATTAAAAAAGAT
131 ATGTTCAAGCTTCTATGGTTTCTTTTCGTTCAATTTTCGGTGGTGTTTAACAAATTAAAAAAGAT
16578989 GATACATTATTTCTTTTGTTTTAATTCACTTATTAACTAATTTA
196 GATACATTATTTCTTTTGTTTTAATTCACTTATTAACTAATTTA
16579033 CT
1 CT
16579035 GATTTAACCT
Statistics
Matches: 441, Mismatches: 31, Indels: 10
0.91 0.06 0.02
Matches are distributed among these distances:
236 89 0.20
237 144 0.33
238 208 0.47
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (239 bp):
CTAACTTATTAACAGGTTTGCAAATTAGTCCCCGGGCTAGCTAGATTAAGCTACAACGATTCTAA
AAACATAGAAATCATTAAAAATAGGACGAAAAATACTCACATGCAAGCAAAATAAGGATGGCCGA
ATGTTCAAGCTTCTATGGTTTCTTTTCGTTCAATTTTCGGTGGTGTTTAACAAATTAAAAAAGAT
GATACATTATTTCTTTTGTTTTAATTCACTTATTAACTAATTTA
Found at i:16579449 original size:23 final size:24
Alignment explanation
Indices: 16579405--16579449 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
16579395 TTTCCTATTT
16579405 GGAGAAACAAGGAAGGTGAGAGAA
1 GGAGAAACAAGGAAGGTGAGAGAA
* *
16579429 GGAGAAATAAGG-TGGTGAGAG
1 GGAGAAACAAGGAAGGTGAGAG
16579450 GTTAAGGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.44, C:0.02, G:0.44, T:0.09
Consensus pattern (24 bp):
GGAGAAACAAGGAAGGTGAGAGAA
Found at i:16587883 original size:56 final size:56
Alignment explanation
Indices: 16587817--16587928 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
16587807 GACTCTTAAA
*
16587817 TAGACAGAAAATAAAGTGATCTAGTAATGGGAATGAACATGTCTAGGATTGGATTC
1 TAGACAGAAAATAAAGTGATCTAGTAATGGGAATGAAAATGTCTAGGATTGGATTC
16587873 TAGACAGAAAATAAAGTGATCTAGTAATGGGAATGAAAATGTCTAGGATTGGATTC
1 TAGACAGAAAATAAAGTGATCTAGTAATGGGAATGAAAATGTCTAGGATTGGATTC
16587929 CAGAGAAAGA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.27
Consensus pattern (56 bp):
TAGACAGAAAATAAAGTGATCTAGTAATGGGAATGAAAATGTCTAGGATTGGATTC
Found at i:16588086 original size:25 final size:24
Alignment explanation
Indices: 16588058--16588106 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
16588048 TAAAAAGGGG
*
16588058 TAAGGCATTTCGTATGAAATTTTAA
1 TAAGGCATTTCGCATG-AATTTTAA
16588083 TAAGGCATTTCGCATGAATTTTAA
1 TAAGGCATTTCGCATGAATTTTAA
16588107 AGTATGTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (24 bp):
TAAGGCATTTCGCATGAATTTTAA
Found at i:16600316 original size:20 final size:21
Alignment explanation
Indices: 16600288--16600326 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
16600278 AAAAAATTAA
*
16600288 TTAATTAATTTAA-ATGATAT
1 TTAAATAATTTAATATGATAT
16600308 TTAAATAATTTAATATGAT
1 TTAAATAATTTAATATGAT
16600327 CATACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (21 bp):
TTAAATAATTTAATATGATAT
Found at i:16605815 original size:104 final size:102
Alignment explanation
Indices: 16605582--16605821 Score: 318
Period size: 102 Copynumber: 2.3 Consensus size: 102
16605572 TAACCGTTAT
* * * *
16605582 CGGTGGATTCCGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGG
* * * * *
16605647 GAATTAGCACTTAGGAACCCCCTTCACATTTCAGATG
66 GAATCAGCACTTAGCAACCCCCTTCACATTTAAAATA
* * * * * **
16605684 TGGTGGAATCAGCACTTAGCAACCACCAATTAATAGGGTAATTAGTACTTAGCAACCCCTCGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGG
16605749 GAAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
66 G-AATCAGCACTTAGCAACCCCC-TTCACATTTAAAATA
16605788 CGGTGGAATCAGCACTTAGCAACCACCAATGAAT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAAT
16605822 NNNNNNNNNN
Statistics
Matches: 118, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
102 55 0.47
103 19 0.16
104 44 0.37
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (102 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGG
GAATCAGCACTTAGCAACCCCCTTCACATTTAAAATA
Found at i:16613385 original size:30 final size:29
Alignment explanation
Indices: 16613349--16613413 Score: 105
Period size: 28 Copynumber: 2.2 Consensus size: 29
16613339 AATAGTAAAG
16613349 TAAGAGTTTTGATATATTTATTGGCGAATA
1 TAAGAG-TTTGATATATTTATTGGCGAATA
*
16613379 TAAGAG-TTGATATATTTATTGGCTAATA
1 TAAGAGTTTGATATATTTATTGGCGAATA
16613407 TAAGAGT
1 TAAGAGT
16613414 CCCTTTCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 27 0.82
30 6 0.18
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (29 bp):
TAAGAGTTTGATATATTTATTGGCGAATA
Found at i:16614358 original size:8 final size:8
Alignment explanation
Indices: 16614347--16614379 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
16614337 TGTGTATAAA
16614347 TGTATGTT
1 TGTATGTT
16614355 TGTATGTT
1 TGTATGTT
16614363 TGTATGTT
1 TGTATGTT
16614371 TGTATGTT
1 TGTATGTT
16614379 T
1 T
16614380 ATACGTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.12, C:0.00, G:0.24, T:0.64
Consensus pattern (8 bp):
TGTATGTT
Found at i:16616320 original size:27 final size:27
Alignment explanation
Indices: 16616282--16616665 Score: 379
Period size: 27 Copynumber: 14.3 Consensus size: 27
16616272 ATTTGTGGGC
* *
16616282 AAATGACTGAAATACCCTCGAAGGATA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
16616309 AAATGATCGAAATACCC-CTAAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
** * *
16616336 AAATGACTAAAACACCCTCGAGGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
16616363 AAATCATCGAAATACCC-CTAAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* *
16616390 AAATGACTGAAATACCCTCGAGGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
16616417 AAATGACCGAAATACCCT-GAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
16616443 AAATGACTGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
16616470 AAATGATCGAAATACCCCCGAGGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
16616497 AAATGACCGAAATACCC-CAGTAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
*
16616524 AAATGACCGAAATACCCTCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
16616551 AATTGACCG-AATACCC-CTTAGGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* * *
16616577 AAATGATCGAAATACCC-CTAAAAGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* * *
16616604 AAATGATCAAAATACCCTCGAGGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
16616631 ACATGACCGAAATACCC-CTGAAAGATA
1 AAATGACCGAAATACCCTC-GAAGGGTA
16616658 AAATGACC
1 AAATGACC
16616666 CCGTAGGGTA
Statistics
Matches: 293, Mismatches: 53, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
25 1 0.00
26 48 0.16
27 240 0.82
28 4 0.01
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.17
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:16616365 original size:54 final size:54
Alignment explanation
Indices: 16616282--16616664 Score: 467
Period size: 54 Copynumber: 7.1 Consensus size: 54
16616272 ATTTGTGGGC
* *
16616282 AAATGACTGAAATACCCTCGAAGGATAAAATGATCGAAATACCCCTAAAGGGTA
1 AAATGACTGAAATACCCTCGAGGGGTAAAATGATCGAAATACCCCTAAAGGGTA
* * *
16616336 AAATGACTAAAACACCCTCGAGGGGTAAAATCATCGAAATACCCCTAAAGGGTA
1 AAATGACTGAAATACCCTCGAGGGGTAAAATGATCGAAATACCCCTAAAGGGTA
* *
16616390 AAATGACTGAAATACCCTCGAGGGGTAAAATGACCGAAATA-CCCTGAAGGGTA
1 AAATGACTGAAATACCCTCGAGGGGTAAAATGATCGAAATACCCCTAAAGGGTA
* ** *
16616443 AAATGACTGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCCGAGGGGTA
1 AAATGACTGAAATACCCTCGAGGGGTAAAATGATCGAAATACCCCTAAAGGGTA
* *
16616497 AAATGACCGAAATACCC-C-AGTAGGGTAAAATGACCGAAATA-CCCTCAAAGGGTA
1 AAATGACTGAAATACCCTCGAG--GGGTAAAATGATCGAAATACCCCT-AAAGGGTA
* * * *
16616551 AATTGACCG-AATACCC-CTTAGGGGTAAAATGATCGAAATACCCCTAAAAGGTA
1 AAATGACTGAAATACCCTC-GAGGGGTAAAATGATCGAAATACCCCTAAAGGGTA
* * * *
16616604 AAATGA-TCAAAATACCCTCGAGGGGTAACATGACCGAAATACCCCTGAAA-GATA
1 AAATGACT-GAAATACCCTCGAGGGGTAAAATGATCGAAATACCCCT-AAAGGGTA
16616658 AAATGAC
1 AAATGAC
16616665 CCCGTAGGGT
Statistics
Matches: 287, Mismatches: 30, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
52 1 0.00
53 92 0.32
54 188 0.66
55 6 0.02
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.17
Consensus pattern (54 bp):
AAATGACTGAAATACCCTCGAGGGGTAAAATGATCGAAATACCCCTAAAGGGTA
Found at i:16616706 original size:27 final size:26
Alignment explanation
Indices: 16616663--16616714 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
16616653 AGATAAAATG
*
16616663 ACCCCGTAGGGTAAAATGATTGTTAT
1 ACCCCGTAGGGTAAAATGACTGTTAT
16616689 ACCCC-TAGGAGTCAAAATGACTGTTA
1 ACCCCGTAGG-GT-AAAATGACTGTTA
16616715 CGACCTTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 4 0.17
26 7 0.30
27 12 0.52
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (26 bp):
ACCCCGTAGGGTAAAATGACTGTTAT
Found at i:16616883 original size:26 final size:26
Alignment explanation
Indices: 16616845--16616925 Score: 119
Period size: 26 Copynumber: 3.1 Consensus size: 26
16616835 TGGAGGAAGT
*
16616845 ATACTGATTCTGGCAGCTTTGCTGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
*
16616871 ATACTGATACTGGCAGCTCTGCTGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
*
16616897 ATGCT-ACTACTGGCAGCTTTGCTGCG
1 ATACTGA-TACTGGCAGCTTTGCTGCG
16616923 ATA
1 ATA
16616926 TTGGTATGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
25 1 0.02
26 48 0.98
ACGTcount: A:0.19, C:0.25, G:0.26, T:0.31
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTTTGCTGCG
Found at i:16617755 original size:53 final size:53
Alignment explanation
Indices: 16617675--16617822 Score: 235
Period size: 53 Copynumber: 2.8 Consensus size: 53
16617665 TGGCCATGGC
*
16617675 AAGAAGATCATATAGTGTAAGACCTAGTCTAGGACTTAACATCATATGAAGAT
1 AAGAAGACCATATAGTGTAAGACCTAGTCTAGGACTTAACATCATATGAAGAT
* *
16617728 AAGAAGACCATATAGTGTAAAACCTAGTCTAGAAC-TAGACATCATATGAAGAT
1 AAGAAGACCATATAGTGTAAGACCTAGTCTAGGACTTA-ACATCATATGAAGAT
* *
16617781 AAGAAGACCATATAGTGTAAGACCTAGTCGAGGACTAAACAT
1 AAGAAGACCATATAGTGTAAGACCTAGTCTAGGACTTAACAT
16617823 AGGCGATTCG
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 2 0.02
53 83 0.97
54 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (53 bp):
AAGAAGACCATATAGTGTAAGACCTAGTCTAGGACTTAACATCATATGAAGAT
Found at i:16618572 original size:54 final size:53
Alignment explanation
Indices: 16618366--16618563 Score: 270
Period size: 53 Copynumber: 3.7 Consensus size: 53
16618356 ATGGCCATGG
* *
16618366 TAAGAAGATCATATAGTGTAAGACCTAGTCTAGGACTAGACATCATATGAAGA
1 TAAGAAGACCATATAGTGTAAGACCTAATCTAGGACTAGACATCATATGAAGA
* * *
16618419 TAAGAAGACCATATAGTGTAAGACCTAGTCGAGGACTAAACATCATATGAAGA
1 TAAGAAGACCATATAGTGTAAGACCTAATCTAGGACTAGACATCATATGAAGA
* * * **
16618472 TAAGAAGACCATATAATGTAAGACCTAATCTAAGACTATGGCATCATATGGGGA
1 TAAGAAGACCATATAGTGTAAGACCTAATCTAGGACTA-GACATCATATGAAGA
* * *
16618526 TACGAAGACCACATAGTGTAAGACCTAATTTAGGACTA
1 TAAGAAGACCATATAGTGTAAGACCTAATCTAGGACTA
16618564 TGGTATCATG
Statistics
Matches: 128, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
53 84 0.66
54 44 0.34
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.23
Consensus pattern (53 bp):
TAAGAAGACCATATAGTGTAAGACCTAATCTAGGACTAGACATCATATGAAGA
Found at i:16618586 original size:107 final size:106
Alignment explanation
Indices: 16618366--16618563 Score: 279
Period size: 107 Copynumber: 1.9 Consensus size: 106
16618356 ATGGCCATGG
* * * * *
16618366 TAAGAAGATCATATAGTGTAAGACCTAGTCTAGGACTAGACATCATATGAAGATAAGAAGACCAT
1 TAAGAAGACCATATAATGTAAGACCTAATCTAAGACTAGACATCATATGAAGATAAGAAGACCAC
*
16618431 ATAGTGTAAGACCTAGTCGAGGACTAAACATCATATGAAGA
66 ATAGTGTAAGACCTAATCGAGGACTAAACATCATATGAAGA
* ** *
16618472 TAAGAAGACCATATAATGTAAGACCTAATCTAAGACTATGGCATCATATGGGGATACGAAGACCA
1 TAAGAAGACCATATAATGTAAGACCTAATCTAAGACTA-GACATCATATGAAGATAAGAAGACCA
**
16618537 CATAGTGTAAGACCTAATTTAGGACTA
65 CATAGTGTAAGACCTAATCGAGGACTA
16618564 TGGTATCATG
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
106 34 0.43
107 45 0.57
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.23
Consensus pattern (106 bp):
TAAGAAGACCATATAATGTAAGACCTAATCTAAGACTAGACATCATATGAAGATAAGAAGACCAC
ATAGTGTAAGACCTAATCGAGGACTAAACATCATATGAAGA
Found at i:16619023 original size:30 final size:30
Alignment explanation
Indices: 16618961--16619028 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
16618951 CGTCTTTATT
* * *
16618961 GCTATTTAATGATTTGTGGACACCCTTCTG
1 GCTATCTAGTGATGTGTGGACACCCTTCTG
* *
16618991 GCTTTCTAGTGATGTGTGGACA-CCTCTGTG
1 GCTATCTAGTGATGTGTGGACACCCT-TCTG
16619021 GCTATCTA
1 GCTATCTA
16619029 ATTCAAGTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 3 0.10
30 28 0.90
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.38
Consensus pattern (30 bp):
GCTATCTAGTGATGTGTGGACACCCTTCTG
Found at i:16621499 original size:29 final size:28
Alignment explanation
Indices: 16621457--16621511 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
16621447 AGGAGCCATA
* * *
16621457 CGGGTTGGGCACACGCCCATGTGACCACG
1 CGGGCTGGACACACACCCATGT-ACCACG
16621486 CGGGCTGGACACACACCCATGTACCA
1 CGGGCTGGACACACACCCATGTACCA
16621512 ACCCGTGTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.22, C:0.36, G:0.29, T:0.13
Consensus pattern (28 bp):
CGGGCTGGACACACACCCATGTACCACG
Found at i:16626903 original size:28 final size:28
Alignment explanation
Indices: 16626863--16626918 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
16626853 TCATTTTCAC
16626863 TTATTTCCCTTCACTAATATATCAAGAA
1 TTATTTCCCTTCACTAATATATCAAGAA
*
16626891 TTATTTCTCTTCACTAATATATCAAGAA
1 TTATTTCCCTTCACTAATATATCAAGAA
16626919 CATAAGAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.41
Consensus pattern (28 bp):
TTATTTCCCTTCACTAATATATCAAGAA
Found at i:16627326 original size:42 final size:42
Alignment explanation
Indices: 16627268--16627351 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
16627258 GATGATTTTT
*
16627268 TCATCATCTTTCCTCCATTTTATATTAATCATTTAATAATAA
1 TCATCATCTTTCCTCCATTTTAAATTAATCATTTAATAATAA
16627310 TCATCATCTTTCCTCCATTTTAAATTAATCATTTAATAATAA
1 TCATCATCTTTCCTCCATTTTAAATTAATCATTTAATAATAA
16627352 AATAATACTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (42 bp):
TCATCATCTTTCCTCCATTTTAAATTAATCATTTAATAATAA
Found at i:16635933 original size:22 final size:22
Alignment explanation
Indices: 16635902--16635944 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16635892 ATTTTAGTTA
*
16635902 AATAATTATTATTTTAAATAAT
1 AATAACTATTATTTTAAATAAT
*
16635924 AATAACTATTATTTTTAATAA
1 AATAACTATTATTTTAAATAA
16635945 ATTGATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
AATAACTATTATTTTAAATAAT
Found at i:16638702 original size:64 final size:64
Alignment explanation
Indices: 16638632--16638751 Score: 204
Period size: 64 Copynumber: 1.9 Consensus size: 64
16638622 TAACTGATTC
*
16638632 CAACTAAATAGTCACCTGCAAACATTTATTAACAAACACATTTAAACACACTAAACTTAATAAG
1 CAACTAAATAGTCACCTGCAAACATTTATTAACAAACACATTAAAACACACTAAACTTAATAAG
* * *
16638696 CAACTAAATAGTCACCTGCAAGCATTTATTAACAAACATATTAAAACACATTAAAC
1 CAACTAAATAGTCACCTGCAAACATTTATTAACAAACACATTAAAACACACTAAAC
16638752 ATATTAAACA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.48, C:0.22, G:0.05, T:0.25
Consensus pattern (64 bp):
CAACTAAATAGTCACCTGCAAACATTTATTAACAAACACATTAAAACACACTAAACTTAATAAG
Found at i:16638753 original size:19 final size:19
Alignment explanation
Indices: 16638729--16638771 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
16638719 ATTTATTAAC
16638729 AAACATATTAAAACACA-TT
1 AAACATATT-AAACACATTT
16638748 AAACATATTAAACACATTT
1 AAACATATTAAACACATTT
16638767 AAACA
1 AAACA
16638772 CATATTAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (19 bp):
AAACATATTAAACACATTT
Found at i:16638757 original size:9 final size:9
Alignment explanation
Indices: 16638729--16638774 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 9
16638719 ATTTATTAAC
*
16638729 AAACATATT
1 AAACACATT
16638738 AAAACACATT
1 -AAACACATT
*
16638748 AAACATATT
1 AAACACATT
16638757 AAACACATTT
1 AAACACA-TT
16638767 AAACACAT
1 AAACACAT
16638775 ATTAGACTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 15 0.47
10 17 0.53
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.26
Consensus pattern (9 bp):
AAACACATT
Found at i:16638904 original size:19 final size:19
Alignment explanation
Indices: 16638877--16638969 Score: 72
Period size: 19 Copynumber: 5.1 Consensus size: 19
16638867 TTATTCCAGC
*
16638877 AACTAAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
16638896 AACTTAATTAACTAAGATTTG
1 AACTTAATTAACTAAGA--TG
* * *
16638917 TAA-TTTATT--C-CAG--C
1 -AACTTAATTAACTAAGATG
16638931 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
*
16638950 AACTCAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
16638969 A
1 A
16638970 GTAATTTATT
Statistics
Matches: 57, Mismatches: 8, Indels: 18
0.69 0.10 0.22
Matches are distributed among these distances:
13 2 0.04
14 5 0.09
16 1 0.02
17 2 0.04
18 2 0.04
19 36 0.63
21 7 0.12
22 2 0.04
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:16638930 original size:54 final size:54
Alignment explanation
Indices: 16638867--16638992 Score: 216
Period size: 54 Copynumber: 2.3 Consensus size: 54
16638857 CAATAATAAA
* **
16638867 TTATTCCAGCAACTAAATTAACTAAGATGAACTTAATTAACTAAGATTTGTAAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
*
16638921 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
16638975 TTATTCCAGCAACTAAAT
1 TTATTCCAGCAACTAAAT
16638993 ACTTGTTCTA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (54 bp):
TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
Found at i:16639746 original size:16 final size:16
Alignment explanation
Indices: 16639725--16639755 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16639715 CTGGCCATCA
*
16639725 TCTTTTTTTTTTTTGC
1 TCTTTTTCTTTTTTGC
16639741 TCTTTTTCTTTTTTG
1 TCTTTTTCTTTTTTG
16639756 AATATTCTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (16 bp):
TCTTTTTCTTTTTTGC
Found at i:16651286 original size:18 final size:18
Alignment explanation
Indices: 16651263--16651302 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
16651253 CAACGGAAAA
*
16651263 TTTA-TTTAATATTTAAAT
1 TTTATTTTAATA-GTAAAT
16651281 TTTATTTTAATAGTAAAT
1 TTTATTTTAATAGTAAAT
16651299 TTTA
1 TTTA
16651303 AAAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTATTTTAATAGTAAAT
Found at i:16652907 original size:8 final size:8
Alignment explanation
Indices: 16652892--16652926 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
16652882 AAATTTAAAA
16652892 TTTA-ATT
1 TTTATATT
16652899 TTTATATT
1 TTTATATT
16652907 TTTATATT
1 TTTATATT
16652915 TTTATATT
1 TTTATATT
16652923 TTTA
1 TTTA
16652927 CTTTTAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.15
8 23 0.85
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTATATT
Found at i:16652917 original size:16 final size:15
Alignment explanation
Indices: 16652892--16652931 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
16652882 AAATTTAAAA
16652892 TTTAATTTTTATATT
1 TTTAATTTTTATATT
16652907 TTTATATTTTTATATT
1 TTTA-ATTTTTATATT
*
16652923 TTTACTTTT
1 TTTAATTTT
16652932 AGAAATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTAATTTTTATATT
Found at i:16653197 original size:39 final size:37
Alignment explanation
Indices: 16653154--16653228 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
16653144 TGACTAAATT
16653154 TCAAATTTTAAAAAAAAATAGAAAAACTTATAACATGTG
1 TCAAATTTT--AAAAAAATAGAAAAACTTATAACATGTG
*
16653193 TCAAATTTTTAAAAAATAGAAAAACTTATAACATGT
1 TCAAATTTTAAAAAAATAGAAAAACTTATAACATGT
16653229 TTTAGTTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 26 0.74
39 9 0.26
ACGTcount: A:0.55, C:0.08, G:0.07, T:0.31
Consensus pattern (37 bp):
TCAAATTTTAAAAAAATAGAAAAACTTATAACATGTG
Found at i:16661883 original size:18 final size:18
Alignment explanation
Indices: 16661860--16661898 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
16661850 CAACATCAAT
16661860 ATTATCATCAGTTTTT-AC
1 ATTATCATCA-TTTTTCAC
*
16661878 ATTATCTTCATTTTTCAC
1 ATTATCATCATTTTTCAC
16661896 ATT
1 ATT
16661899 TGGTGGTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.26, C:0.18, G:0.03, T:0.54
Consensus pattern (18 bp):
ATTATCATCATTTTTCAC
Found at i:16663457 original size:21 final size:23
Alignment explanation
Indices: 16663413--16663458 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
16663403 AAGGATATGC
*
16663413 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATATGAATTTGT
*
16663436 AATCTTAG-AGAT-TTAATTTGT
1 AATCTTAGAAGATATGAATTTGT
16663457 AA
1 AA
16663459 ATACCCTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
22 4 0.19
23 8 0.38
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.43
Consensus pattern (23 bp):
AATCTTAGAAGATATGAATTTGT
Found at i:16665996 original size:19 final size:19
Alignment explanation
Indices: 16665972--16666016 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
16665962 TCTTTCTTTT
*
16665972 TGCATT-CATTCCATGCATC
1 TGCATTACATTCCAT-CATA
*
16665991 TGCATTACATTGCATCATA
1 TGCATTACATTCCATCATA
16666010 TGCATTA
1 TGCATTA
16666017 GATTTTCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (19 bp):
TGCATTACATTCCATCATA
Found at i:16669832 original size:24 final size:24
Alignment explanation
Indices: 16669800--16669880 Score: 119
Period size: 24 Copynumber: 3.4 Consensus size: 24
16669790 GTCCCAAAAG
*
16669800 TACATTGGATTGAACCTTGAAGAT
1 TACAGTGGATTGAACCTTGAAGAT
* *
16669824 TACATTGGATCGAA-CTTAGAAGAT
1 TACAGTGGATTGAACCTT-GAAGAT
16669848 TACAGTGGATTGAACCTTGAAGAT
1 TACAGTGGATTGAACCTTGAAGAT
16669872 TACAGTGGA
1 TACAGTGGA
16669881 GGCATCTGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
23 3 0.06
24 46 0.88
25 3 0.06
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (24 bp):
TACAGTGGATTGAACCTTGAAGAT
Found at i:16670227 original size:44 final size:44
Alignment explanation
Indices: 16670155--16670916 Score: 572
Period size: 44 Copynumber: 17.1 Consensus size: 44
16670145 CAGTGAAAGC
* * * *
16670155 ACAAATCCTATCTCCATGAGGTTGCAGTGGAGCGGATTAAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * * * **
16670199 ACAAGTCTTATCTCCCTGAAGTTACAGTGGAACAGACTGAAGAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * * *
16670243 AGCAAGTCTTAT-TCCCCTAAAGTTGCAGTAGG-GCAGACTGAAGATG
1 A-CAAATCTTATCT-CCCTGAAGTTGCAGT-GGAGCAGATTAAAG-TT
* *
16670289 ACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * **
16670333 ACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCC
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * *
16670377 A-ATAATCCTATCTCCCTAAAAGTTGCAGTGGAGCGGATTAAAGTT
1 ACA-AATCTTATCTCCCT-GAAGTTGCAGTGGAGCAGATTAAAGTT
* * * * * **
16670422 ACAAGTCTTATGT-CCTAGAAGTTGCAGTGGAACAGACTGAAGAA
1 ACAAATCTTATCTCCCT-GAAGTTGCAGTGGAGCAGATTAAAGTT
* * * * *
16670466 AGCAAGTCTTATC-CCCTTGAAGTTGCAGTGGGGCAGACTGAAGATG
1 A-CAAATCTTATCTCCC-TGAAGTTGCAGTGGAGCAGATTAAAG-TT
* * * * * **
16670512 GCGAATCTCATCTCCCTGAAGTTGCAGTGAAGCAGATCAAAGCC
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * *
16670556 A-ATAATCCTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAGTT
1 ACA-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * * **
16670600 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * * * *
16670644 AGCAAGTCTTATCCCCCTGAAGTTGTAGTGGGGCAGACTAAAGATG
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TT
* * * *
16670690 GCAAATCTTATCTTCCTGAAGTTGCAATGGAGCAGATTAAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * *
16670734 A-ATAATCCTATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCT
1 ACA-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * *
16670778 A-ATAATCCTATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCT
1 ACA-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * * *
16670822 A-ATAATCCTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGAT
1 ACA-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * * *
16670866 AGCGAATCTTATTTCCCT-AGCGTTGCAATGGAGCAGATTAAAGCT
1 A-CAAATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTAAAGTT
16670911 ACAAAT
1 ACAAAT
16670917 TATGGCGTAT
Statistics
Matches: 581, Mismatches: 115, Indels: 44
0.79 0.16 0.06
Matches are distributed among these distances:
43 2 0.00
44 310 0.53
45 260 0.45
46 9 0.02
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
Found at i:16670462 original size:178 final size:177
Alignment explanation
Indices: 16670158--16670909 Score: 756
Period size: 178 Copynumber: 4.2 Consensus size: 177
16670148 TGAAAGCACA
* * * * ** * *
16670158 AATCCTATCTCCATGAGGTTGCAGTGGAGCGGATTAAAGTTACA-AGTCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-ATAATCCTATCTCCCTGAAGTT
* * * * * ** *
16670222 ACAGTGGAACAGACTGAAGAAAGCAAGTCTTATTCCCCTA-AAGTTGCAGTAGG-GCAGACTGAA
65 GCAGTGGAGCGGATTAAAGTTA-CAAGTCTTATT-CCCTAGAAGTTGCAGT-GGAACAGACTGAA
* * * * * * **
16670285 G-ATGACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAG-TTAC
127 GAAAG-CAAGTCTTATCCCCTTGAAGTTGCAGTGGGGCAGACTAAAGATGGC
* * *
16670335 AAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAATAATCCTATCTCCCTAAAAGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCT-GAAGT
16670400 TGCAGTGGAGCGGATTAAAGTTACAAGTCTTATGT-CCTAGAAGTTGCAGTGGAACAGACTGAAG
64 TGCAGTGGAGCGGATTAAAGTTACAAGTCTTAT-TCCCTAGAAGTTGCAGTGGAACAGACTGAAG
*
16670464 AAAGCAAGTCTTATCCCCTTGAAGTTGCAGTGGGGCAGACTGAAGATGGC
128 AAAGCAAGTCTTATCCCCTTGAAGTTGCAGTGGGGCAGACTAAAGATGGC
* * *
16670514 GAATCTCATCTCCCTGAAGTTGCAGTGAAGCAGATCAAAGCCAATAATCCTATCTCCCTGAAGTT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTT
*
16670579 GCAGTGAAGCGGATTAAAGTTACAAGTCTTATCTCCCT-GAAGTTGCAGTGGAACAGACTGAAGA
65 GCAGTGGAGCGGATTAAAGTTACAAGTCTTAT-TCCCTAGAAGTTGCAGTGGAACAGACTGAAGA
* *
16670643 AAGCAAGTCTTATCCCCCTGAAGTTGTAGTGGGGCAGACTAAAGATGGC
129 AAGCAAGTCTTATCCCCTTGAAGTTGCAGTGGGGCAGACTAAAGATGGC
* * * *
16670692 AAATCTTATCTTCCTGAAGTTGCAATGGAGCAGATTAAAGCTAATAATCCTATCTCCCTGAGGTT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTT
* * * * * * * *
16670757 GCAGTGGAGCAGATTAAAGCTA-ATAATCCTATCTCCCT-GAGGTTGCAGTGGAGCAGATTAAAG
65 GCAGTGGAGCGGATTAAAGTTACA-AGTCTTAT-TCCCTAGAAGTTGCAGTGGAACAGACTGAAG
* * * * * * *
16670820 CTAA-TAA-TCCTATCTCCC-TGAGGTTGCAGTGGAGCAGACTGAAGATAGC
128 -AAAGCAAGTCTTATC-CCCTTGAAGTTGCAGTGGGGCAGACTAAAGATGGC
* * *
16670869 GAATCTTATTTCCCT-AGCGTTGCAATGGAGCAGATTAAAGC
1 -AATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTAAAGC
16670910 TACAAATTAT
Statistics
Matches: 493, Mismatches: 68, Indels: 28
0.84 0.12 0.05
Matches are distributed among these distances:
176 1 0.00
177 77 0.16
178 332 0.67
179 81 0.16
180 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (177 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTG
CAGTGGAGCGGATTAAAGTTACAAGTCTTATTCCCTAGAAGTTGCAGTGGAACAGACTGAAGAAA
GCAAGTCTTATCCCCTTGAAGTTGCAGTGGGGCAGACTAAAGATGGC
Found at i:16670570 original size:223 final size:220
Alignment explanation
Indices: 16670158--16670854 Score: 810
Period size: 223 Copynumber: 3.1 Consensus size: 220
16670148 TGAAAGCACA
* * *
16670158 AATCCTATCTCCATGAGGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTA
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCT-CCTGAAGTTG
* *
16670223 CAGTGGAACAGACTGAAGAAAGCAAGTCTTATTCCCCTAAAGTTGCAGTAGGGCAGACTGAAGAT
65 CAGTGGAACAGACTGAAGAAAGCAAGTCTTA-TCCCCTGAAGTTGCAGTGGGGCAGACTGAAGAT
* * * * * *
16670288 GACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTACA-AGTCTTATCTCCCTGA
129 GACAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-ATAATCCTATCTCCCTGA
* * *
16670352 AGTTACAGTGGAGCAGATTGAAGCCAAT
193 AGTTGCAGTGGAGCAGATTAAAGCTAAT
* *
16670380 AATCCTATCTCCCTAAAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATGTCCTAGAAGTT
1 AATCCTATCTCCCT-GAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCT-GAAGTT
16670445 GCAGTGGAACAGACTGAAGAAAGCAAGTCTTATCCCCTTGAAGTTGCAGTGGGGCAGACTGAAGA
64 GCAGTGGAACAGACTGAAGAAAGCAAGTCTTATCCCC-TGAAGTTGCAGTGGGGCAGACTGAAGA
* * * * *
16670510 TGGCGAATCTCATCTCCCTGAAGTTGCAGTGAAGCAGATCAAAGCCAATAATCCTATCTCCCTGA
128 TGACAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAATAATCCTATCTCCCTGA
* * *
16670575 AGTTGCAGTGAAGCGGATTAAAGTTACA-
193 AGTTGCAGTGGAGCAGATTAAAGCTA-AT
* * * * * * ** *
16670603 AGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTA-CAAGTCTTAT-CTCCTGAAGTT
* ** * ** * * * * * * *
16670668 GTAGTGGGGCAGACTAAAGATGGCAAATCTTATCTTCCTGAAGTTGCAATGGAGCAGATTAAAGC
64 GCAGTGGAACAGACTGAAGAAAGCAAGTCTTATC-CCCTGAAGTTGCAGTGGGGCAGACTGAAGA
*
16670733 T-A-ATAATC-CTATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCTAATAATCCTATCTCCCT
128 TGACA-AATCTC-ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAATAATCCTATCTCCCT
*
16670795 GAGGTTGCAGTGGAGCAGATTAAAGCTAAT
191 GAAGTTGCAGTGGAGCAGATTAAAGCTAAT
*
16670825 AATCCTATCTCCCTGAGGTTGCAGTGGAGC
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGC
16670855 AGACTGAAGA
Statistics
Matches: 402, Mismatches: 62, Indels: 22
0.83 0.13 0.05
Matches are distributed among these distances:
221 2 0.00
222 145 0.36
223 249 0.62
224 6 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (220 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCTGAAGTTGC
AGTGGAACAGACTGAAGAAAGCAAGTCTTATCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGA
CAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAATAATCCTATCTCCCTGAAGT
TGCAGTGGAGCAGATTAAAGCTAAT
Found at i:16671036 original size:45 final size:48
Alignment explanation
Indices: 16670985--16671079 Score: 115
Period size: 51 Copynumber: 2.0 Consensus size: 48
16670975 TCTCTTTGAA
*
16670985 GTTGCA-G-CAGAGCAGA-CTGAAGACAGCGAATCTTATTTCCCTAGT
1 GTTGCAGGACAGAGCAAAGCTGAAGACAGCGAATCTTATTTCCCTAGT
**
16671030 GTTGCAGTGGAACAGATTAAAGCTGAAGACAGCGAATCTTATTTCCCTAG
1 GTTGCA--GG-ACAGAGCAAAGCTGAAGACAGCGAATCTTATTTCCCTAG
16671080 CATTGCAGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
45 6 0.15
48 1 0.02
50 6 0.15
51 28 0.68
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (48 bp):
GTTGCAGGACAGAGCAAAGCTGAAGACAGCGAATCTTATTTCCCTAGT
Found at i:16671046 original size:143 final size:143
Alignment explanation
Indices: 16670786--16671053 Score: 376
Period size: 143 Copynumber: 1.9 Consensus size: 143
16670776 CTAATAATCC
* * * * * **
16670786 TATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCTAATAATCCTATCTCCCTGAGGTTGCAGTG
1 TATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCAATAAGCCTATCTCCCTGAAGTTGCAGCA
* *
16670851 GAGCAGACTGAAGATAGCGAATCTTATTTCCCTAGCGTTGCAATGGAGCAGATTAAAGCTACAAA
66 GAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTGCAATGGAACAGATTAAAGCTACAAA
16670916 TTATGGCGTATCT
131 TTATGGCGTATCT
* * * **
16670929 TATCTTCCTGAAGTTGCAATGGAGCAGATTGAAGCCACT-AGCCTTATCTCTTTGAAGTTGCAGC
1 TATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCAATAAGCC-TATCTCCCTGAAGTTGCAGC
* *
16670993 AGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGTGTTGCAGTGGAACAGATTAAAGCT
65 AGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTGCAATGGAACAGATTAAAGCT
16671054 GAAGACAGCG
Statistics
Matches: 108, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
142 3 0.03
143 105 0.97
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (143 bp):
TATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCAATAAGCCTATCTCCCTGAAGTTGCAGCA
GAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTGCAATGGAACAGATTAAAGCTACAAA
TTATGGCGTATCT
Found at i:16671077 original size:51 final size:51
Alignment explanation
Indices: 16671001--16671104 Score: 163
Period size: 51 Copynumber: 2.0 Consensus size: 51
16670991 GCAGAGCAGA
** *
16671001 CTGAAGACAGCGAATCTTATTTCCCTAGTGTTGCAGTGGAACAGATTAAAG
1 CTGAAGACAGCGAATCTTATTTCCCTAGCATTGCAGTAGAACAGATTAAAG
**
16671052 CTGAAGACAGCGAATCTTATTTCCCTAGCATTGCAGTAGAGTAGATTAAAG
1 CTGAAGACAGCGAATCTTATTTCCCTAGCATTGCAGTAGAACAGATTAAAG
16671103 CT
1 CT
16671105 ACAAATTATG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (51 bp):
CTGAAGACAGCGAATCTTATTTCCCTAGCATTGCAGTAGAACAGATTAAAG
Found at i:16671214 original size:194 final size:195
Alignment explanation
Indices: 16670858--16671219 Score: 541
Period size: 194 Copynumber: 1.9 Consensus size: 195
16670848 GTGGAGCAGA
* * *
16670858 CTGAAGATAGCGAATCTTATTTCCCTAGCGTTGCAATGGAGCAGATTAAAGCTACAAATTATGGC
1 CTGAAGACAGCGAATCTTATTTCCCTAGCATTGCAATAGAGCAGATTAAAGCTACAAATTATGGC
* * * * **
16670923 GTATCTTATCTTCCTGAAGTTGCAATGGAGCAGATTGAAGCCACTAGCCTTATCTCTTTGAAGTT
66 GGATCTTATCTTCCTGAAGTTACAATGGAGCAGATTGAAGCCACCAACCTTATCTCCCTGAAGTT
*
16670988 GCAGCAGAGCAGACTGAAGACAGCGAATCTTAT-TTCCCTAGTGTTGCAGTGGAACAGATTAAAG
131 GCAGCAGAGCAGACTGAAGACAACGAATCTTATCTTCCCTAGTGTTGCAGTGGAACAGATTAAAG
* *
16671052 CTGAAGACAGCGAATCTTATTTCCCTAGCATTGCAGTAGAGTAGATTAAAGCTACAAATTATGGC
1 CTGAAGACAGCGAATCTTATTTCCCTAGCATTGCAATAGAGCAGATTAAAGCTACAAATTATGGC
* *
16671117 GGATCTTATCTTCCTGAAGTTACAATGGGGCA-AGTTGAAGCCACCAACCTTATCTCCCTGAATT
66 GGATCTTATCTTCCTGAAGTTACAATGGAGCAGA-TTGAAGCCACCAACCTTATCTCCCTGAAGT
* *
16671181 TGCAGCAGAGCAGACTGATGATAAC-AGATCTTATCTTCC
130 TGCAGCAGAGCAGACTGAAGACAACGA-ATCTTATCTTCC
16671220 TGTATTGGCA
Statistics
Matches: 149, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
193 2 0.01
194 143 0.96
195 4 0.03
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (195 bp):
CTGAAGACAGCGAATCTTATTTCCCTAGCATTGCAATAGAGCAGATTAAAGCTACAAATTATGGC
GGATCTTATCTTCCTGAAGTTACAATGGAGCAGATTGAAGCCACCAACCTTATCTCCCTGAAGTT
GCAGCAGAGCAGACTGAAGACAACGAATCTTATCTTCCCTAGTGTTGCAGTGGAACAGATTAAAG
Found at i:16671215 original size:45 final size:45
Alignment explanation
Indices: 16671165--16671595 Score: 136
Period size: 45 Copynumber: 9.7 Consensus size: 45
16671155 AGCCACCAAC
*
16671165 CTTATCTCCCTGAATTTGCAGCAGAGCAGACTGATGATAACAGAT
1 CTTATCTCCCTGAATTTGCAGCAGAGCAGACTGAAGATAACAGAT
* * * * * * *
16671210 CTTATCTTCCTGTATTGGCAGC-GAAGTAGA-TCGAAGACACCAG-C
1 CTTATCTCCCTGAATTTGCAGCAG-AGCAGACT-GAAGATAACAGAT
* * * *
16671254 CTTATCTCCTTGAATTTGCAGCAAAGCAAACTGACGATAACAGAT
1 CTTATCTCCCTGAATTTGCAGCAGAGCAGACTGAAGATAACAGAT
* * * * * *
16671299 CTTGTCTTCCT-ATATTGGCAGC-GAAGTAGATTGAA-A-ACACTAGCT
1 CTTATCTCCCTGA-ATTTGCAGCAG-AGCAGACTGAAGATA-AC-AGAT
** * ** * *
16671344 -TTGCCTCCCTGAGTTTGCAGTGGAGCAGACTAAAGATAACAAAT
1 CTTATCTCCCTGAATTTGCAGCAGAGCAGACTGAAGATAACAGAT
* * * * * * *
16671388 CTTGTCTTCCTGTATTGGCAGC-GAAGCAGA-TCAAAGA-CACTAG-C
1 CTTATCTCCCTGAATTTGCAGCAG-AGCAGACT-GAAGATAAC-AGAT
** * * *
16671432 CTTGCCTCCCTGAGTTTGCAGCAGAGCAAACTGAAGATAGCAGAT
1 CTTATCTCCCTGAATTTGCAGCAGAGCAGACTGAAGATAACAGAT
* *** * * * * * * *
16671477 CTTGTCTTTTTGTATTGGCAGCAAAGTAGA-TCGAAGACACCA-AC
1 CTTATCTCCCTGAATTTGCAGCAGAGCAGACT-GAAGATAACAGAT
** * * * *
16671521 CTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTAAAGATAGCAGAT
1 CTTATCTCCCTGAATTTGCAGCAGAGCAGACTGAAGATAACAGAT
* * * *
16671566 CTTGTCTTCCTGTATTAGCAGC-GAAGCAGA
1 CTTATCTCCCTGAATTTGCAGCAG-AGCAGA
16671596 TCAAAGACAC
Statistics
Matches: 271, Mismatches: 90, Indels: 50
0.66 0.22 0.12
Matches are distributed among these distances:
43 1 0.00
44 122 0.45
45 147 0.54
46 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (45 bp):
CTTATCTCCCTGAATTTGCAGCAGAGCAGACTGAAGATAACAGAT
Found at i:16671269 original size:89 final size:89
Alignment explanation
Indices: 16671170--16671724 Score: 633
Period size: 89 Copynumber: 6.2 Consensus size: 89
16671160 CCAACCTTAT
* * *
16671170 CTCCCTGAATTTGCAGCAGAGCAGACTGATGATAACAGATCTTATCTTCCTGTATTGGCAGCGAA
1 CTCCCTGAGTTTGCAGCAGAGCAGACTGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAA
**
16671235 GTAGATCGAAGACACCAGCCTTAT
66 GTAGATCGAAGACACCAGCCTTGC
* * * * * *
16671259 CTCCTTGAATTTGCAGCAAAGCAAACTGACGATAACAGATCTTGTCTTCCTATATTGGCAGCGAA
1 CTCCCTGAGTTTGCAGCAGAGCAGACTGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAA
* * * *
16671324 GTAGATTGAAAACACTAGCTTTGC
66 GTAGATCGAAGACACCAGCCTTGC
** * *
16671348 CTCCCTGAGTTTGCAGTGGAGCAGACTAAAGATAACAAATCTTGTCTTCCTGTATTGGCAGCGAA
1 CTCCCTGAGTTTGCAGCAGAGCAGACTGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAA
* * *
16671413 GCAGATCAAAGACACTAGCCTTGC
66 GTAGATCGAAGACACCAGCCTTGC
* * ** *
16671437 CTCCCTGAGTTTGCAGCAGAGCAAACTGAAGATAGCAGATCTTGTCTTTTTGTATTGGCAGCAAA
1 CTCCCTGAGTTTGCAGCAGAGCAGACTGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAA
*
16671502 GTAGATCGAAGACACCAACCTTGC
66 GTAGATCGAAGACACCAGCCTTGC
* * * *
16671526 CTCCCTGAGTTTGCAGCGGAGCAGACTAAAGATAGCAGATCTTGTCTTCCTGTATTAGCAGCGAA
1 CTCCCTGAGTTTGCAGCAGAGCAGACTGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAA
* * *
16671591 GCAGATCAAAGACACCAGTCTTGC
66 GTAGATCGAAGACACCAGCCTTGC
* * * * * ** * * * *
16671615 CTCTCTGAGTTAGCAGCGGAGTAGACTGAAAATAGTAGATCTTGTCTTCCTGTACTAGAAGTGAA
1 CTCCCTGAGTTTGCAGCAGAGCAGACTGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAA
** *
16671680 GTAGATAAAAAACACCAGCCTTGC
66 GTAGATCGAAGACACCAGCCTTGC
** * *
16671704 CTCTTTGAGTTTACAGTAGAG
1 CTCCCTGAGTTTGCAGCAGAG
16671725 TAGGTTGAAG
Statistics
Matches: 397, Mismatches: 69, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
89 397 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (89 bp):
CTCCCTGAGTTTGCAGCAGAGCAGACTGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAA
GTAGATCGAAGACACCAGCCTTGC
Found at i:16671602 original size:45 final size:46
Alignment explanation
Indices: 16671367--16671668 Score: 159
Period size: 45 Copynumber: 6.8 Consensus size: 46
16671357 TTTGCAGTGG
* * *
16671367 AGCAGA-CTAAAGATAACAAATCTTGTCTTCCTGTA-TTGGCAGCGA
1 AGCAGATC-AAAGATAGCAGATCTTGTCTTCCTGTAGTTAGCAGCGA
* * * * *
16671412 AGCAGATCAAAGACA-CTAG-CCTTGCCTCCCTG-AGTTTGCAGC-A
1 AGCAGATCAAAGATAGC-AGATCTTGTCTTCCTGTAGTTAGCAGCGA
* * ** * *
16671455 GAGCA-AACTGAAGATAGCAGATCTTGTCTTTTTGTA-TTGGCAGCAA
1 -AGCAGATC-AAAGATAGCAGATCTTGTCTTCCTGTAGTTAGCAGCGA
* * * * * * * * *
16671501 AGTAGATCGAAGACACCA-ACCTTGCCTCCCTG-AGTTTGCAGCGG
1 AGCAGATCAAAGATAGCAGATCTTGTCTTCCTGTAGTTAGCAGCGA
16671545 AGCAGA-CTAAAGATAGCAGATCTTGTCTTCCTGTA-TTAGCAGCGA
1 AGCAGATC-AAAGATAGCAGATCTTGTCTTCCTGTAGTTAGCAGCGA
* * * *
16671590 AGCAGATCAAAGACACCAG-TCTTG-CCTCTCTG-AGTTAGCAGCGG
1 AGCAGATCAAAGATAGCAGATCTTGTCTTC-CTGTAGTTAGCAGCGA
* * *
16671634 AGTAGACTGAAA-ATAGTAGATCTTGTCTTCCTGTA
1 AGCAGA-TCAAAGATAGCAGATCTTGTCTTCCTGTA
16671669 CTAGAAGTGA
Statistics
Matches: 190, Mismatches: 46, Indels: 41
0.69 0.17 0.15
Matches are distributed among these distances:
43 10 0.05
44 83 0.44
45 86 0.45
46 11 0.06
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (46 bp):
AGCAGATCAAAGATAGCAGATCTTGTCTTCCTGTAGTTAGCAGCGA
Found at i:16671630 original size:44 final size:44
Alignment explanation
Indices: 16671405--16671632 Score: 135
Period size: 44 Copynumber: 5.1 Consensus size: 44
16671395 TCCTGTATTG
* * * *
16671405 GCAGCGAAGCAGATCAAAGACACTAGCCTTGCCTCCCTGAGTTT
1 GCAGCGAAGCAGATCAAAGACACCAGTCTTGCCTCTCTGAGTTA
* * * * * * * *
16671449 GCAGC-AGAGCA-AACTGAAGATAGCAGATCTTGTCTTTTTGTA-TTG
1 GCAGCGA-AGCAGATC-AAAGACACCAG-TCTTGCCTCTCTG-AGTTA
* * * ** * *
16671494 GCAGCAAAGTAGATCGAAGACACCAACCTTGCCTCCCTGAGTTT
1 GCAGCGAAGCAGATCAAAGACACCAGTCTTGCCTCTCTGAGTTA
* * * *
16671538 GCAGCGGAGCAGA-CTAAAGATAGCAGATCTTGTCT-TCCTGTA-TTA
1 GCAGCGAAGCAGATC-AAAGACACCAG-TCTTGCCTCT-CTG-AGTTA
16671583 GCAGCGAAGCAGATCAAAGACACCAGTCTTGCCTCTCTGAGTTA
1 GCAGCGAAGCAGATCAAAGACACCAGTCTTGCCTCTCTGAGTTA
16671627 GCAGCG
1 GCAGCG
16671633 GAGTAGACTG
Statistics
Matches: 133, Mismatches: 37, Indels: 28
0.67 0.19 0.14
Matches are distributed among these distances:
43 6 0.05
44 62 0.47
45 59 0.44
46 6 0.05
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.23
Consensus pattern (44 bp):
GCAGCGAAGCAGATCAAAGACACCAGTCTTGCCTCTCTGAGTTA
Found at i:16671877 original size:131 final size:133
Alignment explanation
Indices: 16671722--16671997 Score: 380
Period size: 131 Copynumber: 2.1 Consensus size: 133
16671712 GTTTACAGTA
* * * * *
16671722 GAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACGGCGAA
1 GAGTAGGTTGAAGATTGTAGATCCTATCTCCCTAAACAGTAGTGAAGCAAATCAAAGACGACGAA
* *
16671787 TCTTATCTTCCCG-AGATAGTA-GGAAGCAGATTTAAGCCACTAGTCC-TATCTCCCTG-AGTAA
66 TCTTATCTT-CCGAAGATAGTAGGGAAGCAGAATTAAGCCACCAG-CCTTATCTCCCTGAAGTAA
16671848 TAGTG
129 TAGTG
* * *
16671853 GAGTAGGTTGAAGATTGTATATCCTATCTCCCTAAACAGTAGTGGAGCAAATCAAAGACGACGAG
1 GAGTAGGTTGAAGATTGTAGATCCTATCTCCCTAAACAGTAGTGAAGCAAATCAAAGACGACGAA
* **
16671918 TCTTATCTTCCGAAGGTAGTAGGGAAGCAGAATTAAGCCACCAGCCTTATCTCCCTGAAGTTGTA
66 TCTTATCTTCCGAAGATAGTAGGGAAGCAGAATTAAGCCACCAGCCTTATCTCCCTGAAGTAATA
16671983 GTG
131 GTG
*
16671986 GAGCAGGTTGAA
1 GAGTAGGTTGAA
16671998 ATTACCAATT
Statistics
Matches: 127, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
130 3 0.02
131 75 0.59
132 30 0.24
133 19 0.15
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (133 bp):
GAGTAGGTTGAAGATTGTAGATCCTATCTCCCTAAACAGTAGTGAAGCAAATCAAAGACGACGAA
TCTTATCTTCCGAAGATAGTAGGGAAGCAGAATTAAGCCACCAGCCTTATCTCCCTGAAGTAATA
GTG
Found at i:16678708 original size:49 final size:49
Alignment explanation
Indices: 16678620--16678763 Score: 193
Period size: 49 Copynumber: 2.9 Consensus size: 49
16678610 TTTATTTTCT
* * *
16678620 CGATGCCTTAGTCCAACTATGGTCTTACACGTAATCACATATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGGAATCACATATCACATAC
* *
16678669 CGA-GCCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTAC
1 CGATG-CCATAGCCCAACTATGGTCTTACACGGAATCACATATCACATAC
* *
16678718 TGATGCCATAGCCCAACTATGGTCTTATACGGAATC-CATAATCACA
1 CGATGCCATAGCCCAACTATGGTCTTACACGGAATCACAT-ATCACA
16678764 ATGTTCACAT
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
48 4 0.05
49 78 0.94
50 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.26
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGGAATCACATATCACATAC
Found at i:16679805 original size:102 final size:102
Alignment explanation
Indices: 16679634--16679905 Score: 429
Period size: 102 Copynumber: 2.7 Consensus size: 102
16679624 CCAGTGATTC
* * * *
16679634 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAAGT-AGCACTCAGCAAC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAA-ATACGGTGGAA-TCAGCACTTAGCAAC
* * *
16679698 CACCAATGATTTAGGGAATCAGCACTTAGCAACTCCTCG
64 CACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCG
*
16679737 GGGGAATCTGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
* *
16679802 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCG
16679839 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
16679904 CC
66 CC
16679906 NNNNNNNNNN
Statistics
Matches: 157, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
101 1 0.01
102 122 0.78
103 34 0.22
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCG
Found at i:16679823 original size:33 final size:27
Alignment explanation
Indices: 16679781--16679862 Score: 101
Period size: 27 Copynumber: 2.8 Consensus size: 27
16679771 AAAATACGGT
16679781 GGAATCAGCACTTAGCAACCACCAATGAATCGG
1 GGAATCAGCACTTAGCAACC-CC--T---TCGG
*
16679814 GGAATCAGCACTTAGCAACCCCTTGGG
1 GGAATCAGCACTTAGCAACCCCTTCGG
16679841 GGAATCAGCACTTAGCAACCCC
1 GGAATCAGCACTTAGCAACCCC
16679863 CTTCACATTT
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
27 25 0.52
30 1 0.02
32 2 0.04
33 20 0.42
ACGTcount: A:0.32, C:0.30, G:0.22, T:0.16
Consensus pattern (27 bp):
GGAATCAGCACTTAGCAACCCCTTCGG
Found at i:16683372 original size:17 final size:17
Alignment explanation
Indices: 16683325--16683372 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
16683315 ACAAAACAAG
*
16683325 TTAATCAAATTAATTATAA
1 TTAATCAAA--AATTAAAA
*
16683344 TTAATCATAAATTAAAA
1 TTAATCAAAAATTAAAA
*
16683361 TTAATTAAAAAT
1 TTAATCAAAAAT
16683373 ATAATAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 17 0.68
19 8 0.32
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAATCAAAAATTAAAA
Found at i:16683388 original size:27 final size:27
Alignment explanation
Indices: 16683331--16683400 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 27
16683321 CAAGTTAATC
* * *
16683331 AAATTAATTATAATTAATCATAAATTA
1 AAATTAATTAAAAATAATAATAAATTA
16683358 AAATTAATTAAAAAT-ATAATAAATATGA
1 AAATTAATTAAAAATAATAATAAAT-T-A
*
16683386 AATATTAAGTAAAAA
1 AA-ATTAATTAAAAA
16683401 AACTTCCAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 8 0.22
27 14 0.39
28 3 0.08
29 11 0.31
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (27 bp):
AAATTAATTAAAAATAATAATAAATTA
Found at i:16696444 original size:24 final size:25
Alignment explanation
Indices: 16696390--16696453 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
16696380 CTGTAAGAAT
* *
16696390 CAAATAAAAGAAAA-ATTAAAATGTAA
1 CAAATAAAATAAAACA--AAAATATAA
*
16696416 CAAATAAATTAAAACAAAAATATAA
1 CAAATAAAATAAAACAAAAATATAA
16696441 -AAATAAAATAAAA
1 CAAATAAAATAAAA
16696454 ATAAATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 12 0.36
25 8 0.24
26 12 0.36
27 1 0.03
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (25 bp):
CAAATAAAATAAAACAAAAATATAA
Found at i:16696454 original size:25 final size:26
Alignment explanation
Indices: 16696390--16696454 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 26
16696380 CTGTAAGAAT
* ** *
16696390 CAAATAAAAGAAAAATTAAAATGTAA
1 CAAATAAAATAAAAACAAAAATATAA
*
16696416 CAAAT-AAATTAAAACAAAAATATAA
1 CAAATAAAATAAAAACAAAAATATAA
16696441 -AAATAAAATAAAAA
1 CAAATAAAATAAAAA
16696455 TAAATAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
24 4 0.12
25 23 0.72
26 5 0.16
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (26 bp):
CAAATAAAATAAAAACAAAAATATAA
Found at i:16698449 original size:50 final size:50
Alignment explanation
Indices: 16698324--16698535 Score: 214
Period size: 50 Copynumber: 4.3 Consensus size: 50
16698314 GAATATAACA
* * * ** *
16698324 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCCAGTAT---
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT-CA-TATCGG
* * **
16698373 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** *
16698423 TGCCCATGCCATGTCCAAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
16698473 TGCCAATGCCATGTCCCAGACATGATCTTACATGAGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
*
16698523 TGCCAACGCCATG
1 TGCCAATGCCATG
16698536 ACCCCGTTCC
Statistics
Matches: 136, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
47 3 0.02
48 2 0.01
49 34 0.25
50 97 0.71
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:16698560 original size:56 final size:50
Alignment explanation
Indices: 16698394--16698562 Score: 151
Period size: 50 Copynumber: 3.3 Consensus size: 50
16698384 TATCCCAGAT
* ** * * *
16698394 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG-TCCAAGAC
1 ATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTTCCAA-AC
** * * * *
16698444 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTTCCAAAC
*
16698494 ATGATCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGACCCCGTTCCAAAC
1 ATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCAT------GTTCCAAAC
16698550 ATGGTCTTACATG
1 ATGGTCTTACATG
16698563 GGATCTCATC
Statistics
Matches: 96, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
50 74 0.77
51 3 0.03
56 19 0.20
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
ATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTTCCAAAC
Found at i:16698726 original size:22 final size:23
Alignment explanation
Indices: 16698683--16698727 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
16698673 TATTTTCATG
*
16698683 AAATAAATACATAATTGCTGAAA
1 AAATAAATACATAATTACTGAAA
* *
16698706 AAATTAATA-ATAATTATTGAAA
1 AAATAAATACATAATTACTGAAA
16698728 TATTGTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (23 bp):
AAATAAATACATAATTACTGAAA
Found at i:16701568 original size:14 final size:14
Alignment explanation
Indices: 16701549--16701575 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16701539 TGGCAGCTAG
16701549 CTCATGTAGCTTTT
1 CTCATGTAGCTTTT
16701563 CTCATGTAGCTTT
1 CTCATGTAGCTTT
16701576 AACTGTCTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.48
Consensus pattern (14 bp):
CTCATGTAGCTTTT
Found at i:16705189 original size:50 final size:50
Alignment explanation
Indices: 16705133--16705339 Score: 241
Period size: 50 Copynumber: 4.3 Consensus size: 50
16705123 GATCCTAGAT
* * *
16705133 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCAAGAC
1 ATGGTCTTACATGGGAGCTCTCATATCGGTGCCAACGCCATGTCCAAGAC
** *
16705183 ATGGTCTTACGGGGGAGCTCTCATCTCGGTGCCAACGCCATGTCCCAA-AC
1 ATGGTCTTACATGGGAGCTCTCATATCGGTGCCAACGCCATGT-CCAAGAC
*
16705233 ATGGTCTTACATGGGA-C-CTC---TC-ATGCCAACGCCATGTCTC-AGAC
1 ATGGTCTTACATGGGAGCTCTCATATCGGTGCCAACGCCATGTC-CAAGAC
* * * *
16705277 ATGGTCTTACATAGGACCTCTCATATCGGTACCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGAGCTCTCATATCGGTGCCAACGCCATGTCCAAGAC
16705327 ATGGTCTTACATG
1 ATGGTCTTACATG
16705340 AGATCTCTTT
Statistics
Matches: 134, Mismatches: 13, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
43 2 0.01
44 32 0.24
45 3 0.02
46 3 0.02
48 3 0.02
49 4 0.03
50 83 0.62
51 4 0.03
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
ATGGTCTTACATGGGAGCTCTCATATCGGTGCCAACGCCATGTCCAAGAC
Found at i:16705279 original size:44 final size:45
Alignment explanation
Indices: 16705212--16705339 Score: 177
Period size: 44 Copynumber: 2.8 Consensus size: 45
16705202 CTCATCTCGG
*
16705212 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTC-A
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAA
* *
16705256 TGCCAACGCCATGTCTCAGACATGGTCTTACATAGGACCTCTCATA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCA-A
16705302 TCGGTACCAACGCCATGTCCCAGACATGGTCTTACATG
1 T--G--CCAACGCCATGTCCCAGACATGGTCTTACATG
16705340 AGATCTCTTT
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
44 40 0.55
46 2 0.03
48 1 0.01
50 30 0.41
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (45 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAA
Found at i:16705298 original size:94 final size:94
Alignment explanation
Indices: 16705169--16705339 Score: 263
Period size: 94 Copynumber: 1.8 Consensus size: 94
16705159 CGGTGCCCAT
* * * * *
16705169 GCCATGTCCAAGACATGGTCTTACGGGGGAGCTCTCATCTCGGTGCCAACGCCATGTCCCAAACA
1 GCCATGTCCAAGACATGGTCTTACAGAGGACCTCTCATATCGGTACCAACGCCATGTCCCAAACA
16705234 TGGTCTTACATGGGACCTCTCATGCCAAC
66 TGGTCTTACATGGGACCTCTCATGCCAAC
* *
16705263 GCCATGTCTC-AGACATGGTCTTACATAGGACCTCTCATATCGGTACCAACGCCATGTCCCAGAC
1 GCCATGTC-CAAGACATGGTCTTACAGAGGACCTCTCATATCGGTACCAACGCCATGTCCCAAAC
16705327 ATGGTCTTACATG
65 ATGGTCTTACATG
16705340 AGATCTCTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
94 68 0.99
95 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (94 bp):
GCCATGTCCAAGACATGGTCTTACAGAGGACCTCTCATATCGGTACCAACGCCATGTCCCAAACA
TGGTCTTACATGGGACCTCTCATGCCAAC
Found at i:16714406 original size:30 final size:29
Alignment explanation
Indices: 16714350--16714406 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
16714340 GTGTAATTGT
* *
16714350 ATACATGAATTTTGATTTTGTGCAATTTC
1 ATACATGAAATTTGATTTTGTCCAATTTC
16714379 ATACATGAAAATTTGA-TTTGATCCAATT
1 ATACATG-AAATTTGATTTTG-TCCAATT
16714407 CTTGTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (29 bp):
ATACATGAAATTTGATTTTGTCCAATTTC
Found at i:16715244 original size:126 final size:126
Alignment explanation
Indices: 16715066--16715362 Score: 382
Period size: 126 Copynumber: 2.4 Consensus size: 126
16715056 TTTTATTCAT
* * * * * * *
16715066 TCAGCCAAAGTATTGAAAAAAACTTCCAGCTAGACGCTCTTTTTCTAGAGTAGTTTCTGAAAAAA
1 TCAGCAAAAGTACTGAAAAAAGCTCCCACCTAGACGCTCTCTTTCCAGAGTAGTTTCTGAAAAAA
* * * *
16715131 TAATTTTGAGCAGA-TGATTCTGAAAAAATAGGGTCA-AAAACGCTTCAAGCAGGATGCACTG
66 TAATTTTGAGAAGATTG-TTCTAAAAAAATAGGGT-AGAAAAAGCTTCAAACAGGATGCACTG
* * * **
16715192 TCAGCAAAAGTACTGAAAAAAGCTCCCACCTCGATGCTCTCTTTCCATAGTAGTTTCTTTAAAAA
1 TCAGCAAAAGTACTGAAAAAAGCTCCCACCTAGACGCTCTCTTTCCAGAGTAGTTTCTGAAAAAA
16715257 TAATTTTGAGAAGATTGTTCTAAAAAAATAGGGTAGAAAAAGCTTCAAACAGGATGCACTG
66 TAATTTTGAGAAGATTGTTCTAAAAAAATAGGGTAGAAAAAGCTTCAAACAGGATGCACTG
* * * *
16715318 TCAACAAAAGTACTGAAAAAAGCTCCCACTTGGACGCTCTTTTTC
1 TCAGCAAAAGTACTGAAAAAAGCTCCCACCTAGACGCTCTCTTTC
16715363 TACAATACAT
Statistics
Matches: 148, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
125 1 0.01
126 145 0.98
127 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (126 bp):
TCAGCAAAAGTACTGAAAAAAGCTCCCACCTAGACGCTCTCTTTCCAGAGTAGTTTCTGAAAAAA
TAATTTTGAGAAGATTGTTCTAAAAAAATAGGGTAGAAAAAGCTTCAAACAGGATGCACTG
Found at i:16715466 original size:25 final size:25
Alignment explanation
Indices: 16715437--16715502 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
16715427 TTACAACAAG
* *
16715437 AGAAATT-AGAGAAGTTTAGAAGAAT
1 AGAAATTGA-AGAAGTTCAGAAAAAT
16715462 AGAAATTGAAGAAGTTCAGAAAAAT
1 AGAAATTGAAGAAGTTCAGAAAAAT
*
16715487 ATAAATTGAAGAAGTT
1 AGAAATTGAAGAAGTT
16715503 GAAAAGGTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 36 0.97
26 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.21, T:0.24
Consensus pattern (25 bp):
AGAAATTGAAGAAGTTCAGAAAAAT
Found at i:16721995 original size:30 final size:30
Alignment explanation
Indices: 16721959--16722019 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
16721949 GATGCATGAG
16721959 TTGTCCAATTAAGTAAGCTACTTTCTTACT
1 TTGTCCAATTAAGTAAGCTACTTTCTTACT
16721989 TTGTCCAATTAAGTAAGCTACTTTCTTACT
1 TTGTCCAATTAAGTAAGCTACTTTCTTACT
16722019 T
1 T
16722020 CAATCCGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.20, G:0.10, T:0.44
Consensus pattern (30 bp):
TTGTCCAATTAAGTAAGCTACTTTCTTACT
Found at i:16728479 original size:21 final size:21
Alignment explanation
Indices: 16728436--16728479 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
16728426 TTTATATATT
* *
16728436 TTTACTATTATTATTTATCTA
1 TTTAATATTATTATTCATCTA
* *
16728457 TTTAATATTATTGTTCATTTA
1 TTTAATATTATTATTCATCTA
16728478 TT
1 TT
16728480 AATGCATGAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTAATATTATTATTCATCTA
Found at i:16733353 original size:1 final size:1
Alignment explanation
Indices: 16733347--16733444 Score: 52
Period size: 1 Copynumber: 98.0 Consensus size: 1
16733337 AAAGAATGTT
* * * * * * * * * *
16733347 AAAAAAAAAACAAACAAACAAACAAAAAAAAGAAGAAAAAGAAAAAGAAAAGAAAAAAAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
16733412 AGAAGAAAAATAAAAGAAAAAGAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
16733445 GGAGAGGCCA
Statistics
Matches: 65, Mismatches: 32, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.84, C:0.04, G:0.11, T:0.01
Consensus pattern (1 bp):
A
Found at i:16733390 original size:6 final size:6
Alignment explanation
Indices: 16733370--16733445 Score: 81
Period size: 6 Copynumber: 13.0 Consensus size: 6
16733360 ACAAACAAAC
16733370 AAAAA- AAAGAAG AAAAAG AAAAAG -AAAAG -AAAA- AAAAAG AAAAGAAG
1 AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AAA-AAG
*
16733417 AAAAA- TAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
16733446 GAGAGGCCAA
Statistics
Matches: 62, Mismatches: 2, Indels: 13
0.81 0.03 0.17
Matches are distributed among these distances:
5 20 0.32
6 30 0.48
7 9 0.15
8 3 0.05
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (6 bp):
AAAAAG
Found at i:16733413 original size:35 final size:35
Alignment explanation
Indices: 16733347--16733444 Score: 112
Period size: 35 Copynumber: 2.8 Consensus size: 35
16733337 AAAGAATGTT
* * *
16733347 AAAAAAAAAACAAACAA-ACAAACAAAAAAAAGAAG
1 AAAAAAAAAAGAAA-AAGAAAAAGAAAAAAAAGAAG
16733382 AAAAAGAAAAAG-AAAAGAAAAA-AAAAGAAAAGAAG
1 AAAAA-AAAAAGAAAAAGAAAAAGAAAA-AAAAGAAG
*
16733417 AAAAATAAAAGAAAAAGAAAAAGAAAAA
1 AAAAAAAAAAGAAAAAGAAAAAGAAAAA
16733445 GGAGAGGCCA
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
34 11 0.20
35 35 0.64
36 9 0.16
ACGTcount: A:0.84, C:0.04, G:0.11, T:0.01
Consensus pattern (35 bp):
AAAAAAAAAAGAAAAAGAAAAAGAAAAAAAAGAAG
Found at i:16733881 original size:97 final size:93
Alignment explanation
Indices: 16733728--16733912 Score: 289
Period size: 97 Copynumber: 1.9 Consensus size: 93
16733718 TTCATTTTTG
16733728 TATCTTAGCAAAATTTGCTATCTTGATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTTCATC
1 TATCTTAGCAAAATTTGCTATCTTGATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTTCATC
*
16733793 TTATCCATTGGGATAATCTTTTTCATCT
66 TTATACATTGGGATAATCTTTTTCATCT
* *
16733821 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTG----ATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTT
* *
16733886 CATCTTGTACATTGTGATAATCTTTTT
62 CATCTTATACATTGGGATAATCTTTTT
16733913 TAAGCATTTT
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
93 25 0.30
97 58 0.70
ACGTcount: A:0.26, C:0.16, G:0.10, T:0.47
Consensus pattern (93 bp):
TATCTTAGCAAAATTTGCTATCTTGATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTTCATC
TTATACATTGGGATAATCTTTTTCATCT
Found at i:16734855 original size:44 final size:44
Alignment explanation
Indices: 16734789--16735407 Score: 333
Period size: 44 Copynumber: 14.2 Consensus size: 44
16734779 AGCCACCAGC
* * * * *
16734789 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTGCAGAT
* * * *
16734833 CTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAGGACGGC-GAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTGCAG-AT
* * * ** *
16734877 CTTATCTTCCTAAG--GTAGTAGGAAGCAGATTTAAGCCACCAG-C
1 CTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACTGCAGAT
* * * * *
16734920 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTGCAGAT
* * * *
16734964 CTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAGGACGGC-GAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTGCAG-AT
* * * ** *
16735008 CTTATCTTCCTAAG--GTAGTAGGAAGCAGATTTAAGGCACCAG-C
1 CTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACTGCAGAT
* * * * *
16735051 CTTATCTCCCTGAGTAGCAGTGGAGTAGATTGAAGATTGCAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTGCAGAT
* ** *
16735095 CTTATCTCCCTAACCAGTAGTGGAGCAGATCAAAGACGGC-GAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTGCAG-AT
* * ** *
16735139 CTTATCTCCCTAAG--GTAGTAGGAAGCAGATTTAAGCCACCAG-C
1 CTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACTGCAGAT
* * * * *
16735182 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTGCAGAT
* * *
16735226 CTTATCTCTCTAAGCAGTAGTGGAACAGATCGAAGACGGTG-A-AT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAC--TGCAGAT
* * **
16735270 CTTATCTTCCTAAG--GTAGTAGGAAGCAGATTTAAG-CCACATG-T
1 CTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACTGCA-GAT
* * ** * * * **
16735313 CCTATC-CCCTTGAGCAACAGTGGAGTAGGTTGAAGATTAAAGAT
1 CTTATCTCCC-TAAGCAGTAGTGGAGCAGATTGAAGACTGCAGAT
* * * *
16735357 CCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGC-GAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTGCAG-AT
16735401 CTTATCT
1 CTTATCT
16735408 TCCCAAGGTA
Statistics
Matches: 420, Mismatches: 120, Indels: 70
0.69 0.20 0.11
Matches are distributed among these distances:
42 23 0.05
43 106 0.25
44 267 0.64
45 22 0.05
46 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.25
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTGCAGAT
Found at i:16734924 original size:87 final size:86
Alignment explanation
Indices: 16734833--16735206 Score: 254
Period size: 87 Copynumber: 4.3 Consensus size: 86
16734823 GATTGCAGAT
* * * *
16734833 CTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAGGACGGCGAATCTTATCTTCCTAAGGTAGTAG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGC-AATCTTATCTCCCTAAGGTAGTAG
*
16734898 GAAGCAGATTTAAGCCACCAGC
65 GAAGCAGATTGAAGCCACCAGC
* * * * ** **
16734920 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGAAGTAGT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCA-ATCTTATCTCCCTAAG--GTAGT
* * ** * **
16734985 -GG-AGCAGATCGAGGACGGCGAAT
63 AGGAAGCAGATTGAAG-CCACCAGC
* ** * ** ** * *
16735008 CTTATCTTCCTAAG--GTAGTAGGAAGCAGATTTAAGGCACCAGCCTTATCTCCCTGA-GTAGCA
1 CTTATCTCCCTAAGCAGTAGT-GG-AGCAGATCAAAGACGGCAATCTTATCTCCCTAAGGTAGTA
* * **** *
16735070 GTGGAGTAGATTGAAGATTGCAGAT
64 G-GAAGCAGATTGAAGCCACCAG-C
*
16735095 CTTATCTCCCTAACCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTCCCTAAGGTAGTAG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGC-AATCTTATCTCCCTAAGGTAGTAG
*
16735160 GAAGCAGATTTAAGCCACCAGC
65 GAAGCAGATTGAAGCCACCAGC
* *
16735182 CTTATCTCCCTGAGCAGCAGTGGAG
1 CTTATCTCCCTAAGCAGTAGTGGAG
16735207 TAGGTTGAAG
Statistics
Matches: 210, Mismatches: 63, Indels: 28
0.70 0.21 0.09
Matches are distributed among these distances:
84 4 0.02
85 1 0.00
86 7 0.03
87 125 0.60
88 57 0.27
89 16 0.08
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.24
Consensus pattern (86 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAATCTTATCTCCCTAAGGTAGTAGG
AAGCAGATTGAAGCCACCAGC
Found at i:16734970 original size:131 final size:131
Alignment explanation
Indices: 16734735--16735491 Score: 1214
Period size: 131 Copynumber: 5.8 Consensus size: 131
16734725 AGAACAGATC
16734735 AGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCACCAGCCTTATCTCCCT
1 AGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCACCAGCCTTATCTCCCT
*
16734800 GAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCG
66 GAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
16734865 A
131 A
*
16734866 GGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCACCAGCCTTATCTCCCT
1 AGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCACCAGCCTTATCTCCCT
*
16734931 GAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCG
66 GAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
16734996 A
131 A
* *
16734997 GGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGGCACCAGCCTTATCTCCCT
1 AGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCACCAGCCTTATCTCCCT
* * * *
16735062 GAGTAGCAGTGGAGTAGATTGAAGATTGCAGATCTTATCTCCCTAACCAGTAGTGGAGCAGATCA
66 GAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
16735127 A
131 A
*
16735128 AGACGGCGAATCTTATCTCCCTAAGGTAGTAGGAAGCAGATTTAAGCCACCAGCCTTATCTCCCT
1 AGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCACCAGCCTTATCTCCCT
* *
16735193 GAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCTCTAAGCAGTAGTGGAACAGATCG
66 GAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
16735258 A
131 A
*
16735259 AGACGGTGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCA-CATGTCC-TATC-CC
1 AGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCACCA-G-CCTTATCTCC
* ** * *
16735321 CTTGAGCAACAGTGGAGTAGGTTGAAGATTAAAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGA
64 C-TGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
16735386 TCGA
128 TCGA
* * * * * *
16735390 AGACAGCGAATCTTATCTTCCCAAGGTAGAAGGGAAGTAGATTTAAGCCACTAGCCTTACCTCCC
1 AGACGGCGAATCTTATCTTCCTAAGGTAGTA-GGAAGCAGATTTAAGCCACCAGCCTTATCTCCC
* * *
16735455 TGAGTAGCAGTGGAGTAGGTCGAAGATTGTAGATCTT
65 TGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTT
16735492 GTCTTCCTGT
Statistics
Matches: 581, Mismatches: 38, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
130 5 0.01
131 518 0.89
132 54 0.09
133 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (131 bp):
AGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCACCAGCCTTATCTCCCT
GAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
A
Found at i:16735515 original size:88 final size:88
Alignment explanation
Indices: 16735423--16735611 Score: 292
Period size: 88 Copynumber: 2.2 Consensus size: 88
16735413 AGGTAGAAGG
* ** * *
16735423 GAAGTAGATTTAAGCCACTAGCCTTACCTCCCTGAGTAGCAGTGGAGTA-GGTCGAAGATTGTAG
1 GAAGTAGATTAAAAACACCAGCCTTACCTCCCTGAGCAGCAGTGGAGTAGGGT-GAAGATTGTAG
16735487 ATCTTGTCTTCCTGTACTGGCAGT
65 ATCTTGTCTTCCTGTACTGGCAGT
*
16735511 GAAGTAGATTAAAAACACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGGTGAAGATTGTAGA
1 GAAGTAGATTAAAAACACCAGCCTTACCTCCCTGAGCAGCAGTGGAGTAGGGTGAAGATTGTAGA
16735576 TCTTGTCTTCCTGTACTGGCAGT
66 TCTTGTCTTCCTGTACTGGCAGT
*
16735599 GAAGCAGA-TAAAA
1 GAAGTAGATTAAAA
16735612 TAAAAAATAA
Statistics
Matches: 93, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
87 5 0.05
88 85 0.91
89 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (88 bp):
GAAGTAGATTAAAAACACCAGCCTTACCTCCCTGAGCAGCAGTGGAGTAGGGTGAAGATTGTAGA
TCTTGTCTTCCTGTACTGGCAGT
Done.