Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 113 of 356
Found at i:35971114 original size:25 final size:25
Alignment explanation
Indices: 35971053--35971124 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 25
35971043 GGAACTATTA
* *
35971053 TTATTATTATTTATTTTAAGTTGTT
1 TTATTATTATTTATTTTAAATCGTT
*
35971078 TTTTTGAAATTATTTATTTTAAATCGTT
1 TTATT---ATTATTTATTTTAAATCGTT
*
35971106 TTATTATTATGTATTTTAA
1 TTATTATTATTTATTTTAA
35971125 GTTTTACATA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 17 0.44
28 22 0.56
ACGTcount: A:0.28, C:0.01, G:0.07, T:0.64
Consensus pattern (25 bp):
TTATTATTATTTATTTTAAATCGTT
Found at i:35971201 original size:26 final size:26
Alignment explanation
Indices: 35971143--35971399 Score: 164
Period size: 26 Copynumber: 9.8 Consensus size: 26
35971133 TATTTTAAAC
* * *
35971143 TATTATTCATTTTAAA-TTTTATACA
1 TATTATTTATTTTAAACTATTATATA
35971168 TATTATTTATTTTAAACTATTATATA
1 TATTATTTATTTTAAACTATTATATA
* ** *
35971194 TATCATTTATTTTGAAGGTTTTTTATATA
1 TATTATTTATTTT-AA--ACTATTATATA
*
35971223 TATTTTTTATTTTAAACTATTATATA
1 TATTATTTATTTTAAACTATTATATA
* * * *
35971249 TATTATCTATTTTAAAATTTTTTATA
1 TATTATTTATTTTAAACTATTATATA
* * * * *
35971275 TGTTAGTTA-GTTATACTATTTTATA
1 TATTATTTATTTTAAACTATTATATA
* * * * *
35971300 TGTTAATCATTTTAAATTCCTTAT-TA
1 TATTATTTATTTTAAACT-ATTATATA
*
35971326 TTATTATTTATTTTGAACT-TTCA-ATA
1 -TATTATTTATTTTAAACTATT-ATATA
* * *
35971352 TATTATTCATTTTAAAATATTTTTATA
1 TATTATTTATTTTAAACTA-TTATATA
* *
35971379 TACTCTTTATTTTAAACTATT
1 TATTATTTATTTTAAACTATT
35971400 TTATTCAAAA
Statistics
Matches: 176, Mismatches: 44, Indels: 23
0.72 0.18 0.09
Matches are distributed among these distances:
25 51 0.29
26 66 0.38
27 38 0.22
28 2 0.01
29 19 0.11
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (26 bp):
TATTATTTATTTTAAACTATTATATA
Found at i:35976486 original size:19 final size:19
Alignment explanation
Indices: 35976464--35976502 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
35976454 TTGAATTTAT
* *
35976464 TCATCTGCATTACATTTCA
1 TCATATGCATTAAATTTCA
35976483 TCATATGCATTAAATTTCA
1 TCATATGCATTAAATTTCA
35976502 T
1 T
35976503 AAAAAGATCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.44
Consensus pattern (19 bp):
TCATATGCATTAAATTTCA
Found at i:35980982 original size:12 final size:12
Alignment explanation
Indices: 35980965--35980994 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
35980955 ATGGAAAAAG
35980965 CCACATTCGTAA
1 CCACATTCGTAA
35980977 CCACATTCGTAA
1 CCACATTCGTAA
35980989 CCACAT
1 CCACAT
35980995 GGAGAACGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.37, G:0.07, T:0.23
Consensus pattern (12 bp):
CCACATTCGTAA
Found at i:35985142 original size:46 final size:45
Alignment explanation
Indices: 35985089--35985261 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 45
35985079 TGGTTGAGCA
*
35985089 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATAC-AACG
* * * * *
35985135 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATAC-A-ACG
* * *
35985182 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATAC-AACG
* *
35985228 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
35985262 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 69 0.66
47 34 0.32
48 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAACG
Found at i:35985245 original size:93 final size:93
Alignment explanation
Indices: 35985086--35985256 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
35985076 GGATGGTTGA
***
35985086 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACACCCGAACTCGTTGAGT
35985151 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
35985179 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACACCCGAACTCGTTGAGT
35985244 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
35985257 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35986910 original size:36 final size:36
Alignment explanation
Indices: 35986870--35986944 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
35986860 GGTGATGGCT
*
35986870 ATGTTTGGTTGAGAAAATGTTTGATATTGATAAGTC
1 ATGTTTGATTGAGAAAATGTTTGATATTGATAAGTC
35986906 ATGTTTGATTGAGAAAATGTTTGATATTGATAAGTC
1 ATGTTTGATTGAGAAAATGTTTGATATTGATAAGTC
35986942 ATG
1 ATG
35986945 GTGATGGCTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.41
Consensus pattern (36 bp):
ATGTTTGATTGAGAAAATGTTTGATATTGATAAGTC
Found at i:35986911 original size:20 final size:20
Alignment explanation
Indices: 35986886--35986944 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 20
35986876 GGTTGAGAAA
35986886 ATGTTTGATATTGATAAGTC
1 ATGTTTGATATTGATAAGTC
* *
35986906 ATGTTTG--ATTGAGAA--A
1 ATGTTTGATATTGATAAGTC
35986922 ATGTTTGATATTGATAAGTC
1 ATGTTTGATATTGATAAGTC
35986942 ATG
1 ATG
35986945 GTGATGGCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
16 7 0.23
18 14 0.45
20 10 0.32
ACGTcount: A:0.32, C:0.03, G:0.22, T:0.42
Consensus pattern (20 bp):
ATGTTTGATATTGATAAGTC
Found at i:35986927 original size:16 final size:16
Alignment explanation
Indices: 35986870--35986930 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
35986860 GGTGATGGCT
*
35986870 ATGTTTGGTTGAGAAA
1 ATGTTTGATTGAGAAA
* *
35986886 ATGTTTGATATTGATAAGTC
1 ATGTTTG--ATTGAGAA--A
35986906 ATGTTTGATTGAGAAA
1 ATGTTTGATTGAGAAA
35986922 ATGTTTGAT
1 ATGTTTGAT
35986931 ATTGATAAGT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
16 16 0.44
18 13 0.36
20 7 0.19
ACGTcount: A:0.31, C:0.02, G:0.25, T:0.43
Consensus pattern (16 bp):
ATGTTTGATTGAGAAA
Found at i:35988655 original size:44 final size:44
Alignment explanation
Indices: 35988607--35988850 Score: 224
Period size: 44 Copynumber: 5.5 Consensus size: 44
35988597 CACGAATCTC
* * * * *
35988607 ATCTCCCTAAAGTTGAAGTGGAACAGGTTGAAGTTATAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATAAGTCTT
* * * *
35988651 ATCTCCCTGAAGTCGCAGTGGAGCAGACTGAAGATAGCGAA-TCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA--TAAGTCTT
* * * **
35988696 ATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGACACAAACCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATAAGTCTT
* * * *
35988740 ATCTCCTTAAAGTTGCAGTGGAGCAGGTTGAAGTTATAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATAAGTCTT
* * * *
35988784 ATCTCCCTGAAGTTGCAGTAGAGCAGATAGAA-ACCACT-AGTCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TA-TAAGTCTT
*
35988828 ATCTCGCTGAAGTTGCAGTGGAG
1 ATCTCCCTGAAGTTGCAGTGGAG
35988851 TAGGCTGAAG
Statistics
Matches: 160, Mismatches: 35, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
43 2 0.01
44 120 0.75
45 36 0.22
46 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATAAGTCTT
Found at i:35988727 original size:89 final size:89
Alignment explanation
Indices: 35988599--35988884 Score: 274
Period size: 89 Copynumber: 3.2 Consensus size: 89
35988589 ATTAAAGCCA
* * * * **
35988599 CGAATCTCATCTCCCTAAAGTTGAAGTGGAACAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGT
1 CGAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACATAAGTCTTATCTCCCTGAAGT
* *
35988664 CGCAGTGGAGCAGACTGAAGATAG
66 TGCAGTGGAGCAGGCTGAAGATAG
* * ** * *
35988688 CGAATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGACACAAACCTTATCTCCTTAAAGT
1 CGAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACATAAGTCTTATCTCCCTGAAGT
* *
35988753 TGCAGTGGAGCAGGTTGAAGTTA-
66 TGCAGTGGAGCAGGCTGAAGATAG
* * * * * *
35988776 -TAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATAGAA-ACCACT-AGTCTCATCTCGCTGA
1 CGAA-TCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-CA-TAAGTCTTATCTCCCTGA
* *
35988838 AGTTGCAGTGGAGTAGGCTGAAGCTAG
63 AGTTGCAGTGGAGCAGGCTGAAGATAG
* * *
35988865 CAAATCTTATCTTCCTGAAG
1 CGAATCTCATCTCCCTGAAG
35988885 NNNNNNNNNN
Statistics
Matches: 159, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
87 3 0.02
88 67 0.42
89 87 0.55
90 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (89 bp):
CGAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACATAAGTCTTATCTCCCTGAAGT
TGCAGTGGAGCAGGCTGAAGATAG
Found at i:35988767 original size:133 final size:132
Alignment explanation
Indices: 35988556--35988853 Score: 375
Period size: 133 Copynumber: 2.2 Consensus size: 132
35988546 TCACCATGGT
* *** * * * * *
35988556 GAATCTTATCTCCCTGAAGTTGCAACAGAGCAAATTAAAGCCACGAATCTCATCTCCCTAAAGTT
1 GAATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGACACAAACCTCATCTCCCTAAAGTT
*
35988621 GAAGTGGAACAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTCGCAGTGGAGCAGACT-GAAGA
66 GAAGTGGAACAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTCGCAGTAGAGCAGA-TAGAA-A
*
35988685 -TAGC
129 CCA-C
* * *
35988689 GAATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGACACAAACCTTATCTCCTTAAAGTT
1 GAATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGACACAAACCTCATCTCCCTAAAGTT
* * *
35988754 GCAGTGGAGCAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATAGAAACC
66 GAAGTGGAACAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTCGCAGTAGAGCAGATAGAAACC
35988819 AC
131 AC
* * *
35988821 TAGTCTCATCTCGCTGAAGTTGCAGTGGAGTAG
1 GAATCTCATCTCCCTGAAGTTGCAGTGGAGTAG
35988854 GCTGAAGCTA
Statistics
Matches: 143, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
132 33 0.23
133 110 0.77
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (132 bp):
GAATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGACACAAACCTCATCTCCCTAAAGTT
GAAGTGGAACAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTCGCAGTAGAGCAGATAGAAACC
AC
Found at i:35988841 original size:88 final size:87
Alignment explanation
Indices: 35988644--35988884 Score: 252
Period size: 88 Copynumber: 2.7 Consensus size: 87
35988634 TTGAAGTTAT
* * *
35988644 AAGTCTTATCTCCCTGAAGTCGCAGTGGAGCAGACTGAAGATAGCGAATCTCATCTCCCTGAAGT
1 AAGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGGCTGAAGATAGC-AATCTTATCTCCCTGAAGT
* * *
35988709 TGCAGTGGAGTAGATTGAAGACAC
64 TGCAGTAGAGCAGATAGAAGACAC
** * * * *
35988733 AAACCTTATCTCCTTAAAGTTGCAGTGGAGCAGGTTGAAGTTA-TAAGTCTTATCTCCCTGAAGT
1 AAGTCTTATCTCC-TGAAGTTGCAGTGGAGCAGGCTGAAGATAGCAA-TCTTATCTCCCTGAAGT
35988797 TGCAGTAGAGCAGATAGAA-ACCAC
64 TGCAGTAGAGCAGATAGAAGA-CAC
* * * * *
35988821 TAGTCTCATCTCGCTGAAGTTGCAGTGGAGTAGGCTGAAGCTAGCAAATCTTATCTTCCTGAAG
1 AAGTCTTATCTC-CTGAAGTTGCAGTGGAGCAGGCTGAAGATAGC-AATCTTATCTCCCTGAAG
35988885 NNNNNNNNNN
Statistics
Matches: 124, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
87 3 0.02
88 70 0.56
89 49 0.40
90 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (87 bp):
AAGTCTTATCTCCTGAAGTTGCAGTGGAGCAGGCTGAAGATAGCAATCTTATCTCCCTGAAGTTG
CAGTAGAGCAGATAGAAGACAC
Found at i:36002516 original size:27 final size:27
Alignment explanation
Indices: 36002247--36002542 Score: 249
Period size: 27 Copynumber: 11.0 Consensus size: 27
36002237 ATACCCCCAG
* * **
36002247 TTTGTAAAATTATCGAAGTACCC-CCA
1 TTTGTAAAATTACCGAAATACCCTTGA
* * *
36002273 GTTTGTAAAATTACCGGAGTACCCCT-A
1 -TTTGTAAAATTACCGAAATACCCTTGA
* * **
36002300 GTTTGTAAAATTACCAAAATATCCTCAA
1 -TTTGTAAAATTACCGAAATACCCTTGA
* * * **
36002328 TTTTTAAAATTACCAAAACACCCTCAA
1 TTTGTAAAATTACCGAAATACCCTTGA
* *
36002355 TTTGTAAAATTATCGAAATACCCTCGA
1 TTTGTAAAATTACCGAAATACCCTTGA
36002382 TTTGTAAAATTACCGAAATACCCTTGA
1 TTTGTAAAATTACCGAAATACCCTTGA
* *
36002409 CTTGTAAAATTACCGAAATACCCTCGA
1 TTTGTAAAATTACCGAAATACCCTTGA
* * **
36002436 TTTGTAAAATTACTGAAACACCCCCGA
1 TTTGTAAAATTACCGAAATACCCTTGA
**
36002463 TTTGTAAAATTATTGAAATACCCTTG-
1 TTTGTAAAATTACCGAAATACCCTTGA
* *
36002489 TAGTGTAAAATTACCGAAATACCATTG-
1 T-TTGTAAAATTACCGAAATACCCTTGA
* * *
36002516 TAGTGTAAAATGACCGACATACCCTTG
1 T-TTGTAAAATTACCGAAATACCCTTG
36002543 TAGGGTAAAA
Statistics
Matches: 230, Mismatches: 36, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.00
27 228 0.99
28 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (27 bp):
TTTGTAAAATTACCGAAATACCCTTGA
Found at i:36004534 original size:132 final size:132
Alignment explanation
Indices: 36004295--36004565 Score: 447
Period size: 132 Copynumber: 2.1 Consensus size: 132
36004285 TAGCATAACC
*
36004295 TCAACAATTCCAACTCTAGTGTCATATTATACTTACTCGTGCATTATGTTCTAGTTCTTTTACAT
1 TCAACAATTCCAACTCTAGTGTCATATTATACTTACTCGTGCATTATGTTCTAGTTCATTTACAT
*
36004360 GGTAAACATATTGACTTTTAAGCATATATAACAAAACACATGTAATTACATAATGTTC-ATGCAT
66 GGTAAACATATTGACTTTTAAGCATATATAACAAAACACATGTAATTACATAACG-TCAATGCAT
36004424 ACA
130 ACA
* *
36004427 TCAACAGTTCCAACTCTAGTGTCATATTATACTTACTCGTGCATTATTTTCTAGTTCATTTACAT
1 TCAACAATTCCAACTCTAGTGTCATATTATACTTACTCGTGCATTATGTTCTAGTTCATTTACAT
* * *
36004492 TGTAAATATATTGACTTTTAAGCATATATAACAAAACTCATGTAATTACATAACGTCAATGCATA
66 GGTAAACATATTGACTTTTAAGCATATATAACAAAACACATGTAATTACATAACGTCAATGCATA
*
36004557 TA
131 CA
36004559 TC-ACAAT
1 TCAACAAT
36004566 ACTCAAAAAC
Statistics
Matches: 129, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
131 6 0.05
132 123 0.95
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (132 bp):
TCAACAATTCCAACTCTAGTGTCATATTATACTTACTCGTGCATTATGTTCTAGTTCATTTACAT
GGTAAACATATTGACTTTTAAGCATATATAACAAAACACATGTAATTACATAACGTCAATGCATA
CA
Found at i:36006301 original size:25 final size:25
Alignment explanation
Indices: 36006223--36006301 Score: 115
Period size: 25 Copynumber: 3.2 Consensus size: 25
36006213 TCATTAGGGT
36006223 TACCTATTTATAGCTCGTAAGAGCA
1 TACCTATTTATAGCTCGTAAGAGCA
*
36006248 TA-CTGATTTATAGCTCGTAAAAGCA
1 TACCT-ATTTATAGCTCGTAAGAGCA
**
36006273 TACCTATTTATAGCTCGCGAGAGCA
1 TACCTATTTATAGCTCGTAAGAGCA
36006298 TACC
1 TACC
36006302 GATCTTCATC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
24 2 0.04
25 44 0.92
26 2 0.04
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (25 bp):
TACCTATTTATAGCTCGTAAGAGCA
Found at i:36006336 original size:25 final size:25
Alignment explanation
Indices: 36006293--36006350 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
36006283 TAGCTCGCGA
*
36006293 GAGCATACCGATCTTCATCTCGA-AT
1 GAGCATACCGATCTACATCTC-ATAT
36006318 GAGCATACCGAT-TCACATCTCATAT
1 GAGCATACCGATCT-ACATCTCATAT
36006343 GAGCATAC
1 GAGCATAC
36006351 ATGTACACAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 2 0.07
25 28 0.93
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (25 bp):
GAGCATACCGATCTACATCTCATAT
Found at i:36008041 original size:52 final size:49
Alignment explanation
Indices: 36007930--36008105 Score: 198
Period size: 52 Copynumber: 3.5 Consensus size: 49
36007920 ACTAGTGACT
*
36007930 CAAGTGTGGTACTATGTGAAGGCCACTTTG--AGAAGT-GATATTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTAAGAAGTAGCT-TTGGTCA
* *
36007977 GAAGTGTGGTACTATGTGGAGGCCACTTTGTAAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGT-AAG-AAG-TAGCTTTGGTCA
* *
36008029 CATGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTTGAAT-A
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGT-AAGAA-GTAGCTTTG-GTCA
* *
36008080 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
36008106 CAGGTATCAG
Statistics
Matches: 110, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
47 28 0.25
50 2 0.02
51 37 0.34
52 41 0.37
53 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.28
Consensus pattern (49 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTAAGAAGTAGCTTTGGTCA
Found at i:36013639 original size:12 final size:12
Alignment explanation
Indices: 36013622--36013654 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
36013612 TTAGGCAGTT
36013622 ACACGGCCTAGC
1 ACACGGCCTAGC
36013634 ACACGGCCTAGC
1 ACACGGCCTAGC
36013646 ACACGGCCT
1 ACACGGCCT
36013655 GTAACACGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.42, G:0.24, T:0.09
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:36023933 original size:34 final size:34
Alignment explanation
Indices: 36023862--36023938 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
36023852 ATATGTCTAA
* * *
36023862 TTGAACGTTGTGCAAATGATGAGTTATCTCATGG
1 TTGAATGTTGTGCAAATAATGAGTTATCTCATAG
36023896 TTGAATGTTGTGCAAATAATGAGTTAT-T-ATACAG
1 TTGAATGTTGTGCAAATAATGAGTTATCTCAT--AG
36023930 TTGAATGTT
1 TTGAATGTT
36023939 CATGTATTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 2 0.05
33 1 0.03
34 35 0.92
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (34 bp):
TTGAATGTTGTGCAAATAATGAGTTATCTCATAG
Found at i:36027528 original size:12 final size:14
Alignment explanation
Indices: 36027513--36027544 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
36027503 GTGAGAACAC
36027513 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
36027525 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
36027539 ATGTGT
1 ATGTGT
36027545 TTAAAATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:36027639 original size:50 final size:51
Alignment explanation
Indices: 36027510--36027729 Score: 199
Period size: 51 Copynumber: 4.3 Consensus size: 51
36027500 GTTGTGAGAA
* * *** * *
36027510 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAAATGGTCTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG-CTTAGGT
* * *
36027562 CACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGAT-GGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTAGGT
* * * ** * * *
36027612 CGCATGTGTAGTACAAAGTACAGGCTACTATGCATACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTAGGT
* * ** *
36027663 CACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTAGGT
* *
36027714 CACAAGTGTGGTACTA
1 CACATGTGTAGTACTA
36027730 TGTGAAGGAA
Statistics
Matches: 134, Mismatches: 33, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
50 40 0.30
51 60 0.45
52 34 0.25
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTAGGT
Found at i:36027687 original size:51 final size:50
Alignment explanation
Indices: 36027510--36027694 Score: 145
Period size: 50 Copynumber: 3.6 Consensus size: 50
36027500 GTTGTGAGAA
* * ** *** * *
36027510 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAAATGGTCTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGAT-G-CTTAGAT
* * ** * *
36027562 CACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATGCTTAGAT
* * * * *
36027612 CGCATGTGTAGTACAAAGTACAGGCTACTATGCATACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGAT-GCTTAGAT
* *
36027663 CACATGTGTGGTACTAAGTGCAGGCCACTATG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATG
36027695 TGTAAAAGAT
Statistics
Matches: 107, Mismatches: 25, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
50 40 0.37
51 33 0.31
52 34 0.32
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATGCTTAGAT
Found at i:36027759 original size:51 final size:51
Alignment explanation
Indices: 36027651--36027784 Score: 137
Period size: 51 Copynumber: 2.6 Consensus size: 51
36027641 ATGCATACCC
* * * * * **
36027651 GATAGCTTCGATCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAA
1 GATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGAAACTATGTGTAAAA
*
36027702 GATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGAAACTTTGTG-AAGAA
1 GATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGAAACTATGTGTAA-AA
* * *
36027753 GGTAGCTTT-GACTACAAGGGTGGTACTATGTG
1 GATAGCTTTGGTC-ACAAGTGTGGTACTATGTG
36027785 CAGGCCACCG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
50 4 0.06
51 66 0.94
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.29
Consensus pattern (51 bp):
GATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGAAACTATGTGTAAAA
Found at i:36033661 original size:38 final size:38
Alignment explanation
Indices: 36033605--36033764 Score: 261
Period size: 38 Copynumber: 4.3 Consensus size: 38
36033595 AGGCCTGGAT
*
36033605 ATAT-TTCCAGCACATAGCCTGCGGACCTCAAGTCCGG
1 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
* *
36033642 ATATGTTCCAGCATGTAGCCTGCGGACCTCAAGTCTGG
1 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
**
36033680 ATATGTTCCAGCAC-TAGCCTATGGACCTCAAGTCCGG
1 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
36033717 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
1 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
36033755 ATATGTTCCA
1 ATATGTTCCA
36033765 AATACCATGC
Statistics
Matches: 112, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
37 38 0.34
38 74 0.66
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.24
Consensus pattern (38 bp):
ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
Found at i:36033706 original size:75 final size:76
Alignment explanation
Indices: 36033599--36033764 Score: 271
Period size: 75 Copynumber: 2.2 Consensus size: 76
36033589 GACTTTAGGC
* * *
36033599 CTGGATATATTTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATGTTCCAGCATGTAGCCTG
1 CTGGATAT-GTTCCAGCACATAGCCTACGGACCTCAAGTCCGGATATGTTCCAGCACGTAGCCTG
36033664 CGGACCTCAAGT
65 CGGACCTCAAGT
*
36033676 CTGGATATGTTCCAGCAC-TAGCCTATGGACCTCAAGTCCGGATATGTTCCAGCACGTAGCCTGC
1 CTGGATATGTTCCAGCACATAGCCTACGGACCTCAAGTCCGGATATGTTCCAGCACGTAGCCTGC
36033740 GGACCTCAAGT
66 GGACCTCAAGT
*
36033751 CCGGATATGTTCCA
1 CTGGATATGTTCCA
36033765 AATACCATGC
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
75 67 0.80
76 9 0.11
77 8 0.10
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (76 bp):
CTGGATATGTTCCAGCACATAGCCTACGGACCTCAAGTCCGGATATGTTCCAGCACGTAGCCTGC
GGACCTCAAGT
Found at i:36037022 original size:51 final size:51
Alignment explanation
Indices: 36036826--36037045 Score: 183
Period size: 51 Copynumber: 4.3 Consensus size: 51
36036816 GTTGTGAGAA
* * * * *
36036826 CACATGTGTAGTACTATGTGCAAGCTACTATGTGTGTAAA-ATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGT-AAAAGATAG-CTTAGGT
* * * ** * *
36036878 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAG-TTGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAAAAGATAGCTTAGGT
* * ** *** * *
36036928 CGCATGTGTAGTACAAAGTGCAGGCTACTATGCATACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAAAAGATAGCTTAGGT
* *
36036979 CACATGTGTGGTACTAAGTGCAGGCTACTATGTGTAAAAGATAGCTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAAAAGATAGCTTAGGT
* *
36037030 CACAAGTGTGGTACTA
1 CACATGTGTAGTACTA
36037046 TATGAAGGAC
Statistics
Matches: 133, Mismatches: 33, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
50 38 0.29
51 65 0.49
52 30 0.23
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAAAAGATAGCTTAGGT
Found at i:36046009 original size:40 final size:39
Alignment explanation
Indices: 36045961--36046143 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 39
36045951 ACTACTCGTT
*
36045961 CAAATGCCTTCAGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGTTATAGTAACTCGCA
* * *
36046001 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTGACTCGTA
1 CAAATGCCTTC-GGACTTAGCCCGG-TTATAGTAACTCGCA
* * * *
36046041 CCAATGCCTTCGGGCTTAGCCCGG-AATTAGTAACTCACA
1 CAAATGCCTTCGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * *
36046080 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
*
36046121 CAAA-GCCTTTGGGACTTAGCCCG
1 CAAATGCC-TTCGGACTTAGCCCG
36046144 AACATCATTC
Statistics
Matches: 115, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
39 32 0.28
40 68 0.59
41 15 0.13
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:36046105 original size:79 final size:80
Alignment explanation
Indices: 36045954--36046111 Score: 196
Period size: 79 Copynumber: 2.0 Consensus size: 80
36045944 GGATACAACT
* * *
36045954 ACTCGTTCAAATGCCTTCAGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTCGTACAAATGCCTTCAGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTT
*
36046019 AACCCGGATTTAGTG
66 AACCCGGATATAGTG
* * *
36046034 ACTCGTACCAATGCCTTC-GGGCTTAGCCCGGA-ATTAGTAACTCACACAAATGCCTTC-GGATC
1 ACTCGTACAAATGCCTTCAGGACATAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGA-C
**
36046096 TTAGTCCGGATATAGT
64 TTAACCCGGATATAGT
36046112 CACTTAGCAC
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
78 4 0.06
79 47 0.70
80 16 0.24
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (80 bp):
ACTCGTACAAATGCCTTCAGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTT
AACCCGGATATAGTG
Found at i:36046129 original size:79 final size:79
Alignment explanation
Indices: 36045961--36046143 Score: 194
Period size: 79 Copynumber: 2.3 Consensus size: 79
36045951 ACTACTCGTT
* * * *
36045961 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTCGGGACTTAACCCG
* *
36046025 GATTTAGTGACTCGTAC
64 GATATAGTCACTC-TAC
* **
36046042 CAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCACACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGG
36046105 ATATAGTCACT-TAGC
65 ATATAGTCACTCTA-C
*
36046120 ACAAAGCCTTTGGGACTTAGCCCG
1 -CAAAGCCTTCGGGACTTAGCCCG
36046144 AACATCATTC
Statistics
Matches: 86, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
77 2 0.02
78 4 0.05
79 59 0.69
80 18 0.21
81 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGA
TATAGTCACTCTAC
Found at i:36054145 original size:27 final size:27
Alignment explanation
Indices: 36054128--36054334 Score: 207
Period size: 27 Copynumber: 7.6 Consensus size: 27
36054118 ATATTAAGTC
36054128 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
36054155 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
36054183 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
36054210 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
36054238 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
36054265 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
36054293 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
36054320 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
36054335 GCACAATTTA
Statistics
Matches: 171, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
27 92 0.54
28 79 0.46
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:36054212 original size:55 final size:55
Alignment explanation
Indices: 36054128--36054334 Score: 360
Period size: 55 Copynumber: 3.8 Consensus size: 55
36054118 ATATTAAGTC
* * * *
36054128 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
36054183 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
36054238 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
36054293 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
36054335 GCACAATTTA
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 147 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:36061313 original size:27 final size:27
Alignment explanation
Indices: 36061296--36061474 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
36061286 ATATTAAGTC
36061296 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
36061323 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
36061351 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * * *
36061378 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
36061405 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
36061433 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
36061460 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
36061475 GCACAATTTA
Statistics
Matches: 144, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
27 92 0.64
28 52 0.36
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:36061380 original size:55 final size:54
Alignment explanation
Indices: 36061296--36061474 Score: 295
Period size: 55 Copynumber: 3.3 Consensus size: 54
36061286 ATATTAAGTC
* * * * *
36061296 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AATT
36061351 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAATT
36061405 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAATT
36061460 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36061475 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
54 26 0.22
55 92 0.78
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAATT
Found at i:36061433 original size:82 final size:82
Alignment explanation
Indices: 36061296--36061474 Score: 304
Period size: 82 Copynumber: 2.2 Consensus size: 82
36061286 ATATTAAGTC
* *
36061296 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
36061361 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
* * *
36061378 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
*
36061443 GTGCTACATAGTCAATT
66 GTGCTACATAGTCAACT
36061460 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36061475 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 91 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:36063782 original size:79 final size:81
Alignment explanation
Indices: 36063639--36063821 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
36063629 TACTCGTTCA
* * *
36063639 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGA
1 AATGCCTTCGAGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGA
* * *
36063703 TTTAGTGAC-TCGCACC
66 TATAGTCACTTAGCA-C
*
36063719 AATGCCTTCGAG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTT-AGTCCG
1 AATGCCTTCGAGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACT-CG
36063780 GATATAGTCACTTAGCAC
64 GATATAGTCACTTAGCAC
*
36063798 AAAGCCTTC-AGGACTTAGCCCGGA
1 AATGCCTTCGA-GACTTAGCCCGGA
36063822 CATCATTCGA
Statistics
Matches: 89, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
78 6 0.07
79 56 0.63
80 27 0.30
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGAGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGA
TATAGTCACTTAGCAC
Found at i:36063821 original size:40 final size:39
Alignment explanation
Indices: 36063637--36063821 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 39
36063627 TCTACTCGTT
* *
36063637 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATAGTAACTCGCA
* * * *
36063677 CAAATGCCTTCGGGACTTAACTCGGATTTAGTGACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATAGTAACTCGCA
*
36063717 CCAATGCCTTC-GAGCTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATA-TAGTAACTCGCA
* * *
36063756 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATATAGTAAC-TCGCA
36063797 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
36063822 CATCATTCGA
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 78 0.64
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:36066456 original size:21 final size:22
Alignment explanation
Indices: 36066426--36066466 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
36066416 GCTCCGAATA
36066426 AATTGAAAGAATTGA-AAGCTC
1 AATTGAAAGAATTGATAAGCTC
* *
36066447 AATTGCAAGAGTTGATAAGC
1 AATTGAAAGAATTGATAAGC
36066467 AAGGGTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (22 bp):
AATTGAAAGAATTGATAAGCTC
Found at i:36069329 original size:24 final size:24
Alignment explanation
Indices: 36069302--36069348 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
36069292 TTTGAAAATT
36069302 TCGCTCAAAAATTTTGTCTTTTAA
1 TCGCTCAAAAATTTTGTCTTTTAA
36069326 TCGCTCAAAAATTTTGTCTTTTA
1 TCGCTCAAAAATTTTGTCTTTTA
36069349 GGCACTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.47
Consensus pattern (24 bp):
TCGCTCAAAAATTTTGTCTTTTAA
Found at i:36069356 original size:24 final size:24
Alignment explanation
Indices: 36069305--36069358 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
36069295 GAAAATTTCG
* *
36069305 CTCAAAAATTTTGTCTTTTAATCG
1 CTCAAAAATTTTGTCTTTTAAGCA
*
36069329 CTCAAAAATTTTGTCTTTTAGGCA
1 CTCAAAAATTTTGTCTTTTAAGCA
36069353 CTCAAA
1 CTCAAA
36069359 TTAGAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (24 bp):
CTCAAAAATTTTGTCTTTTAAGCA
Found at i:36070090 original size:30 final size:30
Alignment explanation
Indices: 36070052--36070115 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
36070042 TCAAAAATGT
36070052 AATT-TTGTCATAATATGATTTTTGGACTG
1 AATTATTGTCATAATATGATTTTTGGACTG
*
36070081 AATTATTGTCATAATATGATTTTTGGACTT
1 AATTATTGTCATAATATGATTTTTGGACTG
36070111 AATTA
1 AATTA
36070116 AACAATGTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.12
30 29 0.88
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.48
Consensus pattern (30 bp):
AATTATTGTCATAATATGATTTTTGGACTG
Found at i:36075635 original size:21 final size:22
Alignment explanation
Indices: 36075609--36075653 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
36075599 CTTCTCAAGG
* *
36075609 TTTGGATCGA-AGGCTTGGATC
1 TTTGGAGCGACAGACTTGGATC
36075630 TTTGGAGCGATCAGACTTGGATC
1 TTTGGAGCGA-CAGACTTGGATC
36075653 T
1 T
36075654 AGCCATCGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
23 11 0.55
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (22 bp):
TTTGGAGCGACAGACTTGGATC
Found at i:36076170 original size:28 final size:28
Alignment explanation
Indices: 36076138--36076202 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
36076128 ATTTACTAGA
*
36076138 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
36076166 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
36076194 ATACCCCTA
1 ATACCCCTA
36076203 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:36076350 original size:28 final size:29
Alignment explanation
Indices: 36076308--36076370 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
36076298 AGGAAGCGTC
*
36076308 CTGGTGGCTACGCCACAAATTATCTGT-T
1 CTGGTGGCTACGCCACAAAATATCTGTAT
36076336 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTAC-GCCACAAAATATCTGTAT
36076365 CTGGTG
1 CTGGTG
36076371 ACTCTGTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 2 0.06
28 23 0.72
29 7 0.22
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (29 bp):
CTGGTGGCTACGCCACAAAATATCTGTAT
Found at i:36076381 original size:29 final size:28
Alignment explanation
Indices: 36076319--36076381 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
36076309 TGGTGGCTAC
* *
36076319 GCCACAAATTATCTGTTCTGGTGGCACT
1 GCCACAAAATATCTGTTCTGGTGACACT
*
36076347 GCCACAAAATATCTGTATCTGGTGACTCT
1 GCCACAAAATATCTGT-TCTGGTGACACT
*
36076376 GTCACA
1 GCCACA
36076382 TTTTCTGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (28 bp):
GCCACAAAATATCTGTTCTGGTGACACT
Found at i:36076857 original size:19 final size:19
Alignment explanation
Indices: 36076833--36076871 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
36076823 TTTTAATTAT
* *
36076833 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
36076852 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
36076871 T
1 T
36076872 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:36083983 original size:28 final size:28
Alignment explanation
Indices: 36083951--36084015 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
36083941 ATTTACTAGA
*
36083951 ATACCCCTATGTATGAAAAATTACCATT
1 ATACCCCTATGTATGAAAAATGACCATT
** *
36083979 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGAAAAATGACCATT
36084007 ATACCCCTA
1 ATACCCCTA
36084016 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGAAAAATGACCATT
Found at i:36084162 original size:28 final size:29
Alignment explanation
Indices: 36084121--36084183 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
36084111 AGGAAGCGTC
* *
36084121 CTGGTGGCTATGCCCCAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTAT
36084149 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGTAT
36084178 CTGGTG
1 CTGGTG
36084184 ACTCTGTCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 1 0.03
28 23 0.74
29 7 0.23
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTGTAT
Found at i:36084194 original size:29 final size:28
Alignment explanation
Indices: 36084131--36084194 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
36084121 CTGGTGGCTA
* * *
36084131 TGCCCCAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
36084159 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
36084188 TGTCACA
1 TGCCACA
36084195 TTTTCTGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:36084671 original size:19 final size:19
Alignment explanation
Indices: 36084647--36084685 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
36084637 TTTTAATTAT
* *
36084647 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
36084666 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
36084685 T
1 T
36084686 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:36095978 original size:40 final size:40
Alignment explanation
Indices: 36095923--36096126 Score: 313
Period size: 40 Copynumber: 5.1 Consensus size: 40
36095913 TGGATGATAA
* * *
36095923 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
36095963 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
36096003 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
36096043 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
36096083 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
36096123 CCGG
1 CCGG
36096127 TTAAATCCTG
Statistics
Matches: 155, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
39 3 0.02
40 152 0.98
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:36114589 original size:40 final size:40
Alignment explanation
Indices: 36114492--36114716 Score: 222
Period size: 40 Copynumber: 5.7 Consensus size: 40
36114482 TTGAATGCTG
* * * *
36114492 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
36114532 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * *
36114572 TCCGGGTTAAGTCCCGAAAGCATTCGTCCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * **
36114612 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
36114652 TCCGGGTTACGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
36114691 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36114717 AACGAGGAGC
Statistics
Matches: 156, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
39 33 0.21
40 115 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36114734 original size:79 final size:80
Alignment explanation
Indices: 36114567--36114749 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
36114557 GTGCGAGATA
* * * *
36114567 CTAAATCCGGGTTAAGTCCCGAAAGCATTCGTCCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTCCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
36114632 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * ** *
36114647 TTAAATCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTCCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
36114711 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
36114726 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
36114750 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.53
80 26 0.31
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTCCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:36122452 original size:40 final size:40
Alignment explanation
Indices: 36122422--36122591 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
36122412 GGACTAAGAT
* *
36122422 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
36122462 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** * *
36122502 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGTGTTACGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
36122542 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
36122581 CCGAAGGCATT
1 CCGAAGGCATT
36122592 TGAACGAGGA
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 32 0.28
40 84 0.72
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:36122506 original size:80 final size:79
Alignment explanation
Indices: 36122369--36122593 Score: 227
Period size: 80 Copynumber: 2.8 Consensus size: 79
36122359 TTGAATGCTG
* * * * * * * * * *
36122369 TCCGGGCTAAGTCCCAAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
36122433 TGTGCGAGATACTAAA
64 TGTGCGAGATACTAAA
* * * *
36122449 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTT
* **
36122514 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * *
36122529 TCCGTGTTACGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
36122594 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
79 36 0.30
80 81 0.67
81 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:36122611 original size:79 final size:79
Alignment explanation
Indices: 36122444--36122626 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 79
36122434 GTGCGAGATA
* * *
36122444 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCC-GGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
36122509 CATTCGTGCGAGTTG
65 CATTCGAACGAGGAG
* * * *
36122524 TTAAATCCGTGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCG-GTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
36122588 CATTTGAACGAGGAG
65 CATTCGAACGAGGAG
* *
36122603 CTATATCCGGTTAAATCCCGAAGG
1 CTAAATCCGGTTAAGTCCCGAAGG
36122627 TACGTGATTT
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
78 13 0.15
79 48 0.56
80 25 0.29
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CTAAATCCGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAG
Found at i:36123999 original size:21 final size:22
Alignment explanation
Indices: 36123975--36124016 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
36123965 GGGTGTTACA
36123975 TGTAAAATGTG-AAAATAATGT
1 TGTAAAATGTGTAAAATAATGT
*
36123996 TGTAAAATGTGTGAAATAATG
1 TGTAAAATGTGTAAAATAATG
36124017 AAATGTTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.33
Consensus pattern (22 bp):
TGTAAAATGTGTAAAATAATGT
Found at i:36127958 original size:47 final size:45
Alignment explanation
Indices: 36127885--36128245 Score: 203
Period size: 46 Copynumber: 7.7 Consensus size: 45
36127875 TGATTTGTGT
* *
36127885 GCCAGTGTAAGGCCATGTCTGGGACATGGCATCGGCATCCAGATGAGG
1 GCCAGTGTAA-GACATGTCTGGGACAT-GCATCGGCA-CCAGATGAGA
* * * * * *
36127933 GCTAGTGTAAGACATGTCTGGGACATGCTTCAGC-CATATTATGAGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAC-CA-GATGAGA
* * * * *
36127979 GCCAGAGTAAGACATGTTTGGGACATGCATTGGCCTCGACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CAC--CAGATGAGA
* * * * *
36128026 GCCAGTGTAAGACATGTTTGGGACACGCATCGGC-CAAGAAT-TGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACCAG-ATGAGA
* * * *
36128070 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATATATCAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAC-C--AGATGAGA
* * * * * *
36128118 GCCAGTATAAGACCATGTCTCGGACATGGCATCAGC-CAAGA-GTTGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACCAGATG-AGA
* * *
36128164 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAC-C--AGATGAGA
* *
36128212 GCCAGTATAAGACCATGTCTAGGACATGGCATCG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
36128246 ACAATTCATT
Statistics
Matches: 240, Mismatches: 51, Indels: 42
0.72 0.15 0.13
Matches are distributed among these distances:
43 2 0.01
44 40 0.17
45 17 0.07
46 52 0.22
47 50 0.21
48 36 0.15
49 30 0.12
50 13 0.05
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACCAGATGAGA
Found at i:36128143 original size:49 final size:48
Alignment explanation
Indices: 36128077--36128244 Score: 186
Period size: 49 Copynumber: 3.5 Consensus size: 48
36128067 TGTGCTAGTG
36128077 TAAGACATGTCTGGGACAT-GCATCAGCACGCATATATCAGAGCCAGTA
1 TAAGACATGTCTGGGACATGGCATCAGCACGCATATAT-AGAGCCAGTA
* * * * * *
36128125 TAAGACCATGTCTCGGACATGGCATCAG--C-CA-AGAGTTGTGCTAGTG
1 TAAGA-CATGTCTGGGACATGGCATCAGCACGCATATA-TAGAGCCAGTA
36128171 TAAGACATGTCTGGGACAT-GCATCAGCACGCATATATGAGAGCCAGTA
1 TAAGACATGTCTGGGACATGGCATCAGCACGCATATAT-AGAGCCAGTA
*
36128219 TAAGACCATGTCTAGGACATGGCATC
1 TAAGA-CATGTCTGGGACATGGCATC
36128245 GACAATTCAT
Statistics
Matches: 97, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
44 7 0.07
45 13 0.13
46 14 0.14
47 6 0.06
48 19 0.20
49 26 0.27
50 12 0.12
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (48 bp):
TAAGACATGTCTGGGACATGGCATCAGCACGCATATATAGAGCCAGTA
Found at i:36128170 original size:94 final size:94
Alignment explanation
Indices: 36128025--36128244 Score: 354
Period size: 94 Copynumber: 2.4 Consensus size: 94
36128015 CGACAGAGAT
* * * * *
36128025 AGCCAGTGTAAGA-CATGTTTGGGACA-CGCATCGGCCAAGAATTGTGCTAGTGTAAGACATGTC
1 AGCCAGTATAAGACCATGTCTAGGACATGGCATCAGCCAAGAATTGTGCTAGTGTAAGACATGTC
36128088 TGGGACATGCATCAGCACGCATATATCAG
66 TGGGACATGCATCAGCACGCATATATCAG
* *
36128117 AGCCAGTATAAGACCATGTCTCGGACATGGCATCAGCCAAGAGTTGTGCTAGTGTAAGACATGTC
1 AGCCAGTATAAGACCATGTCTAGGACATGGCATCAGCCAAGAATTGTGCTAGTGTAAGACATGTC
*
36128182 TGGGACATGCATCAGCACGCATATATGAG
66 TGGGACATGCATCAGCACGCATATATCAG
36128211 AGCCAGTATAAGACCATGTCTAGGACATGGCATC
1 AGCCAGTATAAGACCATGTCTAGGACATGGCATC
36128245 GACAATTCAT
Statistics
Matches: 118, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
92 12 0.10
93 11 0.09
94 95 0.81
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.22
Consensus pattern (94 bp):
AGCCAGTATAAGACCATGTCTAGGACATGGCATCAGCCAAGAATTGTGCTAGTGTAAGACATGTC
TGGGACATGCATCAGCACGCATATATCAG
Found at i:36132717 original size:42 final size:42
Alignment explanation
Indices: 36132670--36132761 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
36132660 TGGCCCTTCG
* ** *
36132670 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
36132712 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
36132754 GCCCATTT
1 GCCCATTT
36132762 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:36132937 original size:25 final size:25
Alignment explanation
Indices: 36132909--36132978 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
36132899 CTCTTCTAAT
*
36132909 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAGAGCCCTTTTC-GATA
*
36132934 AACTGGGGCAGAGCCCTTTTCGGTA
1 AACTGGGGCAGAGCCCTTTTCGATA
36132959 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAGAGCCCTTTT
36132979 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAGAGCCCTTTTCGATA
Found at i:36133841 original size:27 final size:27
Alignment explanation
Indices: 36133780--36133843 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
36133770 GGCGTATTCA
36133780 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* * *
36133807 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
36133834 TCTTTTTACC
1 TCATTTTACC
36133844 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:36134000 original size:27 final size:27
Alignment explanation
Indices: 36133959--36134030 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
36133949 AAAAAAGTTA
* * **
36133959 AGGGAATTTCTGTAATTTTGTAAATT-
1 AGGGTATTTCGGTAATTTTACAAATTG
*
36133985 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTCGGTAATTTTACAAATTG
36134013 AGGGTATTTCGGTAATTT
1 AGGGTATTTCGGTAATTT
36134031 CTCAAACTAG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.03
27 36 0.95
28 1 0.03
ACGTcount: A:0.28, C:0.04, G:0.24, T:0.44
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATTG
Found at i:36134045 original size:27 final size:27
Alignment explanation
Indices: 36133987--36134048 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
36133977 TGTAAATTAG
* *
36133987 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTTACAAACTGA
36134014 GGGTATTTCGGTAATTTCT-CAAACT-A
1 GGGTATTTCGGTAATTT-TACAAACTGA
36134040 GTGGTATTT
1 G-GGTATTT
36134049 TAGCAATTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 2 0.06
27 28 0.90
28 1 0.03
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.44
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAACTGA
Found at i:36134096 original size:27 final size:27
Alignment explanation
Indices: 36133980--36134089 Score: 73
Period size: 27 Copynumber: 4.1 Consensus size: 27
36133970 GTAATTTTGT
* *
36133980 AAATTAGGGGTATTTTGGTAATTTTAC
1 AAATTAGGGGTATTTTAGTAATTTCAC
** *
36134007 AAATT-GAGGGTATTTCGGTAATTTCTC
1 AAATTAG-GGGTATTTTAGTAATTTCAC
* * *
36134034 AAACTAGTGGTATTTTAGCAA-TTCTATC
1 AAATTAGGGGTATTTTAGTAATTTC-A-C
** *
36134062 CTA-CAGGGGTATTTTAGTAATTTCAC
1 AAATTAGGGGTATTTTAGTAATTTCAC
36134088 AA
1 AA
36134090 TTGAGGGTAA
Statistics
Matches: 62, Mismatches: 16, Indels: 11
0.70 0.18 0.12
Matches are distributed among these distances:
26 5 0.08
27 51 0.82
28 6 0.10
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (27 bp):
AAATTAGGGGTATTTTAGTAATTTCAC
Found at i:36134170 original size:27 final size:27
Alignment explanation
Indices: 36134092--36134175 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
36134082 TTTCACAATT
*
36134092 GAGGGTAAAATGATAATTTTGTAAA-C
1 GAGGGTAAAATGATAATTTTATAAATC
* *
36134118 TGAGGGTAAAATGGTAATTTTTTAAATC
1 -GAGGGTAAAATGATAATTTTATAAATC
* *
36134146 GAGGGTAAAACGATAATTCTATAAATC
1 GAGGGTAAAATGATAATTTTATAAATC
36134173 GAG
1 GAG
36134176 AGTACTTTGG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (27 bp):
GAGGGTAAAATGATAATTTTATAAATC
Found at i:36134204 original size:54 final size:53
Alignment explanation
Indices: 36134078--36134206 Score: 127
Period size: 54 Copynumber: 2.4 Consensus size: 53
36134068 GGGTATTTTA
* * * * *
36134078 GTAATTTCACAATTGAGGGTAAAATGATAATTTTGTAAACTGAGGGTAAAATG
1 GTAATTTTACAATTGAGGGTAAAACGATAATTCTATAAACTGAGAGTAAAATG
* ***
36134131 GTAATTTTTTA-AATCGAGGGTAAAACGATAATTCTATAAA-TCGAGAGTACTTTG
1 GTAA--TTTTACAATTGAGGGTAAAACGATAATTCTATAAACT-GAGAGTAAAATG
36134185 GTAATTTTACAAGTTGAGGGTA
1 GTAATTTTACAA-TTGAGGGTA
36134207 TTTCAATAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
52 5 0.08
53 7 0.11
54 45 0.74
55 4 0.07
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (53 bp):
GTAATTTTACAATTGAGGGTAAAACGATAATTCTATAAACTGAGAGTAAAATG
Found at i:36139000 original size:14 final size:15
Alignment explanation
Indices: 36138983--36139011 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36138973 TTTATTTTTA
36138983 AATTTGGT-TATGTT
1 AATTTGGTCTATGTT
36138997 AATTTGGTCTATGTT
1 AATTTGGTCTATGTT
36139012 CGCTTTAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.21, C:0.03, G:0.21, T:0.55
Consensus pattern (15 bp):
AATTTGGTCTATGTT
Found at i:36143073 original size:13 final size:13
Alignment explanation
Indices: 36143055--36143083 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
36143045 GGTTGTTTAT
36143055 TAAACTAATTAAC
1 TAAACTAATTAAC
36143068 TAAACTAATTAAC
1 TAAACTAATTAAC
36143081 TAA
1 TAA
36143084 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:36143328 original size:36 final size:36
Alignment explanation
Indices: 36143288--36143359 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
36143278 TCAGTTGAAT
36143288 TAATCAAAATTTCTTTCTTAATTAAAACCCCTAGGG
1 TAATCAAAATTTCTTTCTTAATTAAAACCCCTAGGG
*
36143324 TAATCAGAATTTCTTTCTTAATTAAAACCCCTAGGG
1 TAATCAAAATTTCTTTCTTAATTAAAACCCCTAGGG
36143360 AAGCAGTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (36 bp):
TAATCAAAATTTCTTTCTTAATTAAAACCCCTAGGG
Found at i:36148678 original size:30 final size:30
Alignment explanation
Indices: 36148633--36148692 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
36148623 ATTTAATACG
* *
36148633 AACTTTGGCAAAATTATATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
36148663 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
36148693 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:36156171 original size:30 final size:30
Alignment explanation
Indices: 36156126--36156185 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
36156116 ATTTAATACG
*
36156126 AACTTTAGCAAAATTACATTTTTGCCCCTA
1 AACTTTAGCAAAATTACACTTTTGCCCCTA
* *
36156156 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAGCAAAATTACACTTTTGCCCCTA
36156186 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTAGCAAAATTACACTTTTGCCCCTA
Found at i:36165978 original size:51 final size:50
Alignment explanation
Indices: 36165930--36166030 Score: 116
Period size: 51 Copynumber: 2.0 Consensus size: 50
36165920 CCGAAGCTAC
*
36165930 CACA-TAACATGTAA-CACATCCATAATGAACTTGGACCTCTCAACAAGCT
1 CACAGTAACATG-AATCACATCCATAATGAACTTGGACCACTCAACAAGCT
* * * * *
36165979 CAGATGTTACATGAATCTCATCCATCATGAACTTGGACCACTCAACGAGCT
1 CACA-GTAACATGAATCACATCCATAATGAACTTGGACCACTCAACAAGCT
36166030 C
1 C
36166031 GGATTCTTGC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
49 3 0.07
50 2 0.05
51 38 0.88
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.24
Consensus pattern (50 bp):
CACAGTAACATGAATCACATCCATAATGAACTTGGACCACTCAACAAGCT
Found at i:36171885 original size:15 final size:18
Alignment explanation
Indices: 36171841--36171889 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
36171831 ATCGATACGG
36171841 TAGCAATTAATATGCTAA
1 TAGCAATTAATATGCTAA
* *
36171859 TAACAATAAATATG-T-A
1 TAGCAATTAATATGCTAA
36171875 -AGCAATTAATATGCT
1 TAGCAATTAATATGCT
36171890 TATAACAGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 11 0.42
16 2 0.08
17 1 0.04
18 12 0.46
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (18 bp):
TAGCAATTAATATGCTAA
Found at i:36186274 original size:40 final size:40
Alignment explanation
Indices: 36186226--36186493 Score: 464
Period size: 40 Copynumber: 6.7 Consensus size: 40
36186216 GCAAACACCT
* * *
36186226 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
36186266 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
36186306 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
36186346 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
36186386 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
36186426 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
36186466 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
36186494 TTCAAATGCT
Statistics
Matches: 215, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:36192652 original size:6 final size:6
Alignment explanation
Indices: 36192620--36192651 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
36192610 GTTACATTAG
36192620 TTTTCT TTTTCT TTTTC- TTTTCT TTTT-T TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
36192652 TGCAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTCT
Found at i:36192652 original size:17 final size:17
Alignment explanation
Indices: 36192620--36192651 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
36192610 GTTACATTAG
36192620 TTTTCTTTTTCTTTTTC
1 TTTTCTTTTTCTTTTTC
36192637 TTTTCTTTTT-TTTTT
1 TTTTCTTTTTCTTTTT
36192652 TGCAAAAAAA
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTCTTTTTCTTTTTC
Found at i:36193316 original size:24 final size:24
Alignment explanation
Indices: 36193289--36193334 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
36193279 CATTAGTGAG
*
36193289 TTGCTAACTAGACTCTTTCTTACA
1 TTGCTAACTAAACTCTTTCTTACA
36193313 TTGCTAACTAAACTCTTTCTTA
1 TTGCTAACTAAACTCTTTCTTA
36193335 TAGGTTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (24 bp):
TTGCTAACTAAACTCTTTCTTACA
Found at i:36199658 original size:18 final size:18
Alignment explanation
Indices: 36199629--36199666 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
36199619 TCTTCTTCTT
*
36199629 ATTTCCCTTTTTCTTTTA
1 ATTTCCCTTTTTATTTTA
*
36199647 ATTTCCTTTTTTATTTTA
1 ATTTCCCTTTTTATTTTA
36199665 AT
1 AT
36199667 ATTTGAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTCCCTTTTTATTTTA
Found at i:36204409 original size:23 final size:23
Alignment explanation
Indices: 36204350--36204415 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
36204340 TCTTTTATTT
36204350 ATATTATAATAAT-ATTT-AATAA
1 ATATTA-AATAATAATTTAAATAA
* *
36204372 A-A-T-ACTAATATTTTAAATAA
1 ATATTAAATAATAATTTAAATAA
*
36204392 ATATTAAATAATAATTTAATTAA
1 ATATTAAATAATAATTTAAATAA
36204415 A
1 A
36204416 ATATGATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
18 5 0.15
19 3 0.09
20 7 0.21
21 2 0.06
22 2 0.06
23 15 0.44
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATATTAAATAATAATTTAAATAA
Found at i:36207078 original size:27 final size:27
Alignment explanation
Indices: 36207048--36207225 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
36207038 ATATTGAGTC
* *
36207048 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
36207075 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
36207102 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
36207130 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
36207157 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
36207184 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
36207211 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36207226 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:36210814 original size:25 final size:25
Alignment explanation
Indices: 36210786--36210843 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
36210776 TTCATCTTGT
*
36210786 ATGAGCTTCTCATTATTCAGCTCAC
1 ATGAGCTTCCCATTATTCAGCTCAC
* * *
36210811 ATGAACTTCCCGTTATTCAGCTCAG
1 ATGAGCTTCCCATTATTCAGCTCAC
*
36210836 AAGAGCTT
1 ATGAGCTT
36210844 ACTGTTCACA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCCATTATTCAGCTCAC
Found at i:36223838 original size:27 final size:27
Alignment explanation
Indices: 36223807--36223984 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
36223797 ATATTGAGCC
* *
36223807 CGCACACTCAGTGCTATGTAATCAACT
1 CGCACACTTAGTGCTACGTAATCAACT
* *
36223834 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACGTAATCAACT
* *
36223861 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACGTAATC-AACT
** * * **
36223889 CGCACACTTAGTGCCGCATGATCATTT
1 CGCACACTTAGTGCTACGTAATCAACT
* * **
36223916 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CGTAATCAACT
* * * *
36223943 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACGTAATCAACT
36223970 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36223985 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACGTAATCAACT
Found at i:36223946 original size:82 final size:81
Alignment explanation
Indices: 36223833--36223983 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
36223823 TGTAATCAAC
* *
36223833 TCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
36223898 AGTGCCGCATGATCATT
65 AGTGCCGCATGATCATT
* **
36223915 TCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
36223979 AGTGC
65 AGTGC
36223984 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.27
82 46 0.73
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGATCATT
Found at i:36232800 original size:325 final size:325
Alignment explanation
Indices: 36232210--36232858 Score: 1235
Period size: 325 Copynumber: 2.0 Consensus size: 325
36232200 AAGGCATTAT
36232210 CATTTTATTTCTACATTACACATTTAATTCACGGTCATGACCACCTCGATTGGTCATAAAACATG
1 CATTTTATTTCTACATTACACATTTAATTCACGGTCATGACCACCTCGATTGGTCATAAAACATG
36232275 CATTCAACACACATGACATATTACCAACCATGCATGGCAAACAGACATATTCACATCACAATTAT
66 CATTCAACACACATGACATATTACCAACCATGCATGGCAAACAGACATATTCACATCACAATTAT
*
36232340 TAGACACAACATGAATAGTTAGATTTATAAGTCGTAATCAATAGCTCAATATAGGCCAAAACATT
131 TAGACACAACATGAATAGTTAGATTTATAAGTCGTAATAAATAGCTCAATATAGGCCAAAACATT
*
36232405 TGGCCAAATCATAATAACACATGTCATAGAACTAGGTCTCTATACATGCCAGTCACTTGATATTT
196 TGGCCAAATCATAATAACACATGTCATAGAACTAGGTCTCTATACATGCCAATCACTTGATATTT
* ** * *
36232470 CTAACTTATGTATAAATACTCCAAAGGTATTGGCTTGATAGTGTGATGTTTCCTCTGACGATCTG
261 CTAACTTATATATAAATACTCCAAAGGTATTGGCTTGATAGAATGATGTTGCCTCTGAAGATCTG
36232535 CATTTTATTTCTACATTACACATTTAATTCACGGTCATGACCACCTCGATTGGTCATAAAACATG
1 CATTTTATTTCTACATTACACATTTAATTCACGGTCATGACCACCTCGATTGGTCATAAAACATG
36232600 CATTCAACACACATGACATATTACCAACCATGCATGGCAAACAGACATATTCACATCACAATTAT
66 CATTCAACACACATGACATATTACCAACCATGCATGGCAAACAGACATATTCACATCACAATTAT
36232665 TAGACACAACATGAATAGTTAGATTTATAAGTCGTAATAAATAGCTCAATATAGGCCAAAACATT
131 TAGACACAACATGAATAGTTAGATTTATAAGTCGTAATAAATAGCTCAATATAGGCCAAAACATT
36232730 TGGCCAAATCATAATAACACATGTCATAGAACTAGGTCTCTATACATGCCAATCACTTGATATTT
196 TGGCCAAATCATAATAACACATGTCATAGAACTAGGTCTCTATACATGCCAATCACTTGATATTT
36232795 CTAACTTATATATAAATACTCCAAAGGTATTGGCTTGATAGAATGATGTTGCCTCTGAAGATCT
261 CTAACTTATATATAAATACTCCAAAGGTATTGGCTTGATAGAATGATGTTGCCTCTGAAGATCT
36232859 CCAACCCTGA
Statistics
Matches: 317, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
325 317 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.31
Consensus pattern (325 bp):
CATTTTATTTCTACATTACACATTTAATTCACGGTCATGACCACCTCGATTGGTCATAAAACATG
CATTCAACACACATGACATATTACCAACCATGCATGGCAAACAGACATATTCACATCACAATTAT
TAGACACAACATGAATAGTTAGATTTATAAGTCGTAATAAATAGCTCAATATAGGCCAAAACATT
TGGCCAAATCATAATAACACATGTCATAGAACTAGGTCTCTATACATGCCAATCACTTGATATTT
CTAACTTATATATAAATACTCCAAAGGTATTGGCTTGATAGAATGATGTTGCCTCTGAAGATCTG
Found at i:36233870 original size:50 final size:50
Alignment explanation
Indices: 36233806--36234041 Score: 323
Period size: 50 Copynumber: 4.7 Consensus size: 50
36233796 CTGGTATGCA
*
36233806 TAGTAGCCTACACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
* *
36233856 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
* * * ** * *
36233906 TAGTAGCCTGCACTTAGTACTACACA--CGTATCGAAGCTATCAAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCG-ACCTAA-CAATCTGGTACACG
*
36233956 TAGTAGCATGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
* *
36234006 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
36234042 AACCGTCTTA
Statistics
Matches: 160, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.01
49 4 0.03
50 149 0.93
51 4 0.03
52 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
Found at i:36234082 original size:150 final size:150
Alignment explanation
Indices: 36233803--36234084 Score: 433
Period size: 150 Copynumber: 1.9 Consensus size: 150
36233793 TCTCTGGTAT
*
36233803 GCATAGTAGCCTACACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCTGCA
1 GCATAGTAGCATACACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCTGCA
* ** * * *
36233868 CTTAGTACTACACATGTGACCTAACCATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAC
66 CTTAGTACTACACACGTGACCTAACCATCTGAAACACATAGTAGCCTACACATAGTACTACACAC
36233933 GTATCGAAGCTATCAAGTAC
131 GTATCGAAGCTATCAAGTAC
*
36233953 GCATAGTAGCATGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCTGCA
1 GCATAGTAGCATACACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCTGCA
* * *
36234018 CTTAGTACTACACACGTGACCTAAAACCGTCTTAAACACATAGTATCCTACACATAGTA-T-CAC
66 CTTAGTACTACACACGTGACCT--AACCATCTGAAACACATAGTAGCCTACACATAGTACTACAC
36234081 ACGT
129 ACGT
36234085 GGTCTTTCTA
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
150 91 0.76
151 1 0.01
152 27 0.23
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (150 bp):
GCATAGTAGCATACACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCTGCA
CTTAGTACTACACACGTGACCTAACCATCTGAAACACATAGTAGCCTACACATAGTACTACACAC
GTATCGAAGCTATCAAGTAC
Found at i:36236700 original size:16 final size:17
Alignment explanation
Indices: 36236671--36236703 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
36236661 ATCACAATAA
*
36236671 AATAAAGTTCTAATATT
1 AATAAACTTCTAATATT
36236688 AATAAACTT-TAATATT
1 AATAAACTTCTAATATT
36236704 TTGATATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (17 bp):
AATAAACTTCTAATATT
Found at i:36238599 original size:17 final size:17
Alignment explanation
Indices: 36238577--36238614 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
36238567 TAAGTTGTCT
36238577 TTCTCACAATATAAACG
1 TTCTCACAATATAAACG
36238594 TTCTCACAATATAAACG
1 TTCTCACAATATAAACG
36238611 TTCT
1 TTCT
36238615 TGTTATCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (17 bp):
TTCTCACAATATAAACG
Found at i:36250741 original size:14 final size:15
Alignment explanation
Indices: 36250707--36250745 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
36250697 ATACATTTTA
*
36250707 TTTATTTTTATGTTG
1 TTTATTTATATGTTG
*
36250722 TATATTTATA-GTTG
1 TTTATTTATATGTTG
36250736 TTTATTTATA
1 TTTATTTATA
36250746 CAATATGTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (15 bp):
TTTATTTATATGTTG
Found at i:36252762 original size:3 final size:3
Alignment explanation
Indices: 36252754--36252813 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
36252744 TTCGGGAACA
* *
36252754 AAG AAG AAG AAG AAA AAG AGAG AAG AAG GA- AAG AAG -AG AAG AAG
1 AAG AAG AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG
*
36252798 AAG AAAG AAA AAG AAG
1 AAG -AAG AAG AAG AAG
36252814 GAGAGGAGGA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 3 0.06
3 38 0.81
4 6 0.13
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:36252779 original size:16 final size:16
Alignment explanation
Indices: 36252753--36252803 Score: 68
Period size: 18 Copynumber: 3.1 Consensus size: 16
36252743 TTTCGGGAAC
36252753 AAAGA-AGAAGAAGAA
1 AAAGAGAGAAGAAGAA
36252768 AAAGAGAGAAGAAGGAA
1 AAAGAGAGAAGAA-GAA
36252785 AGAAGAGAAGAAGAAGAA
1 A-AAGAG-AGAAGAAGAA
36252803 A
1 A
36252804 GAAAAAGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.16
16 7 0.22
17 4 0.12
18 9 0.28
19 7 0.22
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
AAAGAGAGAAGAAGAA
Found at i:36252811 original size:16 final size:17
Alignment explanation
Indices: 36252757--36252813 Score: 73
Period size: 16 Copynumber: 3.4 Consensus size: 17
36252747 GGGAACAAAG
36252757 AAGAAGAAGAAA-AAGA
1 AAGAAGAAGAAAGAAGA
*
36252773 GAGAAGAAGGAAAGAAGA
1 AAGAAGAA-GAAAGAAGA
36252791 GAAGAAGAAGAAAGAA-A
1 -AAGAAGAAGAAAGAAGA
36252808 AAGAAG
1 AAGAAG
36252814 GAGAGGAGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
16 13 0.36
17 5 0.14
18 11 0.31
19 7 0.19
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGAAAGAAGA
Found at i:36253815 original size:12 final size:13
Alignment explanation
Indices: 36253798--36253833 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
36253788 TTTTTTTGCT
36253798 AAAATAATATAA-
1 AAAATAATATAAG
*
36253810 AAAATAAAATAAG
1 AAAATAATATAAG
36253823 AAAATAATATA
1 AAAATAATATA
36253834 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (13 bp):
AAAATAATATAAG
Found at i:36253837 original size:298 final size:297
Alignment explanation
Indices: 36253363--36254578 Score: 1518
Period size: 298 Copynumber: 4.1 Consensus size: 297
36253353 AGTTTTTTGT
* * * **
36253363 TAAAATAATATAAA-AAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATTTGAAAATAAA
1 TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAA
* * * * *
36253427 AAAATACGAACAAGGTGCCAAAGTCA-GGTTATTTATTAAATTAATAT-AAAAAA-ACTTAAATA
66 AAAATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACATA
* * **
36253489 ATACATTTGAAAGATTTTATGC----------T--AAAATAAAATACCAAAATAATATATTTTAA
131 ATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAATAAAATAAGAAAATAATATATTTTAA
*
36253542 AAAATAATATACGAAAAAAATACGAATAAAGTGCTAAAACCAGGGTTATTTATTAAAAAAATATA
196 AAAATAATATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATAT-
36253607 AAAAAACACTTAAATAATACATTTGAAACATTATGTAC
260 AAAAAACACTTAAATAATACATTTGAAACATTATGTAC
*
36253645 TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAA
1 TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAA
* * *
36253710 AAAATTACGAAGAAAGTATCAAAATCAGGGTTATTTAGTAAATTAATATAAAGAAACACTTA-AG
66 AAAA-TACGAAGAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACA-
**
36253774 TAATACATTTG-AATTTTTTTTGCTAAAATAATATAAAAAATAAAATAAGAAAATAATATATTTT
129 TAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAATAAAATAAGAAAATAATATATTTT
* * *
36253838 AAAAAATAATATACTAATAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATT-GAAAAATA
194 AAAAAATAATATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATA
*
36253902 TAAAAAATACTTAAATAATACATTTGAAACATTATGTAC
259 TAAAAAACACTTAAATAATACATTTGAAACATTATGTAC
*
36253941 TAAAATAATATGAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACG-----AAA
1 TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAA
*
36254001 AAAATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTAAATTAGTATAAAAAAACACTTACATA
66 AAAATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAC---
* * *
36254066 ATATACCTAATACATTTGAAACAATTTTTGCTCAAATAATATAAAAAAATAAAATACGAAAATAA
128 ----A--TAATACATTTGAAACATTTTTTGCTAAAATAATAT-AAAAAATAAAATAAGAAAATAA
*
36254131 TATATTTT-AAAAATAATATAC--AAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTA
186 TATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTA
* *
36254193 AAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTACGTAC
251 AAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTAC
* *
36254240 TAAAATAATATAAAGAAATAAAATAATAAGAAAGTAATATATTTTAAAAAATAAGATACGAAAAT
1 TAAAATAATATAAAGAAAT--AA-AATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAT
* * * *
36254305 AAAAAAATACGAAAAAAGTGCCAAAATCAGTGTTATTTATTAAACTAATATAAAAAAACACTTAC
63 AAAAAAATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAC
* * * *
36254370 ATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATAATATGAAAGTAATAT
128 ATAATACATTTGAAACATTTTTTGCTAAAATAATATAAA-AAATAAAAT-A-A-GAAAATAATAT
* * * *
36254435 ATTTTAAAAAATAAGATACGAAAATAAAAAAAATACGAAAAAAGTGCCAAAATCAGTGTTATTTA
189 ATTTTAAAAAATAATATACG------AAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTA
** * * *
36254500 TTAAATTAATATAAAAAACACTTACATAATACATTTGAAACATT-TTTGC
248 TTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTAC
*
36254549 TAAAATAATATAAA-AAATAATATACGAAAA
1 TAAAATAATATAAAGAAATAAAATACGAAAA
36254579 CATTTTACTT
Statistics
Matches: 815, Mismatches: 68, Indels: 79
0.85 0.07 0.08
Matches are distributed among these distances:
282 14 0.02
283 49 0.06
284 17 0.02
285 20 0.02
286 15 0.02
287 16 0.02
290 53 0.07
291 7 0.01
296 93 0.11
297 11 0.01
298 157 0.19
299 75 0.09
300 33 0.04
301 46 0.06
302 46 0.06
305 7 0.01
306 2 0.00
307 60 0.07
308 4 0.00
309 16 0.02
310 74 0.09
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (297 bp):
TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAA
AAAATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACATA
ATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAATAAAATAAGAAAATAATATATTTTAA
AAAATAATATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATA
AAAAACACTTAAATAATACATTTGAAACATTATGTAC
Found at i:36254179 original size:443 final size:436
Alignment explanation
Indices: 36253355--36254578 Score: 1377
Period size: 443 Copynumber: 2.8 Consensus size: 436
36253345 TGGTGACGAG
* * *
36253355 TTTTTTGTTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATTTGA
1 TTTTTTGCTAAAATAATATAAAAAATAAAATAAGAAAATAATATATTTTAAAAAAT--AA--T-A
* * * * *
36253420 AAATAAAAAAATACGAACAAGGTGCCAAAGTCA-GGTTATTTATTAAATTAATATAAAAAAACTT
61 TACTAAAAAAATACGAAAAAAGTGCCAAAATCAGGGTTATTTATTAAA-TAATATAAAAAAACTT
* ** *
36253484 AAATAATACATTTGAAAGA-T-T-T--T---AT--GCT-A-AAATAAAATACCAAAATAATATAT
125 AAATAATACATTTGAAACATTATGTACTAAAATAATATAAGAAATAAAATACGAAAATAATATAT
* * * **
36253537 TTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCTAAAACCAGGGTTATTTATTAAAAAA
190 TTTAAAAAATAAGATACGAAAAAAATACGAAAAAAGTGC-AAAATCAGGGTTATTTATTAAATTA
* * *
36253602 ATATAAAAAAACAC-T--TAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAAT
254 ATATAAAAAAACACTTACTAAATAATACATTTGAAACATT-TTTGCTAAAATAATATAAAAAAAT
36253664 AAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAAATTACGAAGAAAGTAT
318 AAAATACGAAAATAATATATTTTAAAAAATAATATAC------AAAAAAATTACGAAGAAAGTAT
* ** * **
36253729 CAAAATCAGGGTTATTTAGTAAATTAATATAAAGAAACACTTAAGTAATACATTTG-AATT
377 CAAAATCAAGGTTATTTAGTAAAAAAATATAAA-AAACACTTAAATAATACATTTGAAACA
36253789 TTTTTTGCTAAAATAATATAAAAAATAAAATAAGAAAATAATATATTTTAAAAAATAATATACTA
1 TTTTTTGCTAAAATAATATAAAAAATAAAATAAGAAAATAATATATTTTAAAAAATAATATACTA
* * *
36253854 ATAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTGAAA-AATATAAAAAATACTTAAAT
66 AAAAAATACGAAAAAAGTGCCAAAATCAGGGTTATTTATT-AAATAATATAAAAAA-ACTTAAAT
36253918 AATACATTTGAAACATTATGTACTAAAATAATATGAAGAAATAAAATACGAAAATAATATATTTT
129 AATACATTTGAAACATTATGTACTAAAATAATAT-AAGAAATAAAATACGAAAATAATATATTTT
* *
36253983 AAAAAATAAGATACGAAAAAAATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTAAATTAGTA
193 AAAAAATAAGATACGAAAAAAATACGAAAAAAGTG-CAAAATCAGGGTTATTTATTAAATTAATA
*
36254048 TAAAAAAACACTTACATAATATACCTAATACATTTGAAACAATTTTTGCTCAAATAATATAAAAA
257 TAAAAAAACACTTAC-T-A-A-A--TAATACATTTGAAAC-ATTTTTGCTAAAATAATATAAAAA
* *
36254113 AATAAAATACGAAAATAATATATTTT-AAAAATAATATAC-AAAAAA-TACGAATAAAGT-GCTA
315 AATAAAATACGAAAATAATATATTTTAAAAAATAATATACAAAAAAATTACGAAGAAAGTATC-A
* *
36254174 AAATCAAGGTTATTTATTAAAAAAATATAAAAAATACTTAAATAATACATTTGAAACA
379 AAATCAAGGTTATTTAGTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAACA
*** * * *
36254232 TTACGTACTAAAATAATATAAAGAAATAAAATAATAAGAAAGTAATATATTTTAAAAAATAAGAT
1 TTTTTTGCTAAAATAATATAAA-AAAT--AA-AATAAGAAAATAATATATTTTAAAAAATAATAT
*
36254297 ACGAAAATAAAAAAATACGAAAAAAGTGCCAAAATCAGTGTTATTTATTAAACTAATATAAAAAA
62 AC-----TAAAAAAATACGAAAAAAGTGCCAAAATCAGGGTTATTTATTAAA-TAATAT-AAAAA
* *
36254362 ACACTTACATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATAATATGAA
120 A-ACTTAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAGAAAT--AA-AATACGAA
* *
36254427 AGTAATATATTTTAAAAAATAAGATACGAAAATAAAAAAAATACGAAAAAAGTGCCAAAATCAGT
180 AATAATATATTTTAAAAAATAAGATACG------AAAAAAATACGAAAAAAGTG-CAAAATCAGG
36254492 GTTATTTATTAAATTAATAT-AAAAAACACTTAC---ATAATACATTTGAAACATTTTTGCTAAA
238 GTTATTTATTAAATTAATATAAAAAAACACTTACTAAATAATACATTTGAAACATTTTTGCTAAA
*
36254553 ATAATAT-AAAAAATAATATACGAAAA
303 ATAATATAAAAAAATAAAATACGAAAA
36254579 CATTTTACTT
Statistics
Matches: 685, Mismatches: 55, Indels: 83
0.83 0.07 0.10
Matches are distributed among these distances:
429 38 0.06
430 34 0.05
431 4 0.01
432 3 0.00
433 1 0.00
434 53 0.08
435 1 0.00
438 2 0.00
440 1 0.00
442 22 0.03
443 153 0.22
444 12 0.02
446 2 0.00
447 34 0.05
448 1 0.00
449 1 0.00
450 1 0.00
451 34 0.05
452 114 0.17
453 23 0.03
454 54 0.08
455 1 0.00
456 2 0.00
457 34 0.05
462 13 0.02
463 47 0.07
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (436 bp):
TTTTTTGCTAAAATAATATAAAAAATAAAATAAGAAAATAATATATTTTAAAAAATAATATACTA
AAAAAATACGAAAAAAGTGCCAAAATCAGGGTTATTTATTAAATAATATAAAAAAACTTAAATAA
TACATTTGAAACATTATGTACTAAAATAATATAAGAAATAAAATACGAAAATAATATATTTTAAA
AAATAAGATACGAAAAAAATACGAAAAAAGTGCAAAATCAGGGTTATTTATTAAATTAATATAAA
AAAACACTTACTAAATAATACATTTGAAACATTTTTGCTAAAATAATATAAAAAAATAAAATACG
AAAATAATATATTTTAAAAAATAATATACAAAAAAATTACGAAGAAAGTATCAAAATCAAGGTTA
TTTAGTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAACA
Found at i:36254404 original size:155 final size:149
Alignment explanation
Indices: 36253513--36254578 Score: 1251
Period size: 155 Copynumber: 7.1 Consensus size: 149
36253503 TTTTATGCTA
*
36253513 AAAT-AAAATACCAAAATAATATATTTTAAAAAATAATATACG-AAAAAAATACGAATAAAGTGC
1 AAATAAAAATACGAAAATAATATATTTTAAAAAATAATATACGTAAAAAAATACGAATAAAGTGC
* * **
36253576 TAAAACCAGGGTTATTTATTAAAAAAATATAAAAAAACACTTAAATAATACATTTGAAACATTAT
66 CAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAAATAATACATTTGAAACATTAT
36253641 GTACTAAAATAATATAAAG
131 GTACTAAAATAATATAAAG
*
36253660 AAAT-AAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAAATTACGAAGAA
1 AAATAAAAATACGAAAATAATATATTTTAAAAAATAATATACG----TAAAAAAA-TACGAATAA
** * * * *
36253724 AGTATCAAAATCAGGGTTATTTAGTAAATTAATATAAAGAAACACTTAAGTAATACATTTG-AAT
61 AGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAAATAATACATTTGAAAC
* * * *
36253788 TTTTTTTGCTAAAATAATATAAA-
126 ATTATGTACTAAAATAATATAAAG
* *
36253811 AAAT-AAAATAAGAAAATAATATATTTTAAAAAATAATATAC-TAATAAAATACGAATAAAGTGC
1 AAATAAAAATACGAAAATAATATATTTTAAAAAATAATATACGTAAAAAAATACGAATAAAGTGC
* *
36253874 TAAAATCAGGGTTATTTATTGAAA--AATAT-AAAAAATACTTAAATAATACATTTGAAACATTA
66 CAAAATCAGGGTTATTTATT-AAATTAATATAAAAAAACACTTAAATAATACATTTGAAACATTA
*
36253936 TGTACTAAAATAATATGAAG
130 TGTACTAAAATAATATAAAG
* * *
36253956 AAAT-AAAATACGAAAATAATATATTTTAAAAAATAAGATACG-AAAAAAATACGAAGAAAGTGT
1 AAATAAAAATACGAAAATAATATATTTTAAAAAATAATATACGTAAAAAAATACGAATAAAGTGC
*
36254019 CAAAATCAGGGTTATTTATTAAATTAGTATAAAAAAACACTTACATAATATACCTAATACATTTG
66 CAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACAC-T---T-A-A-A--TAATACATTTG
* * * *
36254084 AAACAATT-TTTGCTCAAATAATATAAAA
122 AAAC-ATTATGTACTAAAATAATATAAAG
36254112 AAAT-AAAATACGAAAATAATATATTTT-AAAAATAATATAC---AAAAAATACGAATAAAGTGC
1 AAATAAAAATACGAAAATAATATATTTTAAAAAATAATATACGTAAAAAAATACGAATAAAGTGC
* * ** * *
36254172 TAAAATCAAGGTTATTTATTAAAAAAATAT-AAAAAATACTTAAATAATACATTTGAAACATTAC
66 CAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAAATAATACATTTGAAACATTAT
36254236 GTACTAAAATAATATAAAG
131 GTACTAAAATAATATAAAG
* * * *
36254255 AAATAAAATAATAAGAAAGTAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAAA
1 AAAT-AAA-AATACGAAAATAATATATTTTAAAAAATAATATACG----TAAAAAAATACGAATA
* * *
36254320 AAGTGCCAAAATCAGTGTTATTTATTAAACTAATATAAAAAAACACTTACATAATACATTTGAAA
60 AAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAAATAATACATTTGAAA
36254385 CATTATGTACTAAAATAATATAAAG
125 CATTATGTACTAAAATAATATAAAG
* * * *
36254410 AAATAAAATAATATGAAAGTAATATATTTTAAAAAATAAGATACGAAAATAAAAAAAATACGAAA
1 AAAT-AAA-AATACGAAAATAATATATTTTAAAAAATAATATACG----T-AAAAAAATACGAAT
* *
36254475 AAAGTGCCAAAATCAGTGTTATTTATTAAATTAATAT-AAAAAACACTTACATAATACATTTGAA
59 AAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAAATAATACATTTGAA
* *
36254539 ACATT-TTTGCTAAAATAATATAAA-
124 ACATTATGTACTAAAATAATATAAAG
*
36254563 AAAT-AATATACGAAAA
1 AAATAAAAATACGAAAA
36254579 CATTTTACTT
Statistics
Matches: 804, Mismatches: 78, Indels: 71
0.84 0.08 0.07
Matches are distributed among these distances:
142 3 0.00
143 56 0.07
144 28 0.03
145 108 0.13
146 34 0.04
147 62 0.08
148 2 0.00
150 7 0.01
151 44 0.05
152 37 0.05
153 108 0.13
154 62 0.08
155 143 0.18
156 107 0.13
157 3 0.00
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (149 bp):
AAATAAAAATACGAAAATAATATATTTTAAAAAATAATATACGTAAAAAAATACGAATAAAGTGC
CAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAAATAATACATTTGAAACATTAT
GTACTAAAATAATATAAAG
Found at i:36254418 original size:18 final size:19
Alignment explanation
Indices: 36254395--36254433 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
36254385 CATTATGTAC
36254395 TAAAATAATAT-AAAGAAA
1 TAAAATAATATGAAAGAAA
*
36254413 TAAAATAATATGAAAGTAA
1 TAAAATAATATGAAAGAAA
36254432 TA
1 TA
36254434 TATTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.26
Consensus pattern (19 bp):
TAAAATAATATGAAAGAAA
Found at i:36262006 original size:16 final size:17
Alignment explanation
Indices: 36261980--36262022 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
36261970 AAAAATTATA
* *
36261980 CTTCTTTTTTTCTTTTC
1 CTTCTTTTTTCCTTCTC
*
36261997 TTTCTTTTTTCCTTCTC
1 CTTCTTTTTTCCTTCTC
36262014 CTTCTTTTT
1 CTTCTTTTT
36262023 CTTCCTCTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
CTTCTTTTTTCCTTCTC
Found at i:36262026 original size:15 final size:15
Alignment explanation
Indices: 36261986--36262064 Score: 54
Period size: 16 Copynumber: 4.9 Consensus size: 15
36261976 TATACTTCTT
* *
36261986 TTTTTCTTTTCTTTC
1 TTTTTCTTCTCCTTC
36262001 TTTTTTCCTTCTCCTTC
1 -TTTTT-CTTCTCCTTC
36262018 TTTTTCTTCCTCTCTTC
1 TTTTTCTT-CTC-CTTC
*
36262035 TCCTTTCTT-TCCCTT-
1 T-TTTTCTTCT-CCTTC
36262050 TATTTTCTTCTCCTT
1 T-TTTTCTTCTCCTT
36262065 GCTCCTGATT
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.27
16 18 0.35
17 14 0.27
18 6 0.12
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTCTTCTCCTTC
Found at i:36262034 original size:17 final size:16
Alignment explanation
Indices: 36261980--36262035 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
36261970 AAAAATTATA
* *
36261980 CTTCTTTTTTTCTTTT
1 CTTCTTTTTTTCCTCT
36261996 CTT-TCTTTTTTCCTTCT
1 CTTCT-TTTTTTCC-TCT
36262013 CCTTCTTTTTCTTCCTCT
1 -CTTCTTTTT-TTCCTCT
36262031 CTTCT
1 CTTCT
36262036 CCTTTCTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
15 1 0.03
16 10 0.30
17 7 0.21
18 10 0.30
19 5 0.15
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (16 bp):
CTTCTTTTTTTCCTCT
Found at i:36262172 original size:27 final size:27
Alignment explanation
Indices: 36262142--36262211 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
36262132 GGACCCACAC
36262142 GACTGGTGCCGCCTCTGCCAGAGGCAA
1 GACTGGTGCCGCCTCTGCCAGAGGCAA
* *
36262169 GACTGGTGCTGTCTCTGCCAGAGGCAA
1 GACTGGTGCCGCCTCTGCCAGAGGCAA
*
36262196 CACTGGTGCCGCCTCT
1 GACTGGTGCCGCCTCT
36262212 AGCACCAACA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.16, C:0.33, G:0.31, T:0.20
Consensus pattern (27 bp):
GACTGGTGCCGCCTCTGCCAGAGGCAA
Found at i:36262258 original size:23 final size:22
Alignment explanation
Indices: 36262227--36262276 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
36262217 CAACAGGACC
*
36262227 TTTTTTTTTTCGTTTTCAGTGT
1 TTTTTTTTTTCGTTTTCAATGT
*
36262249 TTTTTCTTTTTCTTTTTCAAT-T
1 TTTTT-TTTTTCGTTTTCAATGT
36262271 TTTTTT
1 TTTTTT
36262277 ACTGTTGGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 11 0.44
23 13 0.52
ACGTcount: A:0.06, C:0.10, G:0.06, T:0.78
Consensus pattern (22 bp):
TTTTTTTTTTCGTTTTCAATGT
Found at i:36262960 original size:21 final size:20
Alignment explanation
Indices: 36262935--36262977 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
36262925 TGGGTTGATT
*
36262935 TTATATATATAATTAGTAGTA
1 TTATATATATAATT-GTAATA
*
36262956 TTATATTTATAATTGTAATA
1 TTATATATATAATTGTAATA
36262976 TT
1 TT
36262978 CTCAAAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (20 bp):
TTATATATATAATTGTAATA
Found at i:36264190 original size:3 final size:3
Alignment explanation
Indices: 36264182--36264207 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
36264172 CCAAAATCCT
36264182 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
36264208 GCCATGGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:36266542 original size:30 final size:31
Alignment explanation
Indices: 36266478--36266543 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
36266468 ATTGTTTTAA
* **
36266478 AAAAAAAGAAACAATGTATTTTCTTGCTGCG
1 AAAAAAAGAAACAACGTATTTTCTTGCACCG
36266509 AAAAAAA-AAACAACGTATTTTCTT-CACCAG
1 AAAAAAAGAAACAACGTATTTTCTTGCACC-G
36266539 AAAAA
1 AAAAA
36266544 TTGATACTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 2 0.06
30 22 0.71
31 7 0.23
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.24
Consensus pattern (31 bp):
AAAAAAAGAAACAACGTATTTTCTTGCACCG
Found at i:36276964 original size:13 final size:13
Alignment explanation
Indices: 36276946--36276970 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36276936 AAGAATAATT
36276946 ATTAAATTTAAAG
1 ATTAAATTTAAAG
36276959 ATTAAATTTAAA
1 ATTAAATTTAAA
36276971 TAAAAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
ATTAAATTTAAAG
Found at i:36277758 original size:27 final size:27
Alignment explanation
Indices: 36277719--36277772 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
36277709 ATAAAATAAG
*
36277719 GGTGGAGGATACCCAACAGGCGGCACC
1 GGTGGAGGATACCCAACAGGCAGCACC
* *
36277746 GGTGGAGGGTACCCCACAGGCAGCACC
1 GGTGGAGGATACCCAACAGGCAGCACC
36277773 AGTCACTGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.24, C:0.31, G:0.37, T:0.07
Consensus pattern (27 bp):
GGTGGAGGATACCCAACAGGCAGCACC
Found at i:36277893 original size:3 final size:3
Alignment explanation
Indices: 36277887--36277925 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
36277877 AAGAAGAAGA
*
36277887 AGG AGG AGG AGG AGG AAG AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
36277926 CGGCATTCGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:36277975 original size:14 final size:16
Alignment explanation
Indices: 36277948--36277985 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
36277938 GGGAAGAAAA
36277948 AAGAGAGAAAAAG-AG
1 AAGAGAGAAAAAGAAG
*
36277963 AAG-GAGAAGAAGAAG
1 AAGAGAGAAAAAGAAG
36277978 AAGAGAGA
1 AAGAGAGA
36277986 GGGAAGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 8 0.40
15 8 0.40
16 4 0.20
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (16 bp):
AAGAGAGAAAAAGAAG
Found at i:36277991 original size:20 final size:21
Alignment explanation
Indices: 36277948--36278000 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
36277938 GGGAAGAAAA
36277948 AAGAGAGAAAAAGAGAAGGAG
1 AAGAGAGAAAAAGAGAAGGAG
*
36277969 AAGA-AGAAGAAGAGAGAGG-G
1 AAGAGAGAAAAAGAGA-AGGAG
*
36277989 AAG-GAAAAAAAG
1 AAGAGAGAAAAAG
36278001 GTAATATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (21 bp):
AAGAGAGAAAAAGAGAAGGAG
Found at i:36278853 original size:143 final size:143
Alignment explanation
Indices: 36278422--36279596 Score: 1726
Period size: 145 Copynumber: 8.1 Consensus size: 143
36278412 TATATTTTAA
* * * *
36278422 AAAATCCGAAAATAAAAT-AAAAAA-GGCCAAATTTAGAGTTTTTTACTAAATTAATATAAATAT
1 AAAATCCGAAAATAAAATAAAAAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAA
* *
36278485 ACTAAAATAATACATATGAAATATTATGTACTAAAATAATA-AAAAAATAAAATAGGAAAATAGT
66 ACTAAAATAATACAT-TGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGT
*
36278549 ATATTTTGAAAAAT
130 ATATTTTAAAAAAT
36278563 AAAATCCGAAAATAAAATAAAAACTAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAA
1 AAAATCCGAAAATAAAATAAAAA--AACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAA
36278628 AAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATA
64 AAACTAAAATAATACA-TTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATA
36278693 GTATATTTTAAAAAAT
128 GTATATTTTAAAAAAT
* * * * *
36278709 AAAATTCAGGAAAACAAAATAAAAAAA-GGCCAAAGTCACAGATTTTTACTAAATTAATATAAAA
1 AAAA-TC-CGAAAATAAAATAAAAAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAA
* *
36278773 TAA-TAAAATAATACA-TGAAACATTATGTACTAAAATAATATAAAAAAACAAAATACGAAAATA
64 AAACTAAAATAATACATTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATA
*
36278836 ATATATTTTAAAAAAT
128 GTATATTTTAAAAAAT
* * *
36278852 AAAATCCGAAAATAAAA-ATAAAAAAGGGACAAAATCAGAGTTTTTTTCTAAATTAATAT-AAAA
1 AAAATCCGAAAATAAAATA-AAAAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAA
* *
36278915 AA-TAAAATAATACATTTGAAATATTATGTACTAAAATAATATAAAAAAATAAAATATGAAAATA
65 AACTAAAATAATACA-TTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATA
36278979 GTATATTTTAAAAAAT
128 GTATATTTTAAAAAAT
* * * *
36278995 AAAATCCGAAAACAAAATAAAAAAAGGGCCAAAATCACAGATTTTTACTAAATTAATATAAAAAA
1 AAAATCCGAAAATAAAATAAAAAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAA
36279060 ACTAAAATAATACA-TGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTA
66 ACTAAAATAATACATTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTA
*
36279124 TATTTTAAAAATT
131 TATTTTAAAAAAT
* * * *
36279137 AAAATCCGAAAATAAAA-ATAAAAAGGGCCAAAATTAGAGTTTTTTTTCTAAATTAATATAAAAA
1 AAAATCCGAAAATAAAATAAAAAAACGGCCAAAATCAGAG-TTTTTTACTAAATTAATATAAAAA
* *
36279201 AACTAAAATAATACATTTAAAACATTATATACTAAAATAATATAAAAAAATAAAATACGAAAATA
65 AACTAAAATAATACA-TTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATA
36279266 GTATATTTTAAAAAAT
128 GTATATTTTAAAAAAT
*
36279282 AAAATCCGAAAATAAAATAAAAAATAAACGGCCAAAATCAGAGTTTTTTATTAAATTAATATAAA
1 AAAATCCGAAAATAAAAT--AAAA-AAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAA
36279347 AAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAT
63 AAAACTAAAATAATACA-TTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAT
*
36279412 AGTATATTTTAAAAAGT
127 AGTATATTTTAAAAAAT
* *
36279429 AAAATCCGAAAATAAAATAAAAAACAAACGGCTAAAATCAGAGTTTTTTATTAAATTAATATAAA
1 AAAATCCGAAAATAAAAT--AAAA-AAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAA
* *
36279494 AAATACAAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAATAAAATACAAAAA
63 AAA-ACTAAAATAATACA-TTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAA
*
36279558 TAATATATTTTAAAAAAT
126 TAGTATATTTTAAAAAAT
36279576 AAAATCCGAAAATAAAATAAA
1 AAAATCCGAAAATAAAATAAA
36279597 TACCAAAATA
Statistics
Matches: 951, Mismatches: 58, Indels: 46
0.90 0.05 0.04
Matches are distributed among these distances:
140 1 0.00
141 69 0.07
142 148 0.16
143 176 0.19
144 45 0.05
145 177 0.19
146 42 0.04
147 155 0.16
148 122 0.13
149 16 0.02
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.27
Consensus pattern (143 bp):
AAAATCCGAAAATAAAATAAAAAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAA
ACTAAAATAATACATTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTA
TATTTTAAAAAAT
Found at i:36279638 original size:147 final size:141
Alignment explanation
Indices: 36278422--36279608 Score: 1278
Period size: 143 Copynumber: 8.2 Consensus size: 141
36278412 TATATTTTAA
* ** * * * *
36278422 AAAATCCGAAAATAAAATAAAAAAGGCC-AAATTTAGAGTTTTTTACTAAATTAATATAAATATA
1 AAAATCCGAAAATAAAAT-AAAAA-GCCAAAATATAGAACTTATTCCTAAATTAATATAAAAAAA
* * *
36278486 CTAAAATAATACATATGAAATATTATGTACTAAAATAATA-AAAAAATAAAATAGGAAAATAGTA
64 CTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTA
*
36278550 TATTTTGAAAAAT
129 TATTTTAAAAAAT
* ** * *
36278563 AAAATCCGAAAATAAAATAAAAACTAACGGCCAAAAT-CAGAGTTTTTTACTAAATTAATATAAA
1 AAAATCCGAAAATAAAAT--AAA--AA--GCCAAAATATAGAACTTATTCCTAAATTAATATAAA
36278627 AAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAT
60 AAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAT
36278692 AGTATATTTTAAAAAAT
125 AGTATATTTTAAAAAAT
* * * * * *
36278709 AAAATTCAGGAAAACAAAATAAAAAAAGGCCAAAGTCACAG-A-TTTTTACTAAATTAATATAAA
1 AAAA-TC-CGAAAATAAAAT--AAAAA-GCCAAAAT-ATAGAACTTATTCCTAAATTAATATAAA
* *
36278772 ATAA-TAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAAAAACAAAATACGAAAA
60 AAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAA
*
36278834 TAATATATTTTAAAAAAT
124 TAGTATATTTTAAAAAAT
* * ** * *
36278852 AAAATCCGAAAATAAAAATAAAAAAGGGACAAAAT-CAGAGTTTTTTTCTAAATTAATAT-AAAA
1 AAAATCCGAAAAT-AAAAT-AAAAA--GCCAAAATATAGAACTTATTCCTAAATTAATATAAAAA
* *
36278915 AA-TAAAATAATACATTTGAAATATTATGTACTAAAATAATATAAAAAAATAAAATATGAAAATA
62 AACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATA
36278979 GTATATTTTAAAAAAT
126 GTATATTTTAAAAAAT
* * * *
36278995 AAAATCCGAAAACAAAATAAAAAAAGGGCCAAAATCACAG-A-TTTTTACTAAATTAATATAAAA
1 AAAATCCGAAAATAAAAT--AAAAA--GCCAAAAT-ATAGAACTTATTCCTAAATTAATATAAAA
36279058 AAACTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATA
61 AAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATA
*
36279121 GTATATTTTAAAAATT
126 GTATATTTTAAAAAAT
** * *
36279137 AAAATCCGAAAATAAAAATAAAAAGGGCCAAAAT-TAGAGTTTTTTTTCTAAATTAATATAAAAA
1 AAAATCCGAAAAT-AAAATAAAAA--GCCAAAATATAGA-ACTTATTCCTAAATTAATATAAAAA
* *
36279201 AACTAAAATAATACATTTAAAACATTATATACTAAAATAATATAAAAAAATAAAATACGAAAATA
62 AACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATA
36279266 GTATATTTTAAAAAAT
126 GTATATTTTAAAAAAT
* ** * **
36279282 AAAATCCGAAAATAAAATAAAAAATAAACGGCCAAAAT-CAGAGTTTTTTATTAAATTAATATAA
1 AAAATCCGAAAATAAAAT----AA-AAA--GCCAAAATATAGAACTTATTCCTAAATTAATATAA
36279346 AAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAA
59 AAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAA
*
36279411 TAGTATATTTTAAAAAGT
124 TAGTATATTTTAAAAAAT
* * * ** * **
36279429 AAAATCCGAAAATAAAATAAAAAACAAACGGCTAAAATCAGAGTTTTTTATTAAATTAATATAAA
1 AAAATCCGAAAATAAAATAAAAAGCCAA-----AATAT-AGAACTTATTCCTAAATTAATATAAA
* *
36279494 AAATACAAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAATAAAATACAAAAA
60 AAA-ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAA
*
36279558 TAATATATTTTAAAAAAT
124 TAGTATATTTTAAAAAAT
*
36279576 AAAATCCGAAAATAAAATAAATA-CCAAAATATA
1 AAAATCCGAAAATAAAATAAAAAGCCAAAATATA
36279609 TTGAACTACA
Statistics
Matches: 946, Mismatches: 58, Indels: 85
0.87 0.05 0.08
Matches are distributed among these distances:
139 2 0.00
140 7 0.01
141 65 0.07
142 153 0.16
143 175 0.18
144 49 0.05
145 168 0.18
146 48 0.05
147 143 0.15
148 121 0.13
149 15 0.02
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.27
Consensus pattern (141 bp):
AAAATCCGAAAATAAAATAAAAAGCCAAAATATAGAACTTATTCCTAAATTAATATAAAAAAACT
AAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATA
TTTTAAAAAAT
Found at i:36286047 original size:17 final size:17
Alignment explanation
Indices: 36285988--36286031 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
36285978 TACCTTTTCT
36285988 TTTCTTTCTTCTTCTCC
1 TTTCTTTCTTCTTCTCC
36286005 TTTCTTTCTTCTTCTCC
1 TTTCTTTCTTCTTCTCC
36286022 TTTCTTTCTT
1 TTTCTTTCTT
36286032 TCTATCTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTCTTTCTTCTTCTCC
Found at i:36286625 original size:17 final size:18
Alignment explanation
Indices: 36286603--36286645 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
36286593 CTCACATTTA
*
36286603 TATTTTTTA-TTTTATAT
1 TATTTTTAAGTTTTATAT
*
36286620 TA-TTTTAAGTTTTTTAT
1 TATTTTTAAGTTTTATAT
36286637 TATTTTTAA
1 TATTTTTAA
36286646 TTAATGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 5 0.23
17 11 0.50
18 6 0.27
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (18 bp):
TATTTTTAAGTTTTATAT
Found at i:36288648 original size:14 final size:11
Alignment explanation
Indices: 36288616--36288640 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36288606 ATTTTTTTCC
36288616 CTTTATTATAG
1 CTTTATTATAG
36288627 CTTTATTATAG
1 CTTTATTATAG
36288638 CTT
1 CTT
36288641 AAGTATTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.56
Consensus pattern (11 bp):
CTTTATTATAG
Found at i:36290649 original size:54 final size:54
Alignment explanation
Indices: 36290563--36290706 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
36290553 TGGAGGAAGC
* *
36290563 GTCCTAGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
36290617 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
36290671 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
36290707 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:36290717 original size:27 final size:27
Alignment explanation
Indices: 36290569--36290724 Score: 178
Period size: 27 Copynumber: 5.8 Consensus size: 27
36290559 AAGCGTCCTA
* *
36290569 GTGGCTATGCCACAATTATCT-AATCTG
1 GTGGCTCTGCCACAA-TATCTGTATCTG
*
36290596 GTGGCTCTGCCACATATATCTGT-CCTG
1 GTGGCTCTGCCACA-ATATCTGTATCTG
*
36290623 GTGGCTATGCCACAATTATCTG-ATCTG
1 GTGGCTCTGCCACAA-TATCTGTATCTG
36290650 GTGGCTCTGCCACATATATCTGT-TCTG
1 GTGGCTCTGCCACA-ATATCTGTATCTG
36290677 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* *
36290704 GTGACT-TCGTCACAATATCTG
1 GTGGCTCT-GCCACAATATCTG
36290725 GCGACTTCGT
Statistics
Matches: 113, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
26 10 0.09
27 101 0.89
28 2 0.02
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:36290718 original size:81 final size:80
Alignment explanation
Indices: 36290569--36290724 Score: 201
Period size: 81 Copynumber: 1.9 Consensus size: 80
36290559 AAGCGTCCTA
*
36290569 GTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTATGCC
1 GTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTATGCC
36290634 ACAATTATCTGATCTG
66 ACAA-TATCTGATCTG
* ** *
36290650 GTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT-TC
1 GTGGCTATGCCACAAT-TATCTAATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACTAT-
*
36290712 GTCACAATATCTG
63 GCCACAATATCTG
36290725 GCGACTTCGT
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
80 17 0.26
81 49 0.74
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (80 bp):
GTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTATGCC
ACAATATCTGATCTG
Done.