Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 74 of 279
Found at i:24465679 original size:28 final size:29
Alignment explanation
Indices: 24465638--24465700 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
24465628 CCAAATTAAA
24465638 CACCCCACTAAACCGA-CCACTAACTCCAT
1 CACCCCACTAAACC-ATCCACTAACTCCAT
* *
24465667 CACCCTAC-AAACCATCCACTACCTCCAT
1 CACCCCACTAAACCATCCACTAACTCCAT
24465695 CACCCC
1 CACCCC
24465701 CACACCCTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 1 0.03
28 22 0.73
29 7 0.23
ACGTcount: A:0.32, C:0.52, G:0.02, T:0.14
Consensus pattern (29 bp):
CACCCCACTAAACCATCCACTAACTCCAT
Found at i:24465724 original size:37 final size:36
Alignment explanation
Indices: 24465667--24465740 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 36
24465657 CTAACTCCAT
24465667 CACCCTACAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACAAACCATCCACTACCTCCATCACCCCCA
*
24465703 CACCCTACTAAACTATCCACTACCTCCATCACCCCCA
1 CACCCTAC-AAACCATCCACTACCTCCATCACCCCCA
24465740 C
1 C
24465741 TAACTCTTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 8 0.22
37 28 0.78
ACGTcount: A:0.30, C:0.54, G:0.00, T:0.16
Consensus pattern (36 bp):
CACCCTACAAACCATCCACTACCTCCATCACCCCCA
Found at i:24466168 original size:19 final size:18
Alignment explanation
Indices: 24466144--24466180 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
24466134 TTATGTTTCA
24466144 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
24466163 TATTATTATATATTTATT
1 TATTATTATATATTTATT
24466181 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:24466169 original size:63 final size:63
Alignment explanation
Indices: 24466029--24466171 Score: 168
Period size: 63 Copynumber: 2.3 Consensus size: 63
24466019 TTTAACCCCT
* * *
24466029 TTTTTATTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATA
1 TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTATTATA
* *
24466093 TTTGTT-TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATA
1 TTT-TTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTATTATA
24466154 TTATTTATTTATTATTAT
1 TT-TTTATTT-TTATTAT
24466172 ATATTTATTA
Statistics
Matches: 69, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
61 17 0.25
62 8 0.12
63 27 0.39
64 15 0.22
65 2 0.03
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (63 bp):
TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTATTATA
Found at i:24466192 original size:17 final size:14
Alignment explanation
Indices: 24466152--24466182 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24466142 CATATTATTA
*
24466152 TATTATTTATTTAT
1 TATTATATATTTAT
24466166 TATTATATATTTAT
1 TATTATATATTTAT
24466180 TAT
1 TAT
24466183 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:24472951 original size:38 final size:39
Alignment explanation
Indices: 24472899--24473021 Score: 140
Period size: 44 Copynumber: 3.0 Consensus size: 39
24472889 TTTCAAAAAA
*
24472899 AAAAAAGAAGAGAAAAAGGAAAGAGAAAAAAGGAAAAGG
1 AAAAAAGAAGAGAAAAAAGAAAGAGAAAAAAGGAAAAGG
24472938 AAAAAGAAGAGAAAGAGAAAAAAGAAAGAGAAAAAAGGAAAAGG
1 --AAA-AA-AG-AAGAGAAAAAAGAAAGAGAAAAAAGGAAAAGG
* *
24472982 -AAAAAGAAGAGAAAACCAAAAAAGAGAAAGAAAAGAAAAG
1 AAAAAAGAAGAGAAAA--AAGAAAGAGAAA-AAAGGAAAAG
24473022 CAAATGAGAG
Statistics
Matches: 73, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
38 9 0.12
39 2 0.03
40 13 0.18
41 14 0.19
42 2 0.03
43 2 0.03
44 31 0.42
ACGTcount: A:0.73, C:0.02, G:0.25, T:0.00
Consensus pattern (39 bp):
AAAAAAGAAGAGAAAAAAGAAAGAGAAAAAAGGAAAAGG
Found at i:24472957 original size:44 final size:44
Alignment explanation
Indices: 24472906--24472995 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
24472896 AAAAAAAAAG
*
24472906 AAGAGAAAAAGGAAAGAGAAAAAAGGAAAAGGAAAAAGAAGAGA
1 AAGAGAAAAAAGAAAGAGAAAAAAGGAAAAGGAAAAAGAAGAGA
24472950 AAGAGAAAAAAGAAAGAGAAAAAAGGAAAAGGAAAAAGAAGAGA
1 AAGAGAAAAAAGAAAGAGAAAAAAGGAAAAGGAAAAAGAAGAGA
24472994 AA
1 AA
24472996 ACCAAAAAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (44 bp):
AAGAGAAAAAAGAAAGAGAAAAAAGGAAAAGGAAAAAGAAGAGA
Found at i:24473003 original size:44 final size:44
Alignment explanation
Indices: 24472906--24473015 Score: 161
Period size: 44 Copynumber: 2.5 Consensus size: 44
24472896 AAAAAAAAAG
* *
24472906 AAGAGAAAAAGGAAAGAGAAAAAAGGAAAAGGAAAAAGAAGAGA
1 AAGACAAAAAAGAAAGAGAAAAAAGGAAAAGGAAAAAGAAGAGA
*
24472950 AAGAGAAAAAAGAAAGAGAAAAAAGGAAAAGGAAAAAGAAGAGA
1 AAGACAAAAAAGAAAGAGAAAAAAGGAAAAGGAAAAAGAAGAGA
24472994 AA-ACCAAAAAAGAGAA-AGAAAA
1 AAGA-CAAAAAAGA-AAGAGAAAA
24473016 GAAAAGCAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
43 1 0.02
44 59 0.95
45 2 0.03
ACGTcount: A:0.73, C:0.02, G:0.25, T:0.00
Consensus pattern (44 bp):
AAGACAAAAAAGAAAGAGAAAAAAGGAAAAGGAAAAAGAAGAGA
Found at i:24474707 original size:135 final size:135
Alignment explanation
Indices: 24474365--24475118 Score: 1027
Period size: 133 Copynumber: 5.6 Consensus size: 135
24474355 CAAATTTCGA
* * * *
24474365 CAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCCACGTA
1 CAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTA
* * *
24474430 CCGGCGATGGAGTAGATTCCAATCATCAGCCTTATCTTCACTAAGTAGGAGTGGAGCAGGCT-AA
66 CCGGCGATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
24474494 -ATAC
131 TATAC
* * * * *
24474498 CAGATCTTATCTTCACTGAGCAAGAGTGAAGCAGATCGAATTTTAGAGAATATTATCTTCACGTA
1 CAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTA
* *
24474563 CCGGCGATGGAGCAGATTCCAATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGTAGGCTAAA
66 CCGGCGATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
24474628 TATAC
131 TATAC
* * *
24474633 CAGATCTTATCTTCATTGAGTAGGAGTGAAGCAGATCAAATTTTGGAGAATCTTATCTCAACGTA
1 CAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTA
* * * *
24474698 CCAGCGATGGAGAAGATTCTAATCATCAGCTTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
66 CCGGCGATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
24474763 TATAC
131 TATAC
* * * *
24474768 CAGGTCTTATCTTCA-TGAGCAGGAGCGGAGCAGATCAAATTTT-GATGAATCTTATCTCCATGT
1 CAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGA-GAATCTTATCTCCACGT
* * * * **
24474831 ATCGGCAATGGAGCAGGTTTCAGCCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
65 ACCGGCGATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
*
24474896 A-CT-C
130 ATATAC
* * * *
24474900 TAGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATCAAATTTT-GACAAATCTTATCTCCACGT
1 CAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGA-GAATCTTATCTCCACGT
* * *
24474964 ACCAGCGATGGAGCAGATTCCAATCATTAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
65 ACCGGCGATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
24475029 ATATAC
130 ATATAC
* ** *
24475035 CAGATCTTATCTTCATTGAGCAGGAGTGAAGCAGATTGAATTTTGGAGAATCTTATCTCCATGTA
1 CAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTA
* * *
24475100 TCGGCAATGGAGCAAATTC
66 CCGGCGATGGAGCAGATTC
24475119 AAACCACCAA
Statistics
Matches: 540, Mismatches: 74, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
132 13 0.02
133 217 0.40
134 99 0.18
135 209 0.39
136 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (135 bp):
CAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTA
CCGGCGATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
TATAC
Found at i:24474823 original size:90 final size:90
Alignment explanation
Indices: 24474460--24475092 Score: 289
Period size: 90 Copynumber: 7.1 Consensus size: 90
24474450 AATCATCAGC
* * *
24474460 CTTATCTTCACTAAGTAGGAGTGGAGCAGGCT-AA-ATACCAGATCTTATCTTCACTGAGCAAGA
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCACTGAGCAGGA
* *
24474523 GTGAAGCAGATCGAATTTTAGAGAAT
66 GTGGAGCAGATCAAATTTT-GAGAAT
* * * ** * *
24474549 ATTATCTTCAC-GTA-CCGGCGATGGAGCAGATTCCAATCAT--CA-ACCTTATCTTCACTGAGC
1 CTTATCTTCACTG-AGCAGGAG-TGGAGCAGGCT-AAAT-ATACCAGATCTTATCTTCACTGAGC
* * ***
24474609 AGGAGTGGAGTAG-GCTAAATATACCAG-AT
62 AGGAGTGGAGCAGATC-AAAT-TTTGAGAAT
* * * * * *** *
24474638 CTTATCTTCATTGAGTAGGAGTGAAGCA-GATCAAATTTTGGAGAATCTTATC-TCAAC-GTACC
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAATATACCAG-ATCTTATCTTC-ACTG-AGC
* * ** * *
24474700 AGCGA-TGGAGAAGATTCTAATCATCAG-CT
62 AG-GAGTGGAGCAGA-TCAAATTTTGAGAAT
*
24474729 -TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGGTCTTATCTTCA-TGAGCAGGA
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCACTGAGCAGGA
*
24474792 GCGGAGCAGATCAAATTTTGATGAAT
66 GTGGAGCAGATCAAATTTTGA-GAAT
* * * * ** *** * *
24474818 CTTATCTCCA-TGTATC-GGCAATGGAGCAGGTTTCAGCCATCAG-CCTTATCTTCACTGAGCAG
1 CTTATCTTCACTG-AGCAGG-AGTGGAGCAGGCTAAATATACCAGATCTTATCTTCACTGAGCAG
* * *
24474880 GAGTGGAGCAG-GCTAAACTCT-AG-AT
64 GAGTGGAGCAGATC-AAATTTTGAGAAT
* * * * * *
24474905 CTTATCTTCGCTGAGCAGGAGTGGAGCA-GATCAAATTTTGA-CAAATCTTATCTCCAC-GTACC
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAA-TAT-ACCAGATCTTATCTTCACTG-AGC
* * *
24474967 AGCGA-TGGAGCAGATTCCAATCATT---AAC
62 AG-GAGTGGAGCAGA-TCAAAT-TTTGAGAAT
*
24474995 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCATTGAGCAGGA
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCACTGAGCAGGA
* **
24475060 GTGAAGCAGATTGAATTTTGGAGAAT
66 GTGGAGCAGATCAAATTTT-GAGAAT
24475086 CTTATCT
1 CTTATCT
24475093 CCATGTATCG
Statistics
Matches: 395, Mismatches: 99, Indels: 98
0.67 0.17 0.17
Matches are distributed among these distances:
86 2 0.01
87 33 0.08
88 35 0.09
89 116 0.29
90 156 0.39
91 45 0.11
92 5 0.01
93 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (90 bp):
CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCACTGAGCAGGA
GTGGAGCAGATCAAATTTTGAGAAT
Found at i:24474957 original size:89 final size:88
Alignment explanation
Indices: 24474862--24475069 Score: 194
Period size: 89 Copynumber: 2.3 Consensus size: 88
24474852 AGCCATCAGC
* * *
24474862 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAACTC-TAGATCTTATCTTCGCTGAGCAGGA
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGACTCAAA-TCATA-ACCTTATCTTCACTGAGCAGGA
* *
24474925 GTGGAGCA-GATCAAATTTTGA-CAAAT
64 GTGGAGCAGGCT-AAA-TAT-ACCAAAT
* * * *
24474951 CTTATCTCCAC-GTACCAGCGA-TGGAGCAGATTCCAATCATTAACCTTATCTTCACTGAGCAGG
1 CTTATCTTCACTG-AGCAG-GAGTGGAGCAGACTCAAATCA-TAACCTTATCTTCACTGAGCAGG
*
24475014 AGTGGAGCAGGCTAAATATACCAGAT
63 AGTGGAGCAGGCTAAATATACCAAAT
* *
24475040 CTTATCTTCATTGAGCAGGAGTGAAGCAGA
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGA
24475070 TTGAATTTTG
Statistics
Matches: 96, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
88 4 0.04
89 52 0.54
90 36 0.38
91 4 0.04
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (88 bp):
CTTATCTTCACTGAGCAGGAGTGGAGCAGACTCAAATCATAACCTTATCTTCACTGAGCAGGAGT
GGAGCAGGCTAAATATACCAAAT
Found at i:24475240 original size:87 final size:86
Alignment explanation
Indices: 24475130--24475520 Score: 398
Period size: 87 Copynumber: 4.5 Consensus size: 86
24475120 AACCACCAAT
* * * * *
24475130 CTTAACCCCCTAAACAGTA-GGTAATAGGCTAAAAACTACAGATCTTGTCTCCTTAAGCGGTAGT
1 CTTAACCCCTTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCC-TAAGCAGTAGT
24475194 GGAGCAGATCAAAGATACACGC
65 GGAGCAGATCAAAGATACACGC
* * * * * * * *
24475216 TTTAACTCCTTAAGCAATAGGGTAACAAGCTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGT
1 CTTAACCCCTTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCT-CCTAAGCAGTAGT
24475281 GGAGCAGATCAAAGATACACGC
65 GGAGCAGATCAAAGATACACGC
* * ** *
24475303 CTTAACCCCTTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGCGT-TCGCCGAGCAGTGG
1 CTTAACCCCTTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCT-TGTCTC-CTAAGCAGTAG
24475367 TGGAGCAGATCAAAGATACACGC
64 TGGAGCAGATCAAAGATACACGC
* * * * * ** * *
24475390 CTTAACCCCCTAAGCAGTAGGCTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGC
1 CTTAACCCCTTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTC-CTAAGCAGTAGT
* * * *
24475455 AGAGCAGGTCGAAG--ACTCGC
65 GGAGCAGATCAAAGATACACGC
*
24475475 CTTAACCACC-TAAGCAGTAGGGTAACAGGCT-AAAATTGCAGATCTT
1 CTTAACC-CCTTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTT
24475521 ATCTTCGTTG
Statistics
Matches: 260, Mismatches: 39, Indels: 14
0.83 0.12 0.04
Matches are distributed among these distances:
84 12 0.05
85 32 0.12
86 18 0.07
87 195 0.75
88 3 0.01
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.22
Consensus pattern (86 bp):
CTTAACCCCTTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCCTAAGCAGTAGTG
GAGCAGATCAAAGATACACGC
Found at i:24475319 original size:43 final size:43
Alignment explanation
Indices: 24475180--24475322 Score: 123
Period size: 43 Copynumber: 3.3 Consensus size: 43
24475170 GATCTTGTCT
* * *
24475180 CCTTAAGCGGTAGTGGAGCAGATCAAAGATACACGCTTTAACT
1 CCTTAAGCAGTAGTGGAGCAGATCAAAGATACACGCCTTAACC
* * * * * * *
24475223 CCTTAAGCAATAG-GGTAACA-AGCTGAAGATTATA-GATCTTATCTC
1 CCTTAAGCAGTAGTGG-AGCAGATC-AAAGA-TACACG-CCTTAAC-C
24475268 CC-TAAGCAGTAGTGGAGCAGATCAAAGATACACGCCTTAACC
1 CCTTAAGCAGTAGTGGAGCAGATCAAAGATACACGCCTTAACC
24475310 CCTTAAGCAGTAG
1 CCTTAAGCAGTAG
24475323 GGTAACAGGC
Statistics
Matches: 74, Mismatches: 17, Indels: 18
0.68 0.16 0.17
Matches are distributed among these distances:
42 7 0.09
43 37 0.50
44 24 0.32
45 6 0.08
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (43 bp):
CCTTAAGCAGTAGTGGAGCAGATCAAAGATACACGCCTTAACC
Found at i:24475779 original size:29 final size:29
Alignment explanation
Indices: 24475746--24475809 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
24475736 CCAGATTAAA
24475746 CACCCCACTAAACCGA-CCACTAACTCCAT
1 CACCCCACTAAACC-ATCCACTAACTCCAT
* *
24475775 CACCCTACTAAACCATCCACTACCTCCAT
1 CACCCCACTAAACCATCCACTAACTCCAT
24475804 CACCCC
1 CACCCC
24475810 TACACCCTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.31, C:0.52, G:0.02, T:0.16
Consensus pattern (29 bp):
CACCCCACTAAACCATCCACTAACTCCAT
Found at i:24475822 original size:37 final size:37
Alignment explanation
Indices: 24475775--24475846 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
24475765 CTAACTCCAT
24475775 CACCCTACTAAACCATCCACTACCTCCATCACCCCTA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCTA
24475812 CACCCTACTAAACCATCCACTACCTCCATCACCCC
1 CACCCTACTAAACCATCCACTACCTCCATCACCCC
24475847 CACTAACTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.29, C:0.53, G:0.00, T:0.18
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCTA
Found at i:24476243 original size:64 final size:64
Alignment explanation
Indices: 24476152--24476281 Score: 160
Period size: 64 Copynumber: 2.0 Consensus size: 64
24476142 TATTTTTGTA
* *
24476152 ATTTTACTGTTAAATTAATTAATTTGAGCTTTAT-TCTCATTATTTTTATATT-TGTTA-TTATT
1 ATTTTACTATTAAATTAATTAATTTGAG--TTATGTCTCA-TATTATTATATTAT-TTATTTATT
24476214 ATT
62 ATT
* *
24476217 ATTTT-CTATTAATTTAATTAATTTGAGTTATGTTTCATATTATTATATTATTTATTTATTATT
1 ATTTTACTATTAAATTAATTAATTTGAGTTATGTCTCATATTATTATATTATTTATTTATTATT
24476280 AT
1 AT
24476282 ATATTTATTA
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
62 18 0.31
63 15 0.26
64 20 0.34
65 5 0.09
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (64 bp):
ATTTTACTATTAAATTAATTAATTTGAGTTATGTCTCATATTATTATATTATTTATTTATTATT
Found at i:24476278 original size:19 final size:18
Alignment explanation
Indices: 24476254--24476290 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
24476244 TTATGTTTCA
24476254 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
24476273 TATTATTATATATTTATT
1 TATTATTATATATTTATT
24476291 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:24476302 original size:17 final size:14
Alignment explanation
Indices: 24476262--24476292 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24476252 CATATTATTA
*
24476262 TATTATTTATTTAT
1 TATTATATATTTAT
24476276 TATTATATATTTAT
1 TATTATATATTTAT
24476290 TAT
1 TAT
24476293 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:24478209 original size:36 final size:36
Alignment explanation
Indices: 24478168--24478238 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
24478158 AAGTGTTGGA
24478168 GAAATCTTGGCTTCAAACCTAGGCTTTAGCAAAAAT
1 GAAATCTTGGCTTCAAACCTAGGCTTTAGCAAAAAT
* *
24478204 GAAATCTTGGGTTCAAACCTGGGCTTTAGCAAAAA
1 GAAATCTTGGCTTCAAACCTAGGCTTTAGCAAAAA
24478239 ATTTGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (36 bp):
GAAATCTTGGCTTCAAACCTAGGCTTTAGCAAAAAT
Found at i:24479039 original size:27 final size:26
Alignment explanation
Indices: 24479000--24479103 Score: 129
Period size: 27 Copynumber: 3.9 Consensus size: 26
24478990 CTCATATCTG
* *
24479000 TAGGCTAGTATTACTGAAATACCCTA
1 TAGGGTAGAATTACTGAAATACCCTA
*
24479026 GTAGGGTAGAATTACTGAAATGCCCCTA
1 -TAGGGTAGAATTACTGAAAT-ACCCTA
*
24479054 TAGGATAGAATTACTGAAATACCCCTA
1 TAGGGTAGAATTACTGAAATA-CCCTA
*
24479081 TAAGGTAGAATTACTG-AATACCC
1 TAGGGTAGAATTACTGAAATACCC
24479104 CTGGTTTGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
25 3 0.04
26 4 0.06
27 56 0.82
28 5 0.07
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (26 bp):
TAGGGTAGAATTACTGAAATACCCTA
Found at i:24479131 original size:27 final size:27
Alignment explanation
Indices: 24479097--24479427 Score: 197
Period size: 27 Copynumber: 12.3 Consensus size: 27
24479087 AGAATTACTG
*
24479097 AATACCCCTGGTTTGTAAAATTACCAA
1 AATACCCCTGATTTGTAAAATTACCAA
* * * **
24479124 AATACCCCTAATTTATGAAATTACTGA
1 AATACCCCTGATTTGTAAAATTACCAA
* ** * *
24479151 AATA-CCCTCAACCTATAAAATTACCGA
1 AATACCCCT-GATTTGTAAAATTACCAA
* * *
24479178 AATA-CCCTCGACTTGTAAGATTATCAA
1 AATACCCCT-GATTTGTAAAATTACCAA
24479205 AATA-CCCTCGATTTGTAAAATTACCAA
1 AATACCCCT-GATTTGTAAAATTACCAA
* * * *
24479232 AATACCCCTGATTTATGAAATTATCGA
1 AATACCCCTGATTTGTAAAATTACCAA
** * * *
24479259 AATA-CCCTCGACCTGTAAAGTTATCGA
1 AATACCCCT-GATTTGTAAAATTACCAA
* * * * * *
24479286 AATACCCTTGACTCGGAAAATTATCGA
1 AATACCCCTGATTTGTAAAATTACCAA
* *
24479313 AATA-CTCTCGATTTGTAAAATTAGCAA
1 AATACCCCT-GATTTGTAAAATTACCAA
* *
24479340 AATACCCCTAATTTGGAAAATTACCAA
1 AATACCCCTGATTTGTAAAATTACCAA
* * ***
24479367 AATACCCTTGATTTGAAAAATTATGGA
1 AATACCCCTGATTTGTAAAATTACCAA
* **
24479394 AATACCCCTGTTTTACAAAATTA-CAGA
1 AATACCCCTGATTTGTAAAATTACCA-A
24479421 AATACCC
1 AATACCC
24479428 TTAAGTTTTA
Statistics
Matches: 241, Mismatches: 56, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
26 10 0.04
27 221 0.92
28 10 0.04
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
AATACCCCTGATTTGTAAAATTACCAA
Found at i:24479396 original size:108 final size:108
Alignment explanation
Indices: 24479108--24479400 Score: 374
Period size: 108 Copynumber: 2.7 Consensus size: 108
24479098 ATACCCCTGG
* *
24479108 TTTGTAAAATTACCAAAATACCCCTAATTTATGAAATTACTGAAATACCCTCAACCT-ATAAAAT
1 TTTGTAAAATTACCAAAATACCCCTAATTTATGAAATTACCGAAATACCCTCGACCTGA-AAAAT
* * * *
24479172 TACCGAAATACCCTCGACTTGTAAGATTATCAAAATACCCTCGA
65 TATCGAAATACCCTCGACTCGGAAAATTATCAAAATACCCTCGA
* * * *
24479216 TTTGTAAAATTACCAAAATACCCCTGATTTATGAAATTATCGAAATACCCTCGACCTGTAAAGTT
1 TTTGTAAAATTACCAAAATACCCCTAATTTATGAAATTACCGAAATACCCTCGACCTGAAAAATT
* * *
24479281 ATCGAAATACCCTTGACTCGGAAAATTATCGAAATACTCTCGA
66 ATCGAAATACCCTCGACTCGGAAAATTATCAAAATACCCTCGA
* * * * **
24479324 TTTGTAAAATTAGCAAAATACCCCTAATTT-GGAAAATTACCAAAATACCCTTGATTTGAAAAAT
1 TTTGTAAAATTACCAAAATACCCCTAATTTATG-AAATTACCGAAATACCCTCGACCTGAAAAAT
*
24479388 TATGGAAATACCC
65 TATCGAAATACCC
24479401 CTGTTTTACA
Statistics
Matches: 159, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
107 1 0.01
108 158 0.99
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (108 bp):
TTTGTAAAATTACCAAAATACCCCTAATTTATGAAATTACCGAAATACCCTCGACCTGAAAAATT
ATCGAAATACCCTCGACTCGGAAAATTATCAAAATACCCTCGA
Found at i:24479414 original size:81 final size:82
Alignment explanation
Indices: 24479284--24479454 Score: 188
Period size: 81 Copynumber: 2.1 Consensus size: 82
24479274 TAAAGTTATC
* * **
24479284 GAAATACCCTTGACTCGGAAAATTATCGAAATACTCTCGATTTGTAAAATTAGCA-AAATACCCC
1 GAAATACCCTTGACTCGAAAAATTATCGAAATACCCTCGATTTACAAAATTA-CAGAAATACCCC
*
24479348 TAA-TTTGGAAAATTACCA
65 TAAGTTTGAAAAATTA-CA
* * * * *
24479366 -AAATACCCTTGATTTGAAAAATTATGGAAATACCC-CTGTTTTACAAAATTACAGAAATACCCT
1 GAAATACCCTTGACTCGAAAAATTATCGAAATACCCTC-GATTTACAAAATTACAGAAATACCCC
*
24479429 TAAGTTTTAAAAATTACA
65 TAAGTTTGAAAAATTACA
24479447 GAAATACC
1 GAAATACC
24479455 ATTGGTCTGT
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
80 3 0.04
81 54 0.73
82 17 0.23
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (82 bp):
GAAATACCCTTGACTCGAAAAATTATCGAAATACCCTCGATTTACAAAATTACAGAAATACCCCT
AAGTTTGAAAAATTACA
Found at i:24479429 original size:54 final size:54
Alignment explanation
Indices: 24479108--24479454 Score: 267
Period size: 54 Copynumber: 6.4 Consensus size: 54
24479098 ATACCCCTGG
* * *
24479108 TTTGTAAAATTACCAAAATACCCCTAATTTATG-AAATTA-CTGAAATACCCTCAA
1 TTTGTAAAATTACCGAAATACCCCTGATTTA-GAAAATTATC-GAAATACCCTCGA
** * * * *
24479162 CCTATAAAATTACCGAAATA-CCCTCGACTT-GTAAGATTATCAAAATACCCTCGA
1 TTTGTAAAATTACCGAAATACCCCT-GATTTAG-AAAATTATCGAAATACCCTCGA
*
24479216 TTTGTAAAATTACCAAAATACCCCTGATTTATG-AAATTATCGAAATACCCTCGA
1 TTTGTAAAATTACCGAAATACCCCTGATTTA-GAAAATTATCGAAATACCCTCGA
** * * * * ** *
24479270 CCTGTAAAGTTATCGAAATACCCTTGACTCGGAAAATTATCGAAATACTCTCGA
1 TTTGTAAAATTACCGAAATACCCCTGATTTAGAAAATTATCGAAATACCCTCGA
* * * * * * *
24479324 TTTGTAAAATTAGCAAAATACCCCTAATTTGGAAAATTACCAAAATACCCTTGA
1 TTTGTAAAATTACCGAAATACCCCTGATTTAGAAAATTATCGAAATACCCTCGA
* ** * * **
24479378 TTTGAAAAATTATGGAAATACCCCTGTTTTACAAAATTA-CAGAAATACCCTTAA
1 TTTGTAAAATTACCGAAATACCCCTGATTTAGAAAATTATC-GAAATACCCTCGA
*
24479432 GTTT-TAAAAATTACAGAAATACC
1 -TTTGT-AAAATTACCGAAATACC
24479455 ATTGGTCTGT
Statistics
Matches: 230, Mismatches: 52, Indels: 21
0.76 0.17 0.07
Matches are distributed among these distances:
52 1 0.00
53 6 0.03
54 199 0.87
55 23 0.10
56 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.30
Consensus pattern (54 bp):
TTTGTAAAATTACCGAAATACCCCTGATTTAGAAAATTATCGAAATACCCTCGA
Found at i:24479440 original size:27 final size:27
Alignment explanation
Indices: 24479062--24479454 Score: 143
Period size: 27 Copynumber: 14.6 Consensus size: 27
24479052 TATAGGATAG
* ** *
24479062 AATTACTGAAATACCCCT-ATAAGGTAG
1 AATTACAGAAATACCCCTAAT-TTGTAA
* **
24479089 AATTACTG-AATACCCCTGGTTTGTAA
1 AATTACAGAAATACCCCTAATTTGTAA
* *
24479115 AATTACCA-AAATACCCCTAATTTATGA
1 AATTA-CAGAAATACCCCTAATTTGTAA
* ** *
24479142 AATTACTGAAATA-CCCTCAACCTATAA
1 AATTACAGAAATACCCCT-AATTTGTAA
* * *
24479169 AATTACCGAAATA-CCCTCGACTTGTAA
1 AATTACAGAAATACCCCT-AATTTGTAA
* *
24479196 GATTATCA-AAATA-CCCTCGATTTGTAA
1 AATTA-CAGAAATACCCCT-AATTTGTAA
* * *
24479223 AATTACCA-AAATACCCCTGATTTATGA
1 AATTA-CAGAAATACCCCTAATTTGTAA
* **
24479250 AATTATC-GAAATA-CCCTCGACCTGTAA
1 AATTA-CAGAAATACCCCT-AATTTGTAA
* * * * * *
24479277 AGTTATC-GAAATACCCTTGACTCGGAA
1 AATTA-CAGAAATACCCCTAATTTGTAA
* *
24479304 AATTATC-GAAATA-CTCTCGATTTGTAA
1 AATTA-CAGAAATACCCCT-AATTTGTAA
*
24479331 AATTAGCA-AAATACCCCTAATTTGGAA
1 AATTA-CAGAAATACCCCTAATTTGTAA
* * *
24479358 AATTACCA-AAATACCCTTGATTTGAAA
1 AATTA-CAGAAATACCCCTAATTTGTAA
** ** **
24479385 AATTATGGAAATACCCCTGTTTTACAA
1 AATTACAGAAATACCCCTAATTTGTAA
*
24479412 AATTACAGAAATACCCTTAAGTTT-TAAA
1 AATTACAGAAATACCCCTAA-TTTGT-AA
24479440 AATTACAGAAATACC
1 AATTACAGAAATACC
24479455 ATTGGTCTGT
Statistics
Matches: 290, Mismatches: 60, Indels: 31
0.76 0.16 0.08
Matches are distributed among these distances:
26 28 0.10
27 231 0.80
28 31 0.11
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.29
Consensus pattern (27 bp):
AATTACAGAAATACCCCTAATTTGTAA
Found at i:24479789 original size:41 final size:40
Alignment explanation
Indices: 24479744--24479862 Score: 157
Period size: 41 Copynumber: 2.9 Consensus size: 40
24479734 AGAGGAAGAA
*
24479744 ATTGAGGATCGCATGGTTGTTTGACGATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGA-CGTGGATCCACCG
* *
24479785 ATTGAGGATCACATGGTTGCTTGAGGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGA-CGTGGATCCACCG
* * *
24479826 ATTAAGGATTGCATGGTTACTTGACGACTGTGGATCC
1 ATTGAGGATCGCATGGTTGCTTGACGAC-GTGGATCC
24479863 GCTGGTGGCT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 1 0.01
41 67 0.99
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (40 bp):
ATTGAGGATCGCATGGTTGCTTGACGACGTGGATCCACCG
Found at i:24480059 original size:22 final size:22
Alignment explanation
Indices: 24480007--24480068 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
24479997 TACAATTATT
* * *
24480007 CTTATTATGACTTTGTGCCGAC
1 CTTATTATGGCTCTGTGCCAAC
*
24480029 C-TACATATGGCTCTGTGCCAAC
1 CTTA-TTATGGCTCTGTGCCAAC
*
24480051 CTTATTATGGTTCTGTGC
1 CTTATTATGGCTCTGTGC
24480069 TAAAAGTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
21 2 0.06
22 28 0.88
23 2 0.06
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (22 bp):
CTTATTATGGCTCTGTGCCAAC
Found at i:24480299 original size:22 final size:22
Alignment explanation
Indices: 24480274--24480320 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
24480264 GTTGCTGCAA
**
24480274 TGTTTACAGCTATGTGTTGTCC
1 TGTTTACAGCTATGTGCCGTCC
*
24480296 TGTTTACGGCTATGTGCCGTCC
1 TGTTTACAGCTATGTGCCGTCC
24480318 TGT
1 TGT
24480321 CTACGGCGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.11, C:0.21, G:0.26, T:0.43
Consensus pattern (22 bp):
TGTTTACAGCTATGTGCCGTCC
Found at i:24480325 original size:22 final size:22
Alignment explanation
Indices: 24480282--24480327 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
24480272 AATGTTTACA
** *
24480282 GCTATGTGTTGTCCTGTTTACG
1 GCTATGTGCCGTCCTGTCTACG
24480304 GCTATGTGCCGTCCTGTCTACG
1 GCTATGTGCCGTCCTGTCTACG
24480326 GC
1 GC
24480328 GTTGAGCTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.26, G:0.28, T:0.37
Consensus pattern (22 bp):
GCTATGTGCCGTCCTGTCTACG
Found at i:24480339 original size:22 final size:22
Alignment explanation
Indices: 24480282--24480342 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
24480272 AATGTTTACA
* * *
24480282 GCTATGTGTTGTCCTGTTTACG
1 GCTATGAGCTGTCCTGTCTACG
* *
24480304 GCTATGTGCCGTCCTGTCTACG
1 GCTATGAGCTGTCCTGTCTACG
24480326 GCGT-TGAGCTGTCCTGT
1 GC-TATGAGCTGTCCTGT
24480343 TGACTTAGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.08, C:0.25, G:0.30, T:0.38
Consensus pattern (22 bp):
GCTATGAGCTGTCCTGTCTACG
Found at i:24482562 original size:27 final size:26
Alignment explanation
Indices: 24482530--24482631 Score: 118
Period size: 27 Copynumber: 3.8 Consensus size: 26
24482520 AATCTCATAT
*
24482530 CTGTAGGCTAGTATTACTGAAAT-ACC
1 CTGTAGG-TAGAATTACTGAAATCACC
24482556 CTAGTAGGGTAGAATTACTGAAATGC-CC
1 CT-GTA-GGTAGAATTACTGAAAT-CACC
*
24482584 CTGTAGGATAGAATTACTGAAATCCCC
1 CTGTAGG-TAGAATTACTGAAATCACC
24482611 CTGTAAGGTAGAATTACTGAA
1 CTGT-AGGTAGAATTACTGAA
24482632 TACCTCTGGT
Statistics
Matches: 68, Mismatches: 1, Indels: 13
0.83 0.01 0.16
Matches are distributed among these distances:
26 5 0.07
27 54 0.79
28 9 0.13
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (26 bp):
CTGTAGGTAGAATTACTGAAATCACC
Found at i:24482662 original size:27 final size:26
Alignment explanation
Indices: 24482630--24483044 Score: 187
Period size: 27 Copynumber: 15.3 Consensus size: 26
24482620 AGAATTACTG
*
24482630 AATACCTCTGGTTTGTAAAATTACCAA
1 AATACC-CTGATTTGTAAAATTACCAA
* *
24482657 AATACCACCCTTGATTTGTGAAATTACCGA
1 AAT---ACCC-TGATTTGTAAAATTACCAA
* ** * *
24482687 AATACCCTCTACCTATAAAATTACCGA
1 AATACCCT-GATTTGTAAAATTACCAA
* * * *
24482714 AATACCCTCGACTTGTAAGATTATCGA
1 AATACCCT-GATTTGTAAAATTACCAA
* *
24482741 AGTACCCTAGATTTGTAAAA-CACCAA
1 AATACCCT-GATTTGTAAAATTACCAA
* * *
24482767 AATACCACTAATTTGTGAAATTA-TAGA
1 AATACC-CTGATTTGTAAAATTACCA-A
** * *
24482794 AATACCCTTGACATGTAAAATTATCGA
1 AATACCC-TGATTTGTAAAATTACCAA
* * *
24482821 AATATCCTCGACTTGTAAAATAACCAA
1 AATACCCT-GATTTGTAAAATTACCAA
*
24482848 AATACCCTCAATTTGTAAAATTACCAA
1 AATACCCT-GATTTGTAAAATTACCAA
* * *
24482875 AATACCCATGATTTGGAAAATTATCGA
1 AATACCC-TGATTTGTAAAATTACCAA
* *
24482902 AATACCCTTAATTTGGAAAATTA-CAGA
1 AATACCC-TGATTTGTAAAATTACCA-A
*
24482929 AATACCCCT-AATT-TACAAATTA-CAGA
1 AATA-CCCTGATTTGTA-AAATTACCA-A
* **
24482955 AATACCCTTAACTTTCAAAAATTA-CAGA
1 AATACCC-TGA-TTTGTAAAATTACCA-A
* * * *
24482983 AATACCATTGGTTTGTAAAATCACCGA
1 AATACC-CTGATTTGTAAAATTACCAA
* * *
24483010 AATACCCTTGGTTTGTAGATTTACCAA
1 AATACCC-TGATTTGTAAAATTACCAA
*
24483037 AACACCCT
1 AATACCCT
24483045 TGTAGGGTGA
Statistics
Matches: 302, Mismatches: 64, Indels: 45
0.73 0.16 0.11
Matches are distributed among these distances:
25 4 0.01
26 41 0.14
27 209 0.69
28 24 0.08
29 2 0.01
30 22 0.07
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (26 bp):
AATACCCTGATTTGTAAAATTACCAA
Found at i:24482760 original size:54 final size:52
Alignment explanation
Indices: 24482641--24483017 Score: 213
Period size: 54 Copynumber: 7.0 Consensus size: 52
24482631 ATACCTCTGG
* * * * *
24482641 TTTGTAAAATTACCAAAATACCACCCTTGATTTGTGAAATTACCGAAATACCCTCTA
1 TTTGTAAAATTACCGAAAT---ACCC-TGACTTGTAAAATTATCGAAATACCCT-AA
** * * *
24482698 CCTATAAAATTACCGAAATACCCTCGACTTGTAAGATTATCGAAGTACCCTAGA
1 TTTGTAAAATTACCGAAATACCCT-GACTTGTAAAATTATCGAAATACCCTA-A
* * * * * * *
24482752 TTTGTAAAA-CACCAAAATACCACTAATTTGTGAAATTATAGAAATACCCTTGA
1 TTTGTAAAATTACCGAAATACC-CTGACTTGTAAAATTATCGAAATACCC-TAA
** * * * * *
24482805 CATGTAAAATTATCGAAATATCCTCGACTTGTAAAATAACCAAAATACCCTCAA
1 TTTGTAAAATTACCGAAATACCCT-GACTTGTAAAATTATCGAAATACCCT-AA
* * *
24482859 TTTGTAAAATTACCAAAATACCCATGATTTGGAAAATTATCGAAATACCCTTAA
1 TTTGTAAAATTACCGAAATACCC-TGACTTGTAAAATTATCGAAATACCC-TAA
* * *
24482913 TTTGGAAAATTACAGAAATACCCCT-AATT-TACAAATTA-CAGAAATACCCTTAA
1 TTTGTAAAATTACCGAAATA-CCCTGACTTGTA-AAATTATC-GAAATACCC-TAA
** * * ** * *
24482966 CTTTCAAAAATTACAGAAATACCATTGGTTTGTAAAATCACCGAAATACCCT
1 -TTTGTAAAATTACCGAAATACC-CTGACTTGTAAAATTATCGAAATACCCT
24483018 TGGTTTGTAG
Statistics
Matches: 246, Mismatches: 57, Indels: 37
0.72 0.17 0.11
Matches are distributed among these distances:
52 2 0.01
53 65 0.26
54 140 0.57
55 21 0.09
56 3 0.01
57 15 0.06
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.29
Consensus pattern (52 bp):
TTTGTAAAATTACCGAAATACCCTGACTTGTAAAATTATCGAAATACCCTAA
Found at i:24482881 original size:81 final size:80
Alignment explanation
Indices: 24482702--24482909 Score: 249
Period size: 81 Copynumber: 2.6 Consensus size: 80
24482692 CCTCTACCTA
* * * * * *
24482702 TAAAATTACCGAAATACCCTCGACTTGTAAGATTATCGAAGTACCCTAGATTTGTAAAACACCAA
1 TAAAATTACCAAAATACCCTTGACTTGTAAAATTATCGAAATACCCTAGACTTGTAAAAAACCAA
24482767 AATACCACTAATTTG
66 AATACCACTAATTTG
* * * * *
24482782 TGAAATTA-TAGAAATACCCTTGACATGTAAAATTATCGAAATATCCTCGACTTGTAAAATAACC
1 TAAAATTACCA-AAATACCCTTGACTTGTAAAATTATCGAAATACCCTAGACTTGTAAAA-AACC
24482846 AAAATACC-CTCAATTTG
64 AAAATACCACT-AATTTG
* * *
24482863 TAAAATTACCAAAATACCCATGATTTGGAAAATTATCGAAATACCCT
1 TAAAATTACCAAAATACCCTTGACTTGTAAAATTATCGAAATACCCT
24482910 TAATTTGGAA
Statistics
Matches: 106, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
80 50 0.47
81 55 0.52
82 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (80 bp):
TAAAATTACCAAAATACCCTTGACTTGTAAAATTATCGAAATACCCTAGACTTGTAAAAAACCAA
AATACCACTAATTTG
Found at i:24482922 original size:81 final size:79
Alignment explanation
Indices: 24482702--24483044 Score: 245
Period size: 81 Copynumber: 4.3 Consensus size: 79
24482692 CCTCTACCTA
* * * *
24482702 TAAAATTACCGAAATACCCTCGACTTGTAAGATTATCGAAGTACCC-TAGATTTGTAAAA-CACC
1 TAAAATTACCAAAATACCCT-GACTTGTAAAATTATCGAAATACCCTTA-ATTTGTAAAATAACC
24482765 AAAATACCACTAATTTG
64 AAAATACC-CTAATTTG
* * * * ** *
24482782 TGAAATTA-TAGAAATACCCTTGACATGTAAAATTATCGAAATATCCTCGACTTGTAAAATAACC
1 TAAAATTACCA-AAATACCC-TGACTTGTAAAATTATCGAAATACCCTTAATTTGTAAAATAACC
24482846 AAAATACCCTCAATTTG
64 AAAATACCCT-AATTTG
* * * *
24482863 TAAAATTACCAAAATACCCATGATTTGGAAAATTATCGAAATACCCTTAATTTGGAAAATTA-CA
1 TAAAATTACCAAAATACCC-TGACTTGTAAAATTATCGAAATACCCTTAATTTGTAAAATAACCA
24482927 GAAATACCCCTAA-TT-
65 -AAATA-CCCTAATTTG
* * **
24482942 TACAAATTA-CAGAAATACCCTTAACTT-TCAAAAATTA-CAGAAATACCATTGGTTTGTAAAAT
1 TA-AAATTACCA-AAATACCC-TGACTTGT--AAAATTATC-GAAATACCCTTAATTTGTAAAAT
* * **
24483004 CACCGAAATACCCTTGGTTTG
60 AACCAAAATACCC-TAATTTG
* * *
24483025 TAGATTTACCAAAACACCCT
1 TAAAATTACCAAAATACCCT
24483045 TGTAGGGTGA
Statistics
Matches: 207, Mismatches: 38, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
79 4 0.02
80 73 0.35
81 107 0.52
82 19 0.09
83 4 0.02
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (79 bp):
TAAAATTACCAAAATACCCTGACTTGTAAAATTATCGAAATACCCTTAATTTGTAAAATAACCAA
AATACCCTAATTTG
Found at i:24483329 original size:41 final size:41
Alignment explanation
Indices: 24483284--24483402 Score: 166
Period size: 41 Copynumber: 2.9 Consensus size: 41
24483274 AGAGGAAGAA
* * * *
24483284 ATTGAGGATCACATGGTTGTTTGACGATCGTGGATCCACTG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* *
24483325 ATTGAGGATCGCATGGTTGCTTGAGGACCGTGGATCTACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* *
24483366 ATTAAGGATTGCATGGTTGCTTGACGACCGTGGATCC
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCC
24483403 GCTGGTGGCT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.29
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:24483589 original size:22 final size:22
Alignment explanation
Indices: 24483564--24483612 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
24483554 ATGACTTTGC
24483564 GCCAACCT-ACATATGGCTCTGT
1 GCCAACCTGA-ATATGGCTCTGT
* *
24483586 GCCAACCTGATTATGGCTGTGT
1 GCCAACCTGAATATGGCTCTGT
24483608 GCCAA
1 GCCAA
24483613 AAGTATTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (22 bp):
GCCAACCTGAATATGGCTCTGT
Found at i:24483859 original size:22 final size:22
Alignment explanation
Indices: 24483815--24483868 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
24483805 GTTGCTGCGA
* *
24483815 TGTTTATGGCTATGTGTTGTCC
1 TGTTTATGGCTATGTGCTATCC
24483837 TGTTTATGGCTATGTGCTATCC
1 TGTTTATGGCTATGTGCTATCC
* *
24483859 TATCTATGGC
1 TGTTTATGGC
24483869 GTTGAGCCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.13, C:0.17, G:0.24, T:0.46
Consensus pattern (22 bp):
TGTTTATGGCTATGTGCTATCC
Found at i:24483989 original size:41 final size:41
Alignment explanation
Indices: 24483944--24484025 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
24483934 CGATTTTATC
*
24483944 CCTACATGGTGTGCTGGTTGGTACGGGTC-GTGTGTTGGTTG
1 CCTACACGGTGTGCTGGTTGGTACGGG-CGGTGTGTTGGTTG
* *
24483985 CCTACACGTTGTGTTGGTTGGTACGGGCGGTGTGTTGGTTG
1 CCTACACGGTGTGCTGGTTGGTACGGGCGGTGTGTTGGTTG
24484026 GACTGGGCTG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 1 0.03
41 36 0.97
ACGTcount: A:0.07, C:0.15, G:0.41, T:0.37
Consensus pattern (41 bp):
CCTACACGGTGTGCTGGTTGGTACGGGCGGTGTGTTGGTTG
Found at i:24484033 original size:21 final size:21
Alignment explanation
Indices: 24483951--24484026 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
24483941 ATCCCTACAT
*
24483951 GGTGTGCTGGTTGGTACGGGTC
1 GGTGTGTTGGTTGGTACGGG-C
* *
24483973 -GTGTGTTGGTTGCCTAC--AC
1 GGTGTGTTGGTTG-GTACGGGC
*
24483992 GTTGTGTTGGTTGGTACGGGC
1 GGTGTGTTGGTTGGTACGGGC
24484013 GGTGTGTTGGTTGG
1 GGTGTGTTGGTTGG
24484027 ACTGGGCTGG
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
19 4 0.09
20 11 0.26
21 25 0.58
22 3 0.07
ACGTcount: A:0.05, C:0.12, G:0.46, T:0.37
Consensus pattern (21 bp):
GGTGTGTTGGTTGGTACGGGC
Found at i:24485691 original size:13 final size:13
Alignment explanation
Indices: 24485673--24485701 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
24485663 AAATGTTATC
24485673 TATTAAAACATTA
1 TATTAAAACATTA
24485686 TATTAAAACATTA
1 TATTAAAACATTA
24485699 TAT
1 TAT
24485702 AAGGTAGCTC
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:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (13 bp):
TATTAAAACATTA
Found at i:24489558 original size:18 final size:18
Alignment explanation
Indices: 24489526--24489560 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24489516 GCCGTGGACA
*
24489526 ATATTTTTCACATATTTT
1 ATATTTTTCAAATATTTT
*
24489544 ATATTTTTTAAATATTT
1 ATATTTTTCAAATATTT
24489561 AGTTGAGCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (18 bp):
ATATTTTTCAAATATTTT
Found at i:24494436 original size:13 final size:12
Alignment explanation
Indices: 24494413--24494465 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 12
24494403 CACCGTCCCC
24494413 CCTTCTTTCTTTT
1 CCTT-TTTCTTTT
24494426 CCATTTTTCTTTT
1 CC-TTTTTCTTTT
24494439 CCTTTATTCTTTT
1 CCTTT-TTCTTTT
*
24494452 TCTTTTTCCTTTT
1 CCTTTTT-CTTTT
24494465 C
1 C
24494466 TGTACTTTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 5 0.14
13 28 0.80
14 2 0.06
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (12 bp):
CCTTTTTCTTTT
Found at i:24494450 original size:7 final size:6
Alignment explanation
Indices: 24494418--24494466 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
24494408 TCCCCCCTTC
* * *
24494418 TTTCTT TTCCATT TTTCTT TTCCTT TATTCTT TTTCTT TTTCCT TTTCT
1 TTTCTT TTTC-TT TTTCTT TTTCTT T-TTCTT TTTCTT TTTCTT TTTCT
24494467 GTACTTTGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 25 0.71
7 10 0.29
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTCTT
Found at i:24502556 original size:23 final size:23
Alignment explanation
Indices: 24502500--24502549 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
24502490 TAGGCCATGT
24502500 GGCCACATGGGCAAGACAATTTG
1 GGCCACATGGGCAAGACAATTTG
*
24502523 GGCCACATGGGTAAGACAATTTG
1 GGCCACATGGGCAAGACAATTTG
24502546 GGCC
1 GGCC
24502550 GTGTGGGCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.28, C:0.22, G:0.32, T:0.18
Consensus pattern (23 bp):
GGCCACATGGGCAAGACAATTTG
Found at i:24502557 original size:32 final size:32
Alignment explanation
Indices: 24502521--24502586 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
24502511 CAAGACAATT
* *
24502521 TGGGCCACATGGGTAAGACAATTTGGGCCGTG
1 TGGGCCACACGGGTAAGACAATTTAGGCCGTG
* *
24502553 TGGGCCACACGGGTAAGGCAATTTAGGCTGTG
1 TGGGCCACACGGGTAAGACAATTTAGGCCGTG
24502585 TG
1 TG
24502587 AGCCCAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.21, C:0.18, G:0.38, T:0.23
Consensus pattern (32 bp):
TGGGCCACACGGGTAAGACAATTTAGGCCGTG
Found at i:24504469 original size:117 final size:116
Alignment explanation
Indices: 24504246--24504461 Score: 371
Period size: 117 Copynumber: 1.9 Consensus size: 116
24504236 GGATACACGA
24504246 ATAATTTGCACATAAGTGCCTCATATGTAATCAAGAAATCATGTAACCCGCCCCTAAGTGAACTC
1 ATAATTTGCACATAAGTGCCTCATATGTAATCAAGAAATCATGTAACCCGCCCCTAAGTGAACTC
* * *
24504311 GGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTC
66 GGACTCAACTCAACGAGCTCGGACGCTCG-AACCATAAGTGAACTCGGACTC
24504363 ATAATTTGCACATAAGTGCCTCATATGTAATCAAGAAATCATGTAACCCGCCCCTAAGTGAACTC
1 ATAATTTGCACATAAGTGCCTCATATGTAATCAAGAAATCATGTAACCCGCCCCTAAGTGAACTC
* *
24504428 GGACTCAACTCAACGAGTTCGGATGCTC-AACCAT
66 GGACTCAACTCAACGAGCTCGGACGCTCGAACCAT
24504462 CCTAGTGACA
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
115 5 0.05
117 89 0.95
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (116 bp):
ATAATTTGCACATAAGTGCCTCATATGTAATCAAGAAATCATGTAACCCGCCCCTAAGTGAACTC
GGACTCAACTCAACGAGCTCGGACGCTCGAACCATAAGTGAACTCGGACTC
Found at i:24504906 original size:29 final size:30
Alignment explanation
Indices: 24504873--24504931 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
24504863 ATTTAATACG
24504873 AACTTTGGAAAAATTACAATTTT-CCCCTA
1 AACTTTGGAAAAATTACAATTTTGCCCCTA
* * * *
24504902 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACAATTTTGCCCCTA
24504932 GGCTCCAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACAATTTTGCCCCTA
Found at i:24510381 original size:40 final size:40
Alignment explanation
Indices: 24510344--24510528 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
24510334 GCTACTCGTT
*
24510344 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
24510384 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTGGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
24510424 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
24510463 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
24510504 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24510529 CATCATTCGA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 77 0.64
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:24510444 original size:79 final size:80
Alignment explanation
Indices: 24510346--24510528 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 80
24510336 TACTCGTTCA
* * *
24510346 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTC-GGATCTTAACCCGG
* *
24510409 ATTTAGTAAC-TGGCACC
64 ATATAGTAACTTAGCA-C
* **
24510426 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGAT
* *
24510490 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
24510505 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
24510529 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:24511723 original size:56 final size:56
Alignment explanation
Indices: 24511656--24511775 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
24511646 TATTAGTTTA
24511656 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
24511712 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
24511768 TTGCCCAT
1 TTGCCCAT
24511776 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:24515875 original size:46 final size:46
Alignment explanation
Indices: 24514967--24515866 Score: 1571
Period size: 46 Copynumber: 19.5 Consensus size: 46
24514957 AACCCGCCCC
24514967 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
24515013 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
24515059 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
24515105 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
24515151 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
24515197 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
24515243 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
24515289 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
24515335 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
24515381 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
24515427 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
24515473 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
24515519 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
24515565 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
24515611 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
* * * ** *
24515657 TAAGTGAACTCGGACTCAACTCAACGAGCTCGA-TGTAACCCGCCCC
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGT-TCGCATCCA
24515703 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
* *
24515749 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATCTCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTC-GA-G-C--GTTCGCATC-CA
* * * *
24515800 -CA---AACTCGGACTCAACTCAACGAGTTCG-GACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAG-CGTTCGCATCCA
24515842 TAAGTGAACTCGGACTCAACTCAAC
1 TAAGTGAACTCGGACTCAACTCAAC
24515867 AAGTTCGGAT
Statistics
Matches: 822, Mismatches: 19, Indels: 26
0.95 0.02 0.03
Matches are distributed among these distances:
42 4 0.00
43 5 0.01
44 2 0.00
45 2 0.00
46 768 0.93
47 29 0.04
48 1 0.00
49 1 0.00
50 5 0.01
51 5 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
Found at i:24516332 original size:30 final size:30
Alignment explanation
Indices: 24516298--24516357 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
24516288 ATTTAATACG
*
24516298 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
* * *
24516328 AACTTTTGCATAATTACACTTTTACCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
24516358 GGCTCGGGAA
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:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTACCCCTA
Found at i:24526848 original size:42 final size:43
Alignment explanation
Indices: 24526740--24526852 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
24526730 AGCTCGTACA
* * * *
24526740 ATGCTAACGTCCCAGATGTGGTCTTATATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATCG
*
24526783 ATGCC-ACTGTCCCAAACAG-GGTCTTACATGAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATCAAATATCG
*
24526825 ATGCCAACGTCCTAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
24526853 CATAAAACAT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.02
42 25 0.42
43 32 0.54
44 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATCG
Found at i:24539542 original size:23 final size:23
Alignment explanation
Indices: 24539512--24539556 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
24539502 GTGCTTTACA
24539512 CGGCTTTAGACACGACCGTGTGG
1 CGGCTTTAGACACGACCGTGTGG
*
24539535 CGGCTTTAGACACTACCGTGTG
1 CGGCTTTAGACACGACCGTGTG
24539557 TCTAGGCCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.18, C:0.27, G:0.31, T:0.24
Consensus pattern (23 bp):
CGGCTTTAGACACGACCGTGTGG
Found at i:24543914 original size:8 final size:8
Alignment explanation
Indices: 24543901--24543932 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
24543891 CTAGATCGGC
24543901 AAAAGCCG
1 AAAAGCCG
24543909 AAAAGCCG
1 AAAAGCCG
*
24543917 AAATGCCG
1 AAAAGCCG
24543925 AAAAGCCG
1 AAAAGCCG
24543933 GTATTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:24544218 original size:28 final size:28
Alignment explanation
Indices: 24544178--24544242 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
24544168 ATGTACTATT
*
24544178 ATACCCCTATGTATGCAAAATTACCATA
1 ATACCCCTATGTATGCAAAATGACCATA
* *
24544206 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATA
24544234 ATACCCCTA
1 ATACCCCTA
24544243 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:0.35, C:0.28, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATA
Found at i:24544406 original size:27 final size:27
Alignment explanation
Indices: 24544348--24544437 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
24544338 AGGAAGCGTC
24544348 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
24544376 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
*
24544403 CTGGTGGCACTGCCAGAAAATATCTGTAT
1 CTGGTGGCACTGCCA-CAAATATCTGT-T
24544432 CTGGTG
1 CTGGTG
24544438 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 22 0.41
28 25 0.46
29 7 0.13
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:24545562 original size:11 final size:10
Alignment explanation
Indices: 24545534--24545567 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
24545524 AGCCTGTAAG
24545534 TATTCTGAAT
1 TATTCTGAAT
*
24545544 TTTTCTGAAT
1 TATTCTGAAT
24545554 ATATTCTGAAT
1 -TATTCTGAAT
24545565 TAT
1 TAT
24545568 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:24551474 original size:304 final size:304
Alignment explanation
Indices: 24550925--24551531 Score: 1169
Period size: 304 Copynumber: 2.0 Consensus size: 304
24550915 AAGGTTATAG
24550925 CCCCACATTGTCATCTCCTTCATCACCCAAAAGCCGAAAAACCATAGATTTGGGGGCTTATAGCC
1 CCCCACATTGTCATCTCCTTCATCACCCAAAAGCCGAAAAACCATAGATTTGGGGGCTTATAGCC
24550990 GAAACTTCAAAACTTTGGGAGTCGAGTTCTACCATCGTTTGAAAGATAAATCTGCATCAGATTGC
66 GAAACTTCAAAACTTTGGGAGTCGAGTTCTACCATCGTTTGAAAGATAAATCTGCATCAGATTGC
24551055 GTGGAGATCAAAAAGGAGTAAGGGGTAAGTGTTCATCATCTCAGATCTGGTCATATTTTACAAAG
131 GTGGAGATCAAAAAGGAGTAAGGGGTAAGTGTTCATCATCTCAGATCTGGTCATATTTTACAAAG
24551120 TTAGGAAAAGCCGAAGTCCCTAAAATCTAGGGAGGCTGTCGATTTGGGCATGTGGCTCTAAGGGT
196 TTAGGAAAAGCCGAAGTCCCTAAAATCTAGGGAGGCTGTCGATTTGGGCATGTGGCTCTAAGGGT
* *
24551185 TTTTAATTGATGTTTTCTTTCAATGATTAGTATCTTCTTAAGTT
261 TTTTAACTGATGTTTTCTGTCAATGATTAGTATCTTCTTAAGTT
* *
24551229 CCCCACATTGTCATCTCCTTTATCACCCAAAAGCTGAAAAACCATAGATTTGGGGGCTTATAGCC
1 CCCCACATTGTCATCTCCTTCATCACCCAAAAGCCGAAAAACCATAGATTTGGGGGCTTATAGCC
24551294 GAAACTTCAAAACTTTGGGAGTCGAGTTCTACCATCGTTTGAAAGATAAATCTGCATCAGATTGC
66 GAAACTTCAAAACTTTGGGAGTCGAGTTCTACCATCGTTTGAAAGATAAATCTGCATCAGATTGC
24551359 GTGGAGATCAAAAAGGAGTAAGGGGTAAGTGTTCATCATCTCAGATCTGGTCATATTTTACAAAG
131 GTGGAGATCAAAAAGGAGTAAGGGGTAAGTGTTCATCATCTCAGATCTGGTCATATTTTACAAAG
24551424 TTAGGAAAAGCCGAAGTCCCTAAAATCTAGGGAGGCTGTCGATTTGGGCATGTGGCTCTAAGGGT
196 TTAGGAAAAGCCGAAGTCCCTAAAATCTAGGGAGGCTGTCGATTTGGGCATGTGGCTCTAAGGGT
*
24551489 TTTTAACTGATGTTTTCTGTCAATGATTAGTGTCTTCTTAAGT
261 TTTTAACTGATGTTTTCTGTCAATGATTAGTATCTTCTTAAGT
24551532 GTTGGATTGA
Statistics
Matches: 298, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
304 298 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (304 bp):
CCCCACATTGTCATCTCCTTCATCACCCAAAAGCCGAAAAACCATAGATTTGGGGGCTTATAGCC
GAAACTTCAAAACTTTGGGAGTCGAGTTCTACCATCGTTTGAAAGATAAATCTGCATCAGATTGC
GTGGAGATCAAAAAGGAGTAAGGGGTAAGTGTTCATCATCTCAGATCTGGTCATATTTTACAAAG
TTAGGAAAAGCCGAAGTCCCTAAAATCTAGGGAGGCTGTCGATTTGGGCATGTGGCTCTAAGGGT
TTTTAACTGATGTTTTCTGTCAATGATTAGTATCTTCTTAAGTT
Found at i:24553977 original size:28 final size:28
Alignment explanation
Indices: 24553789--24553964 Score: 352
Period size: 28 Copynumber: 6.3 Consensus size: 28
24553779 CCCTAATGCT
24553789 TGCAAAATTACCATAATACCCCTATGTA
1 TGCAAAATTACCATAATACCCCTATGTA
24553817 TGCAAAATTACCATAATACCCCTATGTA
1 TGCAAAATTACCATAATACCCCTATGTA
24553845 TGCAAAATTACCATAATACCCCTATGTA
1 TGCAAAATTACCATAATACCCCTATGTA
24553873 TGCAAAATTACCATAATACCCCTATGTA
1 TGCAAAATTACCATAATACCCCTATGTA
24553901 TGCAAAATTACCATAATACCCCTATGTA
1 TGCAAAATTACCATAATACCCCTATGTA
24553929 TGCAAAATTACCATAATACCCCTATGTA
1 TGCAAAATTACCATAATACCCCTATGTA
24553957 TGCAAAAT
1 TGCAAAAT
24553965 GACCTTTATA
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 148 1.00
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.28
Consensus pattern (28 bp):
TGCAAAATTACCATAATACCCCTATGTA
Found at i:24554146 original size:27 final size:27
Alignment explanation
Indices: 24554086--24554175 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 27
24554076 AGGAAGCGTC
24554086 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* * * *
24554114 CCGGTGGCCCTGCCACATATATCTATT
1 CTGGTGGCACTGCCACAAATATCTGTT
24554141 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
24554170 CTGGTG
1 CTGGTG
24554176 ACTCTGTCAC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 21 0.41
28 23 0.45
29 7 0.14
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.31
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:24554186 original size:29 final size:28
Alignment explanation
Indices: 24554096--24554186 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 28
24554086 CTGGTGGCTA
* * * * *
24554096 TGCCACAAATTATCTGTTCCGGTGGCCC
1 TGCCACAAAATATCTATTCTGGTGACAC
* *
24554124 TGCCAC-ATATATCTATTCTGGTGGCAC
1 TGCCACAAAATATCTATTCTGGTGACAC
* *
24554151 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTAT-TCTGGTGACAC
*
24554180 TGTCACA
1 TGCCACA
24554187 TTCTCTGTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
27 22 0.43
28 14 0.27
29 15 0.29
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTATTCTGGTGACAC
Found at i:24555341 original size:11 final size:10
Alignment explanation
Indices: 24555313--24555346 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
24555303 AGCCTGTAAG
24555313 TATTCTGAAT
1 TATTCTGAAT
*
24555323 TTTTCTGAAT
1 TATTCTGAAT
24555333 ATATTCTGAAT
1 -TATTCTGAAT
24555344 TAT
1 TAT
24555347 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:24570081 original size:252 final size:252
Alignment explanation
Indices: 24569636--24570139 Score: 999
Period size: 252 Copynumber: 2.0 Consensus size: 252
24569626 TGGGCCAAAA
*
24569636 CTGGGCCCAATGGGCTTACGGACCAATATGGGTAAGAGATGGGCAAAGTAGCATGTTAGTTAGAT
1 CTGGGCCCAATGGGCTTACAGACCAATATGGGTAAGAGATGGGCAAAGTAGCATGTTAGTTAGAT
24569701 GGTGGAACCAAATTGCATAAAACTGTTAAAAATTACTGAAATGGCTTGTGTAGTTGCGTAAGTAC
66 GGTGGAACCAAATTGCATAAAACTGTTAAAAATTACTGAAATGGCTTGTGTAGTTGCGTAAGTAC
24569766 GAAATTACCCCTAAAGAGCATAATTACTGAAATACCCCTAGGGTTTAAATTGGCTAAACTGCATG
131 GAAATTACCCCTAAAGAGCATAATTACTGAAATACCCCTAGGGTTTAAATTGGCTAAACTGCATG
24569831 ATTGATTAATACTGTATTGTACATGATATGCTTTATTAATATCTGTTGCATGGGATT
196 ATTGATTAATACTGTATTGTACATGATATGCTTTATTAATATCTGTTGCATGGGATT
24569888 CTGGGCCCAATGGGCTTACAGACCAATATGGGTAAGAGATGGGCAAAGTAGCATGTTAGTTAGAT
1 CTGGGCCCAATGGGCTTACAGACCAATATGGGTAAGAGATGGGCAAAGTAGCATGTTAGTTAGAT
24569953 GGTGGAACCAAATTGCATAAAACTGTTAAAAATTACTGAAATGGCTTGTGTAGTTGCGTAAGTAC
66 GGTGGAACCAAATTGCATAAAACTGTTAAAAATTACTGAAATGGCTTGTGTAGTTGCGTAAGTAC
24570018 GAAATTACCCCTAAAGAGCATAATTACTGAAATACCCCTAGGGTTTAAATTGGCTAAACTGCATG
131 GAAATTACCCCTAAAGAGCATAATTACTGAAATACCCCTAGGGTTTAAATTGGCTAAACTGCATG
24570083 ATTGATTAATACTGTATTGTACATGATATGCTTTATTAATATCTGTTGCATGGGATT
196 ATTGATTAATACTGTATTGTACATGATATGCTTTATTAATATCTGTTGCATGGGATT
24570140 GGGGTATTGA
Statistics
Matches: 251, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
252 251 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (252 bp):
CTGGGCCCAATGGGCTTACAGACCAATATGGGTAAGAGATGGGCAAAGTAGCATGTTAGTTAGAT
GGTGGAACCAAATTGCATAAAACTGTTAAAAATTACTGAAATGGCTTGTGTAGTTGCGTAAGTAC
GAAATTACCCCTAAAGAGCATAATTACTGAAATACCCCTAGGGTTTAAATTGGCTAAACTGCATG
ATTGATTAATACTGTATTGTACATGATATGCTTTATTAATATCTGTTGCATGGGATT
Found at i:24572756 original size:28 final size:28
Alignment explanation
Indices: 24572713--24572777 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
24572703 ATGTACTATT
* *
24572713 ATACCCCAATGCATGCAAAATTACCATA
1 ATACCCCTATGCATGCAAAATGACCATA
* * *
24572741 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGCATGCAAAATGACCATA
24572769 ATACCCCTA
1 ATACCCCTA
24572778 GAGTTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.37, C:0.29, G:0.08, T:0.26
Consensus pattern (28 bp):
ATACCCCTATGCATGCAAAATGACCATA
Found at i:24572941 original size:27 final size:27
Alignment explanation
Indices: 24572883--24572972 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
24572873 AGGAAACGTC
24572883 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
24572911 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
24572938 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
24572967 CTGGTG
1 CTGGTG
24572973 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:24572991 original size:55 final size:56
Alignment explanation
Indices: 24572883--24572997 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
24572873 AGGAAACGTC
* *
24572883 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
24572938 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TCTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
24572994 CTGG
1 CTGG
24572998 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:24575482 original size:22 final size:21
Alignment explanation
Indices: 24575451--24575501 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
24575441 ACCTCTTTGA
24575451 ACCATTACCAATTCGTACCAAAT
1 ACCA-TACCAATTCGTACC-AAT
* *
24575474 ACCATACCATTTTGTACCAAT
1 ACCATACCAATTCGTACCAAT
*
24575495 TCCATAC
1 ACCATAC
24575502 TATTTTGAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 9 0.36
22 12 0.48
23 4 0.16
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.29
Consensus pattern (21 bp):
ACCATACCAATTCGTACCAAT
Found at i:24575501 original size:21 final size:21
Alignment explanation
Indices: 24575456--24575518 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
24575446 TTTGAACCAT
* * *
24575456 TACCAATTCGTACCAAATACCA
1 TACCATTTTGTACC-AATTCCA
24575478 TACCATTTTGTACCAATTCCA
1 TACCATTTTGTACCAATTCCA
* *
24575499 TACTATTTTGAACCAATTCC
1 TACCATTTTGTACCAATTCC
24575519 CAAATACCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 24 0.67
22 12 0.33
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (21 bp):
TACCATTTTGTACCAATTCCA
Found at i:24575848 original size:12 final size:12
Alignment explanation
Indices: 24575833--24575866 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
24575823 AAAGAGTTCG
24575833 AAAAAAAATTAA
1 AAAAAAAATTAA
* *
24575845 AAAAAAATTTGA
1 AAAAAAAATTAA
24575857 AAAAAAAATT
1 AAAAAAAATT
24575867 GCATACGGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (12 bp):
AAAAAAAATTAA
Found at i:24575865 original size:13 final size:12
Alignment explanation
Indices: 24575833--24575866 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
24575823 AAAGAGTTCG
24575833 AAAAAAAA-TTA
1 AAAAAAAATTTA
24575844 AAAAAAAATTTGA
1 AAAAAAAATTT-A
24575857 AAAAAAAATT
1 AAAAAAAATT
24575867 GCATACGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.38
12 2 0.10
13 11 0.52
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (12 bp):
AAAAAAAATTTA
Found at i:24578109 original size:19 final size:19
Alignment explanation
Indices: 24578082--24578124 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
24578072 GCGAAAATAC
* *
24578082 AAAAGAAAAGAAAAATGAA
1 AAAAAAAAAGAAAAATCAA
*
24578101 AAAAAAAAAGAAAATTCAA
1 AAAAAAAAAGAAAAATCAA
24578120 AAAAA
1 AAAAA
24578125 GAGAATGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.81, C:0.02, G:0.09, T:0.07
Consensus pattern (19 bp):
AAAAAAAAAGAAAAATCAA
Found at i:24582390 original size:10 final size:10
Alignment explanation
Indices: 24582375--24582436 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
24582365 TTTGAACCAT
*
24582375 TACCAATTCG
1 TACCAATTCA
*
24582385 TACCAAATACCA
1 TACC-AAT-TCA
*
24582397 TACCATTTCA
1 TACCAATTCA
24582407 TACCAATTCCA
1 TACCAATT-CA
* *
24582418 TACCATTTCG
1 TACCAATTCA
24582428 TACCAATTC
1 TACCAATTC
24582437 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:24582420 original size:21 final size:21
Alignment explanation
Indices: 24582375--24582437 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
24582365 TTTGAACCAT
* *
24582375 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
24582397 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
24582418 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
24582438 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:24582981 original size:18 final size:18
Alignment explanation
Indices: 24582960--24582994 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
24582950 AGAAAAGAAA
24582960 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
24582978 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
24582995 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:24589686 original size:13 final size:13
Alignment explanation
Indices: 24589668--24589713 Score: 83
Period size: 13 Copynumber: 3.5 Consensus size: 13
24589658 ACGAGATTGT
24589668 AAAAAAAATTCAA
1 AAAAAAAATTCAA
*
24589681 AAAAAAAATTCGA
1 AAAAAAAATTCAA
24589694 AAAAAAAATTCAA
1 AAAAAAAATTCAA
24589707 AAAAAAA
1 AAAAAAA
24589714 GCAAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.78, C:0.07, G:0.02, T:0.13
Consensus pattern (13 bp):
AAAAAAAATTCAA
Found at i:24589722 original size:26 final size:26
Alignment explanation
Indices: 24589668--24589724 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
24589658 ACGAGATTGT
****
24589668 AAAAAAAATTCAAAAAAAAAATTCGA
1 AAAAAAAATTCAAAAAAAAAACAAAA
*
24589694 AAAAAAAATTCAAAAAAAAAGCAAAA
1 AAAAAAAATTCAAAAAAAAAACAAAA
24589720 AAAAA
1 AAAAA
24589725 GTTTGTATTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.79, C:0.07, G:0.04, T:0.11
Consensus pattern (26 bp):
AAAAAAAATTCAAAAAAAAAACAAAA
Found at i:24589780 original size:20 final size:19
Alignment explanation
Indices: 24589755--24589792 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
24589745 TCCTTTGTGT
*
24589755 ATTCAGTATTGAAAAAAAAA
1 ATTCAGAATT-AAAAAAAAA
24589775 ATTCAGAATTAAAAAAAA
1 ATTCAGAATTAAAAAAAA
24589793 GAAGTGATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.24
Consensus pattern (19 bp):
ATTCAGAATTAAAAAAAAA
Found at i:24592563 original size:21 final size:21
Alignment explanation
Indices: 24592518--24592580 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
24592508 TTTGAACCAT
* *
24592518 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
24592540 TACCATTTCGTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
* *
24592561 TACTATTTCGAACCAATTCC
1 TACCATTTCGTACCAATTCC
24592581 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 24 0.65
22 13 0.35
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:24592968 original size:11 final size:11
Alignment explanation
Indices: 24592952--24592977 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
24592942 GCTTAATTTC
24592952 ATCTGTTTTTA
1 ATCTGTTTTTA
24592963 ATCTGTTTTTA
1 ATCTGTTTTTA
24592974 ATCT
1 ATCT
24592978 TGGTGCTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.12, G:0.08, T:0.62
Consensus pattern (11 bp):
ATCTGTTTTTA
Found at i:24594445 original size:20 final size:20
Alignment explanation
Indices: 24594420--24594458 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24594410 TACTTTCTTT
24594420 TTTACTTACACTCTTACTTG
1 TTTACTTACACTCTTACTTG
**
24594440 TTTACTTACTTTCTTACTT
1 TTTACTTACACTCTTACTT
24594459 AAAGAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.23, G:0.03, T:0.56
Consensus pattern (20 bp):
TTTACTTACACTCTTACTTG
Found at i:24606292 original size:47 final size:47
Alignment explanation
Indices: 24606230--24607247 Score: 1943
Period size: 47 Copynumber: 21.7 Consensus size: 47
24606220 TGATAGTATG
*
24606230 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
24606277 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
24606324 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
24606371 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
24606418 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
24606465 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
24606512 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
24606559 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
24606606 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
24606653 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
24606700 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
24606747 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
24606794 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
24606841 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
24606888 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
24606935 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
24606982 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
24607029 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
24607076 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
**
24607123 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAT
* *
24607172 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG-TGA-
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
24607217 -CCTAATGGCCGATGTGATGAATGTGATAAGT
1 GCCTAATGGCCGATGTGATGAATGTGA-AAGT
24607248 CCCGAAGGGC
Statistics
Matches: 962, Mismatches: 6, Indels: 8
0.99 0.01 0.01
Matches are distributed among these distances:
44 26 0.03
45 4 0.00
46 1 0.00
47 886 0.92
49 45 0.05
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.32
Consensus pattern (47 bp):
GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAT
Found at i:24607423 original size:37 final size:37
Alignment explanation
Indices: 24607365--24607443 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
24607355 CCGAGCTCTA
* * * *
24607365 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
*
24607402 AAGACCCGATAACTTCATGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
24607439 AAGAC
1 AAGAC
24607444 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
Found at i:24607940 original size:79 final size:79
Alignment explanation
Indices: 24607809--24607966 Score: 298
Period size: 79 Copynumber: 2.0 Consensus size: 79
24607799 TAAAACTTAC
* *
24607809 TAAGCATTGTAATGCTTACTCCGTTTACTTTGTTTCCTTTGTTTTATAGATCTCATTGCGAAGCT
1 TAAGCATTGTAATGCTTACTCCGTTTACTCTGTTTCCTCTGTTTTATAGATCTCATTGCGAAGCT
24607874 ACAGGCTCGGGGAT
66 ACAGGCTCGGGGAT
24607888 TAAGCATTGTAATGCTTACTCCGTTTACTCTGTTTCCTCTGTTTTATAGATCTCATTGCGAAGCT
1 TAAGCATTGTAATGCTTACTCCGTTTACTCTGTTTCCTCTGTTTTATAGATCTCATTGCGAAGCT
24607953 ACAGGCTCGGGGAT
66 ACAGGCTCGGGGAT
24607967 CGTCAGCAAC
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (79 bp):
TAAGCATTGTAATGCTTACTCCGTTTACTCTGTTTCCTCTGTTTTATAGATCTCATTGCGAAGCT
ACAGGCTCGGGGAT
Found at i:24620998 original size:33 final size:35
Alignment explanation
Indices: 24620961--24621032 Score: 105
Period size: 33 Copynumber: 2.1 Consensus size: 35
24620951 GAGTTAGTTT
*
24620961 ATTAAATTT-AGTTCAGCTCAAATAAGTGTTAG-A
1 ATTAAATTTCAATTCAGCTCAAATAAGTGTTAGTA
*
24620994 ATT-AATTTCAATTCAGCTTAAATAAGTGTTAGTA
1 ATTAAATTTCAATTCAGCTCAAATAAGTGTTAGTA
24621028 ATTAA
1 ATTAA
24621033 TTTGTTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 5 0.15
33 24 0.71
34 4 0.12
35 1 0.03
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.39
Consensus pattern (35 bp):
ATTAAATTTCAATTCAGCTCAAATAAGTGTTAGTA
Found at i:24626473 original size:49 final size:49
Alignment explanation
Indices: 24626401--24626500 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
24626391 GTTCATATGG
24626401 CCATAAAGGTTGAAAAACAATTAAAGAGAAAAGGTACGTTCCGTTCTTT
1 CCATAAAGGTTGAAAAACAATTAAAGAGAAAAGGTACGTTCCGTTCTTT
*
24626450 CCATAAAGGTTGAAAAACAATTAAATAGAAAAGGTACGTTCCGTTCTTT
1 CCATAAAGGTTGAAAAACAATTAAAGAGAAAAGGTACGTTCCGTTCTTT
24626499 CC
1 CC
24626501 CTAATACTTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (49 bp):
CCATAAAGGTTGAAAAACAATTAAAGAGAAAAGGTACGTTCCGTTCTTT
Found at i:24627990 original size:10 final size:10
Alignment explanation
Indices: 24627975--24628036 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
24627965 TTTGAACCAT
*
24627975 TACCAATTCG
1 TACCAATTCA
*
24627985 TACCAAATACCA
1 TACC-AAT-TCA
*
24627997 TACCATTTCA
1 TACCAATTCA
24628007 TACCAATTCCA
1 TACCAATT-CA
* *
24628018 TACCATTTCG
1 TACCAATTCA
24628028 TACCAATTC
1 TACCAATTC
24628037 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:24628020 original size:21 final size:21
Alignment explanation
Indices: 24627975--24628037 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
24627965 TTTGAACCAT
* *
24627975 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
24627997 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
24628018 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
24628038 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:24630102 original size:39 final size:39
Alignment explanation
Indices: 24629981--24630268 Score: 474
Period size: 39 Copynumber: 7.3 Consensus size: 39
24629971 GCTCCTCGTT
* *
24629981 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* *
24630021 CAAATGCCTTCGGGACTTAACCC-GAATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAA-TTAGTATCTCGCA
24630061 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
24630100 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
24630139 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
24630178 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
24630217 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
24630256 CAAATGCCTTCGG
1 CAAATGCCTTCGG
24630269 ATCTTAGTCC
Statistics
Matches: 238, Mismatches: 6, Indels: 9
0.94 0.02 0.04
Matches are distributed among these distances:
39 190 0.80
40 47 0.20
41 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:24630304 original size:117 final size:118
Alignment explanation
Indices: 24629981--24630320 Score: 464
Period size: 117 Copynumber: 2.9 Consensus size: 118
24629971 GCTCCTCGTT
* * *
24629981 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGACTTAGCCC
*
24630044 GAAT-TTAGTAAC-TCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
62 GGATATTAGT-ACTTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
24630100 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGA-
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGACTTAGCCCGGAT
24630164 ATTAGTA-TCTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
66 ATTAGTACT-TCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
24630217 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGA-CTTAGCCCGGA
**
24630282 TATT-GTCACTTAACAC-AA-GCCTTCGGGACTTAGCCCGGA
65 TATTAGT-ACTTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
24630321 CATCATTCAA
Statistics
Matches: 202, Mismatches: 9, Indels: 21
0.87 0.04 0.09
Matches are distributed among these distances:
116 1 0.00
117 123 0.61
118 54 0.27
119 23 0.11
120 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (118 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGACTTAGCCCGGAT
ATTAGTACTTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:24638141 original size:39 final size:40
Alignment explanation
Indices: 24638024--24638207 Score: 195
Period size: 40 Copynumber: 4.7 Consensus size: 40
24638014 GCTCCTCGTT
*
24638024 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCA
* *
24638064 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
24638104 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* *
24638143 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGT-ATC-TCGCA
*
24638184 C-AA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24638208 CAGCATTCAA
Statistics
Matches: 126, Mismatches: 10, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
38 2 0.02
39 50 0.40
40 64 0.51
41 10 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:24638168 original size:79 final size:81
Alignment explanation
Indices: 24638024--24638207 Score: 204
Period size: 79 Copynumber: 2.3 Consensus size: 81
24638014 GCTCCTCGTT
* *
24638024 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGG-CTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
*
24638088 GAT-TTAGTAAC-TCGCA
65 GATATT-GTAACTTAGCA
**
24638104 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACCC
*
24638166 GGATATTGTCACTTAGCA
64 GGATATTGTAACTTAGCA
*
24638184 C-AA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTC-GGGCTTAGCCCGGA
24638208 CAGCATTCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.64
80 22 0.24
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATTGTAACTTAGCA
Found at i:24648566 original size:27 final size:28
Alignment explanation
Indices: 24648504--24648567 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
24648494 CAGTCACTTG
*
24648504 CCCACAAGGGCAAAATAGTCATTTAACA
1 CCCACAAGGGCAAAATAGTAATTTAACA
* * *
24648532 CCC-TAAGGGCAAAATGGTAATTTTAC-
1 CCCACAAGGGCAAAATAGTAATTTAACA
24648558 CCCACAAGGG
1 CCCACAAGGG
24648568 TATCTCGGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.10
27 24 0.80
28 3 0.10
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (28 bp):
CCCACAAGGGCAAAATAGTAATTTAACA
Found at i:24648577 original size:27 final size:27
Alignment explanation
Indices: 24648547--24648653 Score: 124
Period size: 27 Copynumber: 4.0 Consensus size: 27
24648537 AGGGCAAAAT
* * *
24648547 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
24648574 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
24648601 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* ** *
24648628 AGTAATTCTACCAAACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
24648654 TGATATTTTA
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:24648604 original size:54 final size:53
Alignment explanation
Indices: 24648546--24648664 Score: 166
Period size: 54 Copynumber: 2.2 Consensus size: 53
24648536 AAGGGCAAAA
* **
24648546 TGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTT
1 TGGT-ATTTTACCCCACAAGGGTATCTCAGTAATTCTACCAAACAGGGGTATTT
* *
24648600 TGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCAAACAGGGGTATTT
1 TGGTATTT-TACCCCACAAGGGTATCTCAGTAATTCTACCAAACAGGGGTATTT
*
24648654 TGATATTTTAC
1 TGGTATTTTAC
24648665 AAATCGAGAG
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
53 7 0.12
54 51 0.88
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (53 bp):
TGGTATTTTACCCCACAAGGGTATCTCAGTAATTCTACCAAACAGGGGTATTT
Found at i:24648768 original size:81 final size:81
Alignment explanation
Indices: 24648618--24648824 Score: 199
Period size: 81 Copynumber: 2.6 Consensus size: 81
24648608 CTACCCTACA
** * * * *
24648618 AGGGTATTTCAGTAATTCTACCAAA-CAGGGGTATTTT-G-ATATTTTACAAATC-GAGAGTATT
1 AGGGTATTTTGGTAATTTTA-CAAACCAAGGGTATTTTAGTA-ATTTTACAAACCAG-GGGTATT
24648679 TCGATAATTTCACAAATTAG
63 TCGATAATTTCACAAA-TAG
* * *
24648699 A-GGTATTTTGGTAATTTTACAAGCCATGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTG
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTCG
* * *** *
24648763 GTAATTTTATTGATCG
66 ATAATTTCACAAATAG
*
24648779 AGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTT
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTT
24648825 GTAAATCGAG
Statistics
Matches: 104, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
79 3 0.03
80 29 0.28
81 70 0.67
82 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTCG
ATAATTTCACAAATAG
Found at i:24648784 original size:54 final size:54
Alignment explanation
Indices: 24648618--24648892 Score: 207
Period size: 54 Copynumber: 5.1 Consensus size: 54
24648608 CTACCCTACA
* * * *
24648618 AGGGTATTTCAGTAATTCTACCAAA-CAGGGGTATTTTGAT-ATTTTACAAATCG
1 AGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTAATTTTATAAATCG
* * * ** * * * *
24648671 AGAGTA-TTTCGATAATTTCACAAATTAGAGGTATTTTGGTAATTTTA-CAAGCC
1 AGGGTATTTTAG-TAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAATCG
**
24648724 ATGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATTGATCG
1 A-GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAATCG
* * * * *
24648779 AGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAATCG
*** * * * * * *** *
24648833 AGGGTAAAATGGTAATTCTATAAATCGGGGGTAAAATGGTAATTTTGTAAATCG
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAATCG
24648887 AGGGTA
1 AGGGTA
24648893 AAACGGTAAT
Statistics
Matches: 177, Mismatches: 39, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
52 7 0.04
53 27 0.15
54 136 0.77
55 7 0.04
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.38
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAATCG
Found at i:24648799 original size:27 final size:27
Alignment explanation
Indices: 24648646--24648892 Score: 178
Period size: 27 Copynumber: 9.2 Consensus size: 27
24648636 TACCAAACAG
* *
24648646 GGGTATTTTGAT-ATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * * * * *
24648672 GAGTATTTCGATAATTTCACAAAT-TA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
24648698 GAGGTATTTTGGTAATTTTA-CAAGCCA
1 G-GGTATTTTGGTAATTTTATAAATCGA
* * *
24648725 TGGGTATTTTAGTAATTTTACAAA-CCA
1 -GGGTATTTTGGTAATTTTATAAATCGA
**
24648752 GGGGTATTTTGGTAATTTTATTGATCGA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* *
24648780 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAATCGA
* *
24648807 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** * *
24648834 GGGTAAAATGGTAATTCTATAAATCGG
1 GGGTATTTTGGTAATTTTATAAATCGA
*** *
24648861 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
24648888 GGGTA
1 GGGTA
24648893 AAACGGTAAT
Statistics
Matches: 178, Mismatches: 37, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
26 14 0.08
27 159 0.89
28 5 0.03
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAATCGA
Found at i:24648865 original size:81 final size:81
Alignment explanation
Indices: 24648707--24649035 Score: 248
Period size: 81 Copynumber: 4.2 Consensus size: 81
24648697 AGAGGTATTT
* * * * * * *** *
24648707 TGGTAATTTTACAAGCCATGGGTATTTTAGTAATTTTACAAA-CCAGGGGTATTTTGGTAATTTT
1 TGGTAATTTTATAAACCAAGGGTATTTTAGTAATTCTATAAATCGA-GGGTAAAATGGTAATTCT
** ***
24648771 ATTGATCGAGGGTATTT
65 ATAAATCGAGGGTAAAA
* *
24648788 TGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTA
1 TGGTAATTTTATAAACCAAGGGTATTTTAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTA
*
24648853 TAAATCGGGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * ** * *
24648869 TGGTAATTTTGTAAATCGAGGGTA----A--AA--CGGT-AAT-AACGGTAAAATGGTAATTCTA
1 TGGTAATTTTATAAACCAAGGGTATTTTAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTA
24648924 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * * *** * *
24648940 CGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTG
1 TGGTAATTTTATAAACCAAGGGTATTTTAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTA
24649005 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* *
24649021 CGGTAATTCTATAAA
1 TGGTAATTTTATAAA
24649036 TCGATGGTAC
Statistics
Matches: 204, Mismatches: 33, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
71 55 0.27
72 3 0.01
73 2 0.01
75 2 0.01
77 3 0.01
79 2 0.01
80 3 0.01
81 132 0.65
82 2 0.01
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.33
Consensus pattern (81 bp):
TGGTAATTTTATAAACCAAGGGTATTTTAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTA
TAAATCGAGGGTAAAA
Found at i:24648893 original size:27 final size:27
Alignment explanation
Indices: 24648817--24648902 Score: 136
Period size: 27 Copynumber: 3.2 Consensus size: 27
24648807 GGGTATTTTA
24648817 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTTTGTAAATCGAGGGTAAAATG
* * *
24648844 GTAATTCTATAAATCGGGGGTAAAATG
1 GTAATTTTGTAAATCGAGGGTAAAATG
*
24648871 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAATG
24648898 GTAAT
1 GTAAT
24648903 AACGGTAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (27 bp):
GTAATTTTGTAAATCGAGGGTAAAATG
Found at i:24648893 original size:54 final size:54
Alignment explanation
Indices: 24648817--24649044 Score: 296
Period size: 54 Copynumber: 4.4 Consensus size: 54
24648807 GGGTATTTTA
* * * *
24648817 GTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGGGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
* *
24648871 GTAATTTTGTAAATCGAGGGTAAAACGGT-A----AT-AA-C---GGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
24648915 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
* * *
24648969 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
*
24649023 GTAATTCTATAAATCGATGGTA
1 GTAATTCTATAAATCGAGGGTA
24649045 CTTTGGTAAT
Statistics
Matches: 157, Mismatches: 7, Indels: 20
0.85 0.04 0.11
Matches are distributed among these distances:
44 36 0.23
45 1 0.01
47 1 0.01
48 2 0.01
49 4 0.03
50 2 0.01
51 1 0.01
53 1 0.01
54 109 0.69
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (54 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
Found at i:24648946 original size:98 final size:98
Alignment explanation
Indices: 24648817--24649000 Score: 305
Period size: 98 Copynumber: 1.9 Consensus size: 98
24648807 GGGTATTTTA
* * * * * *
24648817 GTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGGGGGTAAAATGGTAATTTTGTA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
24648882 AATCGAGGGTAAAACGGTAATAACGGTAAAATG
66 AATCGAGGGTAAAACGGTAATAACGGTAAAATG
24648915 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
*
24648980 AATCGAGGGTAAAATGGTAAT
66 AATCGAGGGTAAAACGGTAAT
24649001 TCTGTAAATC
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 79 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (98 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
AATCGAGGGTAAAACGGTAATAACGGTAAAATG
Found at i:24649052 original size:81 final size:81
Alignment explanation
Indices: 24648906--24649069 Score: 256
Period size: 81 Copynumber: 2.0 Consensus size: 81
24648896 CGGTAATAAC
24648906 GGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGT
1 GGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGT
*
24648971 AATTCTATAAATCGAG
66 AATTCTACAAATCGAG
* * ***
24648987 GGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGATGGTACTTTGGT
1 GGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGT
* *
24649052 AATTTTACAAATTGAG
66 AATTCTACAAATCGAG
24649068 GG
1 GG
24649070 CATTTCAGTA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (81 bp):
GGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGT
AATTCTACAAATCGAG
Found at i:24649055 original size:27 final size:27
Alignment explanation
Indices: 24648906--24649044 Score: 242
Period size: 27 Copynumber: 5.1 Consensus size: 27
24648896 CGGTAATAAC
24648906 GGTAAAATGGTAATTCTATAAATCGAG
1 GGTAAAATGGTAATTCTATAAATCGAG
*
24648933 GGTAAAACGGTAATTCTATAAATCGAG
1 GGTAAAATGGTAATTCTATAAATCGAG
24648960 GGTAAAATGGTAATTCTATAAATCGAG
1 GGTAAAATGGTAATTCTATAAATCGAG
*
24648987 GGTAAAATGGTAATTCTGTAAATCGAG
1 GGTAAAATGGTAATTCTATAAATCGAG
* *
24649014 GGTAAAACGGTAATTCTATAAATCGAT
1 GGTAAAATGGTAATTCTATAAATCGAG
24649041 GGTA
1 GGTA
24649045 CTTTGGTAAT
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
GGTAAAATGGTAATTCTATAAATCGAG
Found at i:24659052 original size:44 final size:45
Alignment explanation
Indices: 24658955--24659084 Score: 199
Period size: 44 Copynumber: 2.9 Consensus size: 45
24658945 ATAAACAATA
*
24658955 AAAGCTATATCAATCTCGCACACTAAGTGCCAATATATATACAGCC
1 AAAGCTATCTCAATCTCGCACACTAAGTGCCAATATATATA-AGCC
*
24659001 AAAGCTATCTCAATCACGCACACTAAGTGCCAATATATAT-AGCC
1 AAAGCTATCTCAATCTCGCACACTAAGTGCCAATATATATAAGCC
** *
24659045 AAAGCTATCTCGGTCTCACACACTAAGTGCCAATATATAT
1 AAAGCTATCTCAATCTCGCACACTAAGTGCCAATATATAT
24659085 CTGAAGTTAT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
44 40 0.51
46 38 0.49
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.25
Consensus pattern (45 bp):
AAAGCTATCTCAATCTCGCACACTAAGTGCCAATATATATAAGCC
Found at i:24659110 original size:42 final size:43
Alignment explanation
Indices: 24658956--24659117 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 43
24658946 TAAACAATAA
* *
24658956 AAGCTATATCAATCTCGCACACTAAGTGCCAATATATATACAG
1 AAGCTATCTCGATCTCGCACACTAAGTGCCAATATATATACAG
* *
24658999 CCAAAGCTATCTCAATCACGCACACTAAGTGCCAATATATATAGCCA-
1 ---AAGCTATCTCGATCTCGCACACTAAGTGCCAATATATATA--CAG
* * *
24659046 AAGCTATCTCGGTCTCACACACTAAGTGCCAATATATAT-CTG
1 AAGCTATCTCGATCTCGCACACTAAGTGCCAATATATATACAG
* * * *
24659088 AAGTTATCTCGATTTCGTACACTAAATGCC
1 AAGCTATCTCGATCTCGCACACTAAGTGCC
24659118 CATAATTAGT
Statistics
Matches: 100, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.01
42 24 0.24
44 35 0.35
46 38 0.38
48 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (43 bp):
AAGCTATCTCGATCTCGCACACTAAGTGCCAATATATATACAG
Found at i:24661173 original size:12 final size:13
Alignment explanation
Indices: 24661137--24661174 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
24661127 AAATATTTAA
24661137 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
24661150 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
24661164 CTTG-TCTTAAT
1 CTTGTTCTTAAT
24661175 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:24662958 original size:13 final size:13
Alignment explanation
Indices: 24662940--24662979 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
24662930 GAAGTAATCG
24662940 CACACGGGCGTGT
1 CACACGGGCGTGT
24662953 CACACGGGCGTGT
1 CACACGGGCGTGT
*
24662966 CACACGGGCATGT
1 CACACGGGCGTGT
24662979 C
1 C
24662980 CCTGTCGAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.17, C:0.33, G:0.35, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:24677457 original size:28 final size:24
Alignment explanation
Indices: 24677404--24677451 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
24677394 ATGATAATAG
*
24677404 TTAGTTTCAAGAACGATTAATTAT
1 TTAGTTTCAAGAACGAGTAATTAT
24677428 TTAGTTTCAAGAACGAGTAATTAT
1 TTAGTTTCAAGAACGAGTAATTAT
24677452 AAATTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (24 bp):
TTAGTTTCAAGAACGAGTAATTAT
Found at i:24682158 original size:17 final size:19
Alignment explanation
Indices: 24682116--24682159 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
24682106 ATGAAATTTT
*
24682116 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
24682135 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
24682153 AA-TATTA
1 AATTATTA
24682160 CTGTAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:24684350 original size:25 final size:25
Alignment explanation
Indices: 24684321--24684370 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
24684311 CCTTATAAAA
* *
24684321 TAAAAATGACCATTTTGCCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
24684346 TAAAAATGACCATTATACCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
24684371 GTTTGAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (25 bp):
TAAAAATGACCATTATACCCCTAGG
Found at i:24684454 original size:11 final size:11
Alignment explanation
Indices: 24684417--24684473 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
24684407 ACATGGTATG
24684417 TATGATATGCA
1 TATGATATGCA
* *
24684428 CATGACATG--
1 TATGATATGCA
24684437 TATGATATGCA
1 TATGATATGCA
*
24684448 CATGATATG--
1 TATGATATGCA
24684457 TATGATATGCA
1 TATGATATGCA
24684468 TATGAT
1 TATGAT
24684474 GTATTCATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
9 15 0.42
11 21 0.58
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (11 bp):
TATGATATGCA
Found at i:24684473 original size:20 final size:20
Alignment explanation
Indices: 24684407--24684473 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
24684397 ATTTTGATAA
*
24684407 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
24684427 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
24684447 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
24684467 ATATGAT
1 ACATGAT
24684474 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:24684549 original size:24 final size:24
Alignment explanation
Indices: 24684522--24684670 Score: 221
Period size: 24 Copynumber: 6.2 Consensus size: 24
24684512 GGAGGAAGTG
24684522 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
24684546 TAAAAAGGGCTTACGCCCCAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
*
24684571 CAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
24684595 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* * *
24684618 CAAAAGGGCTTACGCCCCAATTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
24684642 T-AAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
24684665 TAAAAG
1 TAAAAG
24684671 AGGCAAAGCC
Statistics
Matches: 111, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
23 42 0.38
24 47 0.42
25 22 0.20
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:24684603 original size:23 final size:23
Alignment explanation
Indices: 24684524--24684668 Score: 200
Period size: 23 Copynumber: 6.1 Consensus size: 23
24684514 AGGAAGTGTA
24684524 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
24684547 AAAAAGGGCTTACGCCCCAGTTATCA
1 --AAAGGGCTTATGCCCCAGTTAT-T
24684573 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
24684596 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
* *
24684620 AAAGGGCTTACGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
24684643 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
24684666 AAA
1 AAA
24684669 AGAGGCAAAG
Statistics
Matches: 107, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
23 45 0.42
24 41 0.38
25 21 0.20
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:24684618 original size:47 final size:47
Alignment explanation
Indices: 24684523--24684670 Score: 233
Period size: 47 Copynumber: 3.1 Consensus size: 47
24684513 GAGGAAGTGT
*
24684523 AAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTACGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT--AAAGGGCTTATGCCCCAGTTATC
24684572 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
* * * *
24684619 AAAAGGGCTTACGCCCCAATTATTAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
24684666 AAAAG
1 AAAAG
24684671 AGGCAAAGCC
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
47 70 0.74
49 24 0.26
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:24690402 original size:26 final size:27
Alignment explanation
Indices: 24690366--24690418 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
24690356 TATCAGCTAG
* *
24690366 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
24690392 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
24690419 CAGAATTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:24692342 original size:46 final size:46
Alignment explanation
Indices: 24692240--24693135 Score: 1701
Period size: 46 Copynumber: 19.5 Consensus size: 46
24692230 CAGGCTTCGG
* *
24692240 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTC-GGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
24692285 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
24692331 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
24692377 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
24692423 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
24692469 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
24692515 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
24692561 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
24692607 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
24692653 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
24692699 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
24692745 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
24692791 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
24692837 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
24692883 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
24692929 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
24692975 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
*
24693021 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTC-GGGCCTTTAA
1 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
* *
24693066 GCCTAGCAGGCTATAATGCCGGTGAGATACTATTC-GGG-CTTTCGA
1 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTT-GA
*
24693111 GCCTAGCAGGCTATAATGCCGGTGA
1 GCCTAGCAGGCTATGATGCCGGTGA
24693136 AATGATATCG
Statistics
Matches: 843, Mismatches: 6, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
44 4 0.00
45 104 0.12
46 735 0.87
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.28
Consensus pattern (46 bp):
GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
Found at i:24703438 original size:10 final size:10
Alignment explanation
Indices: 24703425--24703455 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
24703415 TATTTTAAGC
24703425 ATCTTTAATT
1 ATCTTTAATT
24703435 ATCTTTAATT
1 ATCTTTAATT
24703445 ATCTTTAATT
1 ATCTTTAATT
24703455 A
1 A
24703456 AATGTATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (10 bp):
ATCTTTAATT
Done.