Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 99 of 144
Found at i:30368611 original size:44 final size:44
Alignment explanation
Indices: 30368561--30369247 Score: 273
Period size: 44 Copynumber: 15.6 Consensus size: 44
30368551 GATCAAAGAT
* * *
30368561 AGCAGATCAAAGATAGCATATTTGGCGTCTCTGTATTGTTAGGG
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGTCAGGG
*
30368605 AGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGGG
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGTCAGGG
* *
30368649 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATAGTCAGAG
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGTCAGGG
* * * **
30368693 AGCAGATAAAAAATAGCAGATTTGGCGTCTCTGTATTGTCAGAA
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGTCAGGG
** * ** * ** *
30368737 AATAAATTGAAGA-AACAGATTTGGCATCTCCATATTCGAC-GGAG
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATT-GTCAGG-G
* * ** * * * *
30368781 AGCAGATCGAAGACATAGCAGATCTAACCT-TCGGATGT-TTTTGCATCGA
1 AGCAGATC-AA-AGATAGCAGATTTGGCATCTC---TGTATTGT-CA-GGG
* ** * *
30368830 AGCAGATCCAAGAT----GATTTGGCATC-CTTGCGCTT-ACAAGG
1 AGCAGATCAAAGATAGCAGATTTGGCATCTC-TG-TATTGTCAGGG
* *
30368870 AGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAG
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGTCAGGG
* * ** ** * *
30368914 AACAAATCGAAA-A-AATAGATTTGGCATCTCCATATTCGAC-GGAA
1 AGCAGATC-AAAGATAGCAGATTTGGCATCTCTGTATT-GTCAGG-G
* * ** * * * * *
30368958 AGCAGATCGAAGACATAGCAGATCTAACCTTTGGATGTTTTTGCATCA--A
1 AGCAGATC-AA-AGATAGCAGATTTGGCATCT--CTG-TATTG--TCAGGG
* * *** ** *
30369007 AGCAAATCCAAGAT----GATTTGGCATC-CTTGCGCTCACAAGG
1 AGCAGATCAAAGATAGCAGATTTGGCATCTC-TGTATTGTCAGGG
* * * *
30369047 AGCAGATCGAAGATAGCAGATTTGGC-TCTTCTGTTTTTTCAGAG
1 AGCAGATCAAAGATAGCAGATTTGGCATC-TCTGTATTGTCAGGG
** * *
30369091 AGCAGATCAAAGATAGCAGATTTGGTGTCTTTGTATTGTCAGAG
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGTCAGGG
* * * * *
30369135 AGCAGATCAAAGATAACAGATTTGGCATCTCTATTTTATCAGAG
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGTCAGGG
* * * * * * *
30369179 AGCAGATCGAAGATAGCAGATTTGGCGTTTTTGTAGTGTCTGAG
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGTCAGGG
* * *
30369223 AGCAGATCGAAGTTAACAGATTTGG
1 AGCAGATCAAAGATAGCAGATTTGG
30369248 TATTCCTAAG
Statistics
Matches: 470, Mismatches: 131, Indels: 84
0.69 0.19 0.12
Matches are distributed among these distances:
38 2 0.00
40 27 0.06
41 6 0.01
43 59 0.13
44 311 0.66
45 8 0.02
46 5 0.01
47 24 0.05
48 5 0.01
49 18 0.04
50 4 0.01
51 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (44 bp):
AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGTCAGGG
Found at i:30368849 original size:90 final size:90
Alignment explanation
Indices: 30368754--30369031 Score: 256
Period size: 90 Copynumber: 3.1 Consensus size: 90
30368744 TGAAGAAACA
30368754 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGT
1 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGT
*
30368819 TTTTGCATCGAAGCAGATCCAAGAT
66 TTTTGCATCGAAGCAAATCCAAGAT
* * * ** *
30368844 GATTTGGCA--TCC-T-TGCGCTTAC-AAGGAGCAGATCGAAG--ATAGCAGATTTGGCATCTC-
1 GATTTGGCATCTCCATATTCG---ACGGA-GAGCAGATCGAAGACATAGCAGATCTAACCT-TCG
* ** * *
30368901 --TG-TATTGTCAGAGAA-CAAATCGAAAAAAT
61 GATGTTTTTG-CATCGAAGCAAATC--CAAGAT
* *
30368930 AGATTTGGCATCTCCATATTCGACGGAAAGCAGATCGAAGACATAGCAGATCTAACCTTTGGATG
1 -GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATG
*
30368995 TTTTTGCATCAAAGCAAATCCAAGAT
65 TTTTTGCATCGAAGCAAATCCAAGAT
30369021 GATTTGGCATC
1 GATTTGGCATC
30369032 CTTGCGCTCA
Statistics
Matches: 141, Mismatches: 26, Indels: 42
0.67 0.12 0.20
Matches are distributed among these distances:
84 9 0.06
85 7 0.05
86 7 0.05
87 22 0.16
88 20 0.14
89 20 0.14
90 33 0.23
91 7 0.05
92 6 0.04
93 10 0.07
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (90 bp):
GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGT
TTTTGCATCGAAGCAAATCCAAGAT
Found at i:30369091 original size:177 final size:177
Alignment explanation
Indices: 30368705--30369091 Score: 641
Period size: 177 Copynumber: 2.2 Consensus size: 177
30368695 CAGATAAAAA
* * * * *
30368705 ATAGCAGATTTGGCGTCTCTGTATTGTCAGAAAATAAATTGAAGAAACAGATTTGGCATCTCCAT
1 ATAGCAGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAAAAACAGATTTGGCATCTCCAT
* * *
30368770 ATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTTGCATCGAAGCAG
66 ATTCGACGGAAAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTTGCATCAAAGCAA
*
30368835 ATCCAAGATGATTTGGCATCCTTGCGCTTACAAGGAGCAGATCGAAG
131 ATCCAAGATGATTTGGCATCCTTGCGCTCACAAGGAGCAGATCGAAG
*
30368882 ATAGCAGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAAAAATAGATTTGGCATCTCCAT
1 ATAGCAGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAAAAACAGATTTGGCATCTCCAT
*
30368947 ATTCGACGGAAAGCAGATCGAAGACATAGCAGATCTAACCTTTGGATGTTTTTGCATCAAAGCAA
66 ATTCGACGGAAAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTTGCATCAAAGCAA
30369012 ATCCAAGATGATTTGGCATCCTTGCGCTCACAAGGAGCAGATCGAAG
131 ATCCAAGATGATTTGGCATCCTTGCGCTCACAAGGAGCAGATCGAAG
* *
30369059 ATAGCAGATTTGGC-TCTTCTGTTTTTTCAGAGA
1 ATAGCAGATTTGGCATC-TCTGTATTGTCAGAGA
30369092 GCAGATCAAA
Statistics
Matches: 196, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
176 2 0.01
177 194 0.99
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (177 bp):
ATAGCAGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAAAAACAGATTTGGCATCTCCAT
ATTCGACGGAAAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTTGCATCAAAGCAA
ATCCAAGATGATTTGGCATCCTTGCGCTCACAAGGAGCAGATCGAAG
Found at i:30370863 original size:71 final size:72
Alignment explanation
Indices: 30370788--30370929 Score: 164
Period size: 71 Copynumber: 2.0 Consensus size: 72
30370778 ATTATATACT
* *
30370788 TTATATATTATTATTTTTATAAATATTAGTTATATAAA-ATAACAT-ATTAT-TTTTATTATATA
1 TTATATATTATTATTATTATAAATATTA-TT-TATAAATATAACATAATTATATTTTACTATATA
30370850 TATTATCCA
64 TATTATCCA
* * * * *
30370859 TTATATTTTTTTATTATTATACATTTTATTTATAAATTATATCATACATTATATTTTACTATATA
1 TTATATATTATTATTATTATAAATATTATTTATAAA-TATAACATA-ATTATATTTTACTATATA
30370924 TATTAT
64 TATTAT
30370930 TTCTTACATT
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
69 6 0.10
70 2 0.03
71 29 0.49
73 5 0.08
74 17 0.29
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.56
Consensus pattern (72 bp):
TTATATATTATTATTATTATAAATATTATTTATAAATATAACATAATTATATTTTACTATATATA
TTATCCA
Found at i:30370938 original size:31 final size:30
Alignment explanation
Indices: 30370881--30370939 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
30370871 ATTATTATAC
*
30370881 ATTTTATTTATAAATTATATCATACATTAT
1 ATTTTATATATAAATTATATCATACATTAT
* * *
30370911 ATTTTACTATATATATTATTTCTTACATT
1 ATTTTA-TATATAAATTATATCATACATT
30370940 TTTTTTTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 6 0.25
31 18 0.75
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (30 bp):
ATTTTATATATAAATTATATCATACATTAT
Found at i:30371119 original size:17 final size:17
Alignment explanation
Indices: 30371097--30371129 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30371087 TTTTATTTAT
30371097 ATATTTTATTACATATC
1 ATATTTTATTACATATC
*
30371114 ATATTTTATTATATAT
1 ATATTTTATTACATAT
30371130 TATTCCTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATTTTATTACATATC
Found at i:30371129 original size:12 final size:13
Alignment explanation
Indices: 30371069--30371205 Score: 55
Period size: 16 Copynumber: 9.3 Consensus size: 13
30371059 TATATGATAG
30371069 TATTTATATTTCATTA
1 TATTT-TATTT-A-TA
30371085 TATTTTATTTATA
1 TATTTTATTTATA
30371098 TATTTTATTACATATCA
1 TATTTTATT---TAT-A
30371115 TATTTTA-TTATA
1 TATTTTATTTATA
**
30371127 TATTATTCCTTATAA
1 TATT-TTATTTAT-A
30371142 TATCTTCCT-TTTATTA
1 TAT-TT--TATTTA-TA
30371158 TATATTATATTATATA
1 TAT-TT-TATT-TATA
*
30371174 CATTTTATATATATA
1 TATTTTAT-T-TATA
30371189 TATATTT-TTTATA
1 TAT-TTTATTTATA
30371202 TATT
1 TATT
30371206 ACTTATCATA
Statistics
Matches: 100, Mismatches: 6, Indels: 34
0.71 0.04 0.24
Matches are distributed among these distances:
12 6 0.06
13 23 0.23
14 9 0.09
15 22 0.22
16 28 0.28
17 12 0.12
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTTTATTTATA
Found at i:30371190 original size:17 final size:17
Alignment explanation
Indices: 30371162--30371204 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
30371152 TTATTATATA
30371162 TTATAT-TATATACATT
1 TTATATATATATACATT
*
30371178 TTATATATATATATATT
1 TTATATATATATACATT
*
30371195 TTTTATATAT
1 TTATATATAT
30371205 TACTTATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATATATATATACATT
Found at i:30371192 original size:19 final size:18
Alignment explanation
Indices: 30371163--30371206 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
30371153 TATTATATAT
30371163 TATATTATATACATTTTA
1 TATATTATATACATTTTA
**
30371181 TATATATATATATTTTTTA
1 TATAT-TATATACATTTTA
30371200 TATATTA
1 TATATTA
30371207 CTTATCATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TATATTATATACATTTTA
Found at i:30372931 original size:38 final size:36
Alignment explanation
Indices: 30372888--30372983 Score: 92
Period size: 35 Copynumber: 2.6 Consensus size: 36
30372878 CTTATTGAAG
30372888 GGTTGGGAAAGACCTAGTCAAGAC-CAACCATTGAAAAA
1 GGTTGGGAAAGACC-AGTCAAGACGCAA-CATT-AAAAA
* *
30372926 GGTTGGGATAGACCCA-TCTA-ACGCAACATTAAAAA
1 GGTTGGGAAAGA-CCAGTCAAGACGCAACATTAAAAA
30372961 GGTT-GGAATAGACCAGTCTAAGA
1 GGTTGGGAA-AGACCAGTC-AAGA
30372984 TATATTTTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
34 6 0.12
35 14 0.29
36 7 0.15
37 7 0.15
38 12 0.25
39 2 0.04
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (36 bp):
GGTTGGGAAAGACCAGTCAAGACGCAACATTAAAAA
Found at i:30373181 original size:108 final size:107
Alignment explanation
Indices: 30372990--30373378 Score: 370
Period size: 108 Copynumber: 3.6 Consensus size: 107
30372980 AAGATATATT
* * * *
30372990 TTAAAAAAGTTTGGGATAGACCTT-GTCTAAGGCAACCTTTAAAAAAAGTTAGGATAGATCTTGT
1 TTAAAAAAG-TTGGGATAGA--TTCGTTTAAGGCAACC-TT-AAAAAGGTTGGGATAGACCTTGT
* ** * * *
30373054 CTAAGGCAACTTTCGAAAAAGGTTGGAATAAACTTATCTAAAACAACC
61 CTAAGG-AAATTTTAAAAAAAGTTGGGATAAACTTATCTAAGACAACC
* *
30373102 TTAAAAAAGTTGGGATAGATTCGTTTAAGGTAACCTTAAAAAGGTTGGGATAAACCTTGTCTAAG
1 TTAAAAAAGTTGGGATAGATTCGTTTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAG
** *
30373167 GTAAATTTTAAAAAAAGTTGGGATTGACCTATCTAAGACAACC
66 G-AAATTTTAAAAAAAGTTGGGATAAACTTATCTAAGACAACC
* * * * * *
30373210 TTAGAAATGTTGGGATAGACTCGTTTAAAGCAACCTTAAAAAGGTTGGGATAGACCTTTTCCAAG
1 TTAAAAAAGTTGGGATAGATTCGTTTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAG
* * * *
30373275 GCAA-CTTAAAAAAAGTTGGGATAAACTTGTCTAAGGCAACC
66 GAAATTTTAAAAAAAGTTGGGATAAACTTATCTAAGACAACC
* * ** * * ** *
30373316 TTAAAAAGGTTAGGG-TAAACCCATCTAAGGCAAATTTAAAAAGGTTGGGATAGATCTTTGTCT
1 TTAAAAAAGTT-GGGATAGATTCGTTTAAGGCAACCTTAAAAAGGTTGGGATAGA-CCTTGTCT
30373379 CATGTCCAAT
Statistics
Matches: 231, Mismatches: 43, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
106 72 0.31
107 10 0.04
108 115 0.50
109 4 0.02
110 11 0.05
111 10 0.04
112 9 0.04
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (107 bp):
TTAAAAAAGTTGGGATAGATTCGTTTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAG
GAAATTTTAAAAAAAGTTGGGATAAACTTATCTAAGACAACC
Found at i:30373210 original size:73 final size:73
Alignment explanation
Indices: 30372993--30373367 Score: 240
Period size: 71 Copynumber: 5.2 Consensus size: 73
30372983 ATATATTTTA
* * * * * *
30372993 AAAAAGTTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAAGTTAGGATAGATCTTGTCTAA
1 AAAAAGGTTGGGATAAACCTTGTCTAAGGAAAACTTTAAAAAAAGTTGGGATAGATCCT-TCTAA
*
30373058 GGCAACTTT
65 GGCAACCTT
* * * *
30373067 CGAAAAAGGTTGGAATAAA-CTTATCTAA--AACAACCTT-AAAAAAGTTGGGATAGATTCGTT-
1 --AAAAAGGTTGGGATAAACCTTGTCTAAGGAA-AACTTTAAAAAAAGTTGGGATAGA-TCCTTC
*
30373127 TAAGGTAACCTT
62 TAAGGCAACCTT
* * *
30373139 AAAAAGGTTGGGATAAACCTTGTCTAAGGTAAATTTTAAAAAAAGTTGGGATTGA-CCTATCTAA
1 AAAAAGGTTGGGATAAACCTTGTCTAAGGAAAACTTTAAAAAAAGTTGGGATAGATCCT-TCTAA
*
30373203 GACAACCTT
65 GGCAACCTT
* * * * * * * * * *
30373212 AGAAATGTTGGGATAGA-CTCGTTTAAAG-CAACCTT-AAAAAGGTTGGGATAGA-CCTTTTCCA
1 AAAAAGGTTGGGATAAACCTTGTCTAAGGAAAACTTTAAAAAAAGTTGGGATAGATCC--TTCTA
30373273 AGGCAA-CTT
64 AGGCAACCTT
* * * * * * *
30373282 AAAAAAAGTTGGGATAAA-CTTGTCTAAGG-CAACCTT-AAAAAGGTTAGGG-TAAACCCATCTA
1 -AAAAAGGTTGGGATAAACCTTGTCTAAGGAAAACTTTAAAAAAAGTT-GGGATAGATCCTTCTA
**
30373343 AGGCAAATTT
64 AGGCAACCTT
30373353 AAAAAGGTTGGGATA
1 AAAAAGGTTGGGATA
30373368 GATCTTTGTC
Statistics
Matches: 241, Mismatches: 44, Indels: 34
0.76 0.14 0.11
Matches are distributed among these distances:
70 59 0.24
71 65 0.27
72 29 0.12
73 59 0.24
74 7 0.03
75 8 0.03
76 14 0.06
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (73 bp):
AAAAAGGTTGGGATAAACCTTGTCTAAGGAAAACTTTAAAAAAAGTTGGGATAGATCCTTCTAAG
GCAACCTT
Found at i:30373304 original size:143 final size:144
Alignment explanation
Indices: 30372990--30373322 Score: 352
Period size: 143 Copynumber: 2.3 Consensus size: 144
30372980 AAGATATATT
* * * *
30372990 TTAAAAAAGTTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAAGTTAGGATAGATCTTGTC
1 TTAAAAAAG-TTGGGATA-AACTTGTCTAAGGCAAACTTTAAAAAAAGTTAGGATAGATCCTATC
* * *
30373055 TAAGGCAACTTTCGAAAAAGGTTGGAATAAACTTATCTAAAACAACCTTAAAAAAGTTGGGATAG
64 TAAGACAACCTTC-AAAAAGGTTGGAATAAACTCATCTAAAACAACCTTAAAAAAGTTGGGATAG
* *
30373120 ATTCGTTTAAGGTAACC
128 ATCCGTTTAAGGCAACC
* * * * *
30373137 TTAAAAAGGTTGGGATAAACCTTGTCTAAGGTAAATTTTAAAAAAAGTTGGGATTGA-CCTATCT
1 TTAAAAAAGTTGGGATAAA-CTTGTCTAAGGCAAACTTTAAAAAAAGTTAGGATAGATCCTATCT
* * * * * * * *
30373201 AAGACAACCTT-AGAAATGTTGGGATAGACTCGTTTAAAGCAACCTTAAAAAGGTTGGGATAGA-
65 AAGACAACCTTCAAAAAGGTTGGAATAAACTCATCTAAAACAACCTTAAAAAAGTTGGGATAGAT
*
30373264 CCTTTTCCAAGGCAA-C
130 CCGTTT--AAGGCAACC
*
30373280 TTAAAAAAAGTTGGGATAAACTTGTCTAAGGC-AACCTTAAAAA
1 TT-AAAAAAGTTGGGATAAACTTGTCTAAGGCAAACTTTAAAAA
30373323 GGTTAGGGTA
Statistics
Matches: 155, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
142 13 0.08
143 57 0.37
144 22 0.14
145 15 0.10
146 40 0.26
147 8 0.05
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (144 bp):
TTAAAAAAGTTGGGATAAACTTGTCTAAGGCAAACTTTAAAAAAAGTTAGGATAGATCCTATCTA
AGACAACCTTCAAAAAGGTTGGAATAAACTCATCTAAAACAACCTTAAAAAAGTTGGGATAGATC
CGTTTAAGGCAACC
Found at i:30373335 original size:35 final size:35
Alignment explanation
Indices: 30372912--30373367 Score: 270
Period size: 35 Copynumber: 12.6 Consensus size: 35
30372902 TAGTCAAGAC
* *** *
30372912 CAACCATTGAAAAAGGTTGGGATAGACCCATCTAACG
1 CAACC-TT-AAAAAGGTTGGGATAAACTTGTCTAAGG
* * * ** *
30372949 CAACATTAAAAAGGTTGGAATAGACCAGTCTAAGA
1 CAACCTTAAAAAGGTTGGGATAAACTTGTCTAAGG
* ** * *
30372984 TATATTTTAAAAAAGTTTGGGATAGACCTTGTCTAAGG
1 CA-ACCTT-AAAAAGGTTGGGATA-AACTTGTCTAAGG
* * *
30373022 CAACCTTTAAAAAAAGTTAGGATAGATCTTGTCTAAGG
1 CAACC-TT-AAAAAGGTTGGGATA-AACTTGTCTAAGG
* * * **
30373060 CAACTTTCGAAAAAGGTTGGAATAAACTTATCTAAAA
1 CAACCTT--AAAAAGGTTGGGATAAACTTGTCTAAGG
* * *
30373097 CAACCTTAAAAAAGTTGGGATAGA-TTCGTTTAAGG
1 CAACCTTAAAAAGGTTGGGATAAACTT-GTCTAAGG
*
30373132 TAACCTTAAAAAGGTTGGGATAAACCTTGTCTAAGG
1 CAACCTTAAAAAGGTTGGGATAAA-CTTGTCTAAGG
* ** * ** * * *
30373168 TAAATTTTAAAAAAAGTTGGGATTGACCTATCTAAGA
1 -CAACCTT-AAAAAGGTTGGGATAAACTTGTCTAAGG
* * * * * *
30373205 CAACCTTAGAAATGTTGGGATAGACTCGTTTAAAG
1 CAACCTTAAAAAGGTTGGGATAAACTTGTCTAAGG
* * *
30373240 CAACCTTAAAAAGGTTGGGATAGACCTTTTCCAAGG
1 CAACCTTAAAAAGGTTGGGATA-AACTTGTCTAAGG
*
30373276 CAA-CTTAAAAAAAGTTGGGATAAACTTGTCTAAGG
1 CAACCTT-AAAAAGGTTGGGATAAACTTGTCTAAGG
***
30373311 CAACCTTAAAAAGGTTAGGG-TAAACCCATCTAAGG
1 CAACCTTAAAAAGGTT-GGGATAAACTTGTCTAAGG
**
30373346 CAAATTTAAAAAGGTTGGGATA
1 CAACCTTAAAAAGGTTGGGATA
30373368 GATCTTTGTC
Statistics
Matches: 320, Mismatches: 84, Indels: 32
0.73 0.19 0.07
Matches are distributed among these distances:
34 5 0.02
35 154 0.48
36 45 0.14
37 49 0.15
38 67 0.21
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (35 bp):
CAACCTTAAAAAGGTTGGGATAAACTTGTCTAAGG
Found at i:30373693 original size:75 final size:75
Alignment explanation
Indices: 30373565--30373711 Score: 224
Period size: 75 Copynumber: 2.0 Consensus size: 75
30373555 AATTTATATG
*
30373565 CAAAATCCTAATAGAAGCAGTTAACAAGTTGAGAACATGTTGTCAACCGGTTTCACATGACATAA
1 CAAAATCCTAATAGAAGCAGTAAACAAGTTGAGAACATGTTGTCAACCGGTTTCACATGACATAA
30373630 AAAAATTCTA
66 AAAAATTCTA
* * * * *
30373640 CAAAATCCTAATAGAAGCAGTAAACACGTTGCA-AATATGTTGTCAACCTGTTTCCCATGACATC
1 CAAAATCCTAATAGAAGCAGTAAACAAGTTG-AGAACATGTTGTCAACCGGTTTCACATGACATA
30373704 AAAAAATT
65 AAAAAATT
30373712 ATGGGACAAC
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
75 64 0.98
76 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (75 bp):
CAAAATCCTAATAGAAGCAGTAAACAAGTTGAGAACATGTTGTCAACCGGTTTCACATGACATAA
AAAAATTCTA
Found at i:30376794 original size:27 final size:27
Alignment explanation
Indices: 30376756--30376809 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
30376746 AAAATGTGAA
* *
30376756 ATACTACCGAGTATCGGTGTCGGCATT
1 ATACTACCGAGTATCGGTATCGACATT
30376783 ATACTACCGAGTATCGGTATCGACATT
1 ATACTACCGAGTATCGGTATCGACATT
30376810 CCATAGAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (27 bp):
ATACTACCGAGTATCGGTATCGACATT
Found at i:30380170 original size:29 final size:29
Alignment explanation
Indices: 30380128--30380188 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
30380118 ACTACAAAAA
*
30380128 TAGTCACTTTTGTTTGAAATGTTACGTTT
1 TAGTCACTTATGTTTGAAATGTTACGTTT
30380157 TAGTCACTTATGTTTGAAATGTTACGTTT
1 TAGTCACTTATGTTTGAAATGTTACGTTT
30380186 TAG
1 TAG
30380189 GGTCACTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.10, G:0.18, T:0.49
Consensus pattern (29 bp):
TAGTCACTTATGTTTGAAATGTTACGTTT
Found at i:30382807 original size:30 final size:29
Alignment explanation
Indices: 30382756--30382843 Score: 122
Period size: 30 Copynumber: 3.0 Consensus size: 29
30382746 ATACCGGAAT
*
30382756 AACATTGACTACATTAAAAAATTCTGAGC
1 AACATTGACTACATTAAAAAATTCTGAAC
* * *
30382785 AACATTGACTGCATTGAAAAAATTTTGAAT
1 AACATTGACTACATT-AAAAAATTCTGAAC
30382815 AACATTGACTACATTAAAAAATTGCTGAA
1 AACATTGACTACATTAAAAAATT-CTGAA
30382844 ATCCTGACTC
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
29 22 0.43
30 29 0.57
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (29 bp):
AACATTGACTACATTAAAAAATTCTGAAC
Found at i:30386174 original size:7 final size:7
Alignment explanation
Indices: 30386162--30386268 Score: 56
Period size: 7 Copynumber: 15.0 Consensus size: 7
30386152 ACTAATTAAT
30386162 CTAAACC
1 CTAAACC
30386169 CTAAACC
1 CTAAACC
*
30386176 TCTTAACCC
1 -C-TAAACC
*
30386185 CT-ATCC
1 CTAAACC
*
30386191 CATAAACA
1 C-TAAACC
*
30386199 CTAAACA
1 CTAAACC
* *
30386206 TTAAACA
1 CTAAACC
30386213 CTAAACC
1 CTAAACC
*
30386220 CTTAACC
1 CTAAACC
*
30386227 CCAAACC
1 CTAAACC
*
30386234 CTTACACC
1 C-TAAACC
*
30386242 TTAAA-C
1 CTAAACC
* *
30386248 TTCAACC
1 CTAAACC
30386255 CTAAACC
1 CTAAACC
30386262 CTAAACC
1 CTAAACC
30386269 ATAATCTCTA
Statistics
Matches: 77, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
6 9 0.12
7 54 0.70
8 9 0.12
9 5 0.06
ACGTcount: A:0.40, C:0.39, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:30386584 original size:41 final size:41
Alignment explanation
Indices: 30386539--30386756 Score: 305
Period size: 41 Copynumber: 5.3 Consensus size: 41
30386529 GTTATATGAC
* * *
30386539 TTTTAGCGGCGTTTTAGCAAAAACACCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
30386580 TTTTAGCGGCGTTTTACCAAAAGCACCGCCAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
30386621 ATTTAGCGGCGTTTTACCAAAAGGGCAGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
30386662 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
30386703 TTTTAGCGGCGTTTTACCGAAAA-AGCCGCTATTGCTCT-AT
1 TTTTAGCGGCGTTTTACC-AAAAGCGCCGCTAATGCTCTGGT
30386743 TTTTAGCGGCGTTT
1 TTTTAGCGGCGTTT
30386757 CTATTGCTTT
Statistics
Matches: 160, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
40 15 0.09
41 142 0.89
42 3 0.02
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:30394944 original size:29 final size:26
Alignment explanation
Indices: 30394890--30394954 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 26
30394880 CCTAAAGATG
*
30394890 AAGAAAAAAAGTATTAAAGAGAAAT-
1 AAGATAAAAAGTATTAAAGAGAAATA
*
30394915 AGGATAAAAAGTAAGTTAAAGAGATAAATA
1 AAGATAAAAAGT-A-TTAAAGAG--AAATA
30394945 AAGATAAAAA
1 AAGATAAAAA
30394955 TAAAAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 10 0.31
26 1 0.03
27 8 0.25
29 4 0.12
30 9 0.28
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (26 bp):
AAGATAAAAAGTATTAAAGAGAAATA
Found at i:30394957 original size:6 final size:6
Alignment explanation
Indices: 30394940--30394970 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
30394930 TTAAAGAGAT
*
30394940 AAATAA AGATAA AAATAA AAATAA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA AAATAA A
30394971 TAAAAGATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:30395528 original size:33 final size:33
Alignment explanation
Indices: 30395486--30395551 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
30395476 TGCATGGTCA
30395486 TGGTGGTGCGAGGAGTTTACACTCCTCATTCCT
1 TGGTGGTGCGAGGAGTTTACACTCCTCATTCCT
*
30395519 TGGTGGTGCGAGGAGTTTACACTTCTCATTCCT
1 TGGTGGTGCGAGGAGTTTACACTCCTCATTCCT
30395552 ACTATCAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.35
Consensus pattern (33 bp):
TGGTGGTGCGAGGAGTTTACACTCCTCATTCCT
Found at i:30407612 original size:40 final size:40
Alignment explanation
Indices: 30407568--30407712 Score: 215
Period size: 40 Copynumber: 3.6 Consensus size: 40
30407558 ACTACTTGCT
*
30407568 CAAATACCTTCGGGACTTAGCCCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
*
30407608 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
*
30407648 CAAATGCCTTC-GGAGCTTAGCCCGGA-ATTAGTCACT-AGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATA-TAGTAACTCA-CA
30407688 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
30407713 TTATCATCCG
Statistics
Matches: 97, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
39 4 0.04
40 90 0.93
41 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
Found at i:30414638 original size:10 final size:10
Alignment explanation
Indices: 30414623--30414649 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
30414613 CTCTTGAGCT
30414623 AATTCAAACA
1 AATTCAAACA
30414633 AATTCAAACA
1 AATTCAAACA
30414643 AATTCAA
1 AATTCAA
30414650 CTTATTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.59, C:0.19, G:0.00, T:0.22
Consensus pattern (10 bp):
AATTCAAACA
Found at i:30417914 original size:44 final size:44
Alignment explanation
Indices: 30417864--30417951 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
30417854 ACAGGCACAG
*
30417864 AACATATATCATATATATAAACAGAACTAGATGCAAATTTACAA
1 AACATATATCATATATAGAAACAGAACTAGATGCAAATTTACAA
*
30417908 AACATATATCATATATAGAAACAGAACTAGATGCAGATTTACAA
1 AACATATATCATATATAGAAACAGAACTAGATGCAAATTTACAA
30417952 TTCTAACCCC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (44 bp):
AACATATATCATATATAGAAACAGAACTAGATGCAAATTTACAA
Found at i:30427694 original size:46 final size:46
Alignment explanation
Indices: 30427632--30427719 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 46
30427622 ACTTAGTGCC
* *
30427632 AAATAAATAGTCGAAGCTGTATTAATCTCGCACACTAAGTGCCAAG
1 AAATAAATAGTCGAAGCTATATCAATCTCGCACACTAAGTGCCAAG
* * * * *
30427678 AAATATATAGTTGAAGCTATCTCAATCTTGTACACTAAGTGC
1 AAATAAATAGTCGAAGCTATATCAATCTCGCACACTAAGTGC
30427720 AAATATGTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 35 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (46 bp):
AAATAAATAGTCGAAGCTATATCAATCTCGCACACTAAGTGCCAAG
Found at i:30428996 original size:22 final size:21
Alignment explanation
Indices: 30428957--30429000 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
30428947 ATAAAGAATA
*
30428957 AAATTTTGTGCTATTTTACATT
1 AAATTTTGTGCTAATTTA-ATT
30428979 AAATTTT-TGCATAATTTAATT
1 AAATTTTGTGC-TAATTTAATT
30429000 A
1 A
30429001 TTTTATGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (21 bp):
AAATTTTGTGCTAATTTAATT
Found at i:30431539 original size:37 final size:38
Alignment explanation
Indices: 30431497--30431574 Score: 88
Period size: 38 Copynumber: 2.1 Consensus size: 38
30431487 ATATTTACAC
* * * *
30431497 ATTATAATAAAATG-TTATATTTG-AATACAATTTATTA
1 ATTAT-ATAAAATGATAATAATTGAAAAACAAGTTATTA
*
30431534 ATTATATAGAATGATAATAATTGAAAAACAAGTTATTA
1 ATTATATAAAATGATAATAATTGAAAAACAAGTTATTA
30431572 ATT
1 ATT
30431575 TATTAATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
36 7 0.21
37 12 0.35
38 15 0.44
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (38 bp):
ATTATATAAAATGATAATAATTGAAAAACAAGTTATTA
Found at i:30436361 original size:13 final size:14
Alignment explanation
Indices: 30436331--30436368 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
30436321 GTTTGCCAGT
30436331 AAAATGATTTCTGA
1 AAAATGATTTCTGA
30436345 AAAATGATTTCTGA
1 AAAATGATTTCTGA
*
30436359 AAAACGATTT
1 AAAATGATTT
30436369 ACTTTTCTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (14 bp):
AAAATGATTTCTGA
Found at i:30436377 original size:20 final size:19
Alignment explanation
Indices: 30436352--30436396 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
30436342 TGAAAAATGA
30436352 TTTCTGAAAAACGATTTACT
1 TTTCTG-AAAACGATTTACT
* *
30436372 TTTCTGGAAATGATTTACT
1 TTTCTGAAAACGATTTACT
30436391 TTTCTG
1 TTTCTG
30436397 GTGTTTGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (19 bp):
TTTCTGAAAACGATTTACT
Found at i:30438538 original size:18 final size:18
Alignment explanation
Indices: 30438511--30438555 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
30438501 TCAACTTCTT
*
30438511 ATAATTACAATGAAAATA
1 ATAATAACAATGAAAATA
** *
30438529 ATAATAACAATTCAAGTA
1 ATAATAACAATGAAAATA
30438547 ATAATAACA
1 ATAATAACA
30438556 TAATGAAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.60, C:0.09, G:0.04, T:0.27
Consensus pattern (18 bp):
ATAATAACAATGAAAATA
Found at i:30439459 original size:29 final size:29
Alignment explanation
Indices: 30439418--30439535 Score: 148
Period size: 29 Copynumber: 4.1 Consensus size: 29
30439408 TGACCCATCT
* *
30439418 CATTTATATGGCCCATCCGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
30439447 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* *
30439476 CATTCATATGGCCCATTAGGCCCAA-TCT
1 CATTCATATGGCCCATCAGGCCCAATTCA
* * * * *
30439504 CATTTATATGTCCCAACCGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
30439533 CAT
1 CAT
30439536 AACATTCATG
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 22 0.28
29 56 0.72
ACGTcount: A:0.27, C:0.34, G:0.13, T:0.26
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCCAATTCA
Found at i:30439490 original size:58 final size:57
Alignment explanation
Indices: 30439418--30439535 Score: 146
Period size: 57 Copynumber: 2.1 Consensus size: 57
30439408 TGACCCATCT
* * * *
30439418 CATTTATATGGCCCATCCGGCCCAATTCACATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAA-TCACATTCATATGGCCCAACAGGCCCAAATCA
* * * * *
30439476 CATTCATATGGCCCATTAGGCCCAATCTCATTTATATGTCCCAACCGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAATCACATTCATATGGCCCAACAGGCCCAAATCA
30439533 CAT
1 CAT
30439536 AACATTCATG
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
57 29 0.57
58 22 0.43
ACGTcount: A:0.27, C:0.34, G:0.13, T:0.26
Consensus pattern (57 bp):
CATTCATATGGCCCATCAGGCCCAATCACATTCATATGGCCCAACAGGCCCAAATCA
Found at i:30439779 original size:16 final size:16
Alignment explanation
Indices: 30439758--30439796 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
30439748 AAACTTTTGG
30439758 CTTTTCGGCATTTCGA
1 CTTTTCGGCATTTCGA
*
30439774 CTTTTCGGCATTTTGA
1 CTTTTCGGCATTTCGA
30439790 CTTTTCG
1 CTTTTCG
30439797 ACTTTTGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.10, C:0.23, G:0.18, T:0.49
Consensus pattern (16 bp):
CTTTTCGGCATTTCGA
Found at i:30446773 original size:19 final size:17
Alignment explanation
Indices: 30446741--30446776 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
30446731 ATGAAGAACG
30446741 GAAGAAGGAAAAGGAAA
1 GAAGAAGGAAAAGGAAA
30446758 GAAGAACGGAAAAAGGAAA
1 GAAGAA-GG-AAAAGGAAA
30446777 ATGAGCCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 2 0.12
19 9 0.53
ACGTcount: A:0.64, C:0.03, G:0.33, T:0.00
Consensus pattern (17 bp):
GAAGAAGGAAAAGGAAA
Found at i:30454655 original size:38 final size:38
Alignment explanation
Indices: 30454610--30454717 Score: 123
Period size: 38 Copynumber: 2.8 Consensus size: 38
30454600 TCCGGGCCTA
*
30454610 CCCGCAGGCTATATGCTGGAATTATATCCGGGTTAAAT
1 CCCGCAGGCTATGTGCTGGAATTATATCCGGGTTAAAT
* *
30454648 CCCGCAGGCT-TCGTGCTAGTAA-TATATCCGAGTTAAAT
1 CCCGCAGGCTAT-GTGCT-GGAATTATATCCGGGTTAAAT
* *
30454686 CCCGCAGGCCTA-GTGCTGGTATTATATTCGGG
1 CCCGCAGG-CTATGTGCTGGAATTATATCCGGG
30454718 CATTCGTGCC
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
37 3 0.05
38 50 0.86
39 5 0.09
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (38 bp):
CCCGCAGGCTATGTGCTGGAATTATATCCGGGTTAAAT
Found at i:30454758 original size:43 final size:43
Alignment explanation
Indices: 30454710--30454877 Score: 237
Period size: 43 Copynumber: 3.9 Consensus size: 43
30454700 GCTGGTATTA
* * **
30454710 TATTCGGGCATTCGTGCCTAGCAGGCTTCGTATCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
* * *
30454753 TATTCGAGCCTTCGTGCCTAGCAGGATTCATGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
*
30454796 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
* * *
30454839 TATTCGGGCCTTCGTGGCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGA
30454878 AATGATATGT
Statistics
Matches: 110, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 110 1.00
ACGTcount: A:0.15, C:0.23, G:0.32, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
Found at i:30461145 original size:22 final size:22
Alignment explanation
Indices: 30461097--30461151 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
30461087 ATGATAATAG
30461097 TAAAAAAATACGAAAGAAAAAA
1 TAAAAAAATACGAAAGAAAAAA
* * *
30461119 GAAAAAAATA-GAAATAGCAAAA
1 TAAAAAAATACGAAAGA-AAAAA
30461141 TAAAAATAATA
1 TAAAAA-AATA
30461152 AAAGTATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 5 0.19
22 18 0.67
23 4 0.15
ACGTcount: A:0.75, C:0.04, G:0.09, T:0.13
Consensus pattern (22 bp):
TAAAAAAATACGAAAGAAAAAA
Found at i:30461178 original size:17 final size:17
Alignment explanation
Indices: 30461140--30461195 Score: 78
Period size: 17 Copynumber: 3.2 Consensus size: 17
30461130 AAATAGCAAA
*
30461140 ATAAAAATAATAAAAGTAT
1 ATAAAAA-ATTAAAA-TAT
30461159 ATAAAAAATTAAAATAT
1 ATAAAAAATTAAAATAT
30461176 ATAAAAAATTAAAA-AT
1 ATAAAAAATTAAAATAT
30461192 ATAA
1 ATAA
30461196 GTATAAGAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
16 6 0.17
17 17 0.47
18 6 0.17
19 7 0.19
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
ATAAAAAATTAAAATAT
Found at i:30461261 original size:21 final size:20
Alignment explanation
Indices: 30461228--30461275 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
30461218 AATTAATTAG
* *
30461228 TAAAATAAAAATAAATAATA
1 TAAAATTAAAATAAATAAAA
30461248 TAACAATTAAAATAAATAAAA
1 TAA-AATTAAAATAAATAAAA
30461269 TAAAATT
1 TAAAATT
30461276 GGGGTGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAAATTAAAATAAATAAAA
Found at i:30462245 original size:21 final size:21
Alignment explanation
Indices: 30462234--30462283 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
30462224 TTTAAGGGTT
30462234 GGGGTTAATGGTTAGGGATTA
1 GGGGTTAATGGTTAGGGATTA
30462255 GGGGTTAA-GTGTTAAGGGGA-TA
1 GGGGTTAATG-GTT-A-GGGATTA
30462277 GGGGTTA
1 GGGGTTA
30462284 GGCGTTAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 1 0.04
21 11 0.42
22 10 0.38
23 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.46, T:0.30
Consensus pattern (21 bp):
GGGGTTAATGGTTAGGGATTA
Found at i:30462278 original size:22 final size:23
Alignment explanation
Indices: 30462248--30462294 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
30462238 TTAATGGTTA
*
30462248 GGGATTAGGGGTTAAGTGTTAAG
1 GGGATTAGGGGTTAAGCGTTAAG
*
30462271 GGGA-TAGGGGTTAGGCGTTAAG
1 GGGATTAGGGGTTAAGCGTTAAG
30462293 GG
1 GG
30462295 TAGAAGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.23, C:0.02, G:0.49, T:0.26
Consensus pattern (23 bp):
GGGATTAGGGGTTAAGCGTTAAG
Found at i:30462307 original size:29 final size:29
Alignment explanation
Indices: 30462243--30462311 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
30462233 TGGGGTTAAT
* * * *
30462243 GGTTAGGGATTAGGGGTTAAGTGTTAAGG
1 GGTTAGGGGTTAGGCGTTAAGTGGTAAAG
*
30462272 GGATAGGGGTTAGGCGTTAAG-GGTAGAAG
1 GGTTAGGGGTTAGGCGTTAAGTGGTA-AAG
30462301 GGTTAGGGGTT
1 GGTTAGGGGTT
30462312 TATGGTTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.23, C:0.01, G:0.48, T:0.28
Consensus pattern (29 bp):
GGTTAGGGGTTAGGCGTTAAGTGGTAAAG
Found at i:30462489 original size:21 final size:21
Alignment explanation
Indices: 30462478--30462527 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
30462468 TTTAAGGGTT
30462478 GGGGTTAATGGTTAGGGATTA
1 GGGGTTAATGGTTAGGGATTA
30462499 GGGGTTAA-GTGTTAAGGGGA-TA
1 GGGGTTAATG-GTT-A-GGGATTA
30462521 GGGGTTA
1 GGGGTTA
30462528 GGCGTTAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 1 0.04
21 11 0.42
22 10 0.38
23 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.46, T:0.30
Consensus pattern (21 bp):
GGGGTTAATGGTTAGGGATTA
Found at i:30462507 original size:244 final size:244
Alignment explanation
Indices: 30462078--30462565 Score: 976
Period size: 244 Copynumber: 2.0 Consensus size: 244
30462068 TATATAATTG
30462078 TAAAAGAGATAGTATTAATTTTAAAATATTGAATTAATTATCATTATAGTTTAGGGTTTACGGTA
1 TAAAAGAGATAGTATTAATTTTAAAATATTGAATTAATTATCATTATAGTTTAGGGTTTACGGTA
30462143 TATGGTTAAGGGTTTAATGTTTATGAGTTACTATTTTAAAGTTTATGGATTATGAGTCTAGGGAT
66 TATGGTTAAGGGTTTAATGTTTATGAGTTACTATTTTAAAGTTTATGGATTATGAGTCTAGGGAT
30462208 TATGGTTTAAGGGTGGTTTAAGGGTTGGGGTTAATGGTTAGGGATTAGGGGTTAAGTGTTAAGGG
131 TATGGTTTAAGGGTGGTTTAAGGGTTGGGGTTAATGGTTAGGGATTAGGGGTTAAGTGTTAAGGG
30462273 GATAGGGGTTAGGCGTTAAGGGTAGAAGGGTTAGGGGTTTATGGTTTAT
196 GATAGGGGTTAGGCGTTAAGGGTAGAAGGGTTAGGGGTTTATGGTTTAT
30462322 TAAAAGAGATAGTATTAATTTTAAAATATTGAATTAATTATCATTATAGTTTAGGGTTTACGGTA
1 TAAAAGAGATAGTATTAATTTTAAAATATTGAATTAATTATCATTATAGTTTAGGGTTTACGGTA
30462387 TATGGTTAAGGGTTTAATGTTTATGAGTTACTATTTTAAAGTTTATGGATTATGAGTCTAGGGAT
66 TATGGTTAAGGGTTTAATGTTTATGAGTTACTATTTTAAAGTTTATGGATTATGAGTCTAGGGAT
30462452 TATGGTTTAAGGGTGGTTTAAGGGTTGGGGTTAATGGTTAGGGATTAGGGGTTAAGTGTTAAGGG
131 TATGGTTTAAGGGTGGTTTAAGGGTTGGGGTTAATGGTTAGGGATTAGGGGTTAAGTGTTAAGGG
30462517 GATAGGGGTTAGGCGTTAAGGGTAGAAGGGTTAGGGGTTTATGGTTTAT
196 GATAGGGGTTAGGCGTTAAGGGTAGAAGGGTTAGGGGTTTATGGTTTAT
30462566 GAGTTAATAT
Statistics
Matches: 244, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
244 244 1.00
ACGTcount: A:0.28, C:0.02, G:0.31, T:0.39
Consensus pattern (244 bp):
TAAAAGAGATAGTATTAATTTTAAAATATTGAATTAATTATCATTATAGTTTAGGGTTTACGGTA
TATGGTTAAGGGTTTAATGTTTATGAGTTACTATTTTAAAGTTTATGGATTATGAGTCTAGGGAT
TATGGTTTAAGGGTGGTTTAAGGGTTGGGGTTAATGGTTAGGGATTAGGGGTTAAGTGTTAAGGG
GATAGGGGTTAGGCGTTAAGGGTAGAAGGGTTAGGGGTTTATGGTTTAT
Found at i:30462522 original size:22 final size:23
Alignment explanation
Indices: 30462492--30462538 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
30462482 TTAATGGTTA
*
30462492 GGGATTAGGGGTTAAGTGTTAAG
1 GGGATTAGGGGTTAAGCGTTAAG
*
30462515 GGGA-TAGGGGTTAGGCGTTAAG
1 GGGATTAGGGGTTAAGCGTTAAG
30462537 GG
1 GG
30462539 TAGAAGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.23, C:0.02, G:0.49, T:0.26
Consensus pattern (23 bp):
GGGATTAGGGGTTAAGCGTTAAG
Found at i:30462551 original size:29 final size:29
Alignment explanation
Indices: 30462487--30462555 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
30462477 TGGGGTTAAT
* * * *
30462487 GGTTAGGGATTAGGGGTTAAGTGTTAAGG
1 GGTTAGGGGTTAGGCGTTAAGTGGTAAAG
*
30462516 GGATAGGGGTTAGGCGTTAAG-GGTAGAAG
1 GGTTAGGGGTTAGGCGTTAAGTGGTA-AAG
30462545 GGTTAGGGGTT
1 GGTTAGGGGTT
30462556 TATGGTTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.23, C:0.01, G:0.48, T:0.28
Consensus pattern (29 bp):
GGTTAGGGGTTAGGCGTTAAGTGGTAAAG
Found at i:30462691 original size:35 final size:36
Alignment explanation
Indices: 30462617--30462692 Score: 102
Period size: 35 Copynumber: 2.1 Consensus size: 36
30462607 ATGTGTTGGG
* * *
30462617 GTTTAAGGGTTAGGGGTTAGGTGTTAAGGGTTTAGT
1 GTTTAAGGGTTAAGGGATAGGGGTTAAGGGTTTAGT
30462653 GTTTAAGGGTTAAGGGAT-GGGGTTATA-GGTTTAGT
1 GTTTAAGGGTTAAGGGATAGGGGTTA-AGGGTTTAGT
30462688 GTTTA
1 GTTTA
30462693 GGATTTAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 19 0.53
36 17 0.47
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.39
Consensus pattern (36 bp):
GTTTAAGGGTTAAGGGATAGGGGTTAAGGGTTTAGT
Found at i:30462692 original size:42 final size:42
Alignment explanation
Indices: 30462619--30462734 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
30462609 GTGTTGGGGT
* * *
30462619 TTAAGGGTTAGGGGTTAG-GTGTTAAGGGTTTAGTG-TTTAAGGG
1 TTAAGGGATAGGGGTTAGAG-GTTTAGGGTTTAG-GATTTAA-GA
* *
30462662 TTAAGGGAT-GGGGTTATAGGTTTAGTGTTTAGGATTTAAGA
1 TTAAGGGATAGGGGTTAGAGGTTTAGGGTTTAGGATTTAAGA
* *
30462703 TTTAGGGGTAGGGGTTAGAGGTTTAGGGTTTA
1 TTAAGGGATAGGGGTTAGAGGTTTAGGGTTTA
30462735 TATTAATTAG
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
41 9 0.15
42 43 0.70
43 9 0.15
ACGTcount: A:0.22, C:0.00, G:0.40, T:0.38
Consensus pattern (42 bp):
TTAAGGGATAGGGGTTAGAGGTTTAGGGTTTAGGATTTAAGA
Found at i:30462732 original size:7 final size:7
Alignment explanation
Indices: 30462615--30462734 Score: 59
Period size: 7 Copynumber: 17.0 Consensus size: 7
30462605 TTATGTGTTG
30462615 GGGTTTAA
1 GGGTTT-A
30462623 GGG-TTA
1 GGGTTTA
*
30462629 GGGGTTA
1 GGGTTTA
*
30462636 GGTGTTAA
1 GG-GTTTA
30462644 GGGTTTA
1 GGGTTTA
*
30462651 GTGTTTAA
1 GGGTTT-A
*
30462659 GGGTTAA
1 GGGTTTA
* *
30462666 GGG-ATG
1 GGGTTTA
30462672 GGGTTATA
1 GGGTT-TA
30462680 -GGTTTA
1 GGGTTTA
*
30462686 GTGTTTA
1 GGGTTTA
*
30462693 GGATTTA
1 GGGTTTA
* *
30462700 AGATTTA
1 GGGTTTA
*
30462707 GGG-GTA
1 GGGTTTA
*
30462713 GGGGTTA
1 GGGTTTA
30462720 GAGGTTTA
1 G-GGTTTA
30462728 GGGTTTA
1 GGGTTTA
30462735 TATTAATTAG
Statistics
Matches: 84, Mismatches: 20, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
6 14 0.17
7 50 0.60
8 20 0.24
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.38
Consensus pattern (7 bp):
GGGTTTA
Found at i:30469366 original size:43 final size:43
Alignment explanation
Indices: 30469301--30469390 Score: 126
Period size: 43 Copynumber: 2.1 Consensus size: 43
30469291 TTTTATGACT
* * * *
30469301 TTTAGCGGCGTTTTTGGAAAAAGGGTCGCTAAAGGTAATGATC
1 TTTAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGGTAATGATC
* *
30469344 TTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCATGATC
1 TTTAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGGTAATGATC
30469387 TTTA
1 TTTA
30469391 AAAGCGTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGGTAATGATC
Found at i:30469888 original size:18 final size:19
Alignment explanation
Indices: 30469867--30469911 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
30469857 TTTAAATTTT
*
30469867 AAAAATTAATTAAT-TTAA
1 AAAAATTAAATAATGTTAA
*
30469885 AAAAATGAAATAATGTTAA
1 AAAAATTAAATAATGTTAA
*
30469904 GAAAATTA
1 AAAAATTA
30469912 GCAGTGTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (19 bp):
AAAAATTAAATAATGTTAA
Found at i:30477252 original size:32 final size:34
Alignment explanation
Indices: 30477194--30477261 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 34
30477184 AATAAAATTT
30477194 CTTCTTTGAAAAGAAAGAGAAAAATCAATAACAA
1 CTTCTTTGAAAAGAAAGAGAAAAATCAATAACAA
30477228 CTTCTTTGAAAAG-AA-AGAAAAATCAATAACAA
1 CTTCTTTGAAAAGAAAGAGAAAAATCAATAACAA
30477260 CT
1 CT
30477262 CTTAGGCACC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 19 0.56
33 2 0.06
34 13 0.38
ACGTcount: A:0.54, C:0.13, G:0.10, T:0.22
Consensus pattern (34 bp):
CTTCTTTGAAAAGAAAGAGAAAAATCAATAACAA
Found at i:30479671 original size:17 final size:18
Alignment explanation
Indices: 30479642--30479675 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
30479632 AATAATGTGT
30479642 ATAATATTTGTGTTTGGG
1 ATAATATTTGTGTTTGGG
30479660 ATAATA-TTGTGTTTGG
1 ATAATATTTGTGTTTGG
30479676 ATATAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (18 bp):
ATAATATTTGTGTTTGGG
Found at i:30479681 original size:18 final size:17
Alignment explanation
Indices: 30479640--30479686 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
30479630 GTAATAATGT
30479640 GTATAATATTTGTGTTTG
1 GTATAATA-TTGTGTTTG
*
30479658 GGATAATATTGTGTTTG
1 GTATAATATTGTGTTTG
30479675 GATATAAATATT
1 G-TAT-AATATT
30479687 TTAGAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 10 0.40
18 9 0.36
19 6 0.24
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (17 bp):
GTATAATATTGTGTTTG
Found at i:30479992 original size:20 final size:19
Alignment explanation
Indices: 30479969--30480023 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
30479959 ATAAAAACCA
*
30479969 ATAAAAGATAATAAAAAATT
1 ATAAAAAATAATAAAAAA-T
***
30479989 ATAAATTTTAATAAAAAAT
1 ATAAAAAATAATAAAAAAT
*
30480008 ATAAAAAATATTAAAA
1 ATAAAAAATAATAAAA
30480024 TTTTATTAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
ATAAAAAATAATAAAAAAT
Found at i:30480015 original size:30 final size:30
Alignment explanation
Indices: 30479968--30480034 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
30479958 AATAAAAACC
*
30479968 AATAAAAGATAATAAAAA-ATTATAAATTTT
1 AATAAAAAATAATAAAAATATTA-AAATTTT
30479998 AATAAAAAAT-ATAAAAAATATTAAAATTTT
1 AATAAAAAATAAT-AAAAATATTAAAATTTT
*
30480028 ATTAAAA
1 AATAAAA
30480035 TTAAAAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 2 0.06
30 27 0.82
31 4 0.12
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (30 bp):
AATAAAAAATAATAAAAATATTAAAATTTT
Found at i:30480248 original size:18 final size:19
Alignment explanation
Indices: 30480225--30480266 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
30480215 TGTTACGATA
30480225 ATTTTTATATTTCTTTAC-
1 ATTTTTATATTTCTTTACG
*
30480243 ATTTTTATATTTTTTTACG
1 ATTTTTATATTTCTTTACG
30480262 ATTTT
1 ATTTT
30480267 ATAAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.69
Consensus pattern (19 bp):
ATTTTTATATTTCTTTACG
Found at i:30480323 original size:9 final size:9
Alignment explanation
Indices: 30480309--30480404 Score: 72
Period size: 9 Copynumber: 10.7 Consensus size: 9
30480299 TATATTTTAC
*
30480309 ATTTTTATG
1 ATTTTTATA
30480318 ATTTTTATAA
1 ATTTTTAT-A
* *
30480328 AATTTTACA
1 ATTTTTATA
*
30480337 TTTTTTATA
1 ATTTTTATA
*
30480346 ATCTTTTATG
1 AT-TTTTATA
30480356 ATTTTTATA
1 ATTTTTATA
*
30480365 ATTTTT-TT
1 ATTTTTATA
30480373 ATTTTTAATA
1 ATTTTT-ATA
*
30480383 AATTTT-T-
1 ATTTTTATA
*
30480390 ATTTTTATT
1 ATTTTTATA
30480399 ATTTTT
1 ATTTTT
30480405 TAAAAATTTA
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
7 5 0.07
8 9 0.13
9 34 0.50
10 20 0.29
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (9 bp):
ATTTTTATA
Found at i:30480332 original size:27 final size:27
Alignment explanation
Indices: 30480263--30480414 Score: 93
Period size: 28 Copynumber: 5.6 Consensus size: 27
30480253 TTTTTTACGA
*
30480263 TTTTATAAAATTTTATAATTATTT-TCTAT
1 TTTTATAAAATTTTA-CATT-TTTAT-TAT
* *
30480292 ATTTCTAT-ATATTTTACATTTTTATGAT
1 -TTT-TATAAAATTTTACATTTTTATTAT
*
30480320 TTTTATAAAATTTTACATTTTTTATAAT
1 TTTTATAAAATTTTACA-TTTTTATTAT
* * *
30480348 CTTTTAT-GATTTTTATAATTTTT-TTAT
1 -TTTTATAAAATTTTA-CATTTTTATTAT
*
30480375 TTTTA-ATAAATTTT-TATTTTTATTAT
1 TTTTATA-AAATTTTACATTTTTATTAT
*
30480401 TTTT-TAAAAATTTA
1 TTTTATAAAATTTTA
30480415 ATAATTGGTA
Statistics
Matches: 98, Mismatches: 13, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
25 12 0.12
26 17 0.17
27 20 0.20
28 25 0.26
29 11 0.11
30 10 0.10
31 3 0.03
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTTATAAAATTTTACATTTTTATTAT
Found at i:30480369 original size:56 final size:57
Alignment explanation
Indices: 30480243--30480391 Score: 139
Period size: 56 Copynumber: 2.6 Consensus size: 57
30480233 ATTTCTTTAC
* * *
30480243 ATTTTTATATTTTTTTACGA-TTTTATAAAATTTTATAATTATTTTCTATATTTCTAT
1 ATTTTTATA-ATTTTTATGATTTTTATAAAATTTTATAATTATTTTATATATTTCTAT
* * *
30480300 ATATTTTA-CATTTTTATGATTTTTATAAAATTTTA-CATT-TTTTATA-ATCTTTTAT
1 AT-TTTTATAATTTTTATGATTTTTATAAAATTTTATAATTATTTTATATAT-TTCTAT
* *
30480355 GATTTTTATAATTTTT-TTATTTTTAATAAATTTTTAT
1 -ATTTTTATAATTTTTATGATTTTT-ATAAAATTTTAT
30480392 TTTTATTATT
Statistics
Matches: 76, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
54 2 0.03
55 23 0.30
56 29 0.38
57 17 0.22
58 5 0.07
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (57 bp):
ATTTTTATAATTTTTATGATTTTTATAAAATTTTATAATTATTTTATATATTTCTAT
Found at i:30480370 original size:18 final size:18
Alignment explanation
Indices: 30480225--30480404 Score: 88
Period size: 19 Copynumber: 9.8 Consensus size: 18
30480215 TGTTACGATA
* *
30480225 ATTTTTATATTTCTTTA-C
1 ATTTTTATAATT-TTTATG
* *
30480243 ATTTTTATATTTTTTTACG
1 ATTTTTATA-ATTTTTATG
* *
30480262 ATTTTATAAAATTTTATAATT
1 ATTTT-TATAATTTT-T-ATG
*
30480283 ATTTTCTAT-ATTTCTAT-
1 ATTTT-TATAATTTTTATG
*
30480300 ATATTTTA-CATTTTTATG
1 AT-TTTTATAATTTTTATG
* *
30480318 ATTTTTATAAAATTTTA-C
1 ATTTTTAT-AATTTTTATG
30480336 ATTTTTTATAATCTTTTATG
1 A-TTTTTATAAT-TTTTATG
*
30480356 ATTTTTATAATTTTT-TT
1 ATTTTTATAATTTTTATG
*
30480373 ATTTTTAATAAATTTT-T-
1 ATTTTT-ATAATTTTTATG
*
30480390 ATTTTTATTATTTTT
1 ATTTTTATAATTTTT
30480405 TAAAAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 30
0.73 0.10 0.17
Matches are distributed among these distances:
16 7 0.05
17 29 0.22
18 36 0.28
19 41 0.32
20 9 0.07
21 8 0.06
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (18 bp):
ATTTTTATAATTTTTATG
Found at i:30480376 original size:17 final size:17
Alignment explanation
Indices: 30480338--30480405 Score: 75
Period size: 17 Copynumber: 3.9 Consensus size: 17
30480328 AATTTTACAT
*
30480338 TTTTTATAATCTTTTATGA
1 TTTTTATAAT-TTTT-TTA
30480357 TTTTTATAATTTTTTTA
1 TTTTTATAATTTTTTTA
*
30480374 TTTTTAATAA-ATTTTTA
1 TTTTT-ATAATTTTTTTA
*
30480391 TTTTTATTATTTTTT
1 TTTTTATAATTTTTT
30480406 AAAAATTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
16 3 0.07
17 22 0.51
18 8 0.19
19 10 0.23
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.72
Consensus pattern (17 bp):
TTTTTATAATTTTTTTA
Found at i:30480395 original size:26 final size:27
Alignment explanation
Indices: 30480356--30480413 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 27
30480346 ATCTTTTATG
*
30480356 ATTTTTATAATTTTTTTA-TTTTTAATAA
1 ATTTTTAT-ATTTTATTATTTTTTAA-AA
30480384 ATTTTTAT-TTTTATTATTTTTTAAAA
1 ATTTTTATATTTTATTATTTTTTAAAA
30480410 ATTT
1 ATTT
30480414 AATAATTGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 13 0.46
27 7 0.25
28 8 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (27 bp):
ATTTTTATATTTTATTATTTTTTAAAA
Found at i:30480427 original size:81 final size:85
Alignment explanation
Indices: 30480273--30480444 Score: 189
Period size: 81 Copynumber: 2.1 Consensus size: 85
30480263 TTTTATAAAA
* *
30480273 TTTTATAATTATTTTCTATATTTCTATATATTTTACATTTTTATGATTTTTATAAAATTTTACAT
1 TTTTATAATTATTTTCTATATTTCTATAAATTTTACATTTTTATGATTTTTATAAAAATTTACAT
** *
30480338 TTTTTATAATCTTTTA-TGAT
66 TTGGTATAA-CTTCTATTGAT
* *
30480358 TTTTATAATT-TTTT-TAT-TTT-TAATAAATTTT-TATTTTTATTATTTTT-TAAAAATTTA-A
1 TTTTATAATTATTTTCTATATTTCT-ATAAATTTTACATTTTTATGATTTTTATAAAAATTTACA
30480416 TAATTGGTATAACTTCTATTGAT
65 T--TTGGTATAACTTCTATTGAT
30480439 TTTTAT
1 TTTTAT
30480445 TTTTTTATCA
Statistics
Matches: 76, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
79 2 0.03
80 14 0.18
81 32 0.42
82 11 0.14
83 3 0.04
84 4 0.05
85 10 0.13
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (85 bp):
TTTTATAATTATTTTCTATATTTCTATAAATTTTACATTTTTATGATTTTTATAAAAATTTACAT
TTGGTATAACTTCTATTGAT
Found at i:30480809 original size:93 final size:90
Alignment explanation
Indices: 30480558--30480832 Score: 295
Period size: 92 Copynumber: 3.0 Consensus size: 90
30480548 CTTCCTGATG
* * *
30480558 CATTTTGGAAGTTCAAGTACTCAATTGAGTGCAACAAAAAATAAGAGTAAGGG-GTTAATTGCTT
1 CATTTTGAAAGTTCAAGTACCCAATTGAGTGC-A-AAAAAA-AA-AGT-AGGGAATTAATTGCTT
* * *
30480622 TTTTAAAAAAAATTTGAGGGTCTTTTTTATG
61 TTTTTAAAAAAATTTGAGAG-CTTTTTTATA
* * * * * *
30480653 TATTTTGAAAGTTCAAATACCCAATTGAGTGC-AAAACAAAAGCAGGAAATTAATTGTTTTTTTT
1 CATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAAGTAGGGAATTAATTG--CTTTTT
*
30480717 TTGAAAAAATTTGAGAGCATTTTTTATA
64 TTAAAAAAATTTGAGAGC-TTTTTTATA
* * *
30480745 CATTTTGAAAGTTCAAGTACCCAATTGAGAGCAAAAAAAAAAGTAGGGACTTAATTACTTTTTTT
1 CATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAAGTAGGGAATTAATTGCTTTTTTT
30480810 AAAAAAAGTTTGAGAG-TTTTTTA
66 AAAAAAA-TTTGAGAGCTTTTTTA
30480833 CACCCTTAAG
Statistics
Matches: 151, Mismatches: 23, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
89 3 0.02
90 16 0.11
91 16 0.11
92 69 0.46
93 19 0.13
95 28 0.19
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.36
Consensus pattern (90 bp):
CATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAAGTAGGGAATTAATTGCTTTTTTT
AAAAAAATTTGAGAGCTTTTTTATA
Found at i:30481546 original size:42 final size:43
Alignment explanation
Indices: 30481445--30481680 Score: 237
Period size: 43 Copynumber: 5.5 Consensus size: 43
30481435 TATAGCATGT
* * **
30481445 GCCGCTAAAGACCATGACTTTTAGCAGCGCTTTTTTTGA-AAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCT-ACAAAC
* *
30481488 GCCGCTAAAGATCATGACCTTTGGCGGCGC-TTTCCTACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCTACAAAC
*
30481530 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCTACAAAC
* * * * * *
30481573 GCCGCTAAAGACCATGACCTTTAACAGCACTTCTT-TTGCAAAT
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTT-TTCCTACAAAC
* * ** * *
30481616 GCCGCTAAAAATCATGACCCGTAGCGACGCTTTTCCCACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCTACAAAC
* *
30481659 GCCGCTAAA-ATCATAACCTTTA
1 GCCGCTAAAGACCATGACCTTTA
30481681 AAAAAATTAT
Statistics
Matches: 158, Mismatches: 31, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
41 1 0.01
42 48 0.30
43 107 0.68
44 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (43 bp):
GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCTACAAAC
Found at i:30481589 original size:85 final size:86
Alignment explanation
Indices: 30481445--30481681 Score: 255
Period size: 85 Copynumber: 2.8 Consensus size: 86
30481435 TATAGCATGT
* * *** *
30481445 GCCGCTAAAGACCATGACTTTTAGCAGCGCTTTTTTTGA-AAACGCCGCTAAAGATCATGACCTT
1 GCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTCCCACAAACGCCGCTAAAGACCATGACCTT
** * *
30481509 TGGCGGCGCTT-TCCTACAAAC
65 TAACAGCACTTCTCCTACAAAC
30481530 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTT
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTT
** * *
30481595 AACAGCACTTCTTTTGCAAAT
66 AACAGCACTTCTCCTACAAAC
* * ** * * *
30481616 GCCGCTAAAAATCATGACCCGTAGCGACGCTTTTCCCACAAACGCCGCTAAA-ATCATAACCTTT
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTT
30481680 AA
66 AA
30481682 AAAAATTATT
Statistics
Matches: 129, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
84 5 0.04
85 71 0.55
86 53 0.41
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (86 bp):
GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTT
AACAGCACTTCTCCTACAAAC
Found at i:30481678 original size:128 final size:128
Alignment explanation
Indices: 30481445--30481680 Score: 330
Period size: 128 Copynumber: 1.8 Consensus size: 128
30481435 TATAGCATGT
* * * * * **
30481445 GCCGCTAAAGACCATGACTTTTAGCAGCGCTTTTTTTGAAAACGCCGCTAAAGATCATGACCTTT
1 GCCGCTAAAGACCATGACCTTTAACAGCACTTCTTTTGAAAACGCCGCTAAAAATCATGACCCGT
* * * *
30481510 GGCGGCGCTTTCCTACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
66 AGCGACGCTTTCCCACAAACGCCGCTAAAGACCATAACCTTTAGCGGCGCTTTTCCCACAAAC
* *
30481573 GCCGCTAAAGACCATGACCTTTAACAGCACTTCTTTTGCAAATGCCGCTAAAAATCATGACCCGT
1 GCCGCTAAAGACCATGACCTTTAACAGCACTTCTTTTGAAAACGCCGCTAAAAATCATGACCCGT
*
30481638 AGCGACGCTTTTCCCACAAACGCCGCTAAA-ATCATAACCTTTA
66 AGCGACGC-TTTCCCACAAACGCCGCTAAAGACCATAACCTTTA
30481681 AAAAAATTAT
Statistics
Matches: 93, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
128 73 0.78
129 20 0.22
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (128 bp):
GCCGCTAAAGACCATGACCTTTAACAGCACTTCTTTTGAAAACGCCGCTAAAAATCATGACCCGT
AGCGACGCTTTCCCACAAACGCCGCTAAAGACCATAACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:30482667 original size:15 final size:16
Alignment explanation
Indices: 30482641--30482671 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
30482631 TCTCTCTTGC
30482641 TTTTAGATCATATATA
1 TTTTAGATCATATATA
30482657 TTTTA-ATCATATATA
1 TTTTAGATCATATATA
30482672 AGACAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTAGATCATATATA
Found at i:30485292 original size:25 final size:25
Alignment explanation
Indices: 30485230--30485299 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 25
30485220 GAGCAGTGCG
*
30485230 ACGGCGACGCAGAAGATGGTCAAGTC
1 ACGGCGATGCAG-AGATGGTCAAGTC
**
30485256 GACGGCGATGCAGCAGATGGTCGGGTC
1 -ACGGCGATGCAG-AGATGGTCAAGTC
30485283 -CGGCGATGCAGAGATGG
1 ACGGCGATGCAGAGATGG
30485300 GTTGGGATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
24 6 0.15
25 11 0.28
27 22 0.56
ACGTcount: A:0.24, C:0.21, G:0.41, T:0.13
Consensus pattern (25 bp):
ACGGCGATGCAGAGATGGTCAAGTC
Found at i:30485776 original size:16 final size:16
Alignment explanation
Indices: 30485755--30485798 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
30485745 AGAATTAGAT
30485755 AAAATTTGAAATCTTG
1 AAAATTTGAAATCTTG
*
30485771 AAAATTTGAAATCTTT
1 AAAATTTGAAATCTTG
30485787 AAAATTTGAAAT
1 AAAATTTGAAAT
30485799 TATTTAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.39
Consensus pattern (16 bp):
AAAATTTGAAATCTTG
Found at i:30486032 original size:14 final size:15
Alignment explanation
Indices: 30486003--30486035 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
30485993 CTTAACCCCT
*
30486003 AACCCCTAAGCCTTA
1 AACCCCTAACCCTTA
30486018 AACCCC-AACCCTTA
1 AACCCCTAACCCTTA
30486032 AACC
1 AACC
30486036 ATAACCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.36, C:0.45, G:0.03, T:0.15
Consensus pattern (15 bp):
AACCCCTAACCCTTA
Found at i:30486115 original size:14 final size:14
Alignment explanation
Indices: 30486079--30486123 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
30486069 TCATACACTT
*
30486079 TAAACCTTAAACTA
1 TAAACCCTAAACTA
*
30486093 TATAA-CCTAAACCA
1 TA-AACCCTAAACTA
30486107 TAAACCCTAAACTA
1 TAAACCCTAAACTA
30486121 TAA
1 TAA
30486124 TGATAATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 2 0.08
14 22 0.85
15 2 0.08
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:30486294 original size:14 final size:15
Alignment explanation
Indices: 30486272--30486309 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
30486262 AAAACATAAA
30486272 CCCTGAACCT-TGAAC
1 CCCT-AACCTCTGAAC
*
30486287 CCCTAACCTCTTAAC
1 CCCTAACCTCTGAAC
30486302 CCCTAACC
1 CCCTAACC
30486310 CCTAACACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.26, C:0.47, G:0.05, T:0.21
Consensus pattern (15 bp):
CCCTAACCTCTGAAC
Found at i:30486302 original size:22 final size:21
Alignment explanation
Indices: 30486277--30486342 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 21
30486267 ATAAACCCTG
30486277 AACCTTGAACCCCTAACCTCTT
1 AACCTT-AACCCCTAACCTCTT
* *
30486299 AACCCCTAACCCCTAACACT-TA
1 AA-CCTTAACCCCTAAC-CTCTT
30486321 AACCTTAAACCCC-AACC-CTT
1 AACCTT-AACCCCTAACCTCTT
30486341 AA
1 AA
30486343 ACCACCCTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
20 4 0.11
21 6 0.17
22 21 0.58
23 5 0.14
ACGTcount: A:0.35, C:0.42, G:0.02, T:0.21
Consensus pattern (21 bp):
AACCTTAACCCCTAACCTCTT
Found at i:30486368 original size:25 final size:25
Alignment explanation
Indices: 30486323--30486370 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
30486313 AACACTTAAA
*
30486323 CCTTAAACCCCAACCCTTAAACCAC
1 CCTTAAACCACAACCCTTAAACCAC
*
30486348 CCTTAAACCATAATCCC-TAAACC
1 CCTTAAACCACAA-CCCTTAAACC
30486371 CATAATCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.19
Consensus pattern (25 bp):
CCTTAAACCACAACCCTTAAACCAC
Found at i:30486373 original size:15 final size:15
Alignment explanation
Indices: 30486351--30486385 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
30486341 AAACCACCCT
*
30486351 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
30486365 TAAACCCATAATCCA
1 TAAACCCATAATCCA
30486380 TAAACC
1 TAAACC
30486386 TTAAAATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:30486390 original size:22 final size:22
Alignment explanation
Indices: 30486346--30486390 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
30486336 CCCTTAAACC
* *
30486346 ACCCTTAAACCATAATCCCTAA
1 ACCCATAAACCATAAACCCTAA
* *
30486368 ACCCATAATCCATAAACCTTAA
1 ACCCATAAACCATAAACCCTAA
30486390 A
1 A
30486391 ATTGTAACTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (22 bp):
ACCCATAAACCATAAACCCTAA
Found at i:30486813 original size:40 final size:38
Alignment explanation
Indices: 30486746--30487015 Score: 133
Period size: 40 Copynumber: 6.7 Consensus size: 38
30486736 AAAATTTTTT
* *
30486746 GCGGCGTTTTTTGAAAAA-CGCCACTAAAGATCAAGTATTA
1 GCGGCG-TTTTTAAAAAAGCGCCGCTAAAG-TCAA-TATTA
* *
30486786 GCGGCGTTTTCT-AAAAAGCGCTGCTAAAGGTGTACATA-TA
1 GCGGCGTTTT-TAAAAAAGCGCCGCTAAA-GT-CA-ATATTA
* *
30486826 GCGGCGTTTTTAAAAAAGCGCCGCTAATAGTCGATCTTTA
1 GCGGCGTTTTTAAAAAAGCGCCGCTAA-AGTCAAT-ATTA
* * * * *
30486866 GCGGCGTTTTT-AAAAAGTGCCTCTAAAGCCTGTTAAATTTTTTT
1 GCGGCGTTTTTAAAAAAGCGCCGCTAAA----G-TCAA--TATTA
*
30486910 GTGGCGTTTTTCAAAAAA-CGCCGCTAAAGGTGCACATA-TA
1 GCGGCGTTTTT-AAAAAAGCGCCGCTAAA-GT-CA-ATATTA
* * * *
30486950 GCGGCGTTTTTAAGAAAA-CGCCGCTAGTACTCGATCTTTA
1 GCGGCGTTTTTAA-AAAAGCGCCGCTA-AAGTCAAT-ATTA
30486990 GCGGCGTTTTT-AAAAAGCGCCGCTAA
1 GCGGCGTTTTTAAAAAAGCGCCGCTAA
30487016 TGCTCTTTCA
Statistics
Matches: 180, Mismatches: 25, Indels: 52
0.70 0.10 0.20
Matches are distributed among these distances:
38 9 0.05
39 35 0.19
40 94 0.52
41 8 0.04
42 4 0.02
43 3 0.02
44 13 0.07
45 9 0.05
46 5 0.03
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (38 bp):
GCGGCGTTTTTAAAAAAGCGCCGCTAAAGTCAATATTA
Found at i:30490854 original size:20 final size:20
Alignment explanation
Indices: 30490831--30490874 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
30490821 TAATACATTC
*
30490831 ATCAA-TTTTTAATATATGGA
1 ATCAACTTTTCAATATAT-GA
*
30490851 ATCAACTTTTCGATATATGA
1 ATCAACTTTTCAATATATGA
30490871 ATCA
1 ATCA
30490875 TAAGAGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (20 bp):
ATCAACTTTTCAATATATGA
Found at i:30491888 original size:17 final size:17
Alignment explanation
Indices: 30491863--30491898 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30491853 GAAATATGAA
*
30491863 ATTTATTTTATTAATTT
1 ATTTATTTTAATAATTT
*
30491880 ATTTTTTTTAATAATTT
1 ATTTATTTTAATAATTT
30491897 AT
1 AT
30491899 CTTGAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTATTTTAATAATTT
Found at i:30493331 original size:19 final size:18
Alignment explanation
Indices: 30493304--30493344 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
30493294 TAATTTAGTT
30493304 AAATGTAACTAAGTAACA
1 AAATGTAACTAAGTAACA
*
30493322 AAATGTTAACTAATTAACA
1 AAATG-TAACTAAGTAACA
30493341 AAAT
1 AAAT
30493345 AGCTGTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.56, C:0.10, G:0.07, T:0.27
Consensus pattern (18 bp):
AAATGTAACTAAGTAACA
Found at i:30497059 original size:14 final size:14
Alignment explanation
Indices: 30497040--30497067 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30497030 TTCAAAGTCA
30497040 ATGATAATGTAGAT
1 ATGATAATGTAGAT
30497054 ATGATAATGTAGAT
1 ATGATAATGTAGAT
30497068 TGAGATAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (14 bp):
ATGATAATGTAGAT
Found at i:30501052 original size:19 final size:18
Alignment explanation
Indices: 30501019--30501058 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
30501009 CTTTCATTTC
*
30501019 ATTTTTATGGTTTGCATT
1 ATTTTGATGGTTTGCATT
*
30501037 ATTTTGATGTGTTTGCTTT
1 ATTTTGATG-GTTTGCATT
30501056 ATT
1 ATT
30501059 GGTTCGAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.15, C:0.05, G:0.17, T:0.62
Consensus pattern (18 bp):
ATTTTGATGGTTTGCATT
Found at i:30505682 original size:44 final size:44
Alignment explanation
Indices: 30505619--30505887 Score: 135
Period size: 44 Copynumber: 5.8 Consensus size: 44
30505609 TATGGCGAAT
*
30505619 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGC
* * * * * **
30505663 CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTCAAGACAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CTAGC
* * * * * *
30505708 CTTATTTCCCT-AGCGTTACAGTGGAACAGATTAAAGCTACAAGTTATGGC
1 CTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTGAAGC--C-A-CTA--GC
** * *
30505758 GGATCTTATCTTTCTGAAGTTGCAGTGGAGCAGGTTGAAGCCACCAGC
1 ----CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGC
** * * * ** * **
30505806 CTTATCTCCCTGAAGTTTTAGTGGAGCAAACTGACGATAGTGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT-AGC
* * *
30505851 CTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
30505888 TATAAATTAC
Statistics
Matches: 161, Mismatches: 51, Indels: 25
0.68 0.22 0.11
Matches are distributed among these distances:
44 64 0.40
45 60 0.37
47 1 0.01
48 5 0.03
50 1 0.01
51 1 0.01
52 1 0.01
54 27 0.17
55 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGC
Found at i:30505724 original size:143 final size:142
Alignment explanation
Indices: 30505465--30505932 Score: 595
Period size: 143 Copynumber: 3.3 Consensus size: 142
30505455 ATTGAAGTCA
* * *
30505465 TTATGGCAAATCTTATCTTCCTGAAGTTGCAATAGAGCAGATTGAAGCCACCAGCCTTATCTCTC
1 TTATGGCGAATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGCCACCAGCCTTATCTCCC
* * * * *
30505530 TAAAGTTACAGCAGAGCAGACTGAAGACAACGAATCTTATTTCCTTGGCGTTGCAGTGGAACAAA
66 TGAAGTTACAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCT-GCGTTGCAGTGGAACAGA
30505595 TTAAAGCTACAAG
130 TTAAAGCTACAAG
* *
30505608 TTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGCCTTATCTCCC
1 TTATGGCGAATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGCCACCAGCCTTATCTCCC
* * *
30505673 TGAAGTTGCAGCGGAGCAGACTCAAGACAGCGAATCTTATTTCCCTAGCGTTACAGTGGAACAGA
66 TGAAGTTACAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCT-GCGTTGCAGTGGAACAGA
30505738 TTAAAGCTACAAG
130 TTAAAGCTACAAG
* * * *
30505751 TTATGGCGGATCTTATCTTTCTGAAGTTGCAGTGGAGCAGGTTGAAGCCACCAGCCTTATCTCCC
1 TTATGGCGAATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGCCACCAGCCTTATCTCCC
** * * * * * * *
30505816 TGAAGTTTTAGTGGAGCAAACTGACGATAGTGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGA
66 TGAAGTTACAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTG-CGTTGCAGTGGAACAGA
* * *
30505881 TTGAAGCTATAAA
130 TTAAAGCTACAAG
30505894 TTA---C-AGATCTTATC-TCTCTGAAGTTGCAGTAGAGCAGAT
1 TTATGGCGA-ATCTTATCTTC-CTGAAGTTGCAGTAGAGCAGAT
30505933 CATATCCAAA
Statistics
Matches: 286, Mismatches: 36, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
139 1 0.00
140 29 0.10
142 1 0.00
143 255 0.89
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (142 bp):
TTATGGCGAATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGCCACCAGCCTTATCTCCC
TGAAGTTACAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGCGTTGCAGTGGAACAGAT
TAAAGCTACAAG
Found at i:30506350 original size:15 final size:15
Alignment explanation
Indices: 30506311--30506340 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30506301 TGCCTAGGCC
*
30506311 TAAAACTAAATAAAA
1 TAAAACAAAATAAAA
30506326 TAAAACAAAATAAAA
1 TAAAACAAAATAAAA
30506341 ATAATAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (15 bp):
TAAAACAAAATAAAA
Found at i:30507907 original size:39 final size:39
Alignment explanation
Indices: 30507864--30507945 Score: 164
Period size: 39 Copynumber: 2.1 Consensus size: 39
30507854 GTTTGCTTAT
30507864 TTTAAATTTTTATTTAAACTCTTTATTAATTTTTATTCG
1 TTTAAATTTTTATTTAAACTCTTTATTAATTTTTATTCG
30507903 TTTAAATTTTTATTTAAACTCTTTATTAATTTTTATTCG
1 TTTAAATTTTTATTTAAACTCTTTATTAATTTTTATTCG
30507942 TTTA
1 TTTA
30507946 TTTACTCTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.62
Consensus pattern (39 bp):
TTTAAATTTTTATTTAAACTCTTTATTAATTTTTATTCG
Found at i:30510165 original size:17 final size:17
Alignment explanation
Indices: 30510145--30510182 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
30510135 TAGAATTGGG
30510145 TTGAGAAAATAATTTAA
1 TTGAGAAAATAATTTAA
* *
30510162 TTGAGAAATTAATTTAG
1 TTGAGAAAATAATTTAA
30510179 TTGA
1 TTGA
30510183 TTTAATTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (17 bp):
TTGAGAAAATAATTTAA
Found at i:30515178 original size:17 final size:18
Alignment explanation
Indices: 30515156--30515196 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
30515146 GACTGAGATA
*
30515156 AGAATT-CTGTTCATAAC
1 AGAATTCCTGTTCACAAC
*
30515173 AGAATTCCTGTTTACAAC
1 AGAATTCCTGTTCACAAC
30515191 AGAATT
1 AGAATT
30515197 GTAGATTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
AGAATTCCTGTTCACAAC
Found at i:30520085 original size:13 final size:13
Alignment explanation
Indices: 30520067--30520091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30520057 AATTTTTTTA
30520067 TTTTTAATTAATC
1 TTTTTAATTAATC
30520080 TTTTTAATTAAT
1 TTTTTAATTAAT
30520092 TTCTCTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATC
Found at i:30523582 original size:27 final size:25
Alignment explanation
Indices: 30523530--30523582 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
30523520 AAACTCTTCT
*
30523530 AAAAGAAACTCAAGAAAAATTCTTG
1 AAAAGAAACTCAAGAAAAATTATTG
* *
30523555 AAAAGAAAACTCAAAGAGAATTTATTG
1 AAAAG-AAACTC-AAGAAAAATTATTG
30523582 A
1 A
30523583 CTCAAAAGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 6 0.26
27 12 0.52
ACGTcount: A:0.57, C:0.09, G:0.13, T:0.21
Consensus pattern (25 bp):
AAAAGAAACTCAAGAAAAATTATTG
Found at i:30525949 original size:49 final size:52
Alignment explanation
Indices: 30525895--30526024 Score: 167
Period size: 53 Copynumber: 2.5 Consensus size: 52
30525885 GCCGATGCAA
* * * *
30525895 ATGTATTTGGAT-GATAA-AAATGTCTTCATTCTTTGAAACC-TCCATACTC
1 ATGTATTTGAATAGAAAACAAATGTCTTCATGCATTGAAACCATCCATACTC
30525944 ATGTATTTGAATGAGAAAACAAATGTCTTCATGCATTGAAACCATCCATACTC
1 ATGTATTTGAAT-AGAAAACAAATGTCTTCATGCATTGAAACCATCCATACTC
* *
30525997 ATGTATTTTAATGAGAAAAAAAATGTCT
1 ATGTATTTGAAT-AGAAAACAAATGTCT
30526025 CACTACACCA
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
49 11 0.15
51 4 0.06
52 21 0.30
53 35 0.49
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (52 bp):
ATGTATTTGAATAGAAAACAAATGTCTTCATGCATTGAAACCATCCATACTC
Found at i:30525972 original size:52 final size:53
Alignment explanation
Indices: 30525910--30526024 Score: 187
Period size: 53 Copynumber: 2.2 Consensus size: 53
30525900 TTTGGATGAT
* *
30525910 AAAAATGTCTTCATTCTTTGAAACC-TCCATACTCATGTATTTGAATGAGAAA
1 AAAAATGTCTTCATGCATTGAAACCATCCATACTCATGTATTTGAATGAGAAA
* *
30525962 ACAAATGTCTTCATGCATTGAAACCATCCATACTCATGTATTTTAATGAGAAA
1 AAAAATGTCTTCATGCATTGAAACCATCCATACTCATGTATTTGAATGAGAAA
30526015 AAAAATGTCT
1 AAAAATGTCT
30526025 CACTACACCA
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 22 0.39
53 35 0.61
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (53 bp):
AAAAATGTCTTCATGCATTGAAACCATCCATACTCATGTATTTGAATGAGAAA
Found at i:30526183 original size:43 final size:43
Alignment explanation
Indices: 30526121--30526369 Score: 336
Period size: 43 Copynumber: 5.8 Consensus size: 43
30526111 GAGTCGCTAA
* *
30526121 CTTTAGCGGCACTTTTCCCACAAACGCTGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * * *
30526164 CTTTAGCGGTGCTTATCCCACAAACGCCACTAAAGACTAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
30526207 CTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * * * * *
30526250 ATTTAGCGGTGCTTATCCCACAAATGCCGTTAAAGACCAAGAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * *
30526293 CTTTAGCGGCGCATTTCCCACAAACGCCACTAAAGACTAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* *
30526336 CTTTAGCGGTGCTTTTCCCACAAACACCGCTAAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
30526370 AACATGAATT
Statistics
Matches: 175, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 175 1.00
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.21
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:30526224 original size:86 final size:86
Alignment explanation
Indices: 30526119--30526369 Score: 376
Period size: 86 Copynumber: 2.9 Consensus size: 86
30526109 ACGAGTCGCT
* *
30526119 AACTTTAGCGGCACTTTTCCCACAAACGCTGCTAAAGACCAAGACCTTTAGCGGTGCTTATCCCA
1 AACTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGTGCTTATCCCA
* *
30526184 CAAACGCCACTAAAGACTAAG
66 CAAACGCCGCTAAAGACCAAG
* * *
30526205 ACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGACATTTAGCGGTGCTTATCCCA
1 AACTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGTGCTTATCCCA
* *
30526270 CAAATGCCGTTAAAGACCAAG
66 CAAACGCCGCTAAAGACCAAG
* * * *
30526291 AACTTTAGCGGCGCATTTCCCACAAACGCCACTAAAGACTAAGACCTTTAGCGGTGCTTTTCCCA
1 AACTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGTGCTTATCCCA
*
30526356 CAAACACCGCTAAA
66 CAAACGCCGCTAAA
30526370 AACATGAATT
Statistics
Matches: 146, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 146 1.00
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (86 bp):
AACTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGTGCTTATCCCA
CAAACGCCGCTAAAGACCAAG
Found at i:30526352 original size:129 final size:129
Alignment explanation
Indices: 30526122--30526369 Score: 381
Period size: 129 Copynumber: 1.9 Consensus size: 129
30526112 AGTCGCTAAC
* * * *
30526122 TTTAGCGGCACTTTTCCCACAAACGCTGCTAAAGACCAAGACCTTTAGCGGTGCTTATCCCACAA
1 TTTAGCGGCACTTATCCCACAAACGCCGCTAAAGACCAAGAACTTTAGCGGCGCTTATCCCACAA
*
30526187 ACGCCACTAAAGACTAAGACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGACA
66 ACGCCACTAAAGACTAAGACCTTTAGCAGCGCTTTTCCCACAAACACCGCTAAAGACCAAGACA
** * *
30526251 TTTAGCGGTGCTTATCCCACAAATGCCGTTAAAGACCAAGAACTTTAGCGGCGCATT-TCCCACA
1 TTTAGCGGCACTTATCCCACAAACGCCGCTAAAGACCAAGAACTTTAGCGGCGC-TTATCCCACA
* *
30526315 AACGCCACTAAAGACTAAGACCTTTAGCGGTGCTTTTCCCACAAACACCGCTAAA
65 AACGCCACTAAAGACTAAGACCTTTAGCAGCGCTTTTCCCACAAACACCGCTAAA
30526370 AACATGAATT
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
129 105 0.98
130 2 0.02
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (129 bp):
TTTAGCGGCACTTATCCCACAAACGCCGCTAAAGACCAAGAACTTTAGCGGCGCTTATCCCACAA
ACGCCACTAAAGACTAAGACCTTTAGCAGCGCTTTTCCCACAAACACCGCTAAAGACCAAGACA
Found at i:30526596 original size:35 final size:35
Alignment explanation
Indices: 30526557--30526653 Score: 185
Period size: 35 Copynumber: 2.8 Consensus size: 35
30526547 TTAAAACAAG
30526557 TTACATTCTATATTAGAATTACATAAGAAAATTGT
1 TTACATTCTATATTAGAATTACATAAGAAAATTGT
*
30526592 TTACATTCTCTATTAGAATTACATAAGAAAATTGT
1 TTACATTCTATATTAGAATTACATAAGAAAATTGT
30526627 TTACATTCTATATTAGAATTACATAAG
1 TTACATTCTATATTAGAATTACATAAG
30526654 TTCTATTTAC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 60 1.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (35 bp):
TTACATTCTATATTAGAATTACATAAGAAAATTGT
Found at i:30526650 original size:18 final size:19
Alignment explanation
Indices: 30526627--30526684 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 19
30526617 AGAAAATTGT
30526627 TTACATTCTATATTAGAA-
1 TTACATTCTATATTAGAAG
*
30526645 TTACATAAGTTCTAT-TTACAAG
1 TTAC---A-TTCTATATTAGAAG
30526667 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
30526685 AATTGTTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
18 10 0.31
19 6 0.19
21 6 0.19
22 10 0.31
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (19 bp):
TTACATTCTATATTAGAAG
Found at i:30531206 original size:7 final size:7
Alignment explanation
Indices: 30531196--30531240 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
30531186 CACTAACTCT
30531196 TAACCTC
1 TAACCTC
30531203 TAACCTC
1 TAACCTC
*
30531210 TAACCCC
1 TAACCTC
30531217 TAACCT-
1 TAACCTC
*
30531223 TAAACCCC
1 T-AACCTC
30531231 TAACCTC
1 TAACCTC
30531238 TAA
1 TAA
30531241 ATACTAACCC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 1 0.03
7 30 0.94
8 1 0.03
ACGTcount: A:0.33, C:0.42, G:0.00, T:0.24
Consensus pattern (7 bp):
TAACCTC
Found at i:30531213 original size:14 final size:14
Alignment explanation
Indices: 30531196--30531240 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
30531186 CACTAACTCT
*
30531196 TAACCTCTAACCTC
1 TAACCCCTAACCTC
30531210 TAACCCCTAACCT-
1 TAACCCCTAACCTC
30531223 TAAACCCCTAACCTC
1 T-AACCCCTAACCTC
30531238 TAA
1 TAA
30531241 ATACTAACCC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 1 0.04
14 26 0.93
15 1 0.04
ACGTcount: A:0.33, C:0.42, G:0.00, T:0.24
Consensus pattern (14 bp):
TAACCCCTAACCTC
Found at i:30531228 original size:21 final size:21
Alignment explanation
Indices: 30531196--30531267 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
30531186 CACTAACTCT
*
30531196 TAACCTCTAACCTCTAACCCC
1 TAACCTCTAACCCCTAACCCC
*
30531217 TAACCT-TAAACCCCTAACCTC
1 TAACCTCT-AACCCCTAACCCC
* *
30531238 TAA-ATACTAACCCCCAACCCC
1 TAACCT-CTAACCCCTAACCCC
*
30531259 -AACCCCTAA
1 TAACCTCTAA
30531268 ACATTATTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
20 8 0.20
21 31 0.77
22 1 0.03
ACGTcount: A:0.35, C:0.46, G:0.00, T:0.19
Consensus pattern (21 bp):
TAACCTCTAACCCCTAACCCC
Found at i:30531910 original size:41 final size:40
Alignment explanation
Indices: 30531850--30532077 Score: 276
Period size: 41 Copynumber: 5.5 Consensus size: 40
30531840 TTGCGGTGCT
* *
30531850 TTTTCAAAAAACGCTGCTAAGGGTCTGAGCATTAGCGGCGC
1 TTTTC-AAAAACGCCGCTAAAGGTCTGAGCATTAGCGGCGC
*
30531891 TTTTCAATAAATGCCGCTAAAGGTCTGAGCATTAGCGGCGC
1 TTTTCAA-AAACGCCGCTAAAGGTCTGAGCATTAGCGGCGC
* *
30531932 TTTTCTAAAAATGCCGCTAAAGGTCTGAGCATTAGCGACGC
1 TTTTC-AAAAACGCCGCTAAAGGTCTGAGCATTAGCGGCGC
* * *
30531973 TTTTCCATAAACGCTGCTAAAGGTCTGAGCATTAGCGACGC
1 TTTT-CAAAAACGCCGCTAAAGGTCTGAGCATTAGCGGCGC
* * **
30532014 TTTTCCAAAAAACACCGCTAAAGGTTTGAGCATTAGTAGCGC
1 TTTT-C-AAAAACGCCGCTAAAGGTCTGAGCATTAGCGGCGC
*
30532056 TTTCCCAAAAACGCCGCTAAAG
1 TTT-TCAAAAACGCCGCTAAAG
30532078 CCTTGAAAGG
Statistics
Matches: 166, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
40 2 0.01
41 129 0.78
42 35 0.21
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.25
Consensus pattern (40 bp):
TTTTCAAAAACGCCGCTAAAGGTCTGAGCATTAGCGGCGC
Found at i:30531992 original size:82 final size:82
Alignment explanation
Indices: 30531850--30532077 Score: 305
Period size: 82 Copynumber: 2.8 Consensus size: 82
30531840 TTGCGGTGCT
* * * * *
30531850 TTTTCAAAAAACGCTGCTAAGGGTCTGAGCATTAGCGGCGCTTTTCAATAAATGCCGCTAAAGGT
1 TTTTCAAAAAACGCCGCTAAAGGTCTGAGCATTAGCGACGCTTTTCCATAAACGCCGCTAAAGGT
*
30531915 CTGAGCATTAGCGGCGC
66 CTGAGCATTAGCGACGC
* * *
30531932 TTTTCTAAAAATGCCGCTAAAGGTCTGAGCATTAGCGACGCTTTTCCATAAACGCTGCTAAAGGT
1 TTTTCAAAAAACGCCGCTAAAGGTCTGAGCATTAGCGACGCTTTTCCATAAACGCCGCTAAAGGT
30531997 CTGAGCATTAGCGACGC
66 CTGAGCATTAGCGACGC
* * * * *
30532014 TTTTCCAAAAAACACCGCTAAAGGTTTGAGCATTAG-TAGCGCTTTCCCAAAAACGCCGCTAAAG
1 TTTT-CAAAAAACGCCGCTAAAGGTCTGAGCATTAGCGA-CGCTTTTCCATAAACGCCGCTAAAG
30532078 CCTTGAAAGG
Statistics
Matches: 127, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
82 78 0.61
83 49 0.39
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.25
Consensus pattern (82 bp):
TTTTCAAAAAACGCCGCTAAAGGTCTGAGCATTAGCGACGCTTTTCCATAAACGCCGCTAAAGGT
CTGAGCATTAGCGACGC
Found at i:30532223 original size:40 final size:40
Alignment explanation
Indices: 30532174--30532252 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
30532164 GTGTTTTCCA
30532174 AAAAGCGCCGCTAATCCTAGATCTTTAGCGGCGATTTTTG
1 AAAAGCGCCGCTAATCCTAGATCTTTAGCGGCGATTTTTG
* * * *
30532214 AAAAGCGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTT
1 AAAAGCGCCGCTAATCCTAGATCTTTAGCGGCGATTTTT
30532253 ATTCCAACCC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (40 bp):
AAAAGCGCCGCTAATCCTAGATCTTTAGCGGCGATTTTTG
Found at i:30532374 original size:50 final size:50
Alignment explanation
Indices: 30532306--30532416 Score: 150
Period size: 50 Copynumber: 2.2 Consensus size: 50
30532296 TAGTGTCTTC
* * **
30532306 ATGCATTGAAACCATCCATGCTTATGTATTTAAATGAGAAAAATGTCTAT
1 ATGCATTGAAACCATCCATACTTAAGTATTTAAATGAGAAAAACATCTAT
* * *
30532356 ATGCATTGAAACCCTCCATACTTAAGTATTTGAATGAGAAAAACATCTCT
1 ATGCATTGAAACCATCCATACTTAAGTATTTAAATGAGAAAAACATCTAT
*
30532406 ATACATTGAAA
1 ATGCATTGAAA
30532417 TTGTCCATCC
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.32
Consensus pattern (50 bp):
ATGCATTGAAACCATCCATACTTAAGTATTTAAATGAGAAAAACATCTAT
Found at i:30532437 original size:23 final size:24
Alignment explanation
Indices: 30532402--30532449 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
30532392 AGAAAAACAT
**
30532402 CTCTATACATTGAAATTGTCCATC
1 CTCTATACATTGAAAGCGTCCATC
*
30532426 CTCTATGC-TTGAAAGCGTCCATC
1 CTCTATACATTGAAAGCGTCCATC
30532449 C
1 C
30532450 ATGCTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.33
Consensus pattern (24 bp):
CTCTATACATTGAAAGCGTCCATC
Found at i:30532465 original size:19 final size:20
Alignment explanation
Indices: 30532430--30532476 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
30532420 TCCATCCTCT
*
30532430 ATGCTTGAAAGCGTCCATCC
1 ATGCTTGAAAACGTCCATCC
30532450 ATGCTT-AAAACGTCCATCC
1 ATGCTTGAAAACGTCCATCC
30532469 ATGCTTGA
1 ATGCTTGA
30532477 TGCTTGAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (20 bp):
ATGCTTGAAAACGTCCATCC
Found at i:30535298 original size:24 final size:24
Alignment explanation
Indices: 30535271--30535341 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
30535261 TCTCTCTTGC
* *
30535271 TCATTTTCTCTTTTCTTTTCTTTA
1 TCATTTTCTCTTTTCTTTACCTTA
*
30535295 TCATTTTCTTTTTTCTTTACCTTA
1 TCATTTTCTCTTTTCTTTACCTTA
30535319 TC-TTTT-TCTTTTCTCTTA-CTTA
1 TCATTTTCTCTTTTCT-TTACCTTA
30535341 T
1 T
30535342 TTTCTCTTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.29
23 7 0.17
24 23 0.55
ACGTcount: A:0.10, C:0.21, G:0.00, T:0.69
Consensus pattern (24 bp):
TCATTTTCTCTTTTCTTTACCTTA
Found at i:30535322 original size:18 final size:18
Alignment explanation
Indices: 30535286--30535329 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
30535276 TTCTCTTTTC
*
30535286 TTTTCTTTATCATTTTCTT
1 TTTTCTTTATCATTATC-T
*
30535305 TTTTCTTTA-CCTTATCT
1 TTTTCTTTATCATTATCT
30535322 TTTTCTTT
1 TTTTCTTT
30535330 TCTCTTACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 9 0.39
18 5 0.22
19 9 0.39
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTCTTTATCATTATCT
Found at i:30535336 original size:18 final size:18
Alignment explanation
Indices: 30535274--30535336 Score: 53
Period size: 17 Copynumber: 3.6 Consensus size: 18
30535264 CTCTTGCTCA
*
30535274 TTTTCTCTTTTC-TTTTC
1 TTTTCTCTTATCTTTTTC
30535291 TTTATCAT-TT-TCTTTTTTC
1 TTT-TC-TCTTATC-TTTTTC
*
30535310 TTTAC-CTTATCTTTTTC
1 TTTTCTCTTATCTTTTTC
30535327 TTTTCTCTTA
1 TTTTCTCTTA
30535337 CTTATTTTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
17 17 0.46
18 11 0.30
19 9 0.24
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTCTCTTATCTTTTTC
Found at i:30538318 original size:51 final size:51
Alignment explanation
Indices: 30538263--30538404 Score: 131
Period size: 51 Copynumber: 2.8 Consensus size: 51
30538253 ATCGTCTATG
* ** *
30538263 CTTTGAACCAACCCATGCAAATGTATTTGGATGAAAAAAAATGTTTTCATT
1 CTTTGAAACAACCCATGCAAATGTATTTAAATGAAAAAAAATGTCTTCATT
** ** * *
30538314 CTTTGAAACAGTCCATGCTCATGTATTTAAATGAGAAAAAATGTCTTCATG
1 CTTTGAAACAACCCATGCAAATGTATTTAAATGAAAAAAAATGTCTTCATT
* * * ** * *
30538365 CATTGAAACCATCCATGCCCATGTATTTTAATGAGAAAAA
1 CTTTGAAACAACCCATGCAAATGTATTTAAATGAAAAAAA
30538405 GGTCTTTATG
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 76 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (51 bp):
CTTTGAAACAACCCATGCAAATGTATTTAAATGAAAAAAAATGTCTTCATT
Found at i:30538438 original size:51 final size:51
Alignment explanation
Indices: 30538283--30538438 Score: 165
Period size: 51 Copynumber: 3.1 Consensus size: 51
30538273 ACCCATGCAA
** * * * * *
30538283 ATGTATTTGGATGAAAAAAAATGTTTTCATTCTTTGAAACAGTCCATGCT-C
1 ATGTATTTAAATGAGAAAAAAGGTCTTCATGCATTGAAACA-TCCATGCTCC
*
30538334 ATGTATTTAAATGAGAAAAAATGTCTTCATGCATTGAAACCATCCATGC-CC
1 ATGTATTTAAATGAGAAAAAAGGTCTTCATGCATTGAAA-CATCCATGCTCC
* * *
30538385 ATGTATTTTAATGAG-AAAAAGGTCTTTATGGATTGAAACTATCCATGCTCC
1 ATGTATTTAAATGAGAAAAAAGGTCTTCATGCATTGAAAC-ATCCATGCTCC
30538436 ATG
1 ATG
30538439 CTTGAAATCG
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
49 1 0.01
50 28 0.31
51 60 0.66
52 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (51 bp):
ATGTATTTAAATGAGAAAAAAGGTCTTCATGCATTGAAACATCCATGCTCC
Found at i:30538516 original size:19 final size:19
Alignment explanation
Indices: 30538417--30538520 Score: 109
Period size: 19 Copynumber: 5.2 Consensus size: 19
30538407 TCTTTATGGA
30538417 TTGAAACTATCCATGCTCCATGC
1 TTGAAAC-ATCCAT-CT--ATGC
* * *
30538440 TTGAAATCGTCCATCTTTGT
1 TTGAAA-CATCCATCTATGC
* *
30538460 TTGAAACATCCATATTTGC
1 TTGAAACATCCATCTATGC
30538479 TTGAAACATCCATCTATGC
1 TTGAAACATCCATCTATGC
*
30538498 TTGAAACATCCATCCATGC
1 TTGAAACATCCATCTATGC
30538517 TTGA
1 TTGA
30538521 TGCTTAAAGA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
19 49 0.69
20 8 0.11
22 2 0.03
23 11 0.15
24 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (19 bp):
TTGAAACATCCATCTATGC
Found at i:30559322 original size:123 final size:123
Alignment explanation
Indices: 30559127--30559470 Score: 521
Period size: 123 Copynumber: 2.8 Consensus size: 123
30559117 TCGAGTTCAT
* *
30559127 GTTTCTGATCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATC
1 GTTTCTGAACAAATAGTATAAAATCGCTTCTAGCAGGATGCTA-TTGAGAAGAATTTGTAAAATC
* *
30559192 GCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCGTGGAAGAAATAA-TTTTTTTGAC
65 GCACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTTTTTGAC
*
30559250 GTTTCTGAACAAATAGTATAAAATCGCTTCTAGCAAGATGCTATTAGAGAAGAATTTGTAAAATC
1 GTTTCTGAACAAATAGTATAAAATCGCTTCTAGCAGGATGCTATT-GAGAAGAATTTGTAAAATC
* * * *
30559315 GCACCCTCGTGGACGTGCTTTTGTTATAGTCA-GTCATGGAAGAAATAATTTTTTTTTAC
65 GCACCCTCGTGGACGCGCTTTTGCTACAGT-AGGTCATGGAAGAAATAATTTTTTTTGAC
* * *
30559374 GTTTCTGAGCAAATAGTATACAATCGCTTCTAGCAGGATGCTATCTGAGAAAAATTTGTAAAATC
1 GTTTCTGAACAAATAGTATAAAATCGCTTCTAGCAGGATGCTAT-TGAGAAGAATTTGTAAAATC
*
30559439 GCACCCTCGTAGACGCGCTTTTGCTACAGTAG
65 GCACCCTCGTGGACGCGCTTTTGCTACAGTAG
30559471 CATGTTTGGG
Statistics
Matches: 199, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
122 2 0.01
123 101 0.51
124 95 0.48
125 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (123 bp):
GTTTCTGAACAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTGAGAAGAATTTGTAAAATCG
CACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTTTTTGAC
Found at i:30562623 original size:116 final size:116
Alignment explanation
Indices: 30562418--30562777 Score: 625
Period size: 116 Copynumber: 3.1 Consensus size: 116
30562408 TAAGTTTGTG
*
30562418 AAATTATTAATTGATAAATTGCATTAATCG-TTAGTAACAATTATCAAATTATATAAAATTATTA
1 AAATTATTAATTGGTAAATTGCATTAAT-GATTAGTAA-AATTATCAAATTATATAAAATTATTA
* ** *
30562482 ATTGTTAGTACCA-GTCAAAATATTTTTCCAAATCTAACATTATGTGAATGTA
64 ATTGTTAGTACTAGGAAAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
30562534 AAATTATTAATTGGTAAATTGCATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
1 AAATTATTAATTGGTAAATTGCATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
30562599 TGTTAGTACTAGGAAAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
66 TGTTAGTACTAGGAAAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
*
30562650 AAATTATTAATTGGTAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
1 AAATTATTAATTGGTAAATTGCATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
*
30562715 TGTTAGTACTAGGAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
66 TGTTAGTACTAGGAAAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
30562766 AAATTATTAATT
1 AAATTATTAATT
30562778 TCATTTAGGG
Statistics
Matches: 235, Mismatches: 7, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
115 39 0.17
116 196 0.83
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.39
Consensus pattern (116 bp):
AAATTATTAATTGGTAAATTGCATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAAT
TGTTAGTACTAGGAAAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
Found at i:30562902 original size:28 final size:23
Alignment explanation
Indices: 30562782--30563020 Score: 251
Period size: 23 Copynumber: 10.5 Consensus size: 23
30562772 TTAATTTCAT
30562782 TTAGGGTTTTTAA-TTAAATTAGG
1 TTAGGGTTTTTAAGTT-AATTAGG
*
30562805 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAATTAGG
30562828 TTAGGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAAGTTAATTAGG
***
30562851 TTAGGGTTTTTAAGTTAAGGGGG
1 TTAGGGTTTTTAAGTTAATTAGG
* * *
30562874 TTAGGGTTTTTAAGTTTA-GAGT
1 TTAGGGTTTTTAAGTTAATTAGG
30562896 TTAGGGTTTTTAA-TTCAATTAGG
1 TTAGGGTTTTTAAGTT-AATTAGG
* *
30562919 TTA-GGATTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAATTAGG
30562941 TTAGGGTTTTTAAG-T--TTAGGG
1 TTAGGGTTTTTAAGTTAATTA-GG
*** *
30562962 TTTAATATTTTTAA-TTAAACTAGG
1 -TTAGGGTTTTTAAGTT-AATTAGG
*
30562986 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAATTAGG
30563009 TTAGGGTTTTTA
1 TTAGGGTTTTTA
30563021 TACATGTCTA
Statistics
Matches: 183, Mismatches: 21, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.02
21 4 0.02
22 46 0.25
23 122 0.67
24 6 0.03
25 2 0.01
ACGTcount: A:0.26, C:0.01, G:0.24, T:0.49
Consensus pattern (23 bp):
TTAGGGTTTTTAAGTTAATTAGG
Found at i:30562952 original size:90 final size:90
Alignment explanation
Indices: 30562788--30563018 Score: 295
Period size: 90 Copynumber: 2.6 Consensus size: 90
30562778 TCATTTAGGG
** *
30562788 TTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTT
1 TTTTTAATTAAACGAGGTTAGGGTTTTTAATTTAATTAGGTTA-GGATTTTAAGTTAATTAGGTT
* *
30562853 AGGGTTTTTAAGTTAAGGGGGTTAGGG
65 AGGGTTTTTAAGTTAA-GGGGTTAAGA
* * * *
30562880 TTTTTAAGTT-TA-GAGTTTAGGGTTTTTAATTCAATTAGGTTAGGATTTTAATTTAATTAGGTT
1 TTTTTAA-TTAAACGAGGTTAGGGTTTTTAATTTAATTAGGTTAGGATTTTAAGTTAATTAGGTT
* * *
30562943 AGGGTTTTTAAGTTTAGGGTTTAATA
65 AGGGTTTTTAAGTTAAGGGGTTAAGA
* *
30562969 TTTTTAATTAAACTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTT
1 TTTTTAATTAAACGAGGTTAGGGTTTTTAATTTAATTAGGTTAGGATTTT
30563019 TATACATGTC
Statistics
Matches: 120, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
88 2 0.02
89 14 0.12
90 67 0.56
91 27 0.22
92 8 0.07
93 2 0.02
ACGTcount: A:0.26, C:0.01, G:0.23, T:0.49
Consensus pattern (90 bp):
TTTTTAATTAAACGAGGTTAGGGTTTTTAATTTAATTAGGTTAGGATTTTAAGTTAATTAGGTTA
GGGTTTTTAAGTTAAGGGGTTAAGA
Done.