Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 72 of 344
Found at i:23397444 original size:80 final size:79
Alignment explanation
Indices: 23397305--23397470 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 79
23397295 GGACTAAGAT
* **
23397305 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
23397369 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
23397385 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
23397449 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
23397464 CCGAAGG
1 CCGAAGG
23397471 TACGTGATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
79 16 0.21
80 59 0.77
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:23399764 original size:40 final size:40
Alignment explanation
Indices: 23399727--23399912 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
23399717 GATACTCGTT
* *
23399727 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
23399767 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
23399807 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*** * * * *
23399847 CAAATGCCTTC-GGATCTTAGTTCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
23399888 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
23399913 CATCATTCAA
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:23407468 original size:37 final size:37
Alignment explanation
Indices: 23407426--23407499 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
23407416 ATTTGAACTG
*
23407426 TTTATTTGCTTATGACTTATTAAGCTATAAAAGCTTA
1 TTTATTTGCTTATGACTTACTAAGCTATAAAAGCTTA
*
23407463 TTTATTTGCTTATGATTTACTAAGCTATAAAAGCTTA
1 TTTATTTGCTTATGACTTACTAAGCTATAAAAGCTTA
23407500 CTTTGTGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (37 bp):
TTTATTTGCTTATGACTTACTAAGCTATAAAAGCTTA
Found at i:23418697 original size:20 final size:18
Alignment explanation
Indices: 23418661--23418703 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
23418651 GAGATTAGTA
23418661 AAATTTTAATCTTAAGT-
1 AAATTTTAATCTTAAGTC
23418678 AAATTTTAATCATTTTAAGTC
1 AAATTTTAATC---TTAAGTC
23418699 AAATT
1 AAATT
23418704 AATATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 11 0.50
20 6 0.27
21 5 0.23
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (18 bp):
AAATTTTAATCTTAAGTC
Found at i:23423500 original size:30 final size:31
Alignment explanation
Indices: 23423466--23423524 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
23423456 ATTTTCGGAC
* *
23423466 CTAGGGGTAAAATGGTCATTTTG-CAAATGT
1 CTAGGGGCAAAATGATCATTTTGCCAAATGT
23423496 CTAGGGGCAAAATGATCATTTTGCCAAAT
1 CTAGGGGCAAAATGATCATTTTGCCAAAT
23423525 TATAAATTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.31
Consensus pattern (31 bp):
CTAGGGGCAAAATGATCATTTTGCCAAATGT
Found at i:23426927 original size:48 final size:48
Alignment explanation
Indices: 23426776--23427329 Score: 437
Period size: 48 Copynumber: 11.6 Consensus size: 48
23426766 TTGTGAGAGC
* **
23426776 CAGTGTAAGACCATGTCTGGGACATGGCATC-A-GCAT-TGAGAAGAAAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACACATAT-AG-AG-GTGT
* *
23426823 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC--A-AGATGTGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGAC-ACATATAGAGGTGT
* * *
23426868 CAGTGAAAGACCATGTTTGGGACATGGCATCAACACATATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACACATATAGAGGTGT
* * *
23426916 CAGTATAAGACCATGTCTGGGACATGGCATCGGCACTTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACACATATAGAGGTGT
* * * * * * *
23426964 TAGTGTGAGACCATGTTTGGGACATGGCATCGGCACAGATATATAAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACACATATAGAGGTGT
* *
23427013 CTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCTAC--A-AGATGTGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGAC-ACATATAGAGGTGT
*
23427059 CAGTGTAAGACCATGTCTGGGACATGGCATCAACACATATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACACATATAGAGGTGT
* * * *
23427107 CAGTATAAGACCATGTGTGGGACATGGCATCGGCACTTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACACATATAGAGGTGT
* * * * *
23427155 CAGTGTGAGACCATGTTTGGGACATGGCATCGGCACGGATAT-GTAAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACAC--ATATAG-AGGTGT
* * * * *
23427204 CTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTTGA--TAGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATC-GACAC-ATATAGAGGT-GT
* * * * * *
23427254 CAGTGTAAGACCATGTTTGGGACATGGCATCG--ACTTGATGGATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACACAT-ATAGAGGTGT
*
23427301 CAGTGTAAGACCATGTCTGAGACATGGCA
1 CAGTGTAAGACCATGTCTGGGACATGGCA
23427330 CCGGTATTAT
Statistics
Matches: 411, Mismatches: 65, Indels: 62
0.76 0.12 0.12
Matches are distributed among these distances:
44 9 0.02
45 48 0.12
46 25 0.06
47 46 0.11
48 171 0.42
49 38 0.09
50 70 0.17
51 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGACACATATAGAGGTGT
Found at i:23427060 original size:191 final size:191
Alignment explanation
Indices: 23426776--23427284 Score: 792
Period size: 191 Copynumber: 2.7 Consensus size: 191
23426766 TTGTGAGAGC
* * * ** * *
23426776 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGA-AGAA-AGCTAGTGTAAGA-CATG
1 CAGTGTGAGACCATGTTTGGGACATGGCATCGGCACAGATATATAAGAGCTAGTGTAAGACCATG
*
23426838 TCTGGGACATGCATCGGCTACAAGATGTGTCAGTGAAAGACCATGTTTGGGACATGGCATCAACA
66 TCTGGGACATGCATCGGCTACAAGATGTGTCAGTGTAAGACCATGTTTGGGACATGGCATCAACA
23426903 CATATAGAGGTGTCAGTATAAGACCATGTCTGGGACATGGCATCGGCACTTATAGAGGTGT
131 CATATAGAGGTGTCAGTATAAGACCATGTCTGGGACATGGCATCGGCACTTATAGAGGTGT
*
23426964 TAGTGTGAGACCATGTTTGGGACATGGCATCGGCACAGATATATAAGAGCTAGTGTAAGACCATG
1 CAGTGTGAGACCATGTTTGGGACATGGCATCGGCACAGATATATAAGAGCTAGTGTAAGACCATG
*
23427029 TCTGGGACATGCATCGGCTACAAGATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCAACA
66 TCTGGGACATGCATCGGCTACAAGATGTGTCAGTGTAAGACCATGTTTGGGACATGGCATCAACA
*
23427094 CATATAGAGGTGTCAGTATAAGACCATGTGTGGGACATGGCATCGGCACTTATAGAGGTGT
131 CATATAGAGGTGTCAGTATAAGACCATGTCTGGGACATGGCATCGGCACTTATAGAGGTGT
* *
23427155 CAGTGTGAGACCATGTTTGGGACATGGCATCGGCACGGATATGTAAGAGCTAGTGTAAGACCATG
1 CAGTGTGAGACCATGTTTGGGACATGGCATCGGCACAGATATATAAGAGCTAGTGTAAGACCATG
* ***
23427220 TCTGGGACATGGCGTCGGCCT-CGATTTTGATAGTCAGTGTAAGACCATGTTTGGGACATGGCAT
66 TCTGGGACAT-GCATCGG-CTAC-AAGATG-T-GTCAGTGTAAGACCATGTTTGGGACATGGCAT
23427284 C
126 C
23427285 GACTTGATGG
Statistics
Matches: 294, Mismatches: 19, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
188 34 0.12
189 3 0.01
190 13 0.04
191 199 0.68
192 7 0.02
193 5 0.02
194 1 0.00
195 32 0.11
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (191 bp):
CAGTGTGAGACCATGTTTGGGACATGGCATCGGCACAGATATATAAGAGCTAGTGTAAGACCATG
TCTGGGACATGCATCGGCTACAAGATGTGTCAGTGTAAGACCATGTTTGGGACATGGCATCAACA
CATATAGAGGTGTCAGTATAAGACCATGTCTGGGACATGGCATCGGCACTTATAGAGGTGT
Found at i:23427100 original size:143 final size:142
Alignment explanation
Indices: 23426776--23427329 Score: 438
Period size: 146 Copynumber: 3.9 Consensus size: 142
23426766 TTGTGAGAGC
* ** *
23426776 CAGTGTAAGACCATGTCTGGGACATGGCATC-A-GCAT-TGAGAAGAAAG-CTAGTGTAAGA-CA
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAACACATAT-AG-AG-GTGTC-AGTATAAGACCA
* * * * *
23426836 TGTCTGGGACAT-GCATCGGCTAC--A-AGATGTGTCAGTGAAAGACCATGTTTGGGACATGGCA
62 TGTGTGGGACATGGCATCGGC-ACATATAGAAGAGTCAGTGTAAGACCATGTCTGGGACATGGCA
** * *
23426897 TCAACACATATAGAGGTGT
126 TCGGCAC-GA-AGATGTGT
* ** * * * * *
23426916 CAGTATAAGACCATGTCTGGGACATGGCATCGGCACTTATAGAGGTGTTAGTGTGAGACCATGTT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAACACATATAGAGGTGTCAGTATAAGACCATGTG
*
23426981 TGGGACATGGCATCGGCACAGATATATAAGAG-CTAGTGTAAGACCATGTCTGGGACAT-GCATC
66 TGGGACATGGCATCGGCAC--ATATAGAAGAGTC-AGTGTAAGACCATGTCTGGGACATGGCATC
23427044 GGCTAC-AAGATGTGT
128 GGC-ACGAAGATGTGT
23427059 CAGTGTAAGACCATGTCTGGGACATGGCATCAACACATATAGAGGTGTCAGTATAAGACCATGTG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAACACATATAGAGGTGTCAGTATAAGACCATGTG
* * * * *
23427124 TGGGACATGGCATCGGCACTTATAGAGGTGTCAGTGTGAGACCATGTTTGGGACATGGCATCGGC
66 TGGGACATGGCATCGGCACATATAGAAGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
* * *
23427189 ACGGATATGTAAGAG
131 ACGAAGATGT--G-T
* ** * * * *
23427204 CTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTTGA--TAGTCAGTGTAAGACCA
1 C-AGTGTAAGACCATGTCTGGGACATGGCATC-AACAC-ATATAGAGGT-GTCAGTATAAGACCA
* * * * * *
23427267 TGTTTGGGACATGGCATC-G-ACTTGATGGATGAGCCAGTGTAAGACCATGTCTGAGACATGGCA
62 TGTGTGGGACATGGCATCGGCACAT-ATAGAAGAGTCAGTGTAAGACCATGTCTGGGACATGGCA
23427330 CCGGTATTAT
Statistics
Matches: 341, Mismatches: 49, Indels: 42
0.79 0.11 0.10
Matches are distributed among these distances:
140 39 0.11
141 48 0.14
142 26 0.08
143 84 0.25
144 2 0.01
145 13 0.04
146 91 0.27
147 33 0.10
148 5 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (142 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCAACACATATAGAGGTGTCAGTATAAGACCATGTG
TGGGACATGGCATCGGCACATATAGAAGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
ACGAAGATGTGT
Found at i:23434841 original size:48 final size:47
Alignment explanation
Indices: 23434782--23435202 Score: 251
Period size: 47 Copynumber: 8.9 Consensus size: 47
23434772 ACCACATTAT
* * * *
23434782 GAGAGCCAGTGTAAGACCATATTTGGGACATGGCATCGGCATGGAGA
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATA
* *
23434829 CGAGAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGAT-
1 -GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-G-GATA
* **
23434876 GTA-AGCTAGTGTAAGA-TATGTCTGGGACAT-GCATCGGC-TACA-A
1 G-AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATA
* * *
23434919 GATGTG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGACATGTATA
1 GA-GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATA
* * * *
23434967 GAG-GTGTCAGTGTAAGACCATGTTTGGG-CATGGCATTGGCACT-TATA
1 GAGAG-CT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TGGATA
* * * * *
23435014 GAGGTGTTAGTGTAAGACCATGTTTGGGACATGGCATCGACACGGATA
1 GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATA
* * * * *
23435062 TGTAAGAGCTAGTGTAATACCATGTCTGGGACATGGCGTTGGCCTTGATTTCA
1 -G--AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGA--T-A
* * * * * *
23435115 -ATAG-TCAGTGTAAGACCATGTTTGGGACATGGTATCGAC-TTGATG
1 GAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATA
** **
23435160 GATGAGCTAGCATAAGACCATGTCTGGGACATGATATCGGCAT
1 GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
23435203 TATACCCTAT
Statistics
Matches: 297, Mismatches: 47, Indels: 58
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 10 0.03
45 14 0.05
46 53 0.18
47 83 0.28
48 65 0.22
49 32 0.11
50 33 0.11
51 1 0.00
52 1 0.00
53 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (47 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATA
Found at i:23435042 original size:95 final size:98
Alignment explanation
Indices: 23434922--23435192 Score: 272
Period size: 95 Copynumber: 2.8 Consensus size: 98
23434912 GCTACAAGAT
* * * * *
23434922 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACATGTATA-G-AGGTG-TCAGTGTAAGA
1 GTGTCAGTGTAAGACCATGTTTGGGACATGGCATCGACACGGATATGTAAGAGCT-AGTGTAAGA
* *
23434984 CCATGTTTGGG-CATGGCATTGGCACTT-A-TAGA
65 CCATGTCTGGGACATGGCATTGGC-CTTGATTACA
* *
23435016 GGTGTTAGTGTAAGACCATGTTTGGGACATGGCATCGACACGGATATGTAAGAGCTAGTGTAATA
1 -GTGTCAGTGTAAGACCATGTTTGGGACATGGCATCGACACGGATATGTAAGAGCTAGTGTAAGA
* *
23435081 CCATGTCTGGGACATGGCGTTGGCCTTGATTTCA
65 CCATGTCTGGGACATGGCATTGGCCTTGATTACA
* * ** * * **
23435115 ATAGTCAGTGTAAGACCATGTTTGGGACATGGTATCGAC-TTG--ATGGATGAGCTAGCATAAGA
1 GT-GTCAGTGTAAGACCATGTTTGGGACATGGCATCGACACGGATATGTAAGAGCTAGTGTAAGA
23435177 CCATGTCTGGGACATG
65 CCATGTCTGGGACATG
23435193 ATATCGGCAT
Statistics
Matches: 148, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
95 41 0.28
96 32 0.22
97 24 0.16
98 15 0.10
99 36 0.24
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (98 bp):
GTGTCAGTGTAAGACCATGTTTGGGACATGGCATCGACACGGATATGTAAGAGCTAGTGTAAGAC
CATGTCTGGGACATGGCATTGGCCTTGATTACA
Found at i:23437374 original size:14 final size:14
Alignment explanation
Indices: 23437355--23437383 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
23437345 TAGGCCGTGT
23437355 GTGACACACGGCCA
1 GTGACACACGGCCA
23437369 GTGACACACGGCCA
1 GTGACACACGGCCA
23437383 G
1 G
23437384 CCCTATGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.34, G:0.31, T:0.07
Consensus pattern (14 bp):
GTGACACACGGCCA
Found at i:23438828 original size:19 final size:19
Alignment explanation
Indices: 23438804--23438866 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
23438794 TAATTCAACT
23438804 AAAACATGTATCAATATTA
1 AAAACATGTATCAATATTA
*
23438823 AAAACAT-CAGT-AA-ATTA
1 AAAACATGTA-TCAATATTA
*
23438840 ACTAAA-ATGTATCAATGTTA
1 A--AAACATGTATCAATATTA
23438860 AAAACAT
1 AAAACAT
23438867 CAATAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
17 5 0.15
18 9 0.26
19 16 0.47
20 4 0.12
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (19 bp):
AAAACATGTATCAATATTA
Found at i:23438853 original size:37 final size:38
Alignment explanation
Indices: 23438795--23438881 Score: 131
Period size: 37 Copynumber: 2.3 Consensus size: 38
23438785 AAATCCTAAT
*
23438795 AATTCAACTAAAACATGTATCAATATTAAAAACATCAGTA
1 AATT-AACT-AAACATGTATCAATATTAAAAACATCAATA
*
23438835 AATTAACTAAA-ATGTATCAATGTTAAAAACATCAATA
1 AATTAACTAAACATGTATCAATATTAAAAACATCAATA
23438872 AATTAACTAA
1 AATTAACTAA
23438882 CATTATTACC
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
37 34 0.76
38 3 0.07
39 4 0.09
40 4 0.09
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.29
Consensus pattern (38 bp):
AATTAACTAAACATGTATCAATATTAAAAACATCAATA
Found at i:23440991 original size:26 final size:23
Alignment explanation
Indices: 23440937--23440991 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 23
23440927 TTTTTTTATT
23440937 ATATTTAATGTAATTTAAATTAA
1 ATATTTAATGTAATTTAAATTAA
* *
23440960 ATATTTAATTGTTATATTTTAATTTA
1 ATATTTAA-TG-TA-ATTTAAATTAA
23440986 ATATTT
1 ATATTT
23440992 TGTATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 8 0.30
24 2 0.07
25 2 0.07
26 15 0.56
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
ATATTTAATGTAATTTAAATTAA
Found at i:23453945 original size:60 final size:59
Alignment explanation
Indices: 23453881--23454058 Score: 162
Period size: 60 Copynumber: 2.9 Consensus size: 59
23453871 TTTTCCTTGA
* * **
23453881 AATTTTTAGATTTAGAACTAAATTGATAAATTTTGTAAATGTTAAAC-GTTAAATTTATTG
1 AATTTTTAGAATTA-AATTAAATTGATAAATTTTGTAAACATT-AACGGTTAAATTTATTG
* * *
23453941 AATTTTCATA-AATCAAATTAAAATGATAAATTTTGTAAACATTGACGGTTAAATTTATTG
1 AATTTT--TAGAATTAAATTAAATTGATAAATTTTGTAAACATTAACGGTTAAATTTATTG
* * * * * *
23454001 AACTTTTTAGAGTTAAGATTAAATTGATAAAATGTATAAACATTGGAGGGTTAAATTT
1 AA-TTTTTAGAATTAA-ATTAAATTGATAAATTTTGTAAACATT-AACGGTTAAATTT
23454059 GTTATTAGAC
Statistics
Matches: 97, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
59 4 0.04
60 49 0.51
61 30 0.31
62 14 0.14
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.41
Consensus pattern (59 bp):
AATTTTTAGAATTAAATTAAATTGATAAATTTTGTAAACATTAACGGTTAAATTTATTG
Found at i:23454041 original size:61 final size:60
Alignment explanation
Indices: 23453928--23454058 Score: 149
Period size: 61 Copynumber: 2.1 Consensus size: 60
23453918 AATGTTAAAC
* * *
23453928 GTTAAATTTATTGAATTTTCATAAATCAAATTAAAATGATAAATTTTGTAAACATT-GACG
1 GTTAAATTTATTGAATTTT-ATAAATCAAATTAAAATGATAAAATGTATAAACATTGGACG
* * * *
23453988 GTTAAATTTATTGAACTTTT-TAGAGTTAAGATTAAATTGATAAAATGTATAAACATTGGAGG
1 GTTAAATTTATTGAA-TTTTATA-AATCAA-ATTAAAATGATAAAATGTATAAACATTGGACG
23454050 GTTAAATTT
1 GTTAAATTT
23454059 GTTATTAGAC
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
59 2 0.03
60 19 0.32
61 27 0.45
62 12 0.20
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.40
Consensus pattern (60 bp):
GTTAAATTTATTGAATTTTATAAATCAAATTAAAATGATAAAATGTATAAACATTGGACG
Found at i:23454213 original size:16 final size:16
Alignment explanation
Indices: 23454192--23454224 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23454182 AAAATAAAAC
23454192 TCAAGGTATAGTTGGA
1 TCAAGGTATAGTTGGA
23454208 TCAAGGTATAGTTGGA
1 TCAAGGTATAGTTGGA
23454224 T
1 T
23454225 GATTATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.30, T:0.33
Consensus pattern (16 bp):
TCAAGGTATAGTTGGA
Found at i:23459057 original size:40 final size:40
Alignment explanation
Indices: 23458974--23459125 Score: 150
Period size: 40 Copynumber: 3.8 Consensus size: 40
23458964 GTTGGTGGCT
** * **
23458974 TTAGCGGCGC-TTTCTAAAAACGCTACTAAAGATCGAGTA
1 TTAGCGGCGCTTTTCTAAAAACGCCGCTAAAGATCAACCA
* * *
23459013 TTAGCGGCGCTTTTCTAAAAACGCCGCTATATG-TCCACCT
1 TTAGCGGCGCTTTTCTAAAAACGCCGCTA-AAGATCAACCA
* *
23459053 TTAGCGGCGCCTTT-TAGAAAACGCCGCTAAAGATCAAGCA
1 TTAGCGGCGCTTTTCTA-AAAACGCCGCTAAAGATCAACCA
*
23459093 TTAGCGGCG-TTCTCTAAAAAGCGCCGCTAAAGA
1 TTAGCGGCGCTTTTCTAAAAA-CGCCGCTAAAGA
23459126 ATTTTGTAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 20 0.22
40 71 0.76
41 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCGGCGCTTTTCTAAAAACGCCGCTAAAGATCAACCA
Found at i:23459083 original size:80 final size:79
Alignment explanation
Indices: 23458972--23459121 Score: 214
Period size: 80 Copynumber: 1.9 Consensus size: 79
23458962 ACGTTGGTGG
* * * *
23458972 CTTTAGCGGCGCTTTCTAAAAACGCTACTAAAGATCGAGTATTAGCGGCGCTTTTCTAAAAA-CG
1 CTTTAGCGGCGCTTTCTAAAAACGCCACTAAAGATCAAGCATTAGCGGCG-TTCTCTAAAAAGCG
23459036 CCGCTATATGTCCAC
65 CCGCTATATGTCCAC
*
23459051 CTTTAGCGGCGCCTTT-TAGAAAACGCCGCTAAAGATCAAGCATTAGCGGCGTTCTCTAAAAAGC
1 CTTTAGCGGCG-CTTTCTA-AAAACGCCACTAAAGATCAAGCATTAGCGGCGTTCTCTAAAAAGC
23459115 GCCGCTA
64 GCCGCTA
23459122 AAGAATTTTG
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
79 23 0.37
80 40 0.63
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (79 bp):
CTTTAGCGGCGCTTTCTAAAAACGCCACTAAAGATCAAGCATTAGCGGCGTTCTCTAAAAAGCGC
CGCTATATGTCCAC
Found at i:23459221 original size:40 final size:40
Alignment explanation
Indices: 23459167--23459261 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
23459157 TAGTGGTGCT
*
23459167 TTTTTAAGAAACGCCGCTATAAG-TAC-ACCTTTAGCGGCGC
1 TTTTTAAAAAACGCCGCTA-AAGCT-CGACCTTTAGCGGCGC
* * *
23459207 TTTTTAAAAAACGCCGCTAATGCTCGATCTTTAGCGGCGT
1 TTTTTAAAAAACGCCGCTAAAGCTCGACCTTTAGCGGCGC
*
23459247 TTTTTGAAAAACGCC
1 TTTTTAAAAAACGCC
23459262 ACAAAAATAG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 3 0.06
40 45 0.94
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (40 bp):
TTTTTAAAAAACGCCGCTAAAGCTCGACCTTTAGCGGCGC
Found at i:23459615 original size:58 final size:58
Alignment explanation
Indices: 23459510--23459625 Score: 144
Period size: 58 Copynumber: 2.0 Consensus size: 58
23459500 TATGGTTTAT
* ** *
23459510 GGTTTATGGGTTAAAGGTTAGGGTTTAAGTTTTAGAGTATTGGGGTTTAAGGTTTAGG
1 GGTTTAGGGGTTAAAGGTTAGGGTTTAAGTTTTAGAGTATTAAGGTTTAAGGGTTAGG
* ** *
23459568 GGTTTAGGGGTTAAAGGTTAAGGGTTTATGTTTTATTGT-TTAAGGTTTATGGGTTAGG
1 GGTTTAGGGGTTAAAGGTT-AGGGTTTAAGTTTTAGAGTATTAAGGTTTAAGGGTTAGG
23459626 AGCTAGGAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 33 0.67
59 16 0.33
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (58 bp):
GGTTTAGGGGTTAAAGGTTAGGGTTTAAGTTTTAGAGTATTAAGGTTTAAGGGTTAGG
Found at i:23460477 original size:40 final size:40
Alignment explanation
Indices: 23460422--23460526 Score: 167
Period size: 40 Copynumber: 2.6 Consensus size: 40
23460412 TTTTTTACCA
* *
23460422 GCGTTTTTATGAAAAACGCTACAAAAAATTAACAATAACG
1 GCGTTTTTATAAAAAACGCCACAAAAAATTAACAATAACG
*
23460462 GCGTTTTTATAAAAAACGCCATAAAAAATTAACAATAACG
1 GCGTTTTTATAAAAAACGCCACAAAAAATTAACAATAACG
*
23460502 GCGTTTTTATAAAAAACACCA-AAAA
1 GCGTTTTTATAAAAAACGCCACAAAA
23460527 TAAATCTCAA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 4 0.07
40 57 0.93
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (40 bp):
GCGTTTTTATAAAAAACGCCACAAAAAATTAACAATAACG
Found at i:23465146 original size:49 final size:49
Alignment explanation
Indices: 23464972--23465354 Score: 616
Period size: 49 Copynumber: 7.9 Consensus size: 49
23464962 CCCTTCGGAA
* * * * *
23464972 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23465019 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23465066 CTTATCAC--ATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23465113 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23465162 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23465211 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
23465260 CTTATCACATATATACATACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23465309 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
23465355 CGCCATACTA
Statistics
Matches: 314, Mismatches: 18, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 89 0.28
49 224 0.71
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23470948 original size:22 final size:22
Alignment explanation
Indices: 23470906--23470951 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
23470896 TAGTGGAGGG
*
23470906 ATATAACAAATTTAAATATTTT
1 ATATAACAAATATAAATATTTT
23470928 ATATGAACAAATATAAA-ATTTT
1 ATAT-AACAAATATAAATATTTT
23470950 AT
1 AT
23470952 TTTATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (22 bp):
ATATAACAAATATAAATATTTT
Found at i:23473695 original size:35 final size:36
Alignment explanation
Indices: 23473596--23473695 Score: 121
Period size: 35 Copynumber: 2.8 Consensus size: 36
23473586 ATTTTGCCAA
* *
23473596 TTTTATCAACTTTATCAACTTCATCAACTATTGGTG
1 TTTTAGCAACTTCATCAACTTCATCAACTATTGGTG
* * * *
23473632 TTTTAGCAACTTCATTAGCTTTATCAACTGTT-GTG
1 TTTTAGCAACTTCATCAACTTCATCAACTATTGGTG
* *
23473667 TTTTAGTAACTTCATCAACTTCAACAACT
1 TTTTAGCAACTTCATCAACTTCATCAACT
23473696 TGCCCTTTTG
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
35 27 0.51
36 26 0.49
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (36 bp):
TTTTAGCAACTTCATCAACTTCATCAACTATTGGTG
Found at i:23475015 original size:65 final size:65
Alignment explanation
Indices: 23474888--23475113 Score: 201
Period size: 65 Copynumber: 3.5 Consensus size: 65
23474878 TGACTTTAAT
* * * * * ****
23474888 TCTTTAAGGTAACATGTTTCTTTGAAGC-AACCTATGTTATACACTTCTTTAAAGCAAATTTACC
1 TCTTTAAGGTAACAAGCTTCTTTAAAGCGAACCTTTGTTACACACTTCTTTAAAGTGGCTTTACC
*
23474952 TCTTTAAGGTAACACAG-TTCTTTAAAGCGAACCTTTATTACACACTTCTTTAAAGTGGCTTTAC
1 TCTTTAAGGTAACA-AGCTTCTTTAAAGCGAACCTTTGTTACACACTTCTTTAAAGTGGCTTTAC
23475016 C
65 C
* * ** ** *
23475017 T-TTATAAGGTAATACA-CTTTTTTAAA-TTAAAGTTGTGTTGCACACTTCTTTAAAGTGGCTTT
1 TCTT-TAAGGTAACA-AGCTTCTTTAAAGCGAACCTT-TGTTACACACTTCTTTAAAGTGGCTTT
23475079 ACC
63 ACC
* * *
23475082 TCTTTAAAGTAACATGCTTCTTTAAAGTGAAC
1 TCTTTAAGGTAACAAGCTTCTTTAAAGCGAAC
23475114 TTAGATATCA
Statistics
Matches: 131, Mismatches: 23, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
64 30 0.23
65 96 0.73
66 5 0.04
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (65 bp):
TCTTTAAGGTAACAAGCTTCTTTAAAGCGAACCTTTGTTACACACTTCTTTAAAGTGGCTTTACC
Found at i:23481621 original size:46 final size:48
Alignment explanation
Indices: 23481475--23481743 Score: 266
Period size: 47 Copynumber: 5.7 Consensus size: 48
23481465 GTGGGTAAAG
* ** **
23481475 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCT-TATATCTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCT-CGTCTCAA
* * * * * *
23481523 -GTCGATGCCATGTCCTAGACATGGTCTTACACTGACTATCATCTC-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCGTCTCAA
*
23481569 TAGCCGATG-CATGTCCCAGACAT-ATCTTACACTAACTCTCGTCTCAA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCGTCTCAA
* * *
23481616 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCT-TACGACTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCT-CGTCTCAA
* * * *
23481664 GGCCGATG-CATGTCTCAGACAT-ATCTTACACTAGCTCTCGTCTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCGTCTCAA
* *
23481710 TGCTGATGCCATGTCCCAAACATGGTCTTACACT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACT
23481744 GGCTCTCATA
Statistics
Matches: 186, Mismatches: 25, Indels: 20
0.81 0.11 0.09
Matches are distributed among these distances:
46 51 0.27
47 93 0.50
48 42 0.23
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.29
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCGTCTCAA
Found at i:23481791 original size:94 final size:92
Alignment explanation
Indices: 23481474--23481792 Score: 344
Period size: 94 Copynumber: 3.4 Consensus size: 92
23481464 TGTGGGTAAA
* * * ** *
23481474 GTGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCT-TATATCTCAA-GTCGATGCCATGTC
1 GTGCCGATG-CATGTCCCAGACAT-ATCTTACACTAGCTCT-CGTCTCAATGCCGATGCCATGTC
* * * *
23481537 CTAGACATGGTCTTACACTGACTATCAT-CT
63 CCAAACATGGTCTTACACTGGCT-TCATAAT
*
23481567 CGTAGCCGATGCATGTCCCAGACATATCTTACACTAACTCTCGTCTCAATGCCGATGCCATGTCC
1 -GT-GCCGATGCATGTCCCAGACATATCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCC
*
23481632 CAAACATGGTCTTACACTAGCTTACGACTCAA-
64 CAAACATGGTCTTACACTGGCTT-C-A-T-AAT
* *
23481664 G-GCCGATGCATGTCTCAGACATATCTTACACTAGCTCTCGTCTCAATGCTGATGCCATGTCCCA
1 GTGCCGATGCATGTCCCAGACATATCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCA
23481728 AACATGGTCTTACACTGGCTCTCATAAT
66 AACATGGTCTTACACTGGCT-TCATAAT
*
23481756 GTGCCTGATGCATGTCCC-GAACATGTCTTACACTAGC
1 GTGCC-GATGCATGTCCCAG-ACATATCTTACACTAGC
23481793 CAACAATAAC
Statistics
Matches: 194, Mismatches: 18, Indels: 26
0.82 0.08 0.11
Matches are distributed among these distances:
91 2 0.01
92 2 0.01
93 23 0.12
94 156 0.80
95 9 0.05
96 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (92 bp):
GTGCCGATGCATGTCCCAGACATATCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCA
AACATGGTCTTACACTGGCTTCATAAT
Found at i:23493971 original size:19 final size:19
Alignment explanation
Indices: 23493947--23493985 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
23493937 ATAGACTTTC
23493947 ATACACTAAATTCTTCCTA
1 ATACACTAAATTCTTCCTA
23493966 ATACACTAAATTCTTCCTA
1 ATACACTAAATTCTTCCTA
23493985 A
1 A
23493986 CTTCTGGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (19 bp):
ATACACTAAATTCTTCCTA
Found at i:23495587 original size:20 final size:20
Alignment explanation
Indices: 23495559--23495600 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
23495549 AAAAAGACAC
* *
23495559 ATAATTATTCATCTAATATT
1 ATAACTATTCAACTAATATT
*
23495579 ATAACTATTCAAGTAATATT
1 ATAACTATTCAACTAATATT
23495599 AT
1 AT
23495601 TTAAATAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (20 bp):
ATAACTATTCAACTAATATT
Found at i:23498288 original size:7 final size:7
Alignment explanation
Indices: 23498278--23498304 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
23498268 CTTTTGGGGT
23498278 TTGGGAA
1 TTGGGAA
23498285 TTGGGAA
1 TTGGGAA
23498292 TTGGGAA
1 TTGGGAA
23498299 TTGGGA
1 TTGGGA
23498305 CCAAAAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.44, T:0.30
Consensus pattern (7 bp):
TTGGGAA
Found at i:23500473 original size:28 final size:29
Alignment explanation
Indices: 23500433--23500487 Score: 94
Period size: 28 Copynumber: 1.9 Consensus size: 29
23500423 AAAATAAAAT
*
23500433 TATATACTTCATCATACT-TAAACCTACG
1 TATATACTTCATCATACTCAAAACCTACG
23500461 TATATACTTCATCATACTCAAAACCTA
1 TATATACTTCATCATACTCAAAACCTA
23500488 AACCTAATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.35
Consensus pattern (29 bp):
TATATACTTCATCATACTCAAAACCTACG
Found at i:23500495 original size:82 final size:82
Alignment explanation
Indices: 23500404--23500569 Score: 323
Period size: 82 Copynumber: 2.0 Consensus size: 82
23500394 TCTAATACAA
*
23500404 TAAACCTAATCGTCCAAAAAAAATAAAATTATATACTTCATCATACTTAAACCTACGTATATACT
1 TAAACCTAATCGCCCAAAAAAAATAAAATTATATACTTCATCATACTTAAACCTACGTATATACT
23500469 TCATCATACTCAAAACC
66 TCATCATACTCAAAACC
23500486 TAAACCTAATCGCCCAAAAAAAATAAAATTATATACTTCATCATACTTAAACCTACGTATATACT
1 TAAACCTAATCGCCCAAAAAAAATAAAATTATATACTTCATCATACTTAAACCTACGTATATACT
23500551 TCATCATACTCAAAACC
66 TCATCATACTCAAAACC
23500568 TA
1 TA
23500570 CGTCCTCTTA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.29
Consensus pattern (82 bp):
TAAACCTAATCGCCCAAAAAAAATAAAATTATATACTTCATCATACTTAAACCTACGTATATACT
TCATCATACTCAAAACC
Found at i:23500555 original size:28 final size:29
Alignment explanation
Indices: 23500515--23500572 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
23500505 AAAATAAAAT
*
23500515 TATATACTTCATCATACT-TAAACCTACG
1 TATATACTTCATCATACTCAAAACCTACG
23500543 TATATACTTCATCATACTCAAAACCTACG
1 TATATACTTCATCATACTCAAAACCTACG
23500572 T
1 T
23500573 CCTCTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 18 0.64
29 10 0.36
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.34
Consensus pattern (29 bp):
TATATACTTCATCATACTCAAAACCTACG
Found at i:23504147 original size:13 final size:13
Alignment explanation
Indices: 23504131--23504162 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
23504121 AATGAAACCC
23504131 TTAAATATTTATA
1 TTAAATATTTATA
23504144 TTAAATATTTATA
1 TTAAATATTTATA
23504157 TTAAAT
1 TTAAAT
23504163 GCTTACGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAAATATTTATA
Found at i:23516204 original size:13 final size:13
Alignment explanation
Indices: 23516186--23516210 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23516176 TTAAATGATA
23516186 AAATTTTCACACG
1 AAATTTTCACACG
23516199 AAATTTTCACAC
1 AAATTTTCACAC
23516211 ATATCTCATT
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:23522031 original size:10 final size:10
Alignment explanation
Indices: 23522016--23522041 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
23522006 CCATTTTAAC
23522016 TACCAAATCA
1 TACCAAATCA
23522026 TACCAAATCA
1 TACCAAATCA
23522036 TACCAA
1 TACCAA
23522042 GATTACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (10 bp):
TACCAAATCA
Found at i:23522763 original size:42 final size:43
Alignment explanation
Indices: 23522666--23522775 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 43
23522656 TACCAACATT
* ** * *
23522666 CCAGACATGGTCTTACATGTTATCAAATATCGATGTCACTGTC
1 CCAGACATGGTCTTACACGAAATCAAATATCGATGCCAATGTC
* * *
23522709 TCAGACAGGGTCTTACACGAAATCATATAT-GATGCCAATGTC
1 CCAGACATGGTCTTACACGAAATCAAATATCGATGCCAATGTC
* *
23522751 CCAGACTTGGTCTTACACAAAATCA
1 CCAGACATGGTCTTACACGAAATCA
23522776 CATACCGGAA
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 31 0.56
43 24 0.44
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
CCAGACATGGTCTTACACGAAATCAAATATCGATGCCAATGTC
Found at i:23529396 original size:25 final size:25
Alignment explanation
Indices: 23529367--23529414 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
23529357 TTATAATATG
* * *
23529367 AAAATAACCGTTTTGCCCCTAGGTA
1 AAAATAACCATTATACCCCTAGGTA
*
23529392 AAAATGACCATTATACCCCTAGG
1 AAAATAACCATTATACCCCTAGG
23529415 GTTTATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATAACCATTATACCCCTAGGTA
Found at i:23529498 original size:11 final size:11
Alignment explanation
Indices: 23529462--23529517 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
23529452 CATGGTATGT
23529462 ATGATATGCAC
1 ATGATATGCAC
* *
23529473 ATGACATG--T
1 ATGATATGCAC
23529482 ATGATATGCAC
1 ATGATATGCAC
*
23529493 ATGATATG--T
1 ATGATATGCAC
23529502 ATGATATGCAC
1 ATGATATGCAC
23529513 ATGAT
1 ATGAT
23529518 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:23529517 original size:20 final size:20
Alignment explanation
Indices: 23529451--23529517 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
23529441 ATTTTGATAA
*
23529451 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
23529471 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
23529491 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
23529511 ACATGAT
1 ACATGAT
23529518 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:23529598 original size:26 final size:24
Alignment explanation
Indices: 23529568--23529717 Score: 230
Period size: 24 Copynumber: 6.1 Consensus size: 24
23529558 AAGGAAGTGC
*
23529568 AAAAGGGTTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
23529592 AAAAAAGGGCTTATGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
* *
23529618 AAAAGAGGGCTTATGCTCCAGTTACT
1 -AAA-AGGGCTTATGCCCCAGTTATT
23529644 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
23529668 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
23529692 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
23529715 AAA
1 AAA
23529718 GAGGCTAGGC
Statistics
Matches: 118, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 16 0.14
24 53 0.45
25 7 0.06
26 42 0.36
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:23538494 original size:50 final size:48
Alignment explanation
Indices: 23538439--23538584 Score: 129
Period size: 50 Copynumber: 3.0 Consensus size: 48
23538429 ATAAAAAAAA
*
23538439 TTAAAAATTAGAAAAAAATTATAAAAGT-T-GCAAAAAAATTGTAAAATT
1 TTAAAAATTAGAAAAAAATTATAAAA-TATAG-AAAAAAATTATAAAATT
* * * *
23538487 TTATAAAAATATTAAAAAAATTAGAAAATATAGAAAAAATTTATAAAATT
1 TTA-AAAATTA-GAAAAAAATTATAAAATATAGAAAAAAATTATAAAATT
* * * *
23538537 TTACAAATTCGTAAAAAAATTATAAAAAAT-GTAAAGAAA-TATAAAATT
1 TTAAAAATTAG-AAAAAAATTATAAAATATAG-AAAAAAATTATAAAATT
23538585 GGTAAAAGAA
Statistics
Matches: 79, Mismatches: 13, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
48 13 0.16
49 32 0.41
50 33 0.42
51 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (48 bp):
TTAAAAATTAGAAAAAAATTATAAAATATAGAAAAAAATTATAAAATT
Found at i:23538570 original size:20 final size:20
Alignment explanation
Indices: 23538430--23538605 Score: 93
Period size: 20 Copynumber: 8.9 Consensus size: 20
23538420 TTAATAAAAA
*
23538430 TAAAAAAAAT-TAAAAATTAG
1 TAAAAAAATTATAAAAATT-G
*
23538450 -AAAAAAATTATAAAAGTTG
1 TAAAAAAATTATAAAAATTG
* * *
23538469 CAAAAAAATTGT-AAAATTT
1 TAAAAAAATTATAAAAATTG
*
23538488 TATAAAAATATTA-AAAAAAT-
1 TA-AAAAA-ATTATAAAAATTG
* *
23538508 T-AGAAAATATAGAAAAAATT-
1 TAAAAAAAT-TA-TAAAAATTG
* * *
23538528 T-ATAAAATTTTACAAATTCG
1 TAAAAAAATTATAAAAATT-G
*
23538548 TAAAAAAATTATAAAAAATG
1 TAAAAAAATTATAAAAATTG
*
23538568 TAAAGAAA-TAT-AAAATTGG
1 TAAAAAAATTATAAAAATT-G
*
23538587 TAAAAGAATTATAAAAATT
1 TAAAAAAATTATAAAAATT
23538606 ATCGTACTAA
Statistics
Matches: 120, Mismatches: 22, Indels: 27
0.71 0.13 0.16
Matches are distributed among these distances:
17 2 0.02
18 17 0.14
19 26 0.22
20 48 0.40
21 27 0.22
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (20 bp):
TAAAAAAATTATAAAAATTG
Found at i:23538813 original size:19 final size:19
Alignment explanation
Indices: 23538791--23538844 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 19
23538781 TTTTTCTTAT
23538791 TTTTTAATAAATTTTATAA
1 TTTTTAATAAATTTTATAA
* * *
23538810 TTTTTATTAAAATTTAATAG
1 TTTTTAAT-AAATTTTATAA
23538830 TTTTT-AT-AATTTTAT
1 TTTTTAATAAATTTTAT
23538845 TTATTTTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 7 0.24
19 8 0.28
20 14 0.48
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTTAATAAATTTTATAA
Found at i:23539876 original size:16 final size:15
Alignment explanation
Indices: 23539819--23539877 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
23539809 TAGAAAAATA
23539819 ATTATATT-AATTAT
1 ATTATATTAAATTAT
* *
23539833 A-TATTTTAAATAAT
1 ATTATATTAAATTAT
23539847 AATTATA-TATAATTAT
1 -ATTATATTA-AATTAT
23539863 ATTTATATTAAATTA
1 A-TTATATTAAATTA
23539878 GTAACACAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
13 5 0.14
14 6 0.17
15 4 0.11
16 18 0.51
17 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTATATTAAATTAT
Found at i:23540342 original size:16 final size:17
Alignment explanation
Indices: 23540317--23540363 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
23540307 CAACTCGGCC
23540317 CATAAATAGTTATAG-T
1 CATAAATAGTTATAGTT
*
23540333 CATAATTAGTCT-T-GTT
1 CATAAATAGT-TATAGTT
23540349 CATAAATAGTTATAG
1 CATAAATAGTTATAG
23540364 CCCGAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
15 2 0.08
16 21 0.84
17 2 0.08
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (17 bp):
CATAAATAGTTATAGTT
Found at i:23543035 original size:12 final size:12
Alignment explanation
Indices: 23543018--23543043 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23543008 GTAAATATAA
23543018 AAAAATAATCTT
1 AAAAATAATCTT
23543030 AAAAATAATCTT
1 AAAAATAATCTT
23543042 AA
1 AA
23543044 TAGATAAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAAATAATCTT
Found at i:23545590 original size:49 final size:49
Alignment explanation
Indices: 23545462--23545687 Score: 156
Period size: 49 Copynumber: 4.6 Consensus size: 49
23545452 TGTCACTATG
* ** * * *
23545462 CTGGTTAGCAACTATCATGCCTTACCAGAAACCTAGCACTCATGTCAAT
1 CTGGTTAGCAACTAACATGCCTTACCAGTGACCTATCATTCATGCCAAT
* ** * *
23545511 CTGGTTAGTAACTATGATACCGTACCAGTGACCTATCATTCATGCCAAT
1 CTGGTTAGCAACTAACATGCCTTACCAGTGACCTATCATTCATGCCAAT
* * * * *
23545560 CTGGTTAGCAACTAACATGCCTTACTAGTGACCCATC-TT-ATTTTCCCAC
1 CTGGTTAGCAACTAACATGCCTTACCAGTGACCTATCATTCA--TGCCAAT
* * * * * * *
23545609 CTGGTTAGCAACTAGCAGGCCTTACTAGTGGTCC-AACACATC-TGCCATT
1 CTGGTTAGCAACTAACATGCCTTACCAGT-GACCTATCA-TTCATGCCAAT
*
23545658 TTGGTTAGCAACTAACATG-CTCTACCAGTG
1 CTGGTTAGCAACTAACATGCCT-TACCAGTG
23545688 GTCCATCATA
Statistics
Matches: 138, Mismatches: 32, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
47 1 0.01
48 5 0.04
49 128 0.93
50 3 0.02
51 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (49 bp):
CTGGTTAGCAACTAACATGCCTTACCAGTGACCTATCATTCATGCCAAT
Found at i:23547492 original size:13 final size:14
Alignment explanation
Indices: 23547474--23547504 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
23547464 TATAAAATCA
23547474 CCAAAATTTAA-GT
1 CCAAAATTTAATGT
23547487 CCAAAATTTAATGT
1 CCAAAATTTAATGT
23547501 CCAA
1 CCAA
23547505 TGTCTATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.29
Consensus pattern (14 bp):
CCAAAATTTAATGT
Found at i:23553057 original size:47 final size:46
Alignment explanation
Indices: 23552984--23553160 Score: 196
Period size: 47 Copynumber: 3.8 Consensus size: 46
23552974 AAAACTCTTA
* *
23552984 GCCGATGCATGTCCCAGACATGTCTTACATTGGCTA-TCATCGTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGC-ACTCATC-TCGAG
* * ** * *
23553031 GCCAATGCATGTCCCAGACATGTCTTACACTAACACTCATCTCCAC
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCACTCATCTCGAG
* * *
23553077 GCCGATGCCATGTCCCAAACATAGTCTTACATTGGCACTCATAAT-GTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCACTCAT-CTCGAG
23553125 GCCGATGCATGTCCCAAACATGTCTTACACTGGCAC
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCAC
23553161 ACAAGAAATT
Statistics
Matches: 110, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
46 24 0.22
47 62 0.56
48 23 0.21
49 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCACTCATCTCGAG
Found at i:23553140 original size:94 final size:93
Alignment explanation
Indices: 23552984--23553155 Score: 249
Period size: 94 Copynumber: 1.8 Consensus size: 93
23552974 AAAACTCTTA
* ** *
23552984 GCCGATGCATGTCCCAGACATGTCTTACATTGGCTATCATCGTCGAGGCCAATGCATGTCCCAGA
1 GCCGATGCATGTCCCAAACATGTCTTACATTGGCTATCATAATCGAGGCCAATGCATGTCCCAAA
23553049 CATGTCTTACACTAACACTCATCTCCAC
66 CATGTCTTACACTAACACTCATCTCCAC
* *
23553077 GCCGATGCCATGTCCCAAACATAGTCTTACATTGGC-ACTCATAAT-GTGGCCGATGCATGTCCC
1 GCCGATG-CATGTCCCAAACAT-GTCTTACATTGGCTA-TCATAATCGAGGCCAATGCATGTCCC
23553140 AAACATGTCTTACACT
63 AAACATGTCTTACACT
23553156 GGCACACAAG
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
93 7 0.10
94 45 0.64
95 18 0.26
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (93 bp):
GCCGATGCATGTCCCAAACATGTCTTACATTGGCTATCATAATCGAGGCCAATGCATGTCCCAAA
CATGTCTTACACTAACACTCATCTCCAC
Found at i:23557033 original size:70 final size:70
Alignment explanation
Indices: 23556957--23557091 Score: 225
Period size: 70 Copynumber: 1.9 Consensus size: 70
23556947 TAGTTTATTA
* * * * *
23556957 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAAGACAAAATCATGGTG
23557022 CTTAG
66 CTTAG
23557027 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAAGACAAAATCATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAAGACAAAATCATGGTG
23557092 TTATGTGCTA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAAGACAAAATCATGGTG
CTTAG
Found at i:23557925 original size:42 final size:43
Alignment explanation
Indices: 23557868--23558033 Score: 187
Period size: 42 Copynumber: 3.9 Consensus size: 43
23557858 GAAATGTGAT
*
23557868 ATAT-GGGCTTCAGGCCTAGCAGGCTATAATACCGGTGAAATG
1 ATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAATG
* * * *
23557910 ATATC-GGCTTTAGGCCTAGCAGGATATAATGCCGGTGAGATA
1 ATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAATG
* **
23557952 ATATCGGGCCTT-GGGCCTAGCAGGCTATAATGCTAGTGAAATG
1 ATATCGGG-CTTCAGGCCTAGCAGGCTATAATGCCGGTGAAATG
* * * *
23557995 ATATCGGGCTTCAAGTCTAGCAGGCGA-AATGCCAGTGAA
1 ATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAA
23558034 TGAATTCAGA
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
42 55 0.53
43 46 0.44
44 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (43 bp):
ATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAATG
Found at i:23557981 original size:43 final size:43
Alignment explanation
Indices: 23557879--23558033 Score: 172
Period size: 43 Copynumber: 3.7 Consensus size: 43
23557869 TATGGGCTTC
* *
23557879 AGGCCTAGCAGGCTATAATACCGGTGAAATGATATC-GGCTTT
1 AGGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCCTT
* * *
23557921 AGGCCTAGCAGGATATAATGCCGGTGAGATAATATCGGGCCTT
1 AGGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCCTT
* **
23557964 GGGCCTAGCAGGCTATAATGCTAGTGAAATGATATCGGG-CTT
1 AGGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCCTT
* * * *
23558006 CAAGTCTAGCAGGCGA-AATGCCAGTGAA
1 -AGGCCTAGCAGGCTATAATGCCGGTGAA
23558034 TGAATTCAGA
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 46 0.48
43 49 0.52
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (43 bp):
AGGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCCTT
Found at i:23561739 original size:30 final size:30
Alignment explanation
Indices: 23561699--23561787 Score: 115
Period size: 30 Copynumber: 3.0 Consensus size: 30
23561689 GATTTTAGGA
*
23561699 CCACACGGGCTGGGCACATGCCCATGTGAG
1 CCACATGGGCTGGGCACATGCCCATGTGAG
* *
23561729 CCACATGGGCTAGGCACATGCCCATATGAG
1 CCACATGGGCTGGGCACATGCCCATGTGAG
* * * *
23561759 TCACATGAGCTGGACACATGCCCAAGTGA
1 CCACATGGGCTGGGCACATGCCCATGTGA
23561788 CAACCCGTGT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.26, C:0.30, G:0.28, T:0.16
Consensus pattern (30 bp):
CCACATGGGCTGGGCACATGCCCATGTGAG
Found at i:23572074 original size:54 final size:54
Alignment explanation
Indices: 23571892--23572086 Score: 234
Period size: 55 Copynumber: 3.6 Consensus size: 54
23571882 CTTAACATTT
* * * * * * *
23571892 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTT-TTGAACTCACCAATG
1 CCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATG
** *
23571945 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAA-TTCATCAATG
1 CCATGCCTTGGCATGGTCTTACATGATATCC-TTGCCTTATAG-AACTT-ATCAATG
* *
23572000 CCATGTCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATG
1 CCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATG
23572054 CCATGCCTTGGCATGGTCTTACATGATATCCTT
1 CCATGCCTTGGCATGGTCTTACATGATATCCTT
23572087 ATCTTACCAA
Statistics
Matches: 121, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
52 2 0.02
53 30 0.25
54 43 0.36
55 44 0.36
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.37
Consensus pattern (54 bp):
CCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATG
Found at i:23572120 original size:47 final size:47
Alignment explanation
Indices: 23572065--23572186 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
23572055 CATGCCTTGG
*
23572065 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
23572112 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
23572159 CATGGTTTTACATGGTATCCTTATCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
23572187 GTGCCAATAC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:23597576 original size:55 final size:53
Alignment explanation
Indices: 23597447--23597649 Score: 230
Period size: 55 Copynumber: 3.8 Consensus size: 53
23597437 AAGTTACCAT
* * * *
23597447 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAATTCATCAA
* *
23597500 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAATTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AATTCATCAA
* * *
23597555 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTT-ATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAA-TTCATCAA
* * *
23597609 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTGTCTTA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTA
23597650 CCAAATGCCA
Statistics
Matches: 128, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
52 2 0.02
53 36 0.28
54 42 0.33
55 46 0.36
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAATTCATCAA
Found at i:23597632 original size:54 final size:54
Alignment explanation
Indices: 23597447--23597649 Score: 250
Period size: 54 Copynumber: 3.8 Consensus size: 54
23597437 AAGTTACCAT
* * * * *
23597447 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAA
* **
23597500 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA-TTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTT-ATCAA
* *
23597555 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAA
* *
23597609 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTGTCTTA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
23597650 CCAAATGCCA
Statistics
Matches: 129, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
52 2 0.02
53 35 0.27
54 46 0.36
55 44 0.34
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAA
Found at i:23597677 original size:47 final size:47
Alignment explanation
Indices: 23597622--23597734 Score: 208
Period size: 47 Copynumber: 2.4 Consensus size: 47
23597612 CATGCCTTGG
*
23597622 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
23597669 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
23597716 CATGTTCTTACATGGTATC
1 CATGGTCTTACATGGTATC
23597735 ATTATTTTAG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:23597932 original size:44 final size:44
Alignment explanation
Indices: 23597883--23597966 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
23597873 TCCTTAACCG
* *
23597883 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCCA
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCCA
* *
23597927 TCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
23597967 GAGATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCCA
Found at i:23600329 original size:50 final size:49
Alignment explanation
Indices: 23600215--23600397 Score: 190
Period size: 51 Copynumber: 3.7 Consensus size: 49
23600205 CTGGTATGCA
* * **
23600215 TAGTAGCCTGCACTTAGTACTATACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAGTCTAATACACG
* *
23600264 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAACAGTCTAATACACG
* *** * *
23600314 TAGTAGCCTGCACTTAGTACTACACATGTGATC-ACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAG---TCTAATACACG
*
23600365 TAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
23600398 TCACAATAGA
Statistics
Matches: 112, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 28 0.25
50 40 0.36
51 41 0.37
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAGTCTAATACACG
Found at i:23600388 original size:101 final size:99
Alignment explanation
Indices: 23600215--23600401 Score: 268
Period size: 101 Copynumber: 1.9 Consensus size: 99
23600205 CTGGTATGCA
* * *
23600215 TAGTAGCCTGCACTTAGTACTATACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
*
23600280 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * *
23600314 TAGTAGCCTGCACTTAGTACTACACATGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
23600378 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
23600402 AATAGATCAT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
98 4 0.05
99 30 0.39
101 43 0.56
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:23601917 original size:25 final size:25
Alignment explanation
Indices: 23601889--23601939 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
23601879 CACTATTCCA
*
23601889 ATTAGGCCCTAATTCGGGATATTAC
1 ATTAGGCCCTAATTCAGGATATTAC
* *
23601914 ATTAGGCCCTATTTCAGGATGTTAC
1 ATTAGGCCCTAATTCAGGATATTAC
23601939 A
1 A
23601940 CATTGTGTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (25 bp):
ATTAGGCCCTAATTCAGGATATTAC
Found at i:23607258 original size:46 final size:46
Alignment explanation
Indices: 23607205--23607341 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
23607195 TATATATACA
* * *
23607205 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATATC
* * * *
23607251 CATCTCATACACGTTTCGCTTTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATATC
* *
23607297 TATCTCATACACATTTCGCATTAGCCATTTGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATAT
23607342 ATACATGTTC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.25, C:0.31, G:0.09, T:0.36
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATATC
Found at i:23607378 original size:47 final size:47
Alignment explanation
Indices: 23607315--23607650 Score: 465
Period size: 47 Copynumber: 7.1 Consensus size: 47
23607305 ACACATTTCG
* * * *
23607315 CATTAGCCATTTGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
23607362 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
23607409 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
23607456 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
23607503 CATTGGCCATTCAGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
23607550 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATATGCATGTTCACATTCATCA
** * * **
23607601 CATTTTCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
23607648 CAT
1 CAT
23607651 AAAATCCTAA
Statistics
Matches: 266, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
47 224 0.84
49 2 0.01
51 40 0.15
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:23607549 original size:25 final size:25
Alignment explanation
Indices: 23607474--23607551 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
23607464 ATTCGGCCTT
*
23607474 ATCACACATACGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
*
23607499 AT--CACAT-TGGCCA--TTCAGCCTT-
1 ATCACACATAT-G-CATGTTCA-CATTC
23607521 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
23607546 ATCACA
1 ATCACA
23607552 TTGGCCATTC
Statistics
Matches: 41, Mismatches: 3, Indels: 18
0.66 0.05 0.29
Matches are distributed among these distances:
22 6 0.15
23 11 0.27
24 11 0.27
25 13 0.32
ACGTcount: A:0.31, C:0.31, G:0.09, T:0.29
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:23610342 original size:57 final size:57
Alignment explanation
Indices: 23610227--23610361 Score: 143
Period size: 57 Copynumber: 2.4 Consensus size: 57
23610217 CATGAAACAC
* *
23610227 ACTTCGCATACACAGTGCC-C-ACTGACTGATTTCGCACACATAGCGCTCGATTAAAGA
1 ACTT-GCACACACAGTGCCTCAACT-ACTGATCTCGCACACATAGCGCTCGATTAAAGA
* * * **
23610284 AC-T-CACACACCTAGTGCCTCAACTACTGATCTGGCACACATAGTGCTCGGTTGGAGA
1 ACTTGCACACA-C-AGTGCCTCAACTACTGATCTCGCACACATAGCGCTCGATTAAAGA
23610341 ACTTGCACACACAGTGCCTCA
1 ACTTGCACACACAGTGCCTCA
23610362 TAATTCTAGC
Statistics
Matches: 65, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
54 5 0.08
55 1 0.02
56 7 0.11
57 41 0.63
58 5 0.08
59 6 0.09
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (57 bp):
ACTTGCACACACAGTGCCTCAACTACTGATCTCGCACACATAGCGCTCGATTAAAGA
Found at i:23610437 original size:40 final size:40
Alignment explanation
Indices: 23610367--23610603 Score: 361
Period size: 40 Copynumber: 6.0 Consensus size: 40
23610357 CCTCATAATT
* * *
23610367 CTAGCATGAATGC-CTTCGAGG-TTTAACCCGGATATATCA
1 CTAGCACGAATGCTCTTCG-GGACTTAGCCCGGATATATCA
* *
23610406 CTAGCACGATTGCTCTTCGGGACTTAGCCCGGTTATATCA
1 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
* *
23610446 TTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATATCA
1 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
23610486 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
1 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
*
23610526 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
* *
23610566 CCAGCACGAATGCACTTCGGGACTTAGCCCGGATATAT
1 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
23610604 AACTCTCAAT
Statistics
Matches: 181, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 13 0.07
40 168 0.93
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
Found at i:23612144 original size:46 final size:46
Alignment explanation
Indices: 23612091--23612227 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
23612081 TATATATACA
* * * * *
23612091 CATCTCATACATATCTCACACTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
23612137 CATCTCATACACGTTTCGCATTATCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
23612183 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
23612228 ATATACATGT
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.26, C:0.32, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:23612284 original size:47 final size:47
Alignment explanation
Indices: 23612201--23612538 Score: 451
Period size: 47 Copynumber: 7.1 Consensus size: 47
23612191 ACACATTTCG
* * *
23612201 CATTAGCCATTCGGCCTTACCACATATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCAC--ATATATGCATGTTCACATTCATCA
*
23612250 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
23612297 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
23612344 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
23612391 CATTGGCCATTCGGCCTTATCACACATATGCGTGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
** * *
23612438 CATCAGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATATGCATGTTCACATTCATCA
* * * **
23612489 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
23612536 CAT
1 CAT
23612539 AAAATCCTAA
Statistics
Matches: 265, Mismatches: 20, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
47 204 0.77
49 22 0.08
51 39 0.15
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:23614637 original size:13 final size:15
Alignment explanation
Indices: 23614609--23614641 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
23614599 TAATGCTATA
23614609 TAAATCATATTTTTT
1 TAAATCATATTTTTT
23614624 TAAAT-ATA-TTTTT
1 TAAATCATATTTTTT
23614637 TAAAT
1 TAAAT
23614642 TTAATGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 3 0.17
15 5 0.28
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TAAATCATATTTTTT
Found at i:23614675 original size:16 final size:16
Alignment explanation
Indices: 23614654--23614690 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
23614644 AATGTCTTGT
23614654 GATTTGTTATTGCATA
1 GATTTGTTATTGCATA
23614670 GATTTGTTATTGCATA
1 GATTTGTTATTGCATA
*
23614686 TATTT
1 GATTT
23614691 ATGTTGTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.24, C:0.05, G:0.16, T:0.54
Consensus pattern (16 bp):
GATTTGTTATTGCATA
Found at i:23615139 original size:22 final size:22
Alignment explanation
Indices: 23615111--23615156 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
23615101 ATGTATTCAA
23615111 AATTATCAAATCTAACTCCAAT
1 AATTATCAAATCTAACTCCAAT
23615133 AATTATCAAATCTAACTCCAAT
1 AATTATCAAATCTAACTCCAAT
23615155 AA
1 AA
23615157 ATAGACTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (22 bp):
AATTATCAAATCTAACTCCAAT
Found at i:23617011 original size:692 final size:683
Alignment explanation
Indices: 23615664--23617026 Score: 2020
Period size: 692 Copynumber: 2.0 Consensus size: 683
23615654 CTAATTGGTT
* * *
23615664 CAATTTTATCTCTCAGTCACCATTTTATCAAATTAGACAATTTAGTTTGATTTATCTATTGATCT
1 CAATTTTACCTCTCAGTCACCATTTTACCAAATTAGACAATTTAGTCTGATTTATCTATTGATCT
* * * * *
23615729 CACAAAATTAAATCAGGACAACCAAATTGGTGTTCGATAGGCTCTCTTCTCGGTCTCACCTACCT
66 CACAAAAGTAAATCAGGACAACCAAAGTGGTGTTCAATAGGCTCTCCTCTCAGTCTCACCTACCT
* * * *
23615794 AAATATTCACCTAGAGTTGTCAATTCTAAGTTTTGAAGTTTATTCAATTTGGTCCATTTTTTACG
131 AAATATTCACATAAAGTTGTCAATTCTAAGTTTTGAACTTTATTCAATTTGATCCATTTTTTA--
* *
23615859 ACTTAGTCTCTACACCAATAACTAACTAAGCAACATTCCCATCAACCAACCACTATAGATTTAGT
194 ACTTAGTCTCTAAACCAATAACTAACTAAGCAACATTCCCATCAACCAACCACCATAGATTTAGT
23615924 TACCAATCATCATCATGCAAACAACAATCAAACACATGCTCAAATGGTTCATTAAAGGAAACACA
259 TACCAATCATCATCATGCAAACAACAATCAAACACATGCTCAAATGGTTCATTAAAGGAAACACA
* * *
23615989 AAAGCAAGGTTAAAGGAATCTTATCGGTTTTTTATAGATGCTTTAAAGAGGATGATAGTAGCAAC
324 AAAGCAAGGTTAAAGGAATCTTATAGGTTTTTGATAGATGCTTTAAAGAAGATGATAGTAGCAAC
*
23616054 AATAAAGGCGAAAACACAACTAAAGTTAAGACTTTTATGCTTTTAAAGGTAAATAAGACTAAAAT
389 AATAAAGGCGAAAACACAACTAAAGTTAAGACTTTTATGCTTTTAAAGGCAAATAAGACTAAAAT
*
23616119 ATATTGAAGGATTTTGTCACGAATTTTCTTATGATGTGCAAGTATACACAATCATTAGCAAGTAA
454 ATATTGAAGGATTTTGTCACGAATTTTCTTATGATGTGCAAGTATACACAATCACTAGCAAGTAA
* * * * *
23616184 TATAGTAGTCAATATTAGAGTTATCATCTCCACGGGGACTGATTTTAAAACATAGATTGTAAAAT
519 TATAGTAGTAAATACTAGAGTTATCATCTCCACAGAGACTGATTTTAAAACATAAATTGTAAAAT
*
23616249 TAACAAACAACAACTTGGAAAGTAAATAAAAATTTGATTGAATGCAAAGAAATATGCAAAGCAAT
584 TAACAAACAACAACTTGGAAAGTAAATAAAAATATGATTGAATGCAAAGAAATATGCAAAGCAAT
23616314 TTAAAAATAGTAATACAAATTAGATTCAATGCAAAG
649 TT-AAAATAGTAATACAAATTAGATTCAATGCAAAG
* * *
23616350 CAATTTTACCTCTCGGTCACCATTTTACCAAATTAGACAATTTAGTCTGATTTATCTGTTGATTT
1 CAATTTTACCTCTCAGTCACCATTTTACCAAATTAGACAATTTAGTCTGATTTATCTATTGATCT
*
23616415 CACCAAAGTAAATCAGGACAACCAAAGTGGT-TCTCAATAGGCTCTCCTCTCAGTCTCACCTACC
66 CACAAAAGTAAATCAGGACAACCAAAGTGGTGT-TCAATAGGCTCTCCTCTCAGTCTCACCTACC
* *
23616479 TAAATATTCGCATAAATTTGTCAATTCTAAGTTTTGAACTTTATT-AGATTTGATCCAATCCTTT
130 TAAATATTCACATAAAGTTGTCAATTCTAAGTTTTGAACTTTATTCA-ATTTGATCC-AT--TTT
* * * *
23616543 TT-ATTTGGTCTCTAAACCAATAACTAA-TCAAGCAACATTTCCATCAACCAACCACCATAGGTT
191 TTAACTTAGTCTCTAAACCAATAACTAACT-AAGCAACATTCCCATCAACCAACCACCATAGATT
*
23616606 TAGTTACCAATCATCATCATCATCATGCAAACAATAATCAAACACATGCTCAAATGGTTCATTAA
255 TAGTTA-C---CA--ATCATCATCATGCAAACAACAATCAAACACATGCTCAAATGGTTCATTAA
* * * * * *
23616671 AGGAAACACAAAAGCAATGTTAGAGGGATCTTATAGGTTTTTGATAGATGCTTTGAATAAGTTGA
314 AGGAAACACAAAAGCAAGGTTAAAGGAATCTTATAGGTTTTTGATAGATGCTTTAAAGAAGATGA
* * * *
23616736 TAGTAGCAACAATGAAGGTGAAAACACAGCTAAAGTTAAGA-TTTCTATTCTTTTAAAGGCAAAT
379 TAGTAGCAACAATAAAGGCGAAAACACAACTAAAGTTAAGACTTT-TATGCTTTTAAAGGCAAAT
*
23616800 AAGACTAAAATATATTGAAGGATTTTGTCACGAATTTTCTTATGATGTGCAAGCT-TACACAATT
443 AAGACTAAAATATATTGAAGGATTTTGTCACGAATTTTCTTATGATGTGCAAG-TATACACAATC
* * * * *
23616864 GCTAGCAAGTAATATAGTAGTAAATACTAGAGTTATCGTCTCCATAGAGATTGGTTTTAAAACAT
507 ACTAGCAAGTAATATAGTAGTAAATACTAGAGTTATCATCTCCACAGAGACTGATTTTAAAACAT
* *
23616929 AAATTGTAAAATTAACAAACAACACCTTGGAAAGTAAAT-AAAATATGATTGAATGCAAAGAAGT
572 AAATTGTAAAATTAACAAACAACAACTTGGAAAGTAAATAAAAATATGATTGAATGCAAAGAAAT
*
23616993 ATGCAAAGTAATTTTAAAATAGTAATACAAATTA
637 ATGCAAAGCAA-TTTAAAATAGTAATACAAATTA
23617027 ATAGTAATGA
Statistics
Matches: 607, Mismatches: 55, Indels: 25
0.88 0.08 0.04
Matches are distributed among these distances:
685 3 0.00
686 222 0.37
687 3 0.00
689 5 0.01
690 2 0.00
691 55 0.09
692 316 0.52
693 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (683 bp):
CAATTTTACCTCTCAGTCACCATTTTACCAAATTAGACAATTTAGTCTGATTTATCTATTGATCT
CACAAAAGTAAATCAGGACAACCAAAGTGGTGTTCAATAGGCTCTCCTCTCAGTCTCACCTACCT
AAATATTCACATAAAGTTGTCAATTCTAAGTTTTGAACTTTATTCAATTTGATCCATTTTTTAAC
TTAGTCTCTAAACCAATAACTAACTAAGCAACATTCCCATCAACCAACCACCATAGATTTAGTTA
CCAATCATCATCATGCAAACAACAATCAAACACATGCTCAAATGGTTCATTAAAGGAAACACAAA
AGCAAGGTTAAAGGAATCTTATAGGTTTTTGATAGATGCTTTAAAGAAGATGATAGTAGCAACAA
TAAAGGCGAAAACACAACTAAAGTTAAGACTTTTATGCTTTTAAAGGCAAATAAGACTAAAATAT
ATTGAAGGATTTTGTCACGAATTTTCTTATGATGTGCAAGTATACACAATCACTAGCAAGTAATA
TAGTAGTAAATACTAGAGTTATCATCTCCACAGAGACTGATTTTAAAACATAAATTGTAAAATTA
ACAAACAACAACTTGGAAAGTAAATAAAAATATGATTGAATGCAAAGAAATATGCAAAGCAATTT
AAAATAGTAATACAAATTAGATTCAATGCAAAG
Found at i:23637425 original size:40 final size:40
Alignment explanation
Indices: 23637381--23637457 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
23637371 AGTATTGTAC
*
23637381 ATAGCCGAAACTATCTCAAATCGTACACTAAGTGCCATAT
1 ATAGCCGAAACTATCTCAAATCGCACACTAAGTGCCATAT
* * *
23637421 ATAGCCGAAGCTATGTCGAATCGCACACTAAGTGCCA
1 ATAGCCGAAACTATCTCAAATCGCACACTAAGTGCCA
23637458 CAAATAACTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (40 bp):
ATAGCCGAAACTATCTCAAATCGCACACTAAGTGCCATAT
Found at i:23644880 original size:19 final size:19
Alignment explanation
Indices: 23644856--23644895 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
23644846 ATTATTTTTG
23644856 ATCAAATAAAATT-AAATTA
1 ATCAAAT-AAATTAAAATTA
*
23644875 ATCAAATTAATTAAAATTA
1 ATCAAATAAATTAAAATTA
23644894 AT
1 AT
23644896 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:23645306 original size:11 final size:11
Alignment explanation
Indices: 23645275--23645370 Score: 51
Period size: 11 Copynumber: 8.8 Consensus size: 11
23645265 ATTTCAAAAA
*
23645275 TAATATTATTT
1 TAATATTAATT
*
23645286 TAATA--GATT
1 TAATATTAATT
23645295 TAATATTAATT
1 TAATATTAATT
**
23645306 TAATATTAAAG
1 TAATATTAATT
*
23645317 TAAT-TAAATT
1 TAATATTAATT
23645327 TAATTATAGATGAATT
1 TAA-TAT---T-AATT
*
23645343 TAATAGT-ATT
1 TAATATTAATT
23645353 T--TATTAATT
1 TAATATTAATT
23645362 TAATATTAA
1 TAATATTAA
23645371 AGTAATTAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 22
0.66 0.11 0.23
Matches are distributed among these distances:
8 3 0.05
9 11 0.17
10 10 0.16
11 28 0.44
12 2 0.03
15 2 0.03
16 7 0.11
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (11 bp):
TAATATTAATT
Found at i:23645323 original size:26 final size:26
Alignment explanation
Indices: 23645300--23645387 Score: 90
Period size: 26 Copynumber: 3.2 Consensus size: 26
23645290 AGATTTAATA
23645300 TTAATTTAATATTAAAGTAATTAAAT
1 TTAATTTAATATTAAAGTAATTAAAT
**
23645326 TTAATTATAGATGAATTTAATAGT-ATTTTA-
1 TTAATT-TA-AT--A-TTAA-AGTAATTAAAT
23645356 TTAATTTAATATTAAAGTAATTAAAT
1 TTAATTTAATATTAAAGTAATTAAAT
23645382 TTAATT
1 TTAATT
23645388 ATAGTTGAAC
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
24 3 0.06
25 8 0.16
26 13 0.26
27 2 0.04
28 4 0.08
29 2 0.04
30 7 0.14
31 8 0.16
32 3 0.06
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (26 bp):
TTAATTTAATATTAAAGTAATTAAAT
Found at i:23645366 original size:56 final size:56
Alignment explanation
Indices: 23645284--23645396 Score: 192
Period size: 56 Copynumber: 2.0 Consensus size: 56
23645274 ATAATATTAT
23645284 TTTAATAGATTTAATATTAATTTAATATTAAAGTAATTAAATTTAATTATAGATGAA
1 TTTAATAGATTT-ATATTAATTTAATATTAAAGTAATTAAATTTAATTATAGATGAA
*
23645341 TTTAATAGTATTT-TATTAATTTAATATTAAAGTAATTAAATTTAATTATAGTTGAA
1 TTTAATAG-ATTTATATTAATTTAATATTAAAGTAATTAAATTTAATTATAGATGAA
23645397 CTCTTTAAAC
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
56 42 0.78
57 8 0.15
58 4 0.07
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (56 bp):
TTTAATAGATTTATATTAATTTAATATTAAAGTAATTAAATTTAATTATAGATGAA
Found at i:23645524 original size:25 final size:26
Alignment explanation
Indices: 23645474--23645525 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
23645464 AGTTATAAAG
23645474 AGAAAATTTTCTAAAGAAATTATTTT
1 AGAAAATTTTCTAAAGAAATTATTTT
* * *
23645500 AGAAAA-TTTCTAGAGATATTTTTTT
1 AGAAAATTTTCTAAAGAAATTATTTT
23645525 A
1 A
23645526 TTTACAACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (26 bp):
AGAAAATTTTCTAAAGAAATTATTTT
Found at i:23648059 original size:6 final size:6
Alignment explanation
Indices: 23648048--23648085 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
23648038 TTAATTCAAT
*
23648048 TTTTTA TTTTTA TTTTTA TTTATT- TATTTA TTTTTA TT
1 TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA TT
23648086 CCTCTAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 2 0.07
6 24 0.86
7 2 0.07
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:23648555 original size:29 final size:28
Alignment explanation
Indices: 23648523--23648625 Score: 79
Period size: 26 Copynumber: 3.8 Consensus size: 28
23648513 GTATTGGCAA
23648523 ACTTCCAACATATTAGATAGTCTTTACGG
1 ACTTCC-ACATATTAGATAGTCTTTACGG
* * * **
23648552 ACTT--TCATATAAGATAGTCCTGGCGG
1 ACTTCCACATATTAGATAGTCTTTACGG
* * *
23648578 ATTTCCTACATATTGGATAGTCTTTACTG
1 ACTTCC-ACATATTAGATAGTCTTTACGG
*
23648607 ACTTCTACATA--AGATAGTC
1 ACTTCCACATATTAGATAGTC
23648626 CTGGTGGACT
Statistics
Matches: 55, Mismatches: 16, Indels: 9
0.69 0.20 0.11
Matches are distributed among these distances:
26 27 0.49
28 5 0.09
29 23 0.42
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (28 bp):
ACTTCCACATATTAGATAGTCTTTACGG
Found at i:23648568 original size:55 final size:55
Alignment explanation
Indices: 23648476--23648629 Score: 139
Period size: 55 Copynumber: 2.8 Consensus size: 55
23648466 CAGACTTTGT
* * ** * * * *
23648476 CATATTAGCTAGTCCTTACAAATTTCCACATACGATAGTATTGGCAAACTTCCAA
1 CATATTAGATAGTCTTTACGGACTTCTACATAAGATAGTACTGGCAAACTTCCAA
* * ** * *
23648531 CATATTAGATAGTCTTTACGGACTT-TCATATAAGATAGTCCTGGCGGATTTCCTA
1 CATATTAGATAGTCTTTACGGACTTCT-ACATAAGATAGTACTGGCAAACTTCCAA
* * *
23648586 CATATTGGATAGTCTTTACTGACTTCTACATAAGATAGTCCTGG
1 CATATTAGATAGTCTTTACGGACTTCTACATAAGATAGTACTGG
23648630 TGGACTTCCC
Statistics
Matches: 80, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
55 79 0.99
56 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (55 bp):
CATATTAGATAGTCTTTACGGACTTCTACATAAGATAGTACTGGCAAACTTCCAA
Found at i:23653310 original size:140 final size:141
Alignment explanation
Indices: 23653057--23653338 Score: 426
Period size: 140 Copynumber: 2.0 Consensus size: 141
23653047 AATCAAATTT
* * * *
23653057 TTCCTCCTGATTTTTAGCATTTTTAGTTAAATTTGAATTTTTTTTCAGGAGAGAAAAGCTGAAAA
1 TTCCTCCTGATTTTTAGCATTTTTAATTAAATTTGAATATTTTCTCAGGAGAAAAAAGCTGAAAA
* * *
23653122 TTAAGAGGAAAAATTTGATTTGTCATTCTCCCATTGGAAAGGGATAAGGATGACGTGGAATCACA
66 TCAAGAGGAAAAATATAATTTGTCATTCTCCCATTGGAAAGGGATAAGGATGACGTGGAATCACA
23653187 GTTTCATACAA
131 GTTTCATACAA
* **
23653198 TTCCTCTTGATTTTTAGCATTTTTAATTGGATTTGAA-ATTTTCT-AGGAGAAAAAAAGCTGAAA
1 TTCCTCCTGATTTTTAGCATTTTTAATTAAATTTGAATATTTTCTCAGGAG-AAAAAAGCTGAAA
*
23653261 ATCAGGAGGAAAAATATAATTTGTCATTCTCCCATT-GACAAGGGATAAGGATGACGTGGAATCA
65 ATCAAGAGGAAAAATATAATTTGTCATTCTCCCATTGGA-AAGGGATAAGGATGACGTGGAATCA
23653325 CAGTTTCATACAA
129 CAGTTTCATACAA
23653338 T
1 T
23653339 CATTTCTCCT
Statistics
Matches: 128, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
139 7 0.05
140 88 0.69
141 33 0.26
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (141 bp):
TTCCTCCTGATTTTTAGCATTTTTAATTAAATTTGAATATTTTCTCAGGAGAAAAAAGCTGAAAA
TCAAGAGGAAAAATATAATTTGTCATTCTCCCATTGGAAAGGGATAAGGATGACGTGGAATCACA
GTTTCATACAA
Found at i:23656280 original size:91 final size:90
Alignment explanation
Indices: 23656086--23656289 Score: 209
Period size: 91 Copynumber: 2.3 Consensus size: 90
23656076 CCAGACATCT
* * * ** *
23656086 AGTTTGTGGCTGAA-CAATAAGTGTTGCAGGTTAATATGCTGCTAGTAGTTGTGAATACACAACA
1 AGTTTGTGGATAAACCAAT-AGTGTTGCAGGGTAATACACTGCCAGTAGTTGTGAATACACAACA
* * *
23656150 TATTTGTAGATAAAAGTTGTCAGTAAA
65 GATTTGCAGATAAAAGTTGCCAG-AAA
* * *
23656177 AG-TTGTGAATAAACCAATAGTGTTTGCAGGGTAATACACTGCCAGTAGGTTGTGACTGCACAAC
1 AGTTTGTGGATAAACCAATAGTG-TTGCAGGGTAATACACTGCCAGTA-GTTGTGAATACACAAC
*
23656241 AGATTTGCAGATAAAAGCTT-CCA-ATA
64 AGATTTGCAGATAAAAG-TTGCCAGAAA
*
23656267 AGTTTGTGGATAAACCACTAGTG
1 AGTTTGTGGATAAACCAATAGTG
23656290 ACTGCAAATA
Statistics
Matches: 93, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
90 16 0.17
91 44 0.47
92 31 0.33
93 2 0.02
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (90 bp):
AGTTTGTGGATAAACCAATAGTGTTGCAGGGTAATACACTGCCAGTAGTTGTGAATACACAACAG
ATTTGCAGATAAAAGTTGCCAGAAA
Found at i:23659802 original size:22 final size:22
Alignment explanation
Indices: 23659775--23659819 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
23659765 TTCTTATATC
*
23659775 AATTCCCTATCAATTAGGAACT
1 AATTCCCTATAAATTAGGAACT
23659797 AATTCCCTATAAATTAGGAACT
1 AATTCCCTATAAATTAGGAACT
23659819 A
1 A
23659820 TGTCTAGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (22 bp):
AATTCCCTATAAATTAGGAACT
Found at i:23666941 original size:28 final size:29
Alignment explanation
Indices: 23666910--23666969 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
23666900 GATTTTTAGT
*
23666910 AAAAATGCATATT-AGGGATTAAATTGAG
1 AAAAATGCAAATTGAGGGATTAAATTGAG
* * * *
23666938 AAAAGTGTAAATTGAGGGGTTAAATTGTG
1 AAAAATGCAAATTGAGGGATTAAATTGAG
23666967 AAA
1 AAA
23666970 TAAATGATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.45, C:0.02, G:0.25, T:0.28
Consensus pattern (29 bp):
AAAAATGCAAATTGAGGGATTAAATTGAG
Found at i:23670359 original size:48 final size:47
Alignment explanation
Indices: 23670288--23670475 Score: 243
Period size: 48 Copynumber: 3.9 Consensus size: 47
23670278 ACTAGGAAGT
* * *
23670288 CTCGCACCCTAGGTGCCAATATCATTGCCCGAAGCCAAATCAATGGAA
1 CTCGCACCCGAAGTGCCAATATCA-TGCCCGAAGCCAAATCAATGTAA
*
23670336 CTCGCACCCGAAGTGCCAATATCATGACCTGAAGCCAAATCAATGTAA
1 CTCGCACCCGAAGTGCCAATATCATG-CCCGAAGCCAAATCAATGTAA
* *
23670384 CTTGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGTAA
1 CTCGCACCCGAAGTGCCAATATCAT-GCCCGAAGCCAAATCAATGTAA
* * * *
23670432 CTCGCACCCGCAGTGCTAATAT-ATGGCCGAAAGTCAAATCAATG
1 CTCGCACCCGAAGTGCCAATATCATGCCCG-AAGCCAAATCAATG
23670476 AAGCTCCTAA
Statistics
Matches: 126, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
46 4 0.03
47 17 0.13
48 104 0.83
49 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.20
Consensus pattern (47 bp):
CTCGCACCCGAAGTGCCAATATCATGCCCGAAGCCAAATCAATGTAA
Found at i:23671056 original size:21 final size:20
Alignment explanation
Indices: 23671028--23671066 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
23671018 CAAAACTTGT
23671028 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
23671048 ATAATCTATCATGAAACAT
1 ATAA-CTATCATCAAACAT
23671067 CAAAATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:23680453 original size:7 final size:7
Alignment explanation
Indices: 23680441--23680469 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
23680431 CAATATACAT
23680441 ACCTTGA
1 ACCTTGA
23680448 ACCTTGA
1 ACCTTGA
23680455 ACCTTGA
1 ACCTTGA
23680462 ACCTTGA
1 ACCTTGA
23680469 A
1 A
23680470 GATATGACTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (7 bp):
ACCTTGA
Found at i:23696100 original size:13 final size:13
Alignment explanation
Indices: 23696082--23696106 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23696072 AGGCCGTGTA
23696082 AAGGACACGAGCC
1 AAGGACACGAGCC
23696095 AAGGACACGAGC
1 AAGGACACGAGC
23696107 ATGTGCTTGG
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:0.40, C:0.28, G:0.32, T:0.00
Consensus pattern (13 bp):
AAGGACACGAGCC
Found at i:23700355 original size:31 final size:31
Alignment explanation
Indices: 23700320--23700391 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
23700310 CACACGCCCA
*
23700320 TGTGGCCTACCCGTGTGGGCCCACAAACCCG
1 TGTGGCCTACCCGTGTAGGCCCACAAACCCG
* **
23700351 TGTGG-TTCACCCGTGTAGGCCCACATGCCCG
1 TGTGGCCT-ACCCGTGTAGGCCCACAAACCCG
23700382 TGTGGCCTAC
1 TGTGGCCTAC
23700392 ACGACCTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
30 1 0.03
31 32 0.94
32 1 0.03
ACGTcount: A:0.14, C:0.36, G:0.29, T:0.21
Consensus pattern (31 bp):
TGTGGCCTACCCGTGTAGGCCCACAAACCCG
Found at i:23704866 original size:20 final size:20
Alignment explanation
Indices: 23704743--23704866 Score: 72
Period size: 20 Copynumber: 6.2 Consensus size: 20
23704733 GTATATACAG
* *
23704743 AACAGGGGCACATACGTGTA
1 AACAGGGGCACAGACGTGCA
** * * *
23704763 GTCAGGGGCACTGAAGTGCG
1 AACAGGGGCACAGACGTGCA
* *
23704783 AACAAGGGCACAAACGTGCA
1 AACAGGGGCACAGACGTGCA
* * *
23704803 AAC-GGGGACACCGAAGTGTA
1 AACAGGGG-CACAGACGTGCA
* * * *
23704823 TACAAGGGCACAGTA-GTACG
1 AACAGGGGCACAG-ACGTGCA
23704843 AACAGGGGCACAGACGTGCA
1 AACAGGGGCACAGACGTGCA
23704863 AACA
1 AACA
23704867 AGGACACCGA
Statistics
Matches: 71, Mismatches: 29, Indels: 8
0.66 0.27 0.07
Matches are distributed among these distances:
19 4 0.06
20 63 0.89
21 4 0.06
ACGTcount: A:0.35, C:0.22, G:0.32, T:0.10
Consensus pattern (20 bp):
AACAGGGGCACAGACGTGCA
Found at i:23704922 original size:60 final size:60
Alignment explanation
Indices: 23704768--23704893 Score: 171
Period size: 60 Copynumber: 2.1 Consensus size: 60
23704758 GTGTAGTCAG
* * * **
23704768 GGGCACTGAAGTGCGAACAAGGGCACAAACGTGCAAACGGGGACACCGAAGTGTATACAA
1 GGGCACAGAAGTACGAACAGGGGCACAAACGTGCAAACAAGGACACCGAAGTGTATACAA
* * * *
23704828 GGGCACAGTAGTACGAACAGGGGCACAGACGTGCAAACAAGGACACCGAAGTGTATATAG
1 GGGCACAGAAGTACGAACAGGGGCACAAACGTGCAAACAAGGACACCGAAGTGTATACAA
23704888 GGGCAC
1 GGGCAC
23704894 CAAAGTGAGA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.36, C:0.21, G:0.33, T:0.10
Consensus pattern (60 bp):
GGGCACAGAAGTACGAACAGGGGCACAAACGTGCAAACAAGGACACCGAAGTGTATACAA
Found at i:23704929 original size:40 final size:40
Alignment explanation
Indices: 23704885--23704965 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
23704875 GAAGTGTATA
*
23704885 TAGGGGCACCAAAGTG-AGAATAGGGGCAAAAATGTGCATT
1 TAGGGGCACCAAAGTGCA-AACAGGGGCAAAAATGTGCATT
** **
23704925 TAGGGGCACTGAAGTGCAAACAGGGGCACTAATGTGCATT
1 TAGGGGCACCAAAGTGCAAACAGGGGCAAAAATGTGCATT
23704965 T
1 T
23704966 TAGGAACACT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 34 0.97
41 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.32, T:0.20
Consensus pattern (40 bp):
TAGGGGCACCAAAGTGCAAACAGGGGCAAAAATGTGCATT
Found at i:23704941 original size:20 final size:20
Alignment explanation
Indices: 23704905--23704965 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
23704895 AAAGTGAGAA
**
23704905 TAGGGGCAAAAATGTGCATT
1 TAGGGGCACTAATGTGCATT
**
23704925 TAGGGGCACTGAA-GTGCAAA
1 TAGGGGCACT-AATGTGCATT
*
23704945 CAGGGGCACTAATGTGCATT
1 TAGGGGCACTAATGTGCATT
23704965 T
1 T
23704966 TAGGAACACT
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
19 2 0.06
20 27 0.87
21 2 0.06
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (20 bp):
TAGGGGCACTAATGTGCATT
Found at i:23709365 original size:40 final size:40
Alignment explanation
Indices: 23709321--23709453 Score: 223
Period size: 40 Copynumber: 3.3 Consensus size: 40
23709311 AGACCAAGAT
23709321 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
*
23709361 CCGAAGGCATTTGTGCGAGTTACTAAATCTGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
* *
23709401 CCGAAGGCATTTGTGCGAGTTACTATAAT-CGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTC
23709441 CCGAAGGCATTTG
1 CCGAAGGCATTTG
23709454 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 85 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:23717518 original size:80 final size:79
Alignment explanation
Indices: 23717379--23717544 Score: 203
Period size: 80 Copynumber: 2.1 Consensus size: 79
23717369 GGACCAAGAT
* **
23717379 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
23717443 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* *
23717459 CCGAAGGCATTTGTTG-GAGTTACTATAA-CCGGGCTATGTCTCGAAGGCATTTGAACGAGTAGC
1 CCGAAGGCATTTG-TGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGC
* *
23717522 TATATCCGGTTAAATT
64 TAAATCCGGTTAAATC
23717538 CCGAAGG
1 CCGAAGG
23717545 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
79 16 0.21
80 55 0.73
81 4 0.05
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:23717525 original size:40 final size:40
Alignment explanation
Indices: 23717326--23717511 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
23717316 TTGAATGATG
* * * * *
23717326 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
***
23717366 TCCGGACCAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
23717406 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
23717446 TCCGGGTTAAGTCCCGAAGGCATTTGTTG-GAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTG-TGCGAGTTACTA-AA
* * *
23717487 -CCGGGCTATGTCTCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
23717512 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 116 0.90
41 12 0.09
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23721589 original size:27 final size:28
Alignment explanation
Indices: 23721534--23721607 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 28
23721524 GTATTAAACC
*
23721534 TATATAAATATGCTATTTTTAAAAAAAAT-
1 TATATAAAAAT-C-ATTTTTAAAAAAAATA
**
23721563 TATATAAAAATCATTTTTAAATTAAATAA
1 TATATAAAAATCATTTTTAAAAAAAAT-A
* *
23721592 AAAATAAAAATCATTT
1 TATATAAAAATCATTT
23721608 CATTCTAACA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
27 13 0.34
28 1 0.03
29 24 0.63
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (28 bp):
TATATAAAAATCATTTTTAAAAAAAATA
Found at i:23723165 original size:32 final size:32
Alignment explanation
Indices: 23723124--23723187 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
23723114 ATTTTTGTCA
23723124 CATAGTTAAAGTTATCCTAATCCAATCAATAT
1 CATAGTTAAAGTTATCCTAATCCAATCAATAT
23723156 CATAGTTAAAGTTATCCTAATCCAATCAATAT
1 CATAGTTAAAGTTATCCTAATCCAATCAATAT
23723188 ATCAAATATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (32 bp):
CATAGTTAAAGTTATCCTAATCCAATCAATAT
Found at i:23725031 original size:15 final size:15
Alignment explanation
Indices: 23725011--23725065 Score: 83
Period size: 15 Copynumber: 3.5 Consensus size: 15
23725001 GCCAGTGAGT
23725011 GAAGGAGAAGAAAGA
1 GAAGGAGAAGAAAGA
23725026 GAAGGAGAAGAAAGA
1 GAAGGAGAAGAAAGA
*
23725041 GAAGAGAAGAAGAAGGA
1 GAAG-G-AGAAGAAAGA
23725058 GAAGGAGA
1 GAAGGAGA
23725066 GGGAGAGGGC
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
15 22 0.59
16 2 0.05
17 13 0.35
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (15 bp):
GAAGGAGAAGAAAGA
Found at i:23725062 original size:6 final size:6
Alignment explanation
Indices: 23725011--23725086 Score: 60
Period size: 6 Copynumber: 13.8 Consensus size: 6
23725001 GCCAGTGAGT
*
23725011 GAAGGA GAA-GA -AA-GA GAAGGA GAA-GA -AA-GA GAA-GA GAAGAA
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA
* *
23725052 GAAGGA GAAGGA GAGGGA GAGGGCA GAAGG- GAAGG
1 GAAGGA GAAGGA GAAGGA GAAGG-A GAAGGA GAAGG
23725087 GAAAAAGAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
4 8 0.13
5 18 0.30
6 30 0.49
7 5 0.08
ACGTcount: A:0.51, C:0.01, G:0.47, T:0.00
Consensus pattern (6 bp):
GAAGGA
Found at i:23725376 original size:16 final size:16
Alignment explanation
Indices: 23725331--23725379 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
23725321 TATTCATTCA
*
23725331 TAATTTATTTTTAATG
1 TAATTTATTTTTTATG
23725347 T--TTTATTTTTTTTATG
1 TAATTTA--TTTTTTATG
23725363 TAATTTATTTTTTATG
1 TAATTTATTTTTTATG
23725379 T
1 T
23725380 GTGTTTTAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
14 4 0.14
16 20 0.71
18 4 0.14
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.71
Consensus pattern (16 bp):
TAATTTATTTTTTATG
Found at i:23725387 original size:18 final size:18
Alignment explanation
Indices: 23725345--23725387 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
23725335 TTATTTTTAA
*
23725345 TGTTTTATTTTTTTTATG
1 TGTTTTATTTTTTATATG
** *
23725363 TAATTTATTTTTTATGTG
1 TGTTTTATTTTTTATATG
23725381 TGTTTTA
1 TGTTTTA
23725388 GGTTGATTAG
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (18 bp):
TGTTTTATTTTTTATATG
Found at i:23725601 original size:21 final size:23
Alignment explanation
Indices: 23725575--23725618 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
23725565 AGAATAAGAG
*
23725575 TTTATGTT-TTT-TAAATTTTAT
1 TTTATGTTATTTATAAATATTAT
23725596 TTTATGTTATTTATAAATATTAT
1 TTTATGTTATTTATAAATATTAT
23725619 AAATGAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 3 0.15
23 9 0.45
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (23 bp):
TTTATGTTATTTATAAATATTAT
Found at i:23726199 original size:13 final size:13
Alignment explanation
Indices: 23726181--23726206 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23726171 TTAATCATGG
23726181 GTTCCCTTAAAAA
1 GTTCCCTTAAAAA
23726194 GTTCCCTTAAAAA
1 GTTCCCTTAAAAA
23726207 AATCTACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
GTTCCCTTAAAAA
Found at i:23727719 original size:12 final size:12
Alignment explanation
Indices: 23727704--23727743 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
23727694 ATAGAGGCCA
*
23727704 AGCCAGAGCTAG
1 AGCCCGAGCTAG
*
23727716 AGCCCGAGCTCG
1 AGCCCGAGCTAG
*
23727728 AGCCCGAGCTTG
1 AGCCCGAGCTAG
23727740 AGCC
1 AGCC
23727744 TAAGCCACAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.23, C:0.35, G:0.33, T:0.10
Consensus pattern (12 bp):
AGCCCGAGCTAG
Found at i:23731437 original size:14 final size:16
Alignment explanation
Indices: 23731418--23731454 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
23731408 AATAATAATA
23731418 TCTTTTCGTTC-TTC-
1 TCTTTTCGTTCTTTCT
*
23731432 TCTTTTCTTTCTTTCT
1 TCTTTTCGTTCTTTCT
23731448 TCTTTTC
1 TCTTTTC
23731455 TCCCTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 10 0.50
15 3 0.15
16 7 0.35
ACGTcount: A:0.00, C:0.27, G:0.03, T:0.70
Consensus pattern (16 bp):
TCTTTTCGTTCTTTCT
Found at i:23731921 original size:17 final size:17
Alignment explanation
Indices: 23731899--23731932 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
23731889 TCAATCCTTA
23731899 ACCTTTACACATTTATT
1 ACCTTTACACATTTATT
23731916 ACCTTTACACATTTATT
1 ACCTTTACACATTTATT
23731933 TAATTTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (17 bp):
ACCTTTACACATTTATT
Found at i:23732064 original size:26 final size:26
Alignment explanation
Indices: 23732035--23732096 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 26
23732025 ATTACGATTT
23732035 TAAAATTTAAA-AATATTA-AAAAATCA
1 TAAAATTTAAACAA-ATTATAAAAAT-A
23732061 TAAAAATTATAAACAAATTATAAAAATA
1 T-AAAATT-TAAACAAATTATAAAAATA
23732089 -AAAATTTA
1 TAAAATTTA
23732097 TTAACTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
25 2 0.06
26 7 0.22
27 6 0.19
28 9 0.28
29 8 0.25
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (26 bp):
TAAAATTTAAACAAATTATAAAAATA
Found at i:23732078 original size:20 final size:20
Alignment explanation
Indices: 23732042--23732087 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
23732032 TTTTAAAATT
23732042 TAAAAA-TATTAAAAAATCA
1 TAAAAATTATTAAAAAATCA
*
23732061 TAAAAATTA-TAAACAAATTA
1 TAAAAATTATTAAA-AAATCA
23732081 TAAAAAT
1 TAAAAAT
23732088 AAAAATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAAAATTATTAAAAAATCA
Found at i:23734982 original size:20 final size:20
Alignment explanation
Indices: 23734957--23735006 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
23734947 TGGCTTAAAA
23734957 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
23734977 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
23734994 GTGGTAGTGGATT
1 TTGGTAGTGGATT
23735007 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:23739620 original size:20 final size:20
Alignment explanation
Indices: 23739595--23739644 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
23739585 TGGCTTAAAA
23739595 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
23739615 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
23739632 GTGGTAGTGGATT
1 TTGGTAGTGGATT
23739645 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:23742104 original size:33 final size:31
Alignment explanation
Indices: 23742054--23742117 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 31
23742044 TAGATATTTG
23742054 AGTTTGAATGTAAATTTGTTTAAGGATTAGA
1 AGTTTGAATGTAAATTTGTTTAAGGATTAGA
*
23742085 AGTTATGAATAGTAGATTTGTTTAAGGATTAGA
1 AGTT-TGAAT-GTAAATTTGTTTAAGGATTAGA
23742118 TTATTCATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 4 0.13
32 5 0.17
33 21 0.70
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (31 bp):
AGTTTGAATGTAAATTTGTTTAAGGATTAGA
Found at i:23749084 original size:21 final size:21
Alignment explanation
Indices: 23749045--23749084 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23749035 ACAAATGTTG
*
23749045 TTTTCTAACAACAACCATCCA
1 TTTTCTAACAACAAACATCCA
* *
23749066 TTTTCTACCATCAAACATC
1 TTTTCTAACAACAAACATC
23749085 AAAACGCATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.33
Consensus pattern (21 bp):
TTTTCTAACAACAAACATCCA
Found at i:23751857 original size:15 final size:15
Alignment explanation
Indices: 23751830--23751877 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
23751820 AATTTATTTG
23751830 ATAA-TATTAATAATA
1 ATAATTATT-ATAATA
*
23751845 ATAATTATTATAACA
1 ATAATTATTATAATA
*
23751860 ATAATTTAATATAATA
1 ATAA-TTATTATAATA
23751876 AT
1 AT
23751878 TTAAATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 13 0.46
16 15 0.54
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATTATTATAATA
Found at i:23751888 original size:13 final size:13
Alignment explanation
Indices: 23751830--23751885 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 13
23751820 AATTTATTTG
23751830 ATAATATTAATAATA
1 ATAAT-TTAAT-ATA
* *
23751845 ATAATTATTATAACA
1 ATAATT-TAAT-ATA
23751860 ATAATTTAATATA
1 ATAATTTAATATA
23751873 ATAATTTAA-ATA
1 ATAATTTAATATA
23751885 A
1 A
23751886 ATATCTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 4 0.11
13 11 0.31
14 4 0.11
15 17 0.47
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (13 bp):
ATAATTTAATATA
Done.