Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 161 of 228
Found at i:48319135 original size:16 final size:15
Alignment explanation
Indices: 48319088--48319135 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
48319078 TTTATTAAAA
*
48319088 ATTTTATTAAATTATAT
1 ATTTTA-TAAAAT-TAT
*
48319105 ATTTTATTAAATTAT
1 ATTTTATAAAATTAT
48319120 ATTTTATAACAATTAT
1 ATTTTATAA-AATTAT
48319136 GTTAAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.41
16 10 0.37
17 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTATAAAATTAT
Found at i:48319313 original size:39 final size:41
Alignment explanation
Indices: 48319269--48319373 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 41
48319259 TTCCTTATGT
*
48319269 TATTACACCTCTATTCCATTCAACCAAACACAAA-AA-TACC
1 TATTACGCCTCTATTCCATTCAACCAAACA-AAAGAATTACC
48319309 -ATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGAATTACC
1 TATTACGCCTCTATT-C----CATTCAACCAAACAAAAGAATTACC
48319354 TATTACGCCTCTATTCCATT
1 TATTACGCCTCTATTCCATT
48319374 ACGCATCTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 15
0.78 0.01 0.21
Matches are distributed among these distances:
39 13 0.23
40 1 0.02
41 4 0.07
43 3 0.05
44 16 0.29
45 5 0.09
46 14 0.25
ACGTcount: A:0.37, C:0.30, G:0.03, T:0.30
Consensus pattern (41 bp):
TATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTACC
Found at i:48319368 original size:46 final size:44
Alignment explanation
Indices: 48319285--48319375 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 44
48319275 ACCTCTATTC
48319285 CATTCAACCAAACACAAAAATACCATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAAAATACCATTACGCCTCTATTCCATTA
48319329 CATTCAACCAAACA-AAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAA-AA-TACC-ATTACGCCTCTATTCCATTA
48319375 C
1 C
48319376 GCATCTATTC
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
43 3 0.07
44 16 0.36
45 4 0.09
46 21 0.48
ACGTcount: A:0.40, C:0.31, G:0.03, T:0.26
Consensus pattern (44 bp):
CATTCAACCAAACACAAAAATACCATTACGCCTCTATTCCATTA
Found at i:48319376 original size:16 final size:16
Alignment explanation
Indices: 48319355--48319423 Score: 120
Period size: 16 Copynumber: 4.3 Consensus size: 16
48319345 AGAATTACCT
48319355 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
48319371 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
48319387 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
48319403 ATTACGCCTCTATTCT
1 ATTACGCCTCTATTCC
48319419 ATTAC
1 ATTAC
48319424 AGCGAACCAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:48328082 original size:188 final size:187
Alignment explanation
Indices: 48327753--48328102 Score: 531
Period size: 188 Copynumber: 1.9 Consensus size: 187
48327743 AACGCAGAGT
* *
48327753 TTGGTCTTAAGGTACACTAGCATTAGTGGCGCTTATACGAAAACGCCGCTAAAGTATAGTATTAG
1 TTGGTCTTAAGGTACACTAACATTAATGGCGCTTATACGAAAACGCCGCTAAAGTATAGTATTAG
* * *
48327818 CAGCGAGTAGTGAAAGCGCCGCAATATTTCTTAACCAAAACGCAGAGTTTTGTCTTGAGGTATAT
66 CAGCGAGTAGTAAAAGCGCCGCAATATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACAT
*
48327883 TAGGATTAGTGGCGCTTAT-TGGAAAACACCGCAAAATATTAACCAAAACACTGCGCA
131 TACGATTAGTGGCGCTTATAT-GAAAACACCGCAAAATATTAACCAAAACACTGCGCA
* * * * *
48327940 TTGGTCTTAATGTATAGTAACATTAATGGCGCTTATGCTAAAACGCCGCTAAAGTATAGTATTAG
1 TTGGTCTTAAGGTACACTAACATTAATGGCGCTTATACGAAAACGCCGCTAAAGTATAGTATTAG
* * * *
48328005 CGGCGAGTACTTAAAAGCGCCGCAATCTTTCTTAACCAAAACGCAGAGTTTGGTGTTGAGGTACA
66 CAGCGAGTA-GTAAAAGCGCCGCAATATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACA
*
48328070 TTACGATTAGTGGCGCTTATATGAAAACGCCGC
130 TTACGATTAGTGGCGCTTATATGAAAACACCGC
48328103 TAAAGCATAG
Statistics
Matches: 145, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
187 66 0.46
188 78 0.54
189 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (187 bp):
TTGGTCTTAAGGTACACTAACATTAATGGCGCTTATACGAAAACGCCGCTAAAGTATAGTATTAG
CAGCGAGTAGTAAAAGCGCCGCAATATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACAT
TACGATTAGTGGCGCTTATATGAAAACACCGCAAAATATTAACCAAAACACTGCGCA
Found at i:48328208 original size:112 final size:113
Alignment explanation
Indices: 48327961--48328210 Score: 310
Period size: 112 Copynumber: 2.2 Consensus size: 113
48327951 GTATAGTAAC
* * *
48327961 ATTAATGGCGCTTA-TGCTAAAACGCCGCTAAAGTATAGTATTAGCGGCGAGTACTTAAAAGCGC
1 ATTAGTGGCGCTTATTG-GAAAACGCCGCTAAAGCATAGTATTAGCGGCGAGTACTTAAAAGCGC
* ** * *
48328025 CGCAATCTTTCTTAACCAAAACGCAGAGTTTGGTGTTGAGGTACATTACG
65 CACAA-CAATATTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACG
* * *
48328075 ATTAGTGGCGCTTATAT-GAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTA-TTGTAAAGTG
1 ATTAGTGGCGCTTAT-TGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGAGTACTT-AAAAGCG
* * *
48328138 CCACAA-AATATTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGG
64 CCACAACAATATTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACG
48328187 ATTAGTGGCGCTTATTGGAAAACG
1 ATTAGTGGCGCTTATTGGAAAACG
48328211 ACACAAAATA
Statistics
Matches: 118, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
111 1 0.01
112 58 0.49
113 2 0.02
114 56 0.47
116 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (113 bp):
ATTAGTGGCGCTTATTGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGAGTACTTAAAAGCGCC
ACAACAATATTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACG
Found at i:48328279 original size:300 final size:299
Alignment explanation
Indices: 48327718--48328511 Score: 1159
Period size: 300 Copynumber: 2.6 Consensus size: 299
48327708 GTTTACTACC
* * * *
48327718 AAGCGCCGCAATAC-ATCTTAACCAAAACGCAGAGTTTGGTCTTAAGGTACACTAGCATTAGTGG
1 AAGCGCCGCAAT-CTTTCTTAACCAAAACGCAGAGTTTGGTGTTGAGGTACATTAG-ATTAGTGG
* * * * * *
48327782 CGCTTATACGAAAACGCCGCTAAAGTATAGTATTAGCAGCGAGTAGTGAAAGCGCCGCAATATTT
64 CGCTTATATGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTATTGAAAGCGCCGCAA-A-AT
* *
48327847 CTTAACCAAAACGCAGAGTTTTGTCTTGAGGTATATTAGGATTAGTGGCGCTTATTGGAAAAC-A
127 ATTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATTGGAAAACGA
*
48327911 CCGCAAAATATTAACCAAAACACTGCGCATTGGTCTTAATGTATAGTAACATTAATGGCGCTTAT
192 CCACAAAATATTAACCAAAACACTGCGCATTGGTCTTAATGTATAGTAACATTAATGGCGCTTAT
*
48327976 GCTAAAACGCCGCTAAAGTATAGTATTAGCGGCGAGTACT-TAA
257 GCTAAAACGCCGCTAAAGTATAGTATTAGCGGCAAGTACTGT-A
48328019 AAGCGCCGCAATCTTTCTTAACCAAAACGCAGAGTTTGGTGTTGAGGTACATTACGATTAGTGGC
1 AAGCGCCGCAATCTTTCTTAACCAAAACGCAGAGTTTGGTGTTGAGGTACATTA-GATTAGTGGC
* *
48328084 GCTTATATGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTATTGTAAAGTGCCACAAAATAT
65 GCTTATATGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTATTG-AAAGCGCCGCAAAATAT
*
48328149 TAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGGATTAGTGGCGCTTATTGGAAAACGA-C
129 TAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATTGGAAAACGACC
** * * * *
48328213 ACAAAATATTAACCAAAACGTTGCGCTTTGGTCTTGATGTATAGTAGCATTAGTGGCGCTTATGC
194 ACAAAATATTAACCAAAACACTGCGCATTGGTCTTAATGTATAGTAACATTAATGGCGCTTATGC
48328278 TAAAACGCCGCTAAAGTATAGTATTAGCGGCAAGTACTGTA
259 TAAAACGCCGCTAAAGTATAGTATTAGCGGCAAGTACTGTA
*
48328319 AAGCGCCGCAATCTTTCTTAACCAAAACGAAGAGTTTGGTGTTGAGGTACATTAGGATTAGTGGC
1 AAGCGCCGCAATCTTTCTTAACCAAAACGCAGAGTTTGGTGTTGAGGTACATTA-GATTAGTGGC
* * *
48328384 GCTTATTTGAAAACGCCGCTAAAGGATAATATTAGCGGCGCGTATTGAAAAGCGCCGCAAAATAT
65 GCTTATATGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTATTG-AAAGCGCCGCAAAATAT
* * * *
48328449 TAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTAGCAATT-GTGGCGCTTA-TGGTAAAACG
129 TAACCAAAACGCAGAG-TTTGGTCTTGAGGTATATTAG-GATTAGTGGCGCTTATTGG-AAAACG
48328512 CCGCTAAAAC
Statistics
Matches: 449, Mismatches: 36, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
300 299 0.67
301 136 0.30
302 14 0.03
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (299 bp):
AAGCGCCGCAATCTTTCTTAACCAAAACGCAGAGTTTGGTGTTGAGGTACATTAGATTAGTGGCG
CTTATATGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTATTGAAAGCGCCGCAAAATATTA
ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATTGGAAAACGACCAC
AAAATATTAACCAAAACACTGCGCATTGGTCTTAATGTATAGTAACATTAATGGCGCTTATGCTA
AAACGCCGCTAAAGTATAGTATTAGCGGCAAGTACTGTA
Found at i:48328284 original size:74 final size:73
Alignment explanation
Indices: 48328139--48328275 Score: 202
Period size: 74 Copynumber: 1.9 Consensus size: 73
48328129 TGTAAAGTGC
* * *
48328139 CACAAAATATTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGGATTAGTGGCGCTTATTG
1 CACAAAATATTAACCAAAACGCAGAGTTTGGTCTTGAGGTATAGTAGCATTAGTGGCGCTTATTG
48328204 GAAAACGA
66 GAAAACGA
** * *
48328212 CACAAAATATTAACCAAAACGTTGCGCTTTGGTCTTGATGTATAGTAGCATTAGTGGCGCTTAT
1 CACAAAATATTAACCAAAACGCAGAG-TTTGGTCTTGAGGTATAGTAGCATTAGTGGCGCTTAT
48328276 GCTAAAACGC
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
73 23 0.41
74 33 0.59
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (73 bp):
CACAAAATATTAACCAAAACGCAGAGTTTGGTCTTGAGGTATAGTAGCATTAGTGGCGCTTATTG
GAAAACGA
Found at i:48328530 original size:113 final size:113
Alignment explanation
Indices: 48328187--48328539 Score: 381
Period size: 114 Copynumber: 3.1 Consensus size: 113
48328177 GTATATTAGG
* * * * **
48328187 ATTAGTGGCGCTTATTGGAAAA-CGACACAAAATATTAACCAAAACGTTGCGCTTTGGTCTTGAT
1 ATTAGCGGCGCGTATT-GAAAAGCGCCGCAAAATATTAACCAAAACGAAGCGCTTTGGTCTTGAT
* * *
48328251 GTATAGTAGCATTAGTGGCGCTTATGCTAAAACGCCGCTAAAGTATAGT
65 GTATACTAGCATTAGTGGCGCTTATGCTAAAACGCCGCTAAAGCATAAT
** * * ** * * *
48328300 ATTAGCGGCAAGTACTGTAAAGCGCCGCAATCTTTCTTAACCAAAACGAAGAG-TTTGGTGTTGA
1 ATTAGCGGCGCGTATTGAAAAGCGCCGCAA--AATATTAACCAAAACGAAGCGCTTTGGTCTTGA
* * * * * *
48328364 GGTACATTAGGATTAGTGGCGCTTAT-TTGAAAACGCCGCTAAAGGATAAT
64 TGTATACTAGCATTAGTGGCGCTTATGCT-AAAACGCCGCTAAAGCATAAT
*
48328414 ATTAGCGGCGCGTATTGAAAAGCGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATG
1 ATTAGCGGCGCGTATTGAAAAGCGCCGCAAAATATTAACCAAAACGAAGCGCTTTGGTCTTGATG
* * *
48328479 TATACTAGCAATT-GTGGCGCTTATGGTAAAACGCCGCTAAAACATATT
66 TATACTAGC-ATTAGTGGCGCTTATGCTAAAACGCCGCTAAAGCATAAT
48328527 ATTAGCGGCGCGT
1 ATTAGCGGCGCGT
48328540 TGTGGGAAAC
Statistics
Matches: 193, Mismatches: 40, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
112 20 0.10
113 77 0.40
114 81 0.42
115 15 0.08
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (113 bp):
ATTAGCGGCGCGTATTGAAAAGCGCCGCAAAATATTAACCAAAACGAAGCGCTTTGGTCTTGATG
TATACTAGCATTAGTGGCGCTTATGCTAAAACGCCGCTAAAGCATAAT
Found at i:48328593 original size:16 final size:16
Alignment explanation
Indices: 48328559--48328616 Score: 98
Period size: 16 Copynumber: 3.6 Consensus size: 16
48328549 CGCCACTAGA
48328559 TTATTATATAATGTAGT
1 TTATTATAT-ATGTAGT
*
48328576 TTATTATATATTTAGT
1 TTATTATATATGTAGT
48328592 TTATTATATATGTAGT
1 TTATTATATATGTAGT
48328608 TTATTATAT
1 TTATTATAT
48328617 TATATAATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
16 30 0.77
17 9 0.23
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.59
Consensus pattern (16 bp):
TTATTATATATGTAGT
Found at i:48328628 original size:19 final size:19
Alignment explanation
Indices: 48328560--48328633 Score: 61
Period size: 17 Copynumber: 4.1 Consensus size: 19
48328550 GCCACTAGAT
48328560 TATTATATAATG--TAGTT-
1 TATTATATAATGTTTA-TTA
*
48328577 TATTATATATTTAGTTTATTA
1 TATTATATA-AT-GTTTATTA
*
48328598 TA-TATGT-A-GTTTATTA
1 TATTATATAATGTTTATTA
48328614 TATTATATAATGTTTATTA
1 TATTATATAATGTTTATTA
48328633 T
1 T
48328634 TTTTGAATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
16 10 0.22
17 13 0.29
18 2 0.04
19 10 0.22
20 6 0.13
21 4 0.09
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
TATTATATAATGTTTATTA
Found at i:48328629 original size:35 final size:33
Alignment explanation
Indices: 48328559--48328633 Score: 107
Period size: 32 Copynumber: 2.2 Consensus size: 33
48328549 CGCCACTAGA
*
48328559 TTATTATATAATGTAGTTTATTATATATTTAGT
1 TTATTATATAATGTAGTTTATTATATATTAAGT
48328592 TTATTATAT-ATGTAGTTTATTATATTATATAATGT
1 TTATTATATAATGTAGTTTATTATA-TAT-TAA-GT
48328627 TTATTAT
1 TTATTAT
48328634 TTTTGAATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
32 15 0.39
33 12 0.32
34 2 0.05
35 9 0.24
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (33 bp):
TTATTATATAATGTAGTTTATTATATATTAAGT
Found at i:48330780 original size:3 final size:3
Alignment explanation
Indices: 48330772--48330806 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
48330762 CTATTGTTAA
48330772 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
48330807 CACTACATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:48331812 original size:9 final size:9
Alignment explanation
Indices: 48331780--48332322 Score: 469
Period size: 9 Copynumber: 62.2 Consensus size: 9
48331770 TATCTTAGAC
48331780 AACTTACAT
1 AACTTACAT
48331789 AA--TACAT
1 AACTTACAT
* *
48331796 AGCATACAT
1 AACTTACAT
48331805 AACTTACAT
1 AACTTACAT
*
48331814 AA--TACAA
1 AACTTACAT
48331821 AACTTACAT
1 AACTTACAT
*
48331830 AACTTAAAT
1 AACTTACAT
* *
48331839 ATCTTACAC
1 AACTTACAT
48331848 AACTTACAT
1 AACTTACAT
* *
48331857 AACCTATAT
1 AACTTACAT
48331866 AA--TACATTT
1 AACTTACA--T
*
48331875 AACTTACGT
1 AACTTACAT
48331884 AACTTACAT
1 AACTTACAT
48331893 AACTTACAT
1 AACTTACAT
*
48331902 AA--TACAA
1 AACTTACAT
48331909 AACTTACAT
1 AACTTACAT
*
48331918 AACTTAAAT
1 AACTTACAT
* *
48331927 ATCTTACAC
1 AACTTACAT
48331936 AACTTACAT
1 AACTTACAT
*
48331945 AACCTACAT
1 AACTTACAT
48331954 AA--TACATTT
1 AACTTACA--T
48331963 AACTTACAT
1 AACTTACAT
48331972 AACTTACAT
1 AACTTACAT
48331981 AACTTACAT
1 AACTTACAT
*
48331990 AA--TACAA
1 AACTTACAT
48331997 AAC-TACAT
1 AACTTACAT
*
48332005 AACTTAAAT
1 AACTTACAT
* *
48332014 ATCTTACAC
1 AACTTACAT
48332023 AACTTACAT
1 AACTTACAT
*
48332032 AACCTACAT
1 AACTTACAT
48332041 AA--TACATTT
1 AACTTACA--T
48332050 AACTTACAT
1 AACTTACAT
48332059 AACTTACAT
1 AACTTACAT
*
48332068 AA--TACAA
1 AACTTACAT
48332075 AAC-TACAT
1 AACTTACAT
*
48332083 AACTTAAAT
1 AACTTACAT
* *
48332092 ATCTTACAC
1 AACTTACAT
48332101 AACTTACAT
1 AACTTACAT
*
48332110 AACCTACAT
1 AACTTACAT
48332119 AA--TACATTT
1 AACTTACA--T
48332128 AACTTACAT
1 AACTTACAT
48332137 AACTTACAT
1 AACTTACAT
*
48332146 AA--TACAA
1 AACTTACAT
48332153 AAC-TACAT
1 AACTTACAT
*
48332161 AACTTAAAT
1 AACTTACAT
* *
48332170 ATCTTACAC
1 AACTTACAT
48332179 AACTTACAT
1 AACTTACAT
*
48332188 AACCTACAT
1 AACTTACAT
48332197 AA--TACATTT
1 AACTTACA--T
48332206 AACTTACAT
1 AACTTACAT
48332215 AACTTACAT
1 AACTTACAT
48332224 AACTTACAT
1 AACTTACAT
*
48332233 AA--TACAA
1 AACTTACAT
48332240 AACTTACAT
1 AACTTACAT
*
48332249 AACTTAAAT
1 AACTTACAT
* *
48332258 ATCTTACAC
1 AACTTACAT
48332267 AACTTACAT
1 AACTTACAT
*
48332276 AACCTACAT
1 AACTTACAT
48332285 AA--TACATTT
1 AACTTACA--T
48332294 AACTTACAT
1 AACTTACAT
48332303 AACTTACAT
1 AACTTACAT
48332312 AACTTACAT
1 AACTTACAT
48332321 AA
1 AA
48332323 TAACTTATAC
Statistics
Matches: 435, Mismatches: 61, Indels: 76
0.76 0.11 0.13
Matches are distributed among these distances:
7 65 0.15
8 21 0.05
9 326 0.75
11 23 0.05
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:48332056 original size:78 final size:78
Alignment explanation
Indices: 48331971--48332313 Score: 596
Period size: 78 Copynumber: 4.3 Consensus size: 78
48331961 TTAACTTACA
48331971 TAACTTACATAACTTACATAATACAAAACTACATAACTTAAATATCTTACACAACTTACATAACC
1 TAACTTACATAACTTACATAATACAAAACTACATAACTTAAATATCTTACACAACTTACATAACC
48332036 TACATAATACATT
66 TACATAATACATT
48332049 TAACTTACATAACTTACATAATACAAAACTACATAACTTAAATATCTTACACAACTTACATAACC
1 TAACTTACATAACTTACATAATACAAAACTACATAACTTAAATATCTTACACAACTTACATAACC
48332114 TACATAATACATT
66 TACATAATACATT
48332127 TAACTTACATAACTTACATAATACAAAACTACATAACTTAAATATCTTACACAACTTACATAACC
1 TAACTTACATAACTTACATAATACAAAACTACATAACTTAAATATCTTACACAACTTACATAACC
48332192 TACATAATACATTTAACTT
66 TACATAATAC-----A-TT
48332211 ACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACAT
1 ---TAACTTACATAACTTACATAATACAAAAC-TACATAACTTAAATATCTTACACAACTTACAT
48332276 AACCTACATAATACATT
62 AACCTACATAATACATT
48332293 TAACTTACATAACTTACATAA
1 TAACTTACATAACTTACATAA
48332314 CTTACATAAT
Statistics
Matches: 255, Mismatches: 0, Indels: 19
0.93 0.00 0.07
Matches are distributed among these distances:
78 153 0.60
79 21 0.08
82 2 0.01
83 2 0.01
84 2 0.01
87 29 0.11
88 46 0.18
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (78 bp):
TAACTTACATAACTTACATAATACAAAACTACATAACTTAAATATCTTACACAACTTACATAACC
TACATAATACATT
Found at i:48337820 original size:21 final size:21
Alignment explanation
Indices: 48337794--48337864 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
48337784 CTACAACTTA
*
48337794 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
48337815 AAGCAGCGGTTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
48337836 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
48337857 AAGCAGAG
1 AAGCAGAG
48337865 TAGAGCAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.32, C:0.18, G:0.45, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:48338240 original size:42 final size:42
Alignment explanation
Indices: 48338183--48338384 Score: 293
Period size: 42 Copynumber: 4.8 Consensus size: 42
48338173 GTTTTTGTAT
*
48338183 AAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
*
48338225 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG-A
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
48338266 AAAAACGCCGCTAAAG-TCCATGTTCTTTAGCGGCGCTTA-ATA
1 AAAAACGCCGCTAAAGAT-CATGTTCTTTAGCGGCGCTTAGA-A
* * * *
48338308 AAAAACGCCGCTAAAGACCTTGTTCTTTAGAGGCGCTTAGAT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
48338350 AAAAACGTCGTTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
48338385 TTTAATATTA
Statistics
Matches: 143, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
41 38 0.27
42 104 0.73
43 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
Found at i:48338280 original size:83 final size:84
Alignment explanation
Indices: 48338181--48338426 Score: 336
Period size: 83 Copynumber: 2.9 Consensus size: 84
48338171 GCGTTTTTGT
*
48338181 ATAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGACCA
1 ATAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA-ATAAAAAACGCCGCTAAAGACCA
*
48338245 TGTTCTTTAGCGGCGCTTAG
65 TGTTCTTTAGAGGCGCTTAG
*
48338265 A-AAAAACGCCGCTAAAG-TCCATGTTCTTTAGCGGCGCTTAATAAAAAACGCCGCTAAAGACCT
1 ATAAAAACGCCGCTAAAGAT-CATGTTCTTTAGCGGCGCTTAATAAAAAACGCCGCTAAAGACCA
48338328 TGTTCTTTAGAGGCGCTTAG
65 TGTTCTTTAGAGGCGCTTAG
* * * ** ** *
48338348 ATAAAAACGTCGTTAAAGATCATGTTCTTTAGCGGCGTTTAATATTAAGTGCCGCTAAAGAACAT
1 ATAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAATAAAAAACGCCGCTAAAGACCAT
* *
48338413 GGTATTTAGAGGCG
66 GTTCTTTAGAGGCG
48338427 TTTTTTATTA
Statistics
Matches: 144, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
82 2 0.01
83 76 0.53
84 65 0.45
85 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (84 bp):
ATAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAATAAAAAACGCCGCTAAAGACCAT
GTTCTTTAGAGGCGCTTAG
Found at i:48338421 original size:42 final size:42
Alignment explanation
Indices: 48338190--48338471 Score: 142
Period size: 42 Copynumber: 6.7 Consensus size: 42
48338180 TATAAAAACA
* * * * ** *
48338190 CCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA-AAAAAACG
1 CCGCTAAAGAACATGGTATTTAGCGGCGTTTA-ATATTAAGCG
* * * * * *
48338232 CCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGA-A-AAAACG
1 CCGCTAAAGAACATGGTATTTAGCGGCGTTTA-ATATTAAGCG
** * * * ** *
48338273 CCGCTAAAGTCCATGTTCTTTAGCGGCGCTTAATAAAAAACG
1 CCGCTAAAGAACATGGTATTTAGCGGCGTTTAATATTAAGCG
* * * * * * * *
48338315 CCGCTAAAGACCTTGTTCTTTAGAGGCGCTTAGATA-AAAACG
1 CCGCTAAAGAACATGGTATTTAGCGGCGTTTA-ATATTAAGCG
* * * * * *
48338357 TCGTTAAAGATCATGTTCTTTAGCGGCGTTTAATATTAAGTG
1 CCGCTAAAGAACATGGTATTTAGCGGCGTTTAATATTAAGCG
* **
48338399 CCGCTAAAGAACATGGTATTTAGAGGCGTTTTTTATTAAGCG
1 CCGCTAAAGAACATGGTATTTAGCGGCGTTTAATATTAAGCG
*
48338441 CTGCTAAAGAACATGG-ACTTTAGCGGCGTTT
1 CCGCTAAAGAACATGGTA-TTTAGCGGCGTTT
48338472 TTTCTAAGCG
Statistics
Matches: 210, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
40 1 0.00
41 42 0.20
42 164 0.78
43 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (42 bp):
CCGCTAAAGAACATGGTATTTAGCGGCGTTTAATATTAAGCG
Found at i:48338472 original size:42 final size:41
Alignment explanation
Indices: 48338374--48338611 Score: 183
Period size: 42 Copynumber: 5.4 Consensus size: 41
48338364 AGATCATGTT
* *
48338374 CTTTAGCGGCGTTTAATAT-TAAGTGCCGCTAAAGAACATGGTA
1 CTTTAGCGGCGTTT--TTTCTAAGCGCCGCTAAAGAACATGG-A
* * *
48338417 -TTTAGAGGCGTTTTTTATTAAGCGCTGCTAAAGAACATGGA
1 CTTTAGCGGCGTTTTTT-CTAAGCGCCGCTAAAGAACATGGA
* *
48338458 CTTTAGCGGCGTTTTTTCTAAGCGCTGCTACTAAGAGCCACTGAAGAACATGGC
1 CTTTAGCGGCGTTTTTTCTAA--GC-GC--C-----G---CTAAAGAACATGGA
* *
48338512 CTTTAGCGGCGCTTATTTCTAAGCGCCGCTAAAGAACATGGC
1 CTTTAGCGGCG-TTTTTTCTAAGCGCCGCTAAAGAACATGGA
* * *
48338554 CTTTAGCGGCGCTTATTTCTAAGCGCCGCTAAAGAATATGGT
1 CTTTAGCGGCG-TTTTTTCTAAGCGCCGCTAAAGAACATGGA
48338596 CTTTAGCGGCGTTTTT
1 CTTTAGCGGCGTTTTT
48338612 GTTTGTAAAC
Statistics
Matches: 164, Mismatches: 14, Indels: 36
0.77 0.07 0.17
Matches are distributed among these distances:
40 2 0.01
41 8 0.05
42 111 0.68
43 2 0.01
44 2 0.01
45 1 0.01
50 1 0.01
51 1 0.01
52 2 0.01
53 2 0.01
54 23 0.14
55 9 0.05
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGGA
Found at i:48341168 original size:12 final size:11
Alignment explanation
Indices: 48341133--48341196 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 11
48341123 ATAAAAAAAT
48341133 TAAAAAATTAAA
1 TAAAAAA-TAAA
48341145 -AACAAAATTAAA
1 TAA-AAAA-TAAA
48341157 -AATAAAGATAAA
1 TAA-AAA-ATAAA
48341169 TAAAAAATAAA
1 TAAAAAATAAA
48341180 TAAAAAAATAAAA
1 T-AAAAAAT-AAA
48341193 TAAA
1 TAAA
48341197 CAACAACAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
11 8 0.17
12 31 0.67
13 7 0.15
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (11 bp):
TAAAAAATAAA
Found at i:48341195 original size:28 final size:28
Alignment explanation
Indices: 48341120--48341205 Score: 88
Period size: 28 Copynumber: 3.1 Consensus size: 28
48341110 TAAGTTTAAG
*
48341120 AAAATAAAAAAATTAAAA-AATTAAAAAC
1 AAAATAAAAAAA-TAAAATAAATAAAAAC
*
48341148 AAAAT-TAAAAATAAAGATAAATAAAAA-
1 AAAATAAAAAAATAAA-ATAAATAAAAAC
* *
48341175 ATAAATAAAAAAATAAAATAAACAACAAC
1 A-AAATAAAAAAATAAAATAAATAAAAAC
48341204 AA
1 AA
48341206 CAACAATAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
26 4 0.08
27 7 0.15
28 27 0.56
29 10 0.21
ACGTcount: A:0.78, C:0.05, G:0.01, T:0.16
Consensus pattern (28 bp):
AAAATAAAAAAATAAAATAAATAAAAAC
Found at i:48341349 original size:10 final size:11
Alignment explanation
Indices: 48341336--48341377 Score: 52
Period size: 10 Copynumber: 3.9 Consensus size: 11
48341326 AAAATTAGTA
*
48341336 AAATAAA-AAT
1 AAATAAATAAC
48341346 AAATAATATAAC
1 AAATAA-ATAAC
48341358 AAAT-AATAAC
1 AAATAAATAAC
48341368 AAATAAATAA
1 AAATAAATAA
48341378 AATAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 15 0.54
11 7 0.25
12 6 0.21
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (11 bp):
AAATAAATAAC
Found at i:48341380 original size:19 final size:20
Alignment explanation
Indices: 48341334--48341384 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
48341324 GAAAAATTAG
*
48341334 TAAAATAAAAATAAATAATA
1 TAAAATAAAAACAAATAATA
*
48341354 TAACAAATAATAACAAATAA-A
1 T-A-AAATAAAAACAAATAATA
48341375 TAAAATAAAA
1 TAAAATAAAA
48341385 TGGGTGGCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 7 0.27
20 2 0.08
21 3 0.12
22 14 0.54
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (20 bp):
TAAAATAAAAACAAATAATA
Found at i:48341648 original size:18 final size:17
Alignment explanation
Indices: 48341615--48341649 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
48341605 TTTTAAGATT
*
48341615 TTTTGAAAATTAATTAA
1 TTTTGAAAATAAATTAA
48341632 TTTTGAAAATAACATTAA
1 TTTTGAAAATAA-ATTAA
48341650 ATAAGATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.43
Consensus pattern (17 bp):
TTTTGAAAATAAATTAA
Found at i:48344480 original size:14 final size:14
Alignment explanation
Indices: 48344461--48344487 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48344451 AAAAGCAAAT
48344461 AAAACAAAAATTAG
1 AAAACAAAAATTAG
48344475 AAAACAAAAATTA
1 AAAACAAAAATTA
48344488 AACTAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (14 bp):
AAAACAAAAATTAG
Found at i:48344501 original size:18 final size:18
Alignment explanation
Indices: 48344475--48344520 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
48344465 CAAAAATTAG
*
48344475 AAAACAAAAATTA-AACTA
1 AAAATAAAAATTATAAC-A
48344493 AAAATAAAAA-TATAACA
1 AAAATAAAAATTATAACA
48344510 AAAATAAAAAT
1 AAAATAAAAAT
48344521 GACTAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAATAAAAATTATAACA
Found at i:48346660 original size:20 final size:20
Alignment explanation
Indices: 48346637--48346678 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
48346627 TAAATTTGAA
*
48346637 AATATAA-ATTATTTCTTTTT
1 AATATAATAATATTT-TTTTT
48346657 AATATAATAATATTTTTTTT
1 AATATAATAATATTTTTTTT
48346677 AA
1 AA
48346679 ATTATTCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
AATATAATAATATTTTTTTT
Found at i:48348876 original size:33 final size:34
Alignment explanation
Indices: 48348820--48348883 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
48348810 ACAATAAAAT
*
48348820 ATTTATTATATTTATCTGTGTTTT-TTAATAAAC
1 ATTTATTATATTTATCGGTGTTTTCTTAATAAAC
48348853 ATTTATTATATTTAT-GGTAGTTTTCTTAATA
1 ATTTATTATATTTATCGGT-GTTTTCTTAATA
48348884 TAAAAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 2 0.07
33 20 0.71
34 6 0.21
ACGTcount: A:0.30, C:0.05, G:0.08, T:0.58
Consensus pattern (34 bp):
ATTTATTATATTTATCGGTGTTTTCTTAATAAAC
Found at i:48358592 original size:25 final size:25
Alignment explanation
Indices: 48358550--48358620 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 25
48358540 AATTTCCTAA
*
48358550 AAAGTCTTTT-TGGTAAACTCTCTGT
1 AAAGT-TTTTGTGGCAAACTCTCTGT
48358575 AAAGTTTTTGTGGCAAACTCTCTGT
1 AAAGTTTTTGTGGCAAACTCTCTGT
***
48358600 AAAGCCCTTGTGGCAAACTCT
1 AAAGTTTTTGTGGCAAACTCT
48358621 TTGAAAATCC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.10
25 37 0.90
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (25 bp):
AAAGTTTTTGTGGCAAACTCTCTGT
Found at i:48358635 original size:25 final size:25
Alignment explanation
Indices: 48358549--48358637 Score: 88
Period size: 25 Copynumber: 3.6 Consensus size: 25
48358539 GAATTTCCTA
* * *
48358549 AAAAGTCTTTTTGGTAAACTCTCTG
1 AAAAGCCTTTGTGGCAAACTCTCTG
* **
48358574 TAAAGTTTTTGTGGCAAACTCTCTG
1 AAAAGCCTTTGTGGCAAACTCTCTG
* * *
48358599 TAAAGCCCTTGTGGCAAACTCTTTG
1 AAAAGCCTTTGTGGCAAACTCTCTG
*
48358624 AAAATCCTTTGTGG
1 AAAAGCCTTTGTGG
48358638 TGTATTATTC
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (25 bp):
AAAAGCCTTTGTGGCAAACTCTCTG
Found at i:48364866 original size:10 final size:10
Alignment explanation
Indices: 48364851--48364978 Score: 56
Period size: 10 Copynumber: 13.3 Consensus size: 10
48364841 TTAAAAAAAA
48364851 TTTATATATT
1 TTTATATATT
48364861 TTTATATA-T
1 TTTATATATT
48364870 TTTA-AT-TT
1 TTTATATATT
*
48364878 TTTATACATT
1 TTTATATATT
* * *
48364888 ATTATTTCTT
1 TTTATATATT
* * *
48364898 GTAATA-ATA
1 TTTATATATT
48364907 TTT-T-TATT
1 TTTATATATT
48364915 TTTATATATT
1 TTTATATATT
*
48364925 TTTAAGTTTATT
1 TTT-A-TATATT
*
48364937 ATTT-TA-CTT
1 -TTTATATATT
* * *
48364946 TTTAAAAATA
1 TTTATATATT
*
48364956 TTTATGTATT
1 TTTATATATT
48364966 TTTATATATT
1 TTTATATATT
48364976 TTT
1 TTT
48364979 TGACTTTTAG
Statistics
Matches: 83, Mismatches: 24, Indels: 22
0.64 0.19 0.17
Matches are distributed among these distances:
8 16 0.19
9 12 0.14
10 46 0.55
11 1 0.01
12 5 0.06
13 3 0.04
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTATATATT
Found at i:48364881 original size:17 final size:16
Alignment explanation
Indices: 48364859--48364926 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 16
48364849 AATTTATATA
48364859 TTTTTATATATTTTAAT
1 TTTTTATATATTTT-AT
*
48364876 TTTTTATACATTATTAT
1 TTTTTATATATT-TTAT
48364893 TTCTTGTAATAATATTTT-T
1 TT-TT-T-AT-ATATTTTAT
48364912 ATTTTTATATATTTT
1 -TTTTTATATATTTT
48364927 TAAGTTTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
16 7 0.16
17 17 0.40
18 5 0.12
19 4 0.09
20 6 0.14
21 4 0.09
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (16 bp):
TTTTTATATATTTTAT
Found at i:48366138 original size:25 final size:25
Alignment explanation
Indices: 48366110--48366159 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
48366100 CAGGTAAGGC
48366110 TCCTTCTCCTTCTTTC-GTTCTTCAT
1 TCCTTCTCCTTC-TTCAGTTCTTCAT
* *
48366135 TCCTTTTTCTTCTTCAGTTCTTCAT
1 TCCTTCTCCTTCTTCAGTTCTTCAT
48366160 CTTCTCTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.06, C:0.32, G:0.04, T:0.58
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCAGTTCTTCAT
Found at i:48366147 original size:17 final size:19
Alignment explanation
Indices: 48366116--48366150 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
48366106 AGGCTCCTTC
48366116 TCCTTCTTTCGTTCTTCAT
1 TCCTTCTTTCGTTCTTCAT
48366135 TCCTT-TTTC-TTCTTCA
1 TCCTTCTTTCGTTCTTCA
48366151 GTTCTTCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.06, C:0.31, G:0.03, T:0.60
Consensus pattern (19 bp):
TCCTTCTTTCGTTCTTCAT
Found at i:48377533 original size:19 final size:19
Alignment explanation
Indices: 48377495--48377533 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
48377485 AAATAGTGAT
*
48377495 AATTTATTTTCTAAGTATA
1 AATTTATTTTCTAAGAATA
48377514 AATTCTATTTTCT-AGAATA
1 AATT-TATTTTCTAAGAATA
48377533 A
1 A
48377534 CAATTCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:48381012 original size:20 final size:21
Alignment explanation
Indices: 48380980--48381018 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
48380970 TATATTAACT
*
48380980 CCTAATATTATATTTTTATCC
1 CCTAATATTATATATTTATCC
48381001 CCTAAT-TTATATATTTAT
1 CCTAATATTATATATTTAT
48381019 TAAAATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (21 bp):
CCTAATATTATATATTTATCC
Found at i:48397517 original size:13 final size:13
Alignment explanation
Indices: 48397467--48397532 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 13
48397457 TAAACCAAAC
*
48397467 TTTTTAAAAGTAT
1 TTTTTAAAAGCAT
* *
48397480 TTCTCAAAAGCACT
1 TTTTTAAAAGCA-T
*
48397494 TTTTT-ACAGCAT
1 TTTTTAAAAGCAT
*
48397506 TTTTTAAAAGCAG
1 TTTTTAAAAGCAT
*
48397519 TTTTCAAAAGCAT
1 TTTTTAAAAGCAT
48397532 T
1 T
48397533 GTTAAACTAG
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
12 6 0.15
13 31 0.76
14 4 0.10
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (13 bp):
TTTTTAAAAGCAT
Found at i:48402171 original size:9 final size:9
Alignment explanation
Indices: 48402157--48402241 Score: 109
Period size: 9 Copynumber: 9.4 Consensus size: 9
48402147 TTTGGTTAAA
48402157 AATTAACCG
1 AATTAACCG
*
48402166 AATTAACTG
1 AATTAACCG
*
48402175 AATTACCCG
1 AATTAACCG
48402184 AATTAACCG
1 AATTAACCG
48402193 AATTAACCG
1 AATTAACCG
*
48402202 GATT-ACTCG
1 AATTAAC-CG
48402211 AATTAACCG
1 AATTAACCG
*
48402220 AATTACCCG
1 AATTAACCG
*
48402229 AATTAAACG
1 AATTAACCG
48402238 AATT
1 AATT
48402242 GAATCACTAC
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
8 2 0.03
9 61 0.94
10 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:48407834 original size:2 final size:2
Alignment explanation
Indices: 48407827--48407863 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
48407817 GAAGAAAAAG
48407827 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
48407864 TACTGTTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:48416596 original size:22 final size:23
Alignment explanation
Indices: 48416571--48416613 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
48416561 CAACCGTTTT
*
48416571 CAAAAAAGAAAA-GAAGAAAGAA
1 CAAAAAAGAAAACAAAGAAAGAA
48416593 CAAAAAAGAAAACAAAGAAAG
1 CAAAAAAGAAAACAAAGAAAG
48416614 GGTAAGAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.77, C:0.07, G:0.16, T:0.00
Consensus pattern (23 bp):
CAAAAAAGAAAACAAAGAAAGAA
Found at i:48417382 original size:27 final size:25
Alignment explanation
Indices: 48417313--48417382 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 25
48417303 CCGTTTAAAA
48417313 AAATTATTTTGAAAATATTTTAAATT
1 AAATTATTTTGAAAAT-TTTTAAATT
48417339 -AA-TATGTTT-AAAA-TTTTAAATT
1 AAATTAT-TTTGAAAATTTTTAAATT
48417361 AAATTATTTTGAAGAATGTTTT
1 AAATTATTTTGAA-AAT-TTTT
48417383 GTACATTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
22 9 0.24
23 5 0.14
24 12 0.32
25 7 0.19
27 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (25 bp):
AAATTATTTTGAAAATTTTTAAATT
Found at i:48423653 original size:22 final size:22
Alignment explanation
Indices: 48423611--48423658 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
48423601 TAGATTGCCT
* *
48423611 CAAATCCACCTCACTAGGCATA
1 CAAATCCACCTCACAAAGCATA
48423633 CAAATCCGACCTCA-AAAGCATA
1 CAAATCC-ACCTCACAAAGCATA
48423655 -AAAT
1 CAAAT
48423659 ACCATCACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 4 0.17
22 13 0.57
23 6 0.26
ACGTcount: A:0.44, C:0.31, G:0.08, T:0.17
Consensus pattern (22 bp):
CAAATCCACCTCACAAAGCATA
Found at i:48427806 original size:25 final size:24
Alignment explanation
Indices: 48427778--48427854 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 24
48427768 ATTCCAAAAA
48427778 TAAAATTATTTTAATATTTTAATAT
1 TAAAATTATTTTAATA-TTTAATAT
* *
48427803 T-AAATGTAATTTAATATTT-ATCT
1 TAAAAT-TATTTTAATATTTAATAT
*
48427826 TAATAA-TATTTTATTAATTTAATAT
1 TAA-AATTATTTTAAT-ATTTAATAT
48427851 TAAA
1 TAAA
48427855 GTGATTATCT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
23 11 0.26
24 13 0.31
25 18 0.43
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (24 bp):
TAAAATTATTTTAATATTTAATAT
Found at i:48427850 original size:48 final size:51
Alignment explanation
Indices: 48427784--48427880 Score: 130
Period size: 48 Copynumber: 2.0 Consensus size: 51
48427774 AAAATAAAAT
*
48427784 TATTTTAATATTTTAATATTAAA-TG-TAAT-TTAATATT-TATCTTAATAA
1 TATTTTAATAATTTAATATTAAAGTGATAATCTTAATATTATAT-TTAATAA
* *
48427832 TATTTTATTAATTTAATATTAAAGTGATTATCTTAATATTATATTTAAT
1 TATTTTAATAATTTAATATTAAAGTGATAATCTTAATATTATATTTAAT
48427881 TTAACATTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
48 21 0.50
49 2 0.05
50 3 0.07
51 13 0.31
52 3 0.07
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (51 bp):
TATTTTAATAATTTAATATTAAAGTGATAATCTTAATATTATATTTAATAA
Found at i:48431002 original size:21 final size:21
Alignment explanation
Indices: 48430978--48431019 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
48430968 AATATGGAGT
48430978 TAAATTTAGTTTAAAGTGGAA
1 TAAATTTAGTTTAAAGTGGAA
48430999 TAAATTTAGTTTAAAGTGGAA
1 TAAATTTAGTTTAAAGTGGAA
48431020 ATTGTATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (21 bp):
TAAATTTAGTTTAAAGTGGAA
Found at i:48431060 original size:20 final size:20
Alignment explanation
Indices: 48431024--48431061 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48431014 GTGGAAATTG
*
48431024 TATGAAAATATAGAATTAAA
1 TATGAAAATATAAAATTAAA
48431044 TATGAAGAATA-AAAATTA
1 TATGAA-AATATAAAATTA
48431062 GTCTCGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (20 bp):
TATGAAAATATAAAATTAAA
Found at i:48433451 original size:21 final size:21
Alignment explanation
Indices: 48433427--48433466 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
48433417 CAGCTTATTA
48433427 GCATGGTTAAAT-TGTCTTAAT
1 GCAT-GTTAAATATGTCTTAAT
*
48433448 GCATGTTTAATATGTCTTA
1 GCATGTTAAATATGTCTTA
48433467 GGGATGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (21 bp):
GCATGTTAAATATGTCTTAAT
Found at i:48434449 original size:29 final size:29
Alignment explanation
Indices: 48434411--48434466 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
48434401 AAAAAAAAAT
*
48434411 CGTAGCAAAAAGAGAAGTGCGAAAGAATC
1 CGTAGAAAAAAGAGAAGTGCGAAAGAATC
*
48434440 CGTAGAAAAAAGAGAAGTGCGGAAGAA
1 CGTAGAAAAAAGAGAAGTGCGAAAGAA
48434467 AAAAAACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.50, C:0.11, G:0.30, T:0.09
Consensus pattern (29 bp):
CGTAGAAAAAAGAGAAGTGCGAAAGAATC
Found at i:48439025 original size:14 final size:14
Alignment explanation
Indices: 48439008--48439038 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
48438998 AATAAAATAT
48439008 TTTCCGGAAAATGA
1 TTTCCGGAAAATGA
*
48439022 TTTCTGGAAAATGA
1 TTTCCGGAAAATGA
48439036 TTT
1 TTT
48439039 ACTTTTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (14 bp):
TTTCCGGAAAATGA
Found at i:48441385 original size:25 final size:25
Alignment explanation
Indices: 48441353--48441403 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
48441343 GGCGTGAAAG
48441353 TGCAGAGGAGAGCTTAGAAAATGTC
1 TGCAGAGGAGAGCTTAGAAAATGTC
*
48441378 TGCAGAGGAGAGCTTGGAAAATGTC
1 TGCAGAGGAGAGCTTAGAAAATGTC
48441403 T
1 T
48441404 TACGGAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.22
Consensus pattern (25 bp):
TGCAGAGGAGAGCTTAGAAAATGTC
Found at i:48448227 original size:18 final size:17
Alignment explanation
Indices: 48448194--48448232 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
48448184 TTTTATAAAT
48448194 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
48448212 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
48448229 TGTG
1 TGTG
48448233 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:48448485 original size:23 final size:23
Alignment explanation
Indices: 48448458--48448533 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
48448448 AGTGTTATTG
**
48448458 ATCAGTGGTAGCTTCGGCTATGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
48448481 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
48448504 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
48448527 ATCAGTG
1 ATCAGTG
48448534 TTGCACTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:48453313 original size:26 final size:27
Alignment explanation
Indices: 48453266--48453318 Score: 99
Period size: 26 Copynumber: 2.0 Consensus size: 27
48453256 ATTTGTGAGA
48453266 AAGGAACCACAAGCTCTAGTGGTCAGT
1 AAGGAACCACAAGCTCTAGTGGTCAGT
48453293 AAGGAACCAC-AGCTCTAGTGGTCAGT
1 AAGGAACCACAAGCTCTAGTGGTCAGT
48453319 TTTGATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (27 bp):
AAGGAACCACAAGCTCTAGTGGTCAGT
Found at i:48456142 original size:23 final size:22
Alignment explanation
Indices: 48456090--48456142 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
48456080 CCACGTCTTT
*
48456090 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
48456112 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
48456135 TTTCTTTT
1 TTTCTTTT
48456143 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:48462062 original size:20 final size:19
Alignment explanation
Indices: 48462037--48462074 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
48462027 TAAATTCAAG
48462037 TTAATTACATCCTTTTTTTT
1 TTAATTACAT-CTTTTTTTT
48462057 TTAATTACATCTTTTTTT
1 TTAATTACATCTTTTTTT
48462075 CAAAATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.21, C:0.13, G:0.00, T:0.66
Consensus pattern (19 bp):
TTAATTACATCTTTTTTTT
Found at i:48462232 original size:30 final size:29
Alignment explanation
Indices: 48462177--48462234 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 29
48462167 TTAAAAATAC
*
48462177 AAGTACAGGGACTAAGTCCTAATTTTCATA
1 AAGTACAGGGACTAAGACC-AATTTTCATA
48462207 AAGTACAGGGACTATAGA-CACATTTTCA
1 AAGTACAGGGACTA-AGACCA-ATTTTCA
48462235 CAAAAGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 1 0.04
30 22 0.88
31 2 0.08
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (29 bp):
AAGTACAGGGACTAAGACCAATTTTCATA
Found at i:48475612 original size:24 final size:24
Alignment explanation
Indices: 48475584--48475640 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
48475574 ATTCTATTAA
*
48475584 CCTTTGTAGCGTATTCTGATTTGG
1 CCTTTGTAGCGTATTCTGATTAGG
* * * *
48475608 CCTTTATGGCGTGTTTTGATTAGG
1 CCTTTGTAGCGTATTCTGATTAGG
48475632 CCTTTGTAG
1 CCTTTGTAG
48475641 TATTTTGTTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.12, C:0.16, G:0.26, T:0.46
Consensus pattern (24 bp):
CCTTTGTAGCGTATTCTGATTAGG
Found at i:48475656 original size:20 final size:20
Alignment explanation
Indices: 48475621--48475683 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
48475611 TTATGGCGTG
*
48475621 TTTTGATTAGGCCTTTGTAGTA
1 TTTTG-TTA-GCCTTTGTAGCA
* *
48475643 TTTTGTTAGCCTTTATGGCA
1 TTTTGTTAGCCTTTGTAGCA
* *
48475663 TTCTGTTAGCCTTTGTGGCA
1 TTTTGTTAGCCTTTGTAGCA
48475683 T
1 T
48475684 ATTTTGTATG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
20 28 0.78
21 3 0.08
22 5 0.14
ACGTcount: A:0.14, C:0.14, G:0.22, T:0.49
Consensus pattern (20 bp):
TTTTGTTAGCCTTTGTAGCA
Found at i:48486429 original size:14 final size:14
Alignment explanation
Indices: 48486412--48486441 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
48486402 TTTCATTTTT
*
48486412 ATATATTTTTTAAA
1 ATATAATTTTTAAA
48486426 ATATAATTTTTAAA
1 ATATAATTTTTAAA
48486440 AT
1 AT
48486442 TTTATGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATAATTTTTAAA
Found at i:48493236 original size:10 final size:10
Alignment explanation
Indices: 48493218--48493368 Score: 56
Period size: 10 Copynumber: 15.8 Consensus size: 10
48493208 GAAGTTATAT
48493218 ATTATTATTAA
1 ATTA-TATTAA
*
48493229 ATTATATTTA
1 ATTATATTAA
48493239 A-TA-A-T-A
1 ATTATATTAA
48493245 ATTATATTAA
1 ATTATATTAA
*
48493255 ATTATA-CAA
1 ATTATATTAA
48493264 ATTCATATAATTAA
1 A-T--TAT-ATTAA
*
48493278 ATTATATTTA
1 ATTATATTAA
* *
48493288 ATAATAAT-A
1 ATTATATTAA
*
48493297 ATTATTTTAA
1 ATTATATTAA
*
48493307 ATTTTATTAA
1 ATTATATTAA
* *
48493317 ATCATA-TAT
1 ATTATATTAA
*
48493326 TTTA-ATTAA
1 ATTATATTAA
* *
48493335 AATATATTTA
1 ATTATATTAA
48493345 A-TA-A-T-A
1 ATTATATTAA
*
48493351 ATTATTTTAA
1 ATTATATTAA
48493361 ATTATATT
1 ATTATATT
48493369 TTATACTATC
Statistics
Matches: 102, Mismatches: 22, Indels: 33
0.65 0.14 0.21
Matches are distributed among these distances:
6 4 0.04
7 6 0.06
8 4 0.04
9 23 0.23
10 50 0.49
11 7 0.07
12 3 0.03
13 2 0.02
14 3 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (10 bp):
ATTATATTAA
Found at i:48493315 original size:91 final size:91
Alignment explanation
Indices: 48492625--48493273 Score: 1117
Period size: 91 Copynumber: 7.1 Consensus size: 91
48492615 ATGATTTTAG
*
48492625 TAAATTCATATAA-AAATATTTATTATTAAGAATTTTATG-AATTATATATCATTATTAAATTAT
1 TAAATTCATATAACAAA-ATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
48492688 ATTTAATATTAATTATTTTAAATTATA
65 ATTTAATATTAATTATTTTAAATTATA
*
48492715 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
48492780 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
* *
48492806 TAAATTCATATAAGAAAATTTATTATCAAGAA-TTT-TGAACGAGTATATATCATTATTAAATTA
1 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAA--ATTATATATCATTATTAAATTA
48492869 TATTTAATATTAATTATTTTAAATTATA
64 TATTTAATATTAATTATTTTAAATTATA
*
48492897 TAAATTCATACAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
48492962 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
* *
48492988 TAAATTCATATAACGAAGTTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
48493053 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
48493079 TAAATTCATATAACAAAGTTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
48493144 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
* * *
48493170 TAAATTCATATAACAAAATTTATTATCAAGAATTTGATGAAGTTATATATTATTATTAAATTATA
1 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
* *
48493235 TTTAATAATAATTATATTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
48493261 CAAATTCATATAA
1 TAAATTCATATAA
48493274 TTAAATTATA
Statistics
Matches: 537, Mismatches: 16, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
89 4 0.01
90 37 0.07
91 489 0.91
92 3 0.01
93 4 0.01
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TTTAATATTAATTATTTTAAATTATA
Found at i:48493324 original size:52 final size:52
Alignment explanation
Indices: 48492860--48493182 Score: 108
Period size: 44 Copynumber: 7.0 Consensus size: 52
48492850 ATATATCATT
* *
48492860 ATTAAATTATA-TT-TAATATTAATTATTTTAAATTATA-TAAATTCATACA
1 ATTAAATTATATTTATAATAATAATTATTTTAAATTATATTAAATTCATATA
** * * *
48492909 ACAAAATT-TA-TTATCAAGAAT--TT-TATGAAATTATA-T--A-TCAT-T-
1 ATTAAATTATATTTAT-AATAATAATTATTTTAAATTATATTAAATTCATATA
*
48492951 ATTAAATTATA-TT-TAATATTAATTATTTTAAATTATA-TAAATTCATATA
1 ATTAAATTATATTTATAATAATAATTATTTTAAATTATATTAAATTCATATA
** * * * *
48493000 ACGAAGTT-TA-TTATCAAGAAT--TT-TATGAAATTATA-T--A-TCAT-T-
1 ATTAAATTATATTTAT-AATAATAATTATTTTAAATTATATTAAATTCATATA
*
48493042 ATTAAATTATA-TT-TAATATTAATTATTTTAAATTATA-TAAATTCATATA
1 ATTAAATTATATTTATAATAATAATTATTTTAAATTATATTAAATTCATATA
* * * *
48493091 A-CAAAGTT-TA-TTATCAAGAAT--TT-TATGAAATTATA-T--A-TCAT-T-
1 ATTAAA-TTATATTTAT-AATAATAATTATTTTAAATTATATTAAATTCATATA
*
48493133 ATTAAATTATA-TT-TAATATTAATTATTTTAAATTATA-TAAATTCATATA
1 ATTAAATTATATTTATAATAATAATTATTTTAAATTATATTAAATTCATATA
48493182 A
1 A
48493183 CAAAATTTAT
Statistics
Matches: 202, Mismatches: 37, Indels: 70
0.65 0.12 0.23
Matches are distributed among these distances:
41 12 0.06
42 17 0.08
43 23 0.11
44 45 0.22
45 3 0.01
46 3 0.01
47 45 0.22
48 24 0.12
49 18 0.09
50 12 0.06
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (52 bp):
ATTAAATTATATTTATAATAATAATTATTTTAAATTATATTAAATTCATATA
Found at i:48493329 original size:17 final size:16
Alignment explanation
Indices: 48493307--48493360 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
48493297 ATTATTTTAA
48493307 ATTTT-ATTAAATCATAT
1 ATTTTAATTAAA--ATAT
48493324 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
48493340 A-TTTAA-TAATAAT-T
1 ATTTTAATTAA-AATAT
48493354 ATTTTAA
1 ATTTTAA
48493361 ATTATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.15
15 13 0.38
16 5 0.15
17 5 0.15
18 6 0.18
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:48493333 original size:52 final size:55
Alignment explanation
Indices: 48493224--48493615 Score: 196
Period size: 54 Copynumber: 6.8 Consensus size: 55
48493214 ATATATTATT
* * * *
48493224 ATTAAATTATATTTAATAATAATTATATTAAATTATA-CAAATTCATATAATTAA
1 ATTAAAATATATATAATAATAATTATTTTAAATTATATTAAATTCATATAATTAA
* * * * *
48493278 ATT-ATATTTA-ATAATAATAATTATTTTAAATTTTATTAAA-TCATATATTTTA
1 ATTAAAATATATATAATAATAATTATTTTAAATTATATTAAATTCATATAATTAA
* *
48493330 ATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTATACTATCATAT-ATTATGA
1 ATTAAAATATATATAATAATAATTATTTTAAATTATA--TTA-AAT-TCATATAATTA--A
* * * *
48493390 TTTTAGGAAAT-TCATATAATAAT-ATTGAGATTATTAAGAATTTTATTAAA-TCATATATTTTA
1 -ATTA--AAATAT-ATATAATAATAATT---ATT-TT-A-AATTATATTAAATTCATATAATTAA
* * * *
48493452 ATTAAAATATATTTAATAATAATTATCTTAAATTATATTTTATAGT-ATCATAATTATGA
1 ATTAAAATATATATAATAATAATTATTTTAAATTATA--TTAAATTCAT-ATAATTA--A
* * * *
48493511 ATTGAGTAAAT-TCATATAACAAT-ATTGATTATTTATAATTGTATTAAATT-ATATATTTTA
1 ATT-A--AAATAT-ATATAATAATAATT-A-T-TTTA-AATTATATTAAATTCATATAATTAA
* * *
48493571 ATTAAAATATATTTAATAATAATTATGTTAAAATATGATTAAATT
1 ATTAAAATATATATAATAATAATTATTTTAAATTAT-ATTAAATT
48493616 ATTTATTATT
Statistics
Matches: 256, Mismatches: 42, Indels: 79
0.68 0.11 0.21
Matches are distributed among these distances:
52 35 0.14
53 12 0.05
54 36 0.14
55 12 0.05
56 12 0.05
57 22 0.09
58 6 0.02
59 24 0.09
60 10 0.04
61 10 0.04
62 23 0.09
63 27 0.11
64 5 0.02
65 10 0.04
66 5 0.02
67 1 0.00
68 6 0.02
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.48
Consensus pattern (55 bp):
ATTAAAATATATATAATAATAATTATTTTAAATTATATTAAATTCATATAATTAA
Found at i:48493335 original size:28 final size:29
Alignment explanation
Indices: 48493303--48493385 Score: 71
Period size: 28 Copynumber: 2.8 Consensus size: 29
48493293 AATAATTATT
48493303 TTAAATTTTATTAAATCATATATTTT-AA
1 TTAAATTTTATTAAATCATATATTTTAAA
* * * *
48493331 TTAAAATATATTTAATAATAATTATTTTAAA
1 TTAAATTTTATTAAATCAT-A-TATTTTAAA
* *
48493362 TTATATTTTA-TACTATCATATATT
1 TTAAATTTTATTA-AATCATATATT
48493386 ATGATTTTAG
Statistics
Matches: 41, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
28 15 0.37
29 5 0.12
30 8 0.20
31 13 0.32
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (29 bp):
TTAAATTTTATTAAATCATATATTTTAAA
Found at i:48493586 original size:119 final size:121
Alignment explanation
Indices: 48493297--48493602 Score: 474
Period size: 122 Copynumber: 2.5 Consensus size: 121
48493287 AATAATAATA
*
48493297 ATTATTT-TAAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTTAA
1 ATTATTTAT-AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAA
* * *
48493361 ATTATATTTTATACTATCATATATTATGATTTTAGGAAATTCATATAATAATATTGAG
65 ATTATATTTTATACTATCATATATTATGAATTGAGGAAATTCATATAACAATATT-AG
* *
48493419 ATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAA
1 ATTATTTATAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAA
* *
48493484 TTATATTTTATAGTATCATA-ATTATGAATTGAGTAAATTCATATAACAATATT-G
66 TTATATTTTATACTATCATATATTATGAATTGAGGAAATTCATATAACAATATTAG
* * *
48493538 ATTATTTATAATTGTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATTATTTATAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAA
48493603 ATATGATTAA
Statistics
Matches: 170, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
119 61 0.36
121 29 0.17
122 80 0.47
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (121 bp):
ATTATTTATAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAA
TTATATTTTATACTATCATATATTATGAATTGAGGAAATTCATATAACAATATTAG
Found at i:48500675 original size:21 final size:22
Alignment explanation
Indices: 48500634--48500676 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
48500624 TTCTTGAAAG
*
48500634 TGCCTATTGGGATCATGGACTT
1 TGCCTATTGGGATCATCGACTT
48500656 TGCC-ATTGGGATTC-TCGACTT
1 TGCCTATTGGGA-TCATCGACTT
48500677 CCTTGTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (22 bp):
TGCCTATTGGGATCATCGACTT
Found at i:48508116 original size:41 final size:41
Alignment explanation
Indices: 48508071--48508217 Score: 204
Period size: 41 Copynumber: 3.6 Consensus size: 41
48508061 TCTACCTAGT
*
48508071 AGGCTTAATGCCAGTGTACCATATTAGGCTTTACGCTTAGC
1 AGGCTTAATGCCAGTGTACCATATCAGGCTTTACGCTTAGC
* * * *
48508112 AGGCTTAATGTCGGTGTACCATATCAGGCTTTACGCCTAGT
1 AGGCTTAATGCCAGTGTACCATATCAGGCTTTACGCTTAGC
* *
48508153 AGGCTTAATGCCGGTGTACCATATCAGGCTTTACACTTAGC
1 AGGCTTAATGCCAGTGTACCATATCAGGCTTTACGCTTAGC
** *
48508194 AGGCTTCGTGCCAGTGTATCATAT
1 AGGCTTAATGCCAGTGTACCATAT
48508218 TAAGATTTGT
Statistics
Matches: 93, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 93 1.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.31
Consensus pattern (41 bp):
AGGCTTAATGCCAGTGTACCATATCAGGCTTTACGCTTAGC
Found at i:48508211 original size:82 final size:82
Alignment explanation
Indices: 48508065--48508217 Score: 234
Period size: 82 Copynumber: 1.9 Consensus size: 82
48508055 GGGCTATCTA
* * * *
48508065 CCTAGTAGGCTTAATGCCAGTGTACCATATTAGGCTTTACGCTTAGCAGGCTTAATGTCGGTGTA
1 CCTAGTAGGCTTAATGCCAGTGTACCATATCAGGCTTTACACTTAGCAGGCTTAATGCCAGTGTA
48508130 CCATATCAGGCTTTACG
66 CCATATCAGGCTTTACG
* **
48508147 CCTAGTAGGCTTAATGCCGGTGTACCATATCAGGCTTTACACTTAGCAGGCTTCGTGCCAGTGTA
1 CCTAGTAGGCTTAATGCCAGTGTACCATATCAGGCTTTACACTTAGCAGGCTTAATGCCAGTGTA
*
48508212 TCATAT
66 CCATAT
48508218 TAAGATTTGT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (82 bp):
CCTAGTAGGCTTAATGCCAGTGTACCATATCAGGCTTTACACTTAGCAGGCTTAATGCCAGTGTA
CCATATCAGGCTTTACG
Found at i:48510378 original size:20 final size:20
Alignment explanation
Indices: 48510349--48510388 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
48510339 TGGACTTATT
*
48510349 TAAAACAAAACATAAAAATA
1 TAAAAAAAAACATAAAAATA
*
48510369 TAAAAAAAAACTTAAAAATA
1 TAAAAAAAAACATAAAAATA
48510389 GGGGTCACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAAAAAACATAAAAATA
Found at i:48511581 original size:45 final size:45
Alignment explanation
Indices: 48511530--48511639 Score: 148
Period size: 45 Copynumber: 2.4 Consensus size: 45
48511520 GGTGTCTTTT
* *
48511530 AGCTATGGTATTAATCGTTTGAATCATGATGCCATAACGTATTTC
1 AGCTATGGTCTTACTCGTTTGAATCATGATGCCATAACGTATTTC
* * * * *
48511575 AGCTATGGTCTTACTCATTTGATTCATGGTGCCATAGCGTCTTTC
1 AGCTATGGTCTTACTCGTTTGAATCATGATGCCATAACGTATTTC
*
48511620 AACTATGGTCTTACTCGTTT
1 AGCTATGGTCTTACTCGTTT
48511640 TTTTTCAACC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (45 bp):
AGCTATGGTCTTACTCGTTTGAATCATGATGCCATAACGTATTTC
Found at i:48513948 original size:23 final size:23
Alignment explanation
Indices: 48513921--48513996 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
48513911 AGTGTTATTG
*
48513921 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
48513944 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
48513967 AACAATGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
48513990 ATCAGTG
1 ATCAGTG
48513997 TTGCACTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:48520278 original size:6 final size:6
Alignment explanation
Indices: 48520267--48520293 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
48520257 ATTAGGCTTC
48520267 TTTCAA TTTCAA TTTCAA TTTCAA TTT
1 TTTCAA TTTCAA TTTCAA TTTCAA TTT
48520294 TGTTTGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTCAA
Found at i:48521322 original size:18 final size:18
Alignment explanation
Indices: 48521288--48521325 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
48521278 TTTAATAAAG
*
48521288 TATTTAATATTATAATTT
1 TATTTAATAATATAATTT
48521306 TATTATAATAATA-AATTT
1 TATT-TAATAATATAATTT
48521324 TA
1 TA
48521326 AATAATCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTTAATAATATAATTT
Found at i:48523814 original size:21 final size:21
Alignment explanation
Indices: 48523789--48523834 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
48523779 CCAAATACTT
48523789 GCAGCAAACTCTAGACATAGA
1 GCAGCAAACTCTAGACATAGA
* *
48523810 GCAGCAAACTTTAGACATAGT
1 GCAGCAAACTCTAGACATAGA
48523831 GCAG
1 GCAG
48523835 TGTTTCTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (21 bp):
GCAGCAAACTCTAGACATAGA
Found at i:48530600 original size:9 final size:9
Alignment explanation
Indices: 48530586--48530610 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
48530576 ATTATAATTG
48530586 AACTCTCTA
1 AACTCTCTA
48530595 AACTCTCTA
1 AACTCTCTA
48530604 AACTCTC
1 AACTCTC
48530611 CTTATATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (9 bp):
AACTCTCTA
Found at i:48532780 original size:22 final size:23
Alignment explanation
Indices: 48532746--48532789 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
48532736 TAATGATGTG
*
48532746 CAAACTATGAAATAATTAAAAACA
1 CAAACTA-GAAATAACTAAAAACA
48532770 CAAACTA-AAATAACTAAAAA
1 CAAACTAGAAATAACTAAAAA
48532790 TTAATGAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
24 7 0.37
ACGTcount: A:0.66, C:0.14, G:0.02, T:0.18
Consensus pattern (23 bp):
CAAACTAGAAATAACTAAAAACA
Found at i:48538707 original size:12 final size:12
Alignment explanation
Indices: 48538690--48538734 Score: 51
Period size: 11 Copynumber: 3.9 Consensus size: 12
48538680 ACTAATCCTT
48538690 TCTCAAATTTCC
1 TCTCAAATTTCC
*
48538702 TCTC-AATTTGC
1 TCTCAAATTTCC
48538713 TCTCAAA-TTCC
1 TCTCAAATTTCC
48538724 T-TCCAAATTTC
1 TCT-CAAATTTC
48538735 TCTGAAATCC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
10 1 0.04
11 18 0.64
12 9 0.32
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.42
Consensus pattern (12 bp):
TCTCAAATTTCC
Found at i:48538732 original size:23 final size:21
Alignment explanation
Indices: 48538690--48538742 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
48538680 ACTAATCCTT
48538690 TCTCAAATTTCCTCTCAATTTGC
1 TCTCAAA-TTCCTCTCAATTT-C
48538713 TCTCAAATTCCT-TCCAAATTTC
1 TCTCAAATTCCTCT-C-AATTTC
*
48538735 TCTGAAAT
1 TCTCAAAT
48538743 CCATATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 1 0.04
22 14 0.52
23 12 0.44
ACGTcount: A:0.26, C:0.28, G:0.04, T:0.42
Consensus pattern (21 bp):
TCTCAAATTCCTCTCAATTTC
Found at i:48541180 original size:22 final size:22
Alignment explanation
Indices: 48541164--48542305 Score: 1367
Period size: 22 Copynumber: 53.0 Consensus size: 22
48541154 TTTAATTGAC
48541164 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
48541186 AAACCATAACCCTAACCCTTAACTTTA
1 AAACCCT-A----AACCCTTAACTTAA
**
48541213 AAACCCTAAACTTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
48541235 AAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * * *
48541257 AAACTCT-AATCCTTGACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
48541278 AAACCCTAAACCCATAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
48541300 AAACCATAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
48541322 AAATCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
48541344 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
48541365 AAACCCTAAACTCGTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
48541387 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
48541408 AAACCTTAAACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
48541430 AAACTCTAAACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
* *
48541451 AAACACT-AACCATTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
48541472 AAACACT-AACCCTT-ACTT-A
1 AAACCCTAAACCCTTAACTTAA
*
48541491 AAACCC-ATAACCCTTAACTTTA
1 AAACCCTA-AACCCTTAACTTAA
48541513 AAACCCTAAA-CCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
48541534 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
48541556 AAACCCT-AACCCTTGACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
48541577 AAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
48541599 AAACCCT-AACCCTTAACAT-A
1 AAACCCTAAACCCTTAACTTAA
48541619 AAACCCT-AACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
48541639 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
48541660 AAA-ACTTAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
48541681 AAACCCTAAACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
48541703 AAACCATAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
48541725 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
48541746 AAACCTTAAACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
48541768 AAACCATAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
** *
48541790 AAACCCT-AACTTTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
48541811 AAACCCTAAACCCTTAA-TTTA
1 AAACCCTAAACCCTTAACTTAA
48541832 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
48541854 AAA-CCTTAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
48541875 AAACCCTAAACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
48541897 AAACCATAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
* *
48541919 AAACCATAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
48541941 AAACACT-AACCCTTGACTTTA
1 AAACCCTAAACCCTTAACTTAA
48541962 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
48541984 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
48542005 AAACCCTAAACCCTTAATTTAA
1 AAACCCTAAACCCTTAACTTAA
48542027 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
48542049 AAACACT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
48542070 AAATCCTAAA-CCTTAACTGT-A
1 AAACCCTAAACCCTTAACT-TAA
* * * *
48542091 AAACTCTAAACTCTCAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
48542113 AAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
48542135 AAACCCT-AACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
48542156 AAACCAT-AACCCTTAAATTTA
1 AAACCCTAAACCCTTAACTTAA
* *
48542177 AAACCTTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
48542199 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
48542221 AAA-CCTTAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
48542242 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
48542263 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
48542284 AAATCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
48542305 A
1 A
48542306 TATAATTTGA
Statistics
Matches: 967, Mismatches: 122, Indels: 63
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.01
20 63 0.07
21 408 0.42
22 468 0.48
23 2 0.00
26 1 0.00
27 19 0.02
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:48541202 original size:27 final size:28
Alignment explanation
Indices: 48541165--48541217 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
48541155 TTAATTGACA
48541165 AACCCTAAACCCTTAACTTAAAAACCAT
1 AACCCTAAACCCTTAACTTAAAAACCAT
*
48541193 AACCCT-AACCCTTAACTTTAAAACC
1 AACCCTAAACCCTTAACTTAAAAACC
48541218 CTAAACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.23
Consensus pattern (28 bp):
AACCCTAAACCCTTAACTTAAAAACCAT
Found at i:48541281 original size:43 final size:43
Alignment explanation
Indices: 48541193--48542302 Score: 1370
Period size: 43 Copynumber: 25.9 Consensus size: 43
48541183 TAAAAACCAT
* ** *
48541193 AACCCT-AACCCTTAACTTTAAAACCCTAAACTTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
* * * *
48541236 AACCTTAAACCCTTAACTTAAAAACTCTAATCCTTGACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* * *
48541279 AACCCTAAACCCATAACTTAAAAACCATAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
*
48541323 AATCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* *
48541366 AACCCTAAACTCGTAACTTAAAAACCCTAACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* * *
48541409 AACCTTAAACTCTTAACTTAAAAACTCTAAACCCTTAAC-TTAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
* * *
48541452 AACACT-AACCATTAACTTAAAAACACTAACCCTT-AC-TTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* * *
48541492 AACCC-ATAACCCTTAACTTTAAAACCCTAAACCTTAACTTAAA
1 AACCCTA-AACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
*
48541535 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTGACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* *
48541578 AACCTTAAACCCTTAACTTAAAAACCCTAACCCTTAAC-ATAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
48541620 AACCCT-AACCCTTAACTT-AAAACCCTAACCCTTAAC-TTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
** * * * *
48541660 AAAACTTAACCCTTAACTTTAAAACCCTAAACTCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
*
48541704 AACCATAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* * * *
48541747 AACCTTAAACTCTTAACTTAAAAACCATAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
** *
48541791 AACCCT-AACTTTTAACTTTAAAACCCTAAACCCTTAA-TTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
*
48541833 AACCCTAAACCCTTAACTTAAAAACCTTAACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* * * *
48541876 AACCCTAAACTCTTAACTTAAAAACCATAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
* * * *
48541920 AACCATAAACCCTTAACCTAAAAACACTAACCCTTGACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
48541963 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* *
48542006 AACCCTAAACCCTTAATTTAAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
* * * * *
48542050 AACACT-AACCCTTAACTTTAAAATCCTAAACCTTAACTGTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* * * * * *
48542092 AACTCTAAACTCTCAAATTAAAAACCTTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
* * *
48542136 AACCCT-AACCTTTAACTTAAAAACCATAACCCTTAAATTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
* *
48542178 AACCTTAAACCCTTAACCTAAAAACCCTAAACCCTTAAC-TTAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
* * *
48542221 AAACCTTAACCCTTAACTTTAAAACCCTAACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
*
48542264 AACCCT-AACCCTTAACTTAAAAATCCTAACCCTTAACTT
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTT
48542303 AAATATAATT
Statistics
Matches: 920, Mismatches: 125, Indels: 45
0.84 0.11 0.04
Matches are distributed among these distances:
40 35 0.04
41 55 0.06
42 131 0.14
43 506 0.55
44 193 0.21
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (43 bp):
AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
Found at i:48542505 original size:114 final size:114
Alignment explanation
Indices: 48542305--48542583 Score: 513
Period size: 114 Copynumber: 2.4 Consensus size: 114
48542295 CTTAACTTAA
*
48542305 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
1 ATATAATTTGATAATTTTACTAACAATTAATACAATTATCAATTAATAATTTTACATTCACATAA
* *
48542370 TGTTAGATTTGAAAAATTGTTTTGACTGGTATTAACAATTAATAATTTG
66 TGTTAGATTTGAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
* *
48542419 ATATAATTTGATAATTTTACTAACTATTAATACAATTATCGATTAATAATTTTACATTCACATAA
1 ATATAATTTGATAATTTTACTAACAATTAATACAATTATCAATTAATAATTTTACATTCACATAA
48542484 TGTTAGATTTGAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
66 TGTTAGATTTGAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
48542533 ATATAATTTGATAATTTTACTAACAATTAATACAATTATCAATTAATAATT
1 ATATAATTTGATAATTTTACTAACAATTAATACAATTATCAATTAATAATT
48542584 GAAAAAAATA
Statistics
Matches: 159, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 159 1.00
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.43
Consensus pattern (114 bp):
ATATAATTTGATAATTTTACTAACAATTAATACAATTATCAATTAATAATTTTACATTCACATAA
TGTTAGATTTGAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
Found at i:48545740 original size:126 final size:126
Alignment explanation
Indices: 48545508--48545913 Score: 554
Period size: 126 Copynumber: 3.2 Consensus size: 126
48545498 AACATGCTAT
* *
48545508 TGTAGCAAAAGCGCATCCTCGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGA
* * * *
48545573 AGCATTTTTTTTAAACTATTTGCTTAAAAACGTCAA-GCGAAATTATTTCTTCCAGGACCTAC
66 AGC--TTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCTAC
* * * *
48545635 T-TAGTAAAAGCGCGTCCACGAGAGCGCGATTTCACAAATTCTTCTCAAATAGTATCCTGCTTAA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGA
* *
48545699 AGCGTTTTTTTAAACTATTTCCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCTAT
66 AGC-TTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCTAC
* *
48545761 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAATTTCTTCTCATAA-AGCATCCTGCTTG
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTGCTTG
* * *
48545825 AAGC-ATTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TT-CATGACCTAC
65 AAGCTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCTAC
* * *
48545884 TGTAGCAAAAGCACGTACACGTGGGCGCGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGA
48545914 CTTTAGAAAT
Statistics
Matches: 249, Mismatches: 27, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
123 35 0.14
124 2 0.01
125 68 0.27
126 84 0.34
127 58 0.23
128 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (126 bp):
TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGA
AGCTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCTAC
Found at i:48548472 original size:10 final size:10
Alignment explanation
Indices: 48548457--48548482 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
48548447 TTTTTCGGGA
48548457 CTTATTCGAG
1 CTTATTCGAG
48548467 CTTATTCGAG
1 CTTATTCGAG
48548477 CTTATT
1 CTTATT
48548483 TACTAACTTG
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:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (10 bp):
CTTATTCGAG
Found at i:48551447 original size:42 final size:42
Alignment explanation
Indices: 48551393--48551508 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
48551383 AAATGCTAAA
48551393 AAAAACCCATAAGGGTTGAACGGAAGCTCATAAGAGCTGAAC
1 AAAAACCCATAAGGGTTGAACGGAAGCTCATAAGAGCTGAAC
* *
48551435 AAAAACCTATAAGGGTT-AA-GTTGAAGCAT-AAAAGAGCTGAAC
1 AAAAACCCATAAGGGTTGAACG--GAAGC-TCATAAGAGCTGAAC
** * * *
48551477 GGAAACCCATTAGGGTTGAACAGAAACTCATA
1 AAAAACCCATAAGGGTTGAACGGAAGCTCATA
48551509 TGAGTAAACA
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
40 1 0.02
41 3 0.05
42 52 0.88
43 3 0.05
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.17
Consensus pattern (42 bp):
AAAAACCCATAAGGGTTGAACGGAAGCTCATAAGAGCTGAAC
Found at i:48551532 original size:20 final size:21
Alignment explanation
Indices: 48551495--48551542 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
48551485 ATTAGGGTTG
48551495 AACAGAAACTCATATGAG-TA
1 AACAGAAACTCATATGAGCTA
* *
48551515 AACAGAAACTCGTGTGAGCTA
1 AACAGAAACTCATATGAGCTA
48551536 AAC-GAAA
1 AACAGAAA
48551543 AGTAAACACG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.48, C:0.17, G:0.19, T:0.17
Consensus pattern (21 bp):
AACAGAAACTCATATGAGCTA
Found at i:48558971 original size:22 final size:22
Alignment explanation
Indices: 48558946--48558994 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
48558936 CGCATCAATA
* *
48558946 TATGTGAGCCCTT-TATGGGACG
1 TATGAGAG-CCTTATATGAGACG
48558968 TATGAGAGCCTTATATGAGACG
1 TATGAGAGCCTTATATGAGACG
48558990 TATGA
1 TATGA
48558995 AAGTCCTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (22 bp):
TATGAGAGCCTTATATGAGACG
Found at i:48563823 original size:93 final size:93
Alignment explanation
Indices: 48563715--48563900 Score: 363
Period size: 93 Copynumber: 2.0 Consensus size: 93
48563705 ATTAGCTGCA
*
48563715 ACACCCTTATCTTTCAGATTTAACCCAGAGCTGGCCTCCCCCGATTCTCTCCTTTATTGTTGTCT
1 ACACCCTTATATTTCAGATTTAACCCAGAGCTGGCCTCCCCCGATTCTCTCCTTTATTGTTGTCT
48563780 GTCCCTAAATTAGTGGGATTTTCATCGT
66 GTCCCTAAATTAGTGGGATTTTCATCGT
48563808 ACACCCTTATATTTCAGATTTAACCCAGAGCTGGCCTCCCCCGATTCTCTCCTTTATTGTTGTCT
1 ACACCCTTATATTTCAGATTTAACCCAGAGCTGGCCTCCCCCGATTCTCTCCTTTATTGTTGTCT
48563873 GTCCCTAAATTAGTGGGATTTTCATCGT
66 GTCCCTAAATTAGTGGGATTTTCATCGT
48563901 CCAAATTTGT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.38
Consensus pattern (93 bp):
ACACCCTTATATTTCAGATTTAACCCAGAGCTGGCCTCCCCCGATTCTCTCCTTTATTGTTGTCT
GTCCCTAAATTAGTGGGATTTTCATCGT
Found at i:48564377 original size:27 final size:26
Alignment explanation
Indices: 48564332--48564391 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
48564322 AAACTTTCAT
48564332 AATTTTTAAAAAAAATTTAAATTTTGA
1 AATTTTTAAAAAAAATTT-AATTTTGA
* * * *
48564359 AATTTTTATAAATATTTTAATTTTTA
1 AATTTTTAAAAAAAATTTAATTTTGA
*
48564385 ATTTTTT
1 AATTTTT
48564392 TTTAATTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 13 0.46
27 15 0.54
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
AATTTTTAAAAAAAATTTAATTTTGA
Found at i:48564390 original size:26 final size:26
Alignment explanation
Indices: 48564331--48564391 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
48564321 GAAACTTTCA
*
48564331 TAATTTTTAAAAAAAATTTAAATTTT
1 TAATTTTTTAAAAAAATTTAAATTTT
* * * * *
48564357 GAAATTTTTATAAATATTTTAATTTT
1 TAATTTTTTAAAAAAATTTAAATTTT
48564383 TAATTTTTT
1 TAATTTTTT
48564392 TTTAATTTTT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
TAATTTTTTAAAAAAATTTAAATTTT
Found at i:48565258 original size:24 final size:24
Alignment explanation
Indices: 48565226--48565277 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
48565216 CCGCAAGTAG
48565226 CTAATCGCCCATCCAACCACCCGT
1 CTAATCGCCCATCCAACCACCCGT
48565250 CTAATCGCCCATCCAACCACCCGT
1 CTAATCGCCCATCCAACCACCCGT
48565274 -TAAT
1 CTAAT
48565278 AGAGGATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.27, C:0.46, G:0.08, T:0.19
Consensus pattern (24 bp):
CTAATCGCCCATCCAACCACCCGT
Found at i:48565666 original size:15 final size:15
Alignment explanation
Indices: 48565646--48565678 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
48565636 TATAAGTTCC
48565646 CTTCTTTATCTTCTT
1 CTTCTTTATCTTCTT
48565661 CTTCTTTATCTTCTT
1 CTTCTTTATCTTCTT
48565676 CTT
1 CTT
48565679 ATTGTTGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.27, G:0.00, T:0.67
Consensus pattern (15 bp):
CTTCTTTATCTTCTT
Found at i:48566064 original size:132 final size:132
Alignment explanation
Indices: 48565871--48566120 Score: 349
Period size: 137 Copynumber: 1.9 Consensus size: 132
48565861 TTAAACTACG
* *
48565871 GTCTTCGCTTTTGTGCTCTTTCAATTCAATTAAAATGGGTTTGTTTGTTTTTACTT-TTTTTTTG
1 GTCTTCGCTTTTGTGCTCTTTCAATTAAATTAAAATGGGTTTGTCTGTTTTTACTTCTTTTTTTG
* **
48565935 TACTATTTGATTCTTATTGATTGCCCCTTTTGTTGATTTTGTTGTTCTTGGCTCTTTGCAAATTA
66 TACTATTTGATTCTTATTGATTGCCCCTTTTGTTAATTTTACTGTTCTTGGCTCTTTGCAAATTA
48566000 CA
131 CA
* * * *
48566002 GTCTTTGCTTTTGTGCTCTTTCAGTTAAAATTTAATTGGGTTTGTCTGTTTTTACTTCTTTTTTT
1 GTCTTCGCTTTTGTGCTCTTTCAATT-AAATTAAAATGGGTTTGTCTGTTTTTACTTC----TTT
* *
48566067 TTTTGTACTGTTTGATTCTTATTGATTGCTCCTTTTGTTAATTTTACTGTTCTT
61 TTTTGTACTATTTGATTCTTATTGATTGCCCCTTTTGTTAATTTTACTGTTCTT
48566121 AGCTATTGGC
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
131 24 0.24
132 26 0.25
137 52 0.51
ACGTcount: A:0.14, C:0.14, G:0.15, T:0.58
Consensus pattern (132 bp):
GTCTTCGCTTTTGTGCTCTTTCAATTAAATTAAAATGGGTTTGTCTGTTTTTACTTCTTTTTTTG
TACTATTTGATTCTTATTGATTGCCCCTTTTGTTAATTTTACTGTTCTTGGCTCTTTGCAAATTA
CA
Found at i:48567721 original size:65 final size:65
Alignment explanation
Indices: 48567617--48567747 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
48567607 GATGGAGTAG
*
48567617 AGGAAAGCATTCACTATTGTAGTTTTCCTCAATAAGAAGGAAAGGTATTCTTCATCTTTGTTGTA
1 AGGAAAGCATCCACTATTGTAGTTTTCCTCAATAAGAAGGAAAGGTATTCTTCATCTTTGTTGTA
48567682 AGGAAAGCATCCACTATTGTAGTTTTCCTCAATAAGAAGGAAAGGTATTCTTCATCTTTGTTGTA
1 AGGAAAGCATCCACTATTGTAGTTTTCCTCAATAAGAAGGAAAGGTATTCTTCATCTTTGTTGTA
48567747 A
1 A
48567748 TTATTCATCA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (65 bp):
AGGAAAGCATCCACTATTGTAGTTTTCCTCAATAAGAAGGAAAGGTATTCTTCATCTTTGTTGTA
Found at i:48570724 original size:2 final size:2
Alignment explanation
Indices: 48570717--48570776 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
48570707 TTAAGAAAAT
*
48570717 CA CA CA CA CA CA CA CA CA CA CG CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
48570759 CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA
48570777 TATATATCCT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.48, C:0.50, G:0.02, T:0.00
Consensus pattern (2 bp):
CA
Found at i:48571600 original size:5 final size:5
Alignment explanation
Indices: 48571590--48571618 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
48571580 AAACATGCCA
48571590 ATATT ATATT ATATT ATATT ATATT ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
48571619 AAAAGGCTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:48571890 original size:30 final size:30
Alignment explanation
Indices: 48571854--48571918 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
48571844 AGGCAAGAAC
48571854 TCTTTATCCCATACAATTAGTACTCTTGCA
1 TCTTTATCCCATACAATTAGTACTCTTGCA
48571884 TCTTTATCCCATACAATTAGTACTCTTGCA
1 TCTTTATCCCATACAATTAGTACTCTTGCA
48571914 TCTTT
1 TCTTT
48571919 CCTCTTATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.25, C:0.26, G:0.06, T:0.43
Consensus pattern (30 bp):
TCTTTATCCCATACAATTAGTACTCTTGCA
Found at i:48580882 original size:26 final size:26
Alignment explanation
Indices: 48580853--48580903 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
48580843 ACAAAGAGAA
*
48580853 GGGATTGCATGAAACTGTGATTCCAG
1 GGGATTGCATGAAACTCTGATTCCAG
*
48580879 GGGATTGTATGAAACTCTGATTCCA
1 GGGATTGCATGAAACTCTGATTCCA
48580904 TTTCATCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (26 bp):
GGGATTGCATGAAACTCTGATTCCAG
Found at i:48581136 original size:15 final size:14
Alignment explanation
Indices: 48581112--48581142 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
48581102 AAAAAATTAC
48581112 TTTAGTTCAGACCT
1 TTTAGTTCAGACCT
48581126 TTTATGTTCAGACCT
1 TTTA-GTTCAGACCT
48581141 TT
1 TT
48581143 GCTTACTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.48
Consensus pattern (14 bp):
TTTAGTTCAGACCT
Found at i:48585298 original size:20 final size:20
Alignment explanation
Indices: 48585264--48585305 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
48585254 AGCTATTTAA
** *
48585264 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
48585284 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
48585304 AT
1 AT
48585306 GTGTTTATTT
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:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:48586079 original size:5 final size:5
Alignment explanation
Indices: 48586069--48586094 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48586059 TGAGCATTCG
48586069 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
48586095 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:48587114 original size:9 final size:9
Alignment explanation
Indices: 48587097--48587127 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
48587087 TCGAGTTGAT
48587097 TCGAATAAC
1 TCGAATAAC
*
48587106 TCGATTAAC
1 TCGAATAAC
48587115 TCGAATAAC
1 TCGAATAAC
48587124 TCGA
1 TCGA
48587128 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:48591545 original size:20 final size:20
Alignment explanation
Indices: 48591511--48591552 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
48591501 AGCTATTTAA
** *
48591511 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
48591531 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
48591551 AT
1 AT
48591553 GTGCTTATTT
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:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:48594311 original size:102 final size:105
Alignment explanation
Indices: 48594192--48594444 Score: 332
Period size: 110 Copynumber: 2.4 Consensus size: 105
48594182 TGTTTTAAAA
* *
48594192 TTATTTAAAAGTTATTTTGTTAGTAATTATTATAAATAGTTTGTTTAGTTTAATGTTTATTGTGA
1 TTATTTTAAAGTTATTTTGTTAGTAATTATTATAAATAGTTTGTTTAGTTTAATATTTATTGTGA
*
48594257 TTTGTTAGGTTATGAATGTAAT-TTTT-TTA-TTTTTAAT
66 TTTGCTAGGTTATGAATGTAATCTTTTATTATTTTTTAAT
* *
48594294 TTATTTTAAAGTTATTTTGTTAGTAATTTTTGTGATTAGGTTAATTGTTTGTTTAGTTTAATATT
1 TTATTTTAAAGTTATTTTGTTAGTAA----T-T-ATTA--TAAATAGTTTGTTTAGTTTAATATT
48594359 TATTGTGATTTGCTAGGTTATGAATGTAATCTTTTATTATTTTTTTAAT
58 TATTGTGATTTGCTAGGTTATGAATGTAATCTTTTATTA-TTTTTTAAT
* * *
48594408 TTATTTTAAAGTTATTTTGTCAATAACTATTATAAAT
1 TTATTTTAAAGTTATTTTGTTAGTAATTATTATAAAT
48594445 TCGAAAAAAA
Statistics
Matches: 130, Mismatches: 9, Indels: 20
0.82 0.06 0.13
Matches are distributed among these distances:
102 25 0.19
106 5 0.04
107 1 0.01
108 8 0.06
109 1 0.01
110 51 0.39
111 4 0.03
112 3 0.02
114 32 0.25
ACGTcount: A:0.28, C:0.02, G:0.13, T:0.57
Consensus pattern (105 bp):
TTATTTTAAAGTTATTTTGTTAGTAATTATTATAAATAGTTTGTTTAGTTTAATATTTATTGTGA
TTTGCTAGGTTATGAATGTAATCTTTTATTATTTTTTAAT
Found at i:48599890 original size:24 final size:24
Alignment explanation
Indices: 48599843--48599937 Score: 79
Period size: 24 Copynumber: 4.0 Consensus size: 24
48599833 TTTAAAAAAA
* *
48599843 TAAAATAATAATGCATAACAAATT
1 TAAAATAATAATACATAATAAATT
* * *
48599867 TGAAATGATAATACATAATGAATT
1 TAAAATAATAATACATAATAAATT
*
48599891 TAAAA-ACA-AATACATAATAAATC
1 TAAAATA-ATAATACATAATAAATT
** *
48599914 TAAGCTAATAATACATGA-AAATT
1 TAAAATAATAATACATAATAAATT
48599937 T
1 T
48599938 TATGATGCTA
Statistics
Matches: 55, Mismatches: 13, Indels: 7
0.73 0.17 0.09
Matches are distributed among these distances:
23 22 0.40
24 33 0.60
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.29
Consensus pattern (24 bp):
TAAAATAATAATACATAATAAATT
Found at i:48601980 original size:42 final size:44
Alignment explanation
Indices: 48601886--48601994 Score: 141
Period size: 42 Copynumber: 2.5 Consensus size: 44
48601876 GATCCACCCT
* *
48601886 ACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGTTCC
1 ACTGCAACTTCAGGGAGATAAGATCTATTACTTTAATCCGCTCC
* * * *
48601930 ACTACAACTTCAGGGAGATAGGAT-TA-TGCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCTATTACTTTAATCCGCTCC
*
48601972 ATTGCAACTTCAGGGAGATAAGA
1 ACTGCAACTTCAGGGAGATAAGA
48601995 GTTGCCATCT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 33 0.59
43 2 0.04
44 21 0.38
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATCTATTACTTTAATCCGCTCC
Found at i:48602278 original size:88 final size:88
Alignment explanation
Indices: 48602129--48602656 Score: 849
Period size: 88 Copynumber: 6.0 Consensus size: 88
48602119 AAGATTCACC
* * *
48602129 GTCTTTGATCTGCTTCACTGTCGATGTAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTA
1 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
48602194 CAACCGAGGGAGGCAAGGTTTGT
66 CAACCGAGGGAGGCAAGGTTTGT
* * *
48602217 GTCTTCGATCTGCTTCGCTGTCGATACAGGAAGGTAAGATCTGCTATCTTCAACCAGCTCCACTA
1 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
48602282 CAACCGAGGGAGGCAAGGTTTGT
66 CAACCGAGGGAGGCAAGGTTTGT
* * * * * * *
48602305 GTCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTACTATCTTCCACCAGATTCACTA
1 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
48602370 CAACCGAGGGAGGCAAGGTTTGT
66 CAACCGAGGGAGGCAAGGTTTGT
* *
48602393 GTCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCAGTA
1 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
*
48602458 CAACTGAGGGAGGCAAGGTTTGT
66 CAACCGAGGGAGGCAAGGTTTGT
* * *
48602481 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCCACTAGCTCTACTA
1 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
48602546 CAACCGAGGGAGGCAAGGTTTGT
66 CAACCGAGGGAGGCAAGGTTTGT
* * *
48602569 ATCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCCACCAGCTCCACTA
1 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
*
48602634 CAATCGAGGGAGGCAAGGTTTGT
66 CAACCGAGGGAGGCAAGGTTTGT
48602657 TCGATCTTCA
Statistics
Matches: 409, Mismatches: 31, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 409 1.00
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.27
Consensus pattern (88 bp):
GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
CAACCGAGGGAGGCAAGGTTTGT
Found at i:48605375 original size:17 final size:17
Alignment explanation
Indices: 48605342--48605383 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
48605332 TTTTTTATTC
*
48605342 ATAAAAAAATGAAAGAA
1 ATAAAAGAATGAAAGAA
48605359 ATAAAAGAA-GAAGAGAA
1 ATAAAAGAATGAA-AGAA
48605376 A-AAAAGAA
1 ATAAAAGAA
48605384 AACGAAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (17 bp):
ATAAAAGAATGAAAGAA
Found at i:48610560 original size:52 final size:53
Alignment explanation
Indices: 48610494--48610673 Score: 240
Period size: 56 Copynumber: 3.4 Consensus size: 53
48610484 TACTCTTCTA
48610494 TTTTTTTT-CTTCTCCTTCTCCTCTCGTACCTATTCTGCTTCTC-TTTTTTTC
1 TTTTTTTTCCTTCTCCTTCTCCTCTCGTACCTATTCTGCTTCTCTTTTTTTTC
* *
48610545 TTTTTTTTCCTTCTCCTTTTCCTCTCGTACCTATTCTTCTTCTCTCTTTTTTTTTC
1 TTTTTTTTCCTTCTCCTTCTCCTCTCGTACCTATTCTGC-T-TCTC-TTTTTTTTC
* * *
48610601 TTTTTTTCCCTTCTCCTTCTCCTCTCATACCTATTATGCTTCTCTTTTTTTTC
1 TTTTTTTTCCTTCTCCTTCTCCTCTCGTACCTATTCTGCTTCTCTTTTTTTTC
*
48610654 TTCCTTTTTTCCCT-TCCTTC
1 TT--TTTTTTCCTTCTCCTTC
48610674 CCTTCCCTTC
Statistics
Matches: 113, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
51 8 0.07
52 28 0.25
53 12 0.11
54 14 0.12
55 9 0.08
56 42 0.37
ACGTcount: A:0.04, C:0.32, G:0.02, T:0.61
Consensus pattern (53 bp):
TTTTTTTTCCTTCTCCTTCTCCTCTCGTACCTATTCTGCTTCTCTTTTTTTTC
Found at i:48610593 original size:46 final size:46
Alignment explanation
Indices: 48610494--48610598 Score: 131
Period size: 52 Copynumber: 2.2 Consensus size: 46
48610484 TACTCTTCTA
48610494 TTTTTTTTCTTCTCCTTCTCCTCTCGTACCTATTCTGCTTCTCTTTTTTTC
1 TTTTTTTTCTTCTCCTTCTCCTCTCGTACCTATTCTGCTTCTC-----TTC
* *
48610545 TTTTTTTTCCTTCTCCTTTTCCTCTCGTACCTATTCTTCTTCTC-TC
1 TTTTTTTT-CTTCTCCTTCTCCTCTCGTACCTATTCTGCTTCTCTTC
48610591 TTTTTTTT
1 TTTTTTTT
48610599 TCTTTTTTTC
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
46 10 0.20
51 8 0.16
52 33 0.65
ACGTcount: A:0.04, C:0.30, G:0.03, T:0.63
Consensus pattern (46 bp):
TTTTTTTTCTTCTCCTTCTCCTCTCGTACCTATTCTGCTTCTCTTC
Found at i:48610710 original size:5 final size:5
Alignment explanation
Indices: 48610662--48610700 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
48610652 TCTTCCTTTT
48610662 TTCCC TT-CC TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC
1 TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC
48610701 GTTCTCTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 29 0.88
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (5 bp):
TTCCC
Found at i:48612188 original size:42 final size:42
Alignment explanation
Indices: 48612060--48612211 Score: 112
Period size: 43 Copynumber: 3.5 Consensus size: 42
48612050 CATTAGAATT
* * *
48612060 TCGTATATGATTTACGTATAAGATCATATTCGGGAC-GTTGGCA
1 TCGTATATGATTTACGTGTAAGATCCTA-TCTGGACAG-TGGCA
* * ** * * * *
48612103 TCAATTTAAAATTTACGCGTAATA-CCTTGTCTAGGACATTGGCA
1 TC-GTATATGATTTACGTGTAAGATCC-TATCT-GGACAGTGGCA
48612147 TCGTATATGATTTACGTGTAAGATCCTATCTGGACAGTGGCA
1 TCGTATATGATTTACGTGTAAGATCCTATCTGGACAGTGGCA
* *
48612189 TCGATATTTGA-TTACATGTAAGA
1 TCG-TATATGATTTACGTGTAAGA
48612212 CCACATCTCG
Statistics
Matches: 82, Mismatches: 21, Indels: 13
0.71 0.18 0.11
Matches are distributed among these distances:
42 24 0.29
43 30 0.37
44 28 0.34
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (42 bp):
TCGTATATGATTTACGTGTAAGATCCTATCTGGACAGTGGCA
Found at i:48612232 original size:43 final size:42
Alignment explanation
Indices: 48612136--48612232 Score: 101
Period size: 42 Copynumber: 2.3 Consensus size: 42
48612126 ACCTTGTCTA
* * *
48612136 GGACATTGGCATCGTATATGATTTACGTGTAAGATCCTATCT
1 GGACAGTGGCATCGTATATGATTTACATGTAAGATCCCATCT
*
48612178 GGACAGTGGCATCGATATTTGA-TTACATGTAAGA-CCACATCT
1 GGACAGTGGCATCG-TATATGATTTACATGTAAGATCC-CATCT
48612220 CGGAC-GATGGCAT
1 -GGACAG-TGGCAT
48612233 TTTACGAGCT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
41 2 0.04
42 29 0.62
43 16 0.34
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (42 bp):
GGACAGTGGCATCGTATATGATTTACATGTAAGATCCCATCT
Found at i:48613714 original size:23 final size:23
Alignment explanation
Indices: 48613668--48613959 Score: 264
Period size: 23 Copynumber: 12.6 Consensus size: 23
48613658 ATTTGGTGTA
* *
48613668 TATATATGTTGCCCAATTTAGTG
1 TATATATGCTGTCCAATTTAGTG
*
48613691 TATGA-ATGCTGTCCAATTTGGTG
1 TAT-ATATGCTGTCCAATTTAGTG
*
48613714 TATATATGCTGT-CAATTTTTGGTG
1 TATATATGCTGTCCAA--TTTAGTG
* * *
48613738 TATAAATGCTGTCCAAATTAGTA
1 TATATATGCTGTCCAATTTAGTG
* * *
48613761 TATATATGTTGCCCAATTTAGCG
1 TATATATGCTGTCCAATTTAGTG
* *
48613784 TATAAATGCTGTCTAATTTAGTG
1 TATATATGCTGTCCAATTTAGTG
*
48613807 TATATATGCTGTCAAATTTAGTG
1 TATATATGCTGTCCAATTTAGTG
* ** * * *
48613830 TATAAATATTGTCCAAATTGGTA
1 TATATATGCTGTCCAATTTAGTG
*
48613853 TATATATGCTGCCCAATTTAGTG
1 TATATATGCTGTCCAATTTAGTG
* * *
48613876 TATAAATGCTGTCCAAATTGGTG
1 TATATATGCTGTCCAATTTAGTG
* * *
48613899 TATATATGCTGTCAAATTTTGGTC
1 TATATATGCTGTCCAA-TTTAGTG
* *
48613923 TATATAAGCTGTCCAATTTTAGAG
1 TATATATGCTGTCCAA-TTTAGTG
*
48613947 TATAAATGCTGTC
1 TATATATGCTGTC
48613960 TGATTTGATG
Statistics
Matches: 214, Mismatches: 49, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
22 4 0.02
23 153 0.71
24 54 0.25
25 3 0.01
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (23 bp):
TATATATGCTGTCCAATTTAGTG
Found at i:48613805 original size:46 final size:46
Alignment explanation
Indices: 48613665--48613909 Score: 303
Period size: 46 Copynumber: 5.3 Consensus size: 46
48613655 ATAATTTGGT
* * *
48613665 GTATATATATGTTGCCCAATTTAGTGTATGAATGCTGTCCAATTTG
1 GTATATATATGCTGCCCAATTTAGTGTATAAATGCTGTCCAAATTG
* * * *
48613711 GTGTATATATGCTG-TCAATTTTTGGTGTATAAATGCTGTCCAAATTA
1 GTATATATATGCTGCCCAA--TTTAGTGTATAAATGCTGTCCAAATTG
* * * * *
48613758 GTATATATATGTTGCCCAATTTAGCGTATAAATGCTGTCTAATTTA
1 GTATATATATGCTGCCCAATTTAGTGTATAAATGCTGTCCAAATTG
* * * **
48613804 GTGTATATATGCTGTCAAATTTAGTGTATAAATATTGTCCAAATTG
1 GTATATATATGCTGCCCAATTTAGTGTATAAATGCTGTCCAAATTG
48613850 GTATATATATGCTGCCCAATTTAGTGTATAAATGCTGTCCAAATTG
1 GTATATATATGCTGCCCAATTTAGTGTATAAATGCTGTCCAAATTG
*
48613896 GTGTATATATGCTG
1 GTATATATATGCTG
48613910 TCAAATTTTG
Statistics
Matches: 166, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
45 3 0.02
46 125 0.75
47 35 0.21
48 3 0.02
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (46 bp):
GTATATATATGCTGCCCAATTTAGTGTATAAATGCTGTCCAAATTG
Found at i:48613879 original size:92 final size:92
Alignment explanation
Indices: 48613665--48613917 Score: 398
Period size: 92 Copynumber: 2.7 Consensus size: 92
48613655 ATAATTTGGT
*
48613665 GTATATATATGTTGCCCAATTTAGTGTATGAATGCTGTCCAATTTGGTGTATATATGCTGTCAAT
1 GTATATATATGTTGCCCAATTTAGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTCAA-
* * *
48613730 TTTTGGTGTATAAATGCTGTCCAAATTA
65 ATTTAGTGTATAAATACTGTCCAAATTA
* * *
48613758 GTATATATATGTTGCCCAATTTAGCGTATAAATGCTGTCTAATTTAGTGTATATATGCTGTCAAA
1 GTATATATATGTTGCCCAATTTAGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTCAAA
* *
48613823 TTTAGTGTATAAATATTGTCCAAATTG
66 TTTAGTGTATAAATACTGTCCAAATTA
* *
48613850 GTATATATATGCTGCCCAATTTAGTGTATAAATGCTGTCCAAATTGGTGTATATATGCTGTCAAA
1 GTATATATATGTTGCCCAATTTAGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTCAAA
48613915 TTT
66 TTT
48613918 TGGTCTATAT
Statistics
Matches: 146, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
92 86 0.59
93 60 0.41
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (92 bp):
GTATATATATGTTGCCCAATTTAGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTCAAA
TTTAGTGTATAAATACTGTCCAAATTA
Found at i:48614306 original size:3 final size:3
Alignment explanation
Indices: 48614298--48614328 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
48614288 ATTAGATCGA
48614298 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
48614329 TATATGGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:48614759 original size:30 final size:31
Alignment explanation
Indices: 48614725--48614784 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
48614715 AAACCTTTTA
*
48614725 TTTT-CCCTCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCT-AAAACTTTTACTCCCTTCCCAC
*
48614755 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
48614785 TCCCACCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Done.