Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 151 of 218
Found at i:45908928 original size:73 final size:74
Alignment explanation
Indices: 45908834--45908970 Score: 213
Period size: 74 Copynumber: 1.9 Consensus size: 74
45908824 TGTAAAGTGC
* * *
45908834 CACAAAATATTAACCAAAACGCAGAG-TTTGGTCTTGCGGTATATTAGGATTAGTGGCGCTTATT
1 CACAAAATATTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATAGTAGCATTAGTGGCGCTTATT
45908898 GGAAAACGA
66 GGAAAACGA
* * *
45908907 CACAAAATATTAACCAAAACGCTGCGCTTTGGTCTTGATGTATAGTAGCATTAGTGGCGCTTAT
1 CACAAAATATTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATAGTAGCATTAGTGGCGCTTAT
45908971 GCTAAAACGC
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
73 24 0.42
74 33 0.58
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (74 bp):
CACAAAATATTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATAGTAGCATTAGTGGCGCTTATT
GGAAAACGA
Found at i:45908969 original size:300 final size:300
Alignment explanation
Indices: 45908413--45909097 Score: 1067
Period size: 300 Copynumber: 2.3 Consensus size: 300
45908403 GTTTACTACC
* * * *
45908413 AAGCGCCGCAATAC-ATCTTAACCAAAACGCAGAGTTTGGTCTTAAGGTACACTAGCATTAGTGG
1 AAGCGCCGCAAT-CTTTCTTAACCAAAACGCAGAGTTTGGTGTTGAGGTACATTAG-ATTAGTGG
* * *
45908477 CGCTTATACGAAAACGCCGCTAAAGCATAGTATTAGCAGCGAGTAGTGAAAGCGCCGCAATATTT
64 CGCTTATATGAAAACGCCGCTAAAGCATAGTATTAGCAGCGAGTAGTGAAAGCGCCACAATATAT
* *
45908542 CTTAACCAAAACGCAGAGTTTTGTCTTGAGGTATATTAGGATTAGTGGCGCTTATTGGAAAACAC
129 ATTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATTGGAAAACAC
*
45908607 CGCAAAATATTAACCAAAACACTGCGCATTGGTCTTAATGTATAGTAACATTAGTGGCGCTTATG
194 CACAAAATATTAACCAAAACACTGCGCATTGGTCTTAATGTATAGTAACATTAGTGGCGCTTATG
*
45908672 CTAAAACGCCGCTAAAGTATAGTATTAGCGGCGAGTACT-TAA
259 CTAAAACGCCGCTAAAGTATAGTATTAGCGGCAAGTACTGT-A
45908714 AAGCGCCGCAATCTTTCTTAACCAAAACGCAGAGTTTGGTGTTGAGGTACATTACGATTAGTGGC
1 AAGCGCCGCAATCTTTCTTAACCAAAACGCAGAGTTTGGTGTTGAGGTACATTA-GATTAGTGGC
* * * *
45908779 GCTTATATGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTATTGTAAAGTGCCACAA-A-AT
65 GCTTATATGAAAACGCCGCTAAAGCATAGTATTAGCAGCGAGTAGTG-AAAGCGCCACAATATAT
*
45908842 ATTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGGATTAGTGGCGCTTATTGGAAAACGA
129 ATTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATTGGAAAAC-A
* * * *
45908907 -CACAAAATATTAACCAAAACGCTGCGCTTTGGTCTTGATGTATAGTAGCATTAGTGGCGCTTAT
193 CCACAAAATATTAACCAAAACACTGCGCATTGGTCTTAATGTATAGTAACATTAGTGGCGCTTAT
45908971 GCTAAAACGCCGCTAAAGTATAGTATTAGCGGCAAGTACTGTA
258 GCTAAAACGCCGCTAAAGTATAGTATTAGCGGCAAGTACTGTA
*
45909014 AAGCGCCGCAATCTTTCTTAACCAAAACGAAGAGTTTGGTGTTGAGGTACATTAGGATTAGTGGC
1 AAGCGCCGCAATCTTTCTTAACCAAAACGCAGAGTTTGGTGTTGAGGTACATTA-GATTAGTGGC
45909079 GCTTAT-TGGAAAACGCCGC
65 GCTTATAT-GAAAACGCCGC
45909098 AAAATATTAA
Statistics
Matches: 356, Mismatches: 22, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
299 1 0.00
300 241 0.68
301 103 0.29
302 11 0.03
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (300 bp):
AAGCGCCGCAATCTTTCTTAACCAAAACGCAGAGTTTGGTGTTGAGGTACATTAGATTAGTGGCG
CTTATATGAAAACGCCGCTAAAGCATAGTATTAGCAGCGAGTAGTGAAAGCGCCACAATATATAT
TAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATTGGAAAACACCA
CAAAATATTAACCAAAACACTGCGCATTGGTCTTAATGTATAGTAACATTAGTGGCGCTTATGCT
AAAACGCCGCTAAAGTATAGTATTAGCGGCAAGTACTGTA
Found at i:45909092 original size:188 final size:187
Alignment explanation
Indices: 45908731--45909191 Score: 617
Period size: 188 Copynumber: 2.5 Consensus size: 187
45908721 GCAATCTTTC
* * * * * *
45908731 TTAACCAAAACGCAGAG-TTTGGTGTTGAGGTACATTA-CGATTAGTGGCGCTTAT-ATGAAAAC
1 TTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTAGCAATTAGTGGCGCTTATGAT-AAAAC
** * * *
45908793 GCCGCTAAAGCATAGTATTAGCGGCGCGTATTGTAAAGTGCCACAAAATATTAACCAAAACGCAG
65 GCCGCTAAAGCATAGTATTAGCGGCAAGTACTGTAAAGCGCCACAAAATATTAACCAAAACGAAG
* *
45908858 AGTTTGGTCTTGCGGTATATTAGGATTAGTGGCGCTTATTGGAAAACGACACAAAATA
130 AGTTTGGTCTTGAGGTACATTAGGATTAGTGGCGCTTATTGGAAAACGACACAAAATA
* * *
45908916 TTAACCAAAACGCTGCGCTTTGGTCTTGATGTATAGTAGC-ATTAGTGGCGCTTATGCTAAAACG
1 TTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTAGCAATTAGTGGCGCTTATGATAAAACG
* * ** *
45908980 CCGCTAAAGTATAGTATTAGCGGCAAGTACTGTAAAGCGCCGCAATCTTTCTTAACCAAAACGAA
66 CCGCTAAAGCATAGTATTAGCGGCAAGTACTGTAAAGCGCCACAA--AATATTAACCAAAACGAA
* * *
45909045 GAGTTTGGTGTTGAGGTACATTAGGATTAGTGGCGCTTATTGGAAAACGCCGCAAAATA
129 GAGTTTGGTCTTGAGGTACATTAGGATTAGTGGCGCTTATTGGAAAACGACACAAAATA
*
45909104 TTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTAGCAATT-GTGGCGCTTATGGTAAAACG
1 TTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTAGCAATTAGTGGCGCTTATGATAAAACG
* *
45909168 CCGCTAAAACATATTATTAGCGGC
66 CCGCTAAAGCATAGTATTAGCGGC
45909192 GCGTTGTGGG
Statistics
Matches: 242, Mismatches: 28, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
185 15 0.06
186 76 0.31
187 2 0.01
188 146 0.60
189 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (187 bp):
TTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTAGCAATTAGTGGCGCTTATGATAAAACG
CCGCTAAAGCATAGTATTAGCGGCAAGTACTGTAAAGCGCCACAAAATATTAACCAAAACGAAGA
GTTTGGTCTTGAGGTACATTAGGATTAGTGGCGCTTATTGGAAAACGACACAAAATA
Found at i:45909153 original size:74 final size:74
Alignment explanation
Indices: 45909031--45909176 Score: 181
Period size: 74 Copynumber: 2.0 Consensus size: 74
45909021 GCAATCTTTC
* * *
45909031 TTAACCAAAACGAAGAGTTTGGTGTTGAGGTACATTAGGATTAGTGGCGCTTATTGG-AAAACGC
1 TTAACCAAAACGAAGAGTTTGGTCTTGAGGTACACTAGAATTAGTGGCGCTTA-TGGTAAAACGC
45909095 CGC-AAAATA
65 CGCTAAAATA
* * * *
45909104 TTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTAGCAATT-GTGGCGCTTATGGTAAAACG
1 TTAACCAAAACGAAGAG-TTTGGTCTTGAGGTACACTAG-AATTAGTGGCGCTTATGGTAAAACG
45909168 CCGCTAAAA
64 CCGCTAAAA
45909177 CATATTATTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
73 18 0.29
74 37 0.60
75 7 0.11
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (74 bp):
TTAACCAAAACGAAGAGTTTGGTCTTGAGGTACACTAGAATTAGTGGCGCTTATGGTAAAACGCC
GCTAAAATA
Found at i:45909249 original size:16 final size:16
Alignment explanation
Indices: 45909215--45909272 Score: 98
Period size: 16 Copynumber: 3.6 Consensus size: 16
45909205 CGCCACTAGA
45909215 TTATTATATAATGTAGT
1 TTATTATAT-ATGTAGT
*
45909232 TTATTATATATTTAGT
1 TTATTATATATGTAGT
45909248 TTATTATATATGTAGT
1 TTATTATATATGTAGT
45909264 TTATTATAT
1 TTATTATAT
45909273 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:45909284 original size:19 final size:19
Alignment explanation
Indices: 45909216--45909289 Score: 61
Period size: 17 Copynumber: 4.1 Consensus size: 19
45909206 GCCACTAGAT
45909216 TATTATATAATG--TAGTT-
1 TATTATATAATGTTTA-TTA
*
45909233 TATTATATATTTAGTTTATTA
1 TATTATATA-AT-GTTTATTA
*
45909254 TA-TATGT-A-GTTTATTA
1 TATTATATAATGTTTATTA
45909270 TATTATATAATGTTTATTA
1 TATTATATAATGTTTATTA
45909289 T
1 T
45909290 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:45909285 original size:35 final size:33
Alignment explanation
Indices: 45909215--45909289 Score: 107
Period size: 32 Copynumber: 2.2 Consensus size: 33
45909205 CGCCACTAGA
*
45909215 TTATTATATAATGTAGTTTATTATATATTTAGT
1 TTATTATATAATGTAGTTTATTATATATTAAGT
45909248 TTATTATAT-ATGTAGTTTATTATATTATATAATGT
1 TTATTATATAATGTAGTTTATTATA-TAT-TAA-GT
45909283 TTATTAT
1 TTATTAT
45909290 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:45912469 original size:9 final size:9
Alignment explanation
Indices: 45912437--45912901 Score: 402
Period size: 9 Copynumber: 53.2 Consensus size: 9
45912427 TATCTTAGAC
45912437 AACTTACAT
1 AACTTACAT
45912446 AA--TACAT
1 AACTTACAT
* *
45912453 AGCATACAT
1 AACTTACAT
45912462 AACTTACAT
1 AACTTACAT
*
45912471 AA--TACAA
1 AACTTACAT
45912478 AACTTACAT
1 AACTTACAT
*
45912487 AACTTAAAT
1 AACTTACAT
* *
45912496 ATCTTACAC
1 AACTTACAT
45912505 AACTTACAT
1 AACTTACAT
* *
45912514 AACCTATAT
1 AACTTACAT
45912523 AA--TACATTT
1 AACTTACA--T
*
45912532 AACTTACGT
1 AACTTACAT
45912541 AACTTACAT
1 AACTTACAT
45912550 AACTTACAT
1 AACTTACAT
*
45912559 AA--TACAA
1 AACTTACAT
45912566 AAC-TACAT
1 AACTTACAT
*
45912574 AACTTAAAT
1 AACTTACAT
* *
45912583 ATCTTACAC
1 AACTTACAT
45912592 AACTTACAT
1 AACTTACAT
*
45912601 AACCTACAT
1 AACTTACAT
45912610 AA--TACATTT
1 AACTTACA--T
*
45912619 AACTTACGT
1 AACTTACAT
45912628 AACTTACAT
1 AACTTACAT
45912637 AACTTACAT
1 AACTTACAT
*
45912646 AA--TACAA
1 AACTTACAT
45912653 AACTTACAT
1 AACTTACAT
*
45912662 AACTTAAAT
1 AACTTACAT
* *
45912671 ATCTTACAC
1 AACTTACAT
45912680 AACTTACAT
1 AACTTACAT
*
45912689 AACCTACAT
1 AACTTACAT
45912698 AA--TACATTT
1 AACTTACA--T
45912707 AACTTACAT
1 AACTTACAT
45912716 AACTTACAT
1 AACTTACAT
*
45912725 AA--TACAA
1 AACTTACAT
45912732 AAC-TACAT
1 AACTTACAT
*
45912740 AACTTAAAT
1 AACTTACAT
* *
45912749 ATCTTACAC
1 AACTTACAT
45912758 AACTTACAT
1 AACTTACAT
*
45912767 AACCTACAT
1 AACTTACAT
45912776 AA--TACATTT
1 AACTTACA--T
45912785 AACTTACAT
1 AACTTACAT
45912794 AACTTACAT
1 AACTTACAT
45912803 AACTTACAT
1 AACTTACAT
*
45912812 AA--TACAA
1 AACTTACAT
45912819 AACTTACAT
1 AACTTACAT
*
45912828 AACTTAAAT
1 AACTTACAT
* *
45912837 ATCTTACAC
1 AACTTACAT
45912846 AACTTACAT
1 AACTTACAT
*
45912855 AACCTACAT
1 AACTTACAT
45912864 AA--TACATTT
1 AACTTACA--T
45912873 AACTTACAT
1 AACTTACAT
45912882 AACTTACAT
1 AACTTACAT
45912891 AACTTACAT
1 AACTTACAT
45912900 AA
1 AA
45912902 TAACTTATAC
Statistics
Matches: 370, Mismatches: 54, Indels: 64
0.76 0.11 0.13
Matches are distributed among these distances:
7 55 0.15
8 14 0.04
9 283 0.76
11 18 0.05
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:45912648 original size:175 final size:174
Alignment explanation
Indices: 45912448--45912903 Score: 802
Period size: 166 Copynumber: 2.7 Consensus size: 174
45912438 ACTTACATAA
* *
45912448 TACATAGCATACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
1 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
*
45912513 TAACCTATATAATACATTTAACTTACGTAACTTACATAACTTACATAATACAAAACTACATAACT
66 TAACCTACATAATACATTTAACTTAC-TAACTTACATAACTTACATAATACAAAACTACATAACT
45912578 TAAATATCTTACACAACTTACATAACCTACATAATACATTTAACT
130 TAAATATCTTACACAACTTACATAACCTACATAATACATTTAACT
*
45912623 TACGTAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
1 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
45912688 TAACCTACATAATAC-----A-TT--TAACTTACATAACTTACATAATACAAAACTACATAACTT
66 TAACCTACATAATACATTTAACTTACTAACTTACATAACTTACATAATACAAAACTACATAACTT
45912745 AAATATCTTACACAACTTACATAACCTACATAATACATTTAACT
131 AAATATCTTACACAACTTACATAACCTACATAATACATTTAACT
45912789 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
1 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
45912854 TAACCTACATAATACATTTAACTTACATAACTTACATAACTTACATAATA
66 TAACCTACATAATACATTTAACTTAC-TAACTTACATAACTTACATAATA
45912904 ACTTATACAC
Statistics
Matches: 267, Mismatches: 5, Indels: 18
0.92 0.02 0.06
Matches are distributed among these distances:
166 162 0.61
169 2 0.01
170 1 0.00
171 1 0.00
172 2 0.01
175 99 0.37
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (174 bp):
TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
TAACCTACATAATACATTTAACTTACTAACTTACATAACTTACATAATACAAAACTACATAACTT
AAATATCTTACACAACTTACATAACCTACATAATACATTTAACT
Found at i:45918398 original size:21 final size:21
Alignment explanation
Indices: 45918372--45918442 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
45918362 CTACAACTTA
*
45918372 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
45918393 AAGCAGCGGTTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
45918414 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
*
45918435 AAGTAGAG
1 AAGCAGAG
45918443 CAGAGCAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.32, C:0.17, G:0.45, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:45918855 original size:83 final size:84
Alignment explanation
Indices: 45918758--45919003 Score: 336
Period size: 83 Copynumber: 2.9 Consensus size: 84
45918748 GCGTTTTTGT
*
45918758 ATAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGACCA
1 ATAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA-ATAAAAAACGCCGCTAAAGACCA
*
45918822 TGTTCTTTAGCGGCGCTTAG
65 TGTTCTTTAGAGGCGCTTAG
* *
45918842 A-AAAAACGCCGCTAAAG-TCCATGTTCTTTAGCGGCGCTTAATAAAAACCGCCGCTAAAGACCT
1 ATAAAAACGCCGCTAAAGAT-CATGTTCTTTAGCGGCGCTTAATAAAAAACGCCGCTAAAGACCA
45918905 TGTTCTTTAGAGGCGCTTAG
65 TGTTCTTTAGAGGCGCTTAG
* * ** ** *
45918925 ATAAAAACGCCGTTAAAGATCATGTTCTTTAGCGGCGTTTAATATTAAGTGCCGCTAAAGAACAT
1 ATAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAATAAAAAACGCCGCTAAAGACCAT
* *
45918990 GGTATTTAGAGGCG
66 GTTCTTTAGAGGCG
45919004 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 75 0.52
84 66 0.46
85 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (84 bp):
ATAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAATAAAAAACGCCGCTAAAGACCAT
GTTCTTTAGAGGCGCTTAG
Found at i:45918985 original size:42 final size:42
Alignment explanation
Indices: 45918758--45918961 Score: 306
Period size: 42 Copynumber: 4.9 Consensus size: 42
45918748 GCGTTTTTGT
*
45918758 ATAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
1 ATAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* *
45918800 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
1 ATAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
45918842 A-AAAAACGCCGCTAAAG-TCCATGTTCTTTAGCGGCGCTTA-
1 ATAAAAACGCCGCTAAAGAT-CATGTTCTTTAGCGGCGCTTAG
* * *
45918882 ATAAAAACCGCCGCTAAAGACCTTGTTCTTTAGAGGCGCTTAG
1 ATAAAAA-CGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
*
45918925 ATAAAAACGCCGTTAAAGATCATGTTCTTTAGCGGCG
1 ATAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
45918962 TTTAATATTA
Statistics
Matches: 146, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
40 1 0.01
41 42 0.29
42 96 0.66
43 7 0.05
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (42 bp):
ATAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
Found at i:45918998 original size:42 final size:42
Alignment explanation
Indices: 45918767--45919048 Score: 151
Period size: 42 Copynumber: 6.7 Consensus size: 42
45918757 TATAAAAACA
* * * * ** *
45918767 CCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA-AAAAAACG
1 CCGCTAAAGAACATGGTATTTAGCGGCGTTTA-ATATTAAGCG
* * * * * *
45918809 CCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGA-A-AAAACG
1 CCGCTAAAGAACATGGTATTTAGCGGCGTTTA-ATATTAAGCG
** * * * ** *
45918850 CCGCTAAAGTCCATGTTCTTTAGCGGCGCTTAATAAAAACCG
1 CCGCTAAAGAACATGGTATTTAGCGGCGTTTAATATTAAGCG
* * * * * * * *
45918892 CCGCTAAAGACCTTGTTCTTTAGAGGCGCTTAGATA-AAAACG
1 CCGCTAAAGAACATGGTATTTAGCGGCGTTTA-ATATTAAGCG
* * * * *
45918934 CCGTTAAAGATCATGTTCTTTAGCGGCGTTTAATATTAAGTG
1 CCGCTAAAGAACATGGTATTTAGCGGCGTTTAATATTAAGCG
* **
45918976 CCGCTAAAGAACATGGTATTTAGAGGCGTTTTTTATTAAGCG
1 CCGCTAAAGAACATGGTATTTAGCGGCGTTTAATATTAAGCG
*
45919018 CTGCTAAAGAACATGG-ACTTTAGCGGCGTTT
1 CCGCTAAAGAACATGGTA-TTTAGCGGCGTTT
45919049 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:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (42 bp):
CCGCTAAAGAACATGGTATTTAGCGGCGTTTAATATTAAGCG
Found at i:45919049 original size:42 final size:43
Alignment explanation
Indices: 45918938--45919064 Score: 154
Period size: 42 Copynumber: 3.0 Consensus size: 43
45918928 AAAACGCCGT
* * ** * *
45918938 TAAAGATCAT-GTTCTTTAGCGGCGTTTAATATTAAGTGCCGC
1 TAAAGAACATGGTACTTTAGCGGCGTTTTTTATTAAGCGCTGC
*
45918980 TAAAGAACATGGTA-TTTAGAGGCGTTTTTTATTAAGCGCTGC
1 TAAAGAACATGGTACTTTAGCGGCGTTTTTTATTAAGCGCTGC
*
45919022 TAAAGAACATGG-ACTTTAGCGGCGTTTTTT-CTAAGCGCTGC
1 TAAAGAACATGGTACTTTAGCGGCGTTTTTTATTAAGCGCTGC
45919063 TA
1 TA
45919065 CTAAGAGCCG
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
41 13 0.18
42 59 0.80
43 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.35
Consensus pattern (43 bp):
TAAAGAACATGGTACTTTAGCGGCGTTTTTTATTAAGCGCTGC
Found at i:45919139 original size:96 final size:96
Alignment explanation
Indices: 45918970--45919146 Score: 248
Period size: 96 Copynumber: 1.8 Consensus size: 96
45918960 CGTTTAATAT
* * * * *
45918970 TAAGTGCCGCTAAAGAACATGGTATTTAGAGGCGTTTTTTATTAAGCGCTGCTAAAGAACATGGA
1 TAAGAGCCGCTAAAGAACATGGCATTTAGAGGCGTTATTTACTAAGCGCCGCTAAAGAACATGGA
45919035 CTTTAGCGGCGTTTTTTCTAAGCGCTGCTAC
66 CTTTAGCGGCGTTTTTTCTAAGCGCTGCTAC
* * * *
45919066 TAAGAGCCGCTGAAGAACATGGCCTTTAGCGGCGCTTATTT-CTAAGCGCCGCTAAAGAATATGG
1 TAAGAGCCGCTAAAGAACATGGCATTTAGAGGCG-TTATTTACTAAGCGCCGCTAAAGAACATGG
*
45919130 TCTTTAGCGGCGTTTTT
65 ACTTTAGCGGCGTTTTT
45919147 GTTTGTAAAC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
96 65 0.93
97 5 0.07
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (96 bp):
TAAGAGCCGCTAAAGAACATGGCATTTAGAGGCGTTATTTACTAAGCGCCGCTAAAGAACATGGA
CTTTAGCGGCGTTTTTTCTAAGCGCTGCTAC
Found at i:45921676 original size:4 final size:4
Alignment explanation
Indices: 45921660--45921734 Score: 59
Period size: 4 Copynumber: 18.8 Consensus size: 4
45921650 AAGTTTAAGA
* *
45921660 AAAT AAA- AAAT AAAT AAAT AAA- AAACA AAAT TAA- AAAT AAAGAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA-T AAAT AAAT AAAT -AA-AT AAAT
*
45921708 AAA- AAAT AAAT AAAA AAAT AAAAT AAA
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAA
45921735 CAACAACAAC
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
3 11 0.19
4 34 0.59
5 11 0.19
6 2 0.03
ACGTcount: A:0.80, C:0.01, G:0.01, T:0.17
Consensus pattern (4 bp):
AAAT
Found at i:45921696 original size:29 final size:27
Alignment explanation
Indices: 45921659--45921734 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 27
45921649 TAAGTTTAAG
45921659 AAAAT-AAAAAATAAATAAATAAAAAA
1 AAAATAAAAAAATAAATAAATAAAAAA
*
45921685 CAAAATTAAAAATAA-AGATAAATAAAAAA
1 -AAAA-TAAAAA-AATAAATAAATAAAAAA
*
45921714 TAAATAAAAAAATAAAATAAA
1 AAAATAAAAAAAT-AAATAAA
45921735 CAACAACAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
26 2 0.05
27 10 0.24
28 10 0.24
29 17 0.41
30 2 0.05
ACGTcount: A:0.80, C:0.01, G:0.01, T:0.17
Consensus pattern (27 bp):
AAAATAAAAAAATAAATAAATAAAAAA
Found at i:45921706 original size:12 final size:11
Alignment explanation
Indices: 45921660--45921734 Score: 66
Period size: 11 Copynumber: 6.6 Consensus size: 11
45921650 AAGTTTAAGA
45921660 AAATAAAAAAT
1 AAATAAAAAAT
45921671 AAATAAATAAA-
1 AAATAAA-AAAT
*
45921682 AAACAAAATTAA-
1 AAATAAAA--AAT
*
45921694 AAAT-AAAGAT
1 AAATAAAAAAT
45921704 AAATAAAAAAT
1 AAATAAAAAAT
45921715 AAATAAAAAAAT
1 AAAT-AAAAAAT
45921727 AAAATAAA
1 -AAATAAA
45921735 CAACAACAAC
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
9 1 0.02
10 5 0.09
11 25 0.47
12 18 0.34
13 4 0.08
ACGTcount: A:0.80, C:0.01, G:0.01, T:0.17
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:45921886 original size:10 final size:11
Alignment explanation
Indices: 45921873--45921914 Score: 52
Period size: 10 Copynumber: 3.9 Consensus size: 11
45921863 AAAATTAGTA
*
45921873 AAATAAA-AAT
1 AAATAAATAAC
45921883 AAATAATATAAC
1 AAATAA-ATAAC
45921895 AAAT-AATAAC
1 AAATAAATAAC
45921905 AAATAAATAA
1 AAATAAATAA
45921915 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:45921917 original size:19 final size:20
Alignment explanation
Indices: 45921871--45921921 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
45921861 GAAAAATTAG
*
45921871 TAAAATAAAAATAAATAATA
1 TAAAATAAAAACAAATAATA
*
45921891 TAACAAATAATAACAAATAA-A
1 T-A-AAATAAAAACAAATAATA
45921912 TAAAATAAAA
1 TAAAATAAAA
45921922 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:45925018 original size:14 final size:14
Alignment explanation
Indices: 45924999--45925025 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45924989 AAAAGCAAAT
45924999 AAAACAAAAATTAG
1 AAAACAAAAATTAG
45925013 AAAACAAAAATTA
1 AAAACAAAAATTA
45925026 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:45925038 original size:6 final size:6
Alignment explanation
Indices: 45924995--45925064 Score: 54
Period size: 6 Copynumber: 11.7 Consensus size: 6
45924985 TACCAAAAGC
* * * *
45924995 AAATAA AACA-AA AATTAGA AAACAA AAATTA AACTAA AAATAA AAAT-A
1 AAATAA AA-ATAA AAATA-A AAATAA AAATAA AAATAA AAATAA AAATAA
* *
45925043 TAACAA AAATAA AAATAA AAAT
1 AAATAA AAATAA AAATAA AAAT
45925065 GACTAAATTA
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
5 3 0.06
6 40 0.83
7 5 0.10
ACGTcount: A:0.76, C:0.06, G:0.01, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:45925039 original size:17 final size:16
Alignment explanation
Indices: 45925013--45925061 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
45925003 CAAAAATTAG
*
45925013 AAAACAAAAATTAAACTA
1 AAAATAAAAA-TAAAC-A
45925031 AAAATAAAAATATAACA
1 AAAATAAAAATA-AACA
45925048 AAAATAAAAATAAA
1 AAAATAAAAATAAA
45925062 AATGACTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 2 0.07
17 15 0.52
18 12 0.41
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAATAAAAATAAACA
Found at i:45929397 original size:33 final size:34
Alignment explanation
Indices: 45929341--45929404 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
45929331 ACAATAAAAT
*
45929341 ATTTATTATATTTATCTGTGTTTT-TTAATAAAC
1 ATTTATTATATTTATCGGTGTTTTCTTAATAAAC
45929374 ATTTATTATATTTAT-GGTAGTTTTCTTAATA
1 ATTTATTATATTTATCGGT-GTTTTCTTAATA
45929405 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:45929901 original size:2 final size:2
Alignment explanation
Indices: 45929888--45929918 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
45929878 AGGATCATTT
*
45929888 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45929919 TACATACACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:45935224 original size:3 final size:3
Alignment explanation
Indices: 45935216--45935243 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
45935206 TCAATACCTT
45935216 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
45935244 TCCTTTTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:45939135 original size:25 final size:25
Alignment explanation
Indices: 45939093--45939163 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 25
45939083 AATTTCCTAA
*
45939093 AAAGTCTTTT-TGGTAAACTCTCTGT
1 AAAGT-TTTTGTGGCAAACTCTCTGT
45939118 AAAGTTTTTGTGGCAAACTCTCTGT
1 AAAGTTTTTGTGGCAAACTCTCTGT
***
45939143 AAAGCCCTTGTGGCAAACTCT
1 AAAGTTTTTGTGGCAAACTCT
45939164 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:45939178 original size:25 final size:25
Alignment explanation
Indices: 45939092--45939180 Score: 88
Period size: 25 Copynumber: 3.6 Consensus size: 25
45939082 GAATTTCCTA
* * *
45939092 AAAAGTCTTTTTGGTAAACTCTCTG
1 AAAAGCCTTTGTGGCAAACTCTCTG
* **
45939117 TAAAGTTTTTGTGGCAAACTCTCTG
1 AAAAGCCTTTGTGGCAAACTCTCTG
* * *
45939142 TAAAGCCCTTGTGGCAAACTCTTTG
1 AAAAGCCTTTGTGGCAAACTCTCTG
*
45939167 AAAATCCTTTGTGG
1 AAAAGCCTTTGTGG
45939181 AGTATTATTC
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:45945436 original size:30 final size:28
Alignment explanation
Indices: 45945382--45945437 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
45945372 ATATTAATAT
*
45945382 AAAATTTATATTATTATATTTTTTAAAA
1 AAAATTTATATTATTATATATTTTAAAA
*
45945410 AAAATTTATATTTTTTTATATATTTTAA
1 AAAATTTATA--TTATTATATATTTTAA
45945438 TTTTTTATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.42
30 14 0.58
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
AAAATTTATATTATTATATATTTTAAAA
Found at i:45945443 original size:17 final size:16
Alignment explanation
Indices: 45945421--45945489 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 16
45945411 AAATTTATAT
45945421 TTTTTTATATATTTTAA
1 TTTTTTATATATTTT-A
*
45945438 TTTTTTATACATTATTA
1 TTTTTTATATATT-TTA
45945455 TTTCTTGTAATAATATTTT-
1 TTT-TT-T-AT-ATATTTTA
45945474 TATTTTTATATATTTT
1 T-TTTTTATATATTTT
45945490 TAAGTTTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
16 7 0.16
17 18 0.41
18 5 0.11
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):
TTTTTTATATATTTTA
Found at i:45946699 original size:25 final size:25
Alignment explanation
Indices: 45946671--45946720 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
45946661 CAGGTAAGGC
45946671 TCCTTCTCCTTCTTTC-GTTCTTCAT
1 TCCTTCTCCTTC-TTCAGTTCTTCAT
* *
45946696 TCCTTTTTCTTCTTCAGTTCTTCAT
1 TCCTTCTCCTTCTTCAGTTCTTCAT
45946721 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:45946708 original size:17 final size:19
Alignment explanation
Indices: 45946677--45946711 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
45946667 AGGCTCCTTC
45946677 TCCTTCTTTCGTTCTTCAT
1 TCCTTCTTTCGTTCTTCAT
45946696 TCCTT-TTTC-TTCTTCA
1 TCCTTCTTTCGTTCTTCA
45946712 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:45950856 original size:21 final size:21
Alignment explanation
Indices: 45950832--45950884 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
45950822 CGCTGTTTCT
*
45950832 AATCTCACTGCTACAGTATCC
1 AATCTCACTGCTACAGTAACC
* *
45950853 AATCTTACTGCTACAGTAACT
1 AATCTCACTGCTACAGTAACC
45950874 AATCTCACTGC
1 AATCTCACTGC
45950885 CACCACTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.30
Consensus pattern (21 bp):
AATCTCACTGCTACAGTAACC
Found at i:45958103 original size:19 final size:19
Alignment explanation
Indices: 45958065--45958103 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
45958055 AAATAGTGAG
*
45958065 AATTTATTTTCTAAGTATA
1 AATTTATTTTCTAAGAATA
45958084 AATTCTATTTTCT-AGAATA
1 AATT-TATTTTCTAAGAATA
45958103 A
1 A
45958104 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:45971022 original size:40 final size:39
Alignment explanation
Indices: 45970965--45971130 Score: 244
Period size: 40 Copynumber: 4.2 Consensus size: 39
45970955 AATGATTAAT
* *
45970965 ACCCGGATTTAACAACTCGCACGACTGCCTTCGGGACTTA
1 ACCCGGATTTAATAACTCGCACGAATGCCTTC-GGACTTA
45971005 ACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTA
1 ACCCGGATTTAATAACTCGCACGAATGCCTTC-GGACTTA
45971045 ACCCGGATTTAAT-ACTCGCACGAATGCCTTCGGACTTA
1 ACCCGGATTTAATAACTCGCACGAATGCCTTCGGACTTA
* * *
45971083 ACCCGGATTTAATATCTCGCACAAAGGCCTTCGGATCTTA
1 ACCCGGATTTAATAACTCGCACGAATGCCTTCGGA-CTTA
*
45971123 ATCCGGAT
1 ACCCGGAT
45971131 ATATTCACTT
Statistics
Matches: 118, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
38 20 0.17
39 36 0.31
40 62 0.53
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (39 bp):
ACCCGGATTTAATAACTCGCACGAATGCCTTCGGACTTA
Found at i:45971102 original size:78 final size:80
Alignment explanation
Indices: 45970965--45971169 Score: 249
Period size: 78 Copynumber: 2.6 Consensus size: 80
45970955 AATGATTAAT
* *
45970965 ACCCGGATTTAACAACTCGCACGACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
1 ACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAA
*
45971030 TGCCTTCGGGA-CTTA
66 GGCCTTC-GGATCTTA
* *
45971045 ACCCGGATTTAA-TACTCGCACGAATGCCTTC-GGACTTAACCCGGATTTAATATCTCGCACAAA
1 ACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAA
45971108 GGCCTTCGGATCTTA
66 GGCCTTCGGATCTTA
* * * * * *
45971123 ATCCGGATATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
1 ACCCGGATTTA-ACAAC-TCGCACGAATGCCTTCGGGACTTAACCCGGA
45971170 CAGCATTCAA
Statistics
Matches: 109, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
77 3 0.03
78 49 0.45
79 27 0.25
80 30 0.28
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (80 bp):
ACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAA
GGCCTTCGGATCTTA
Found at i:45971169 original size:40 final size:39
Alignment explanation
Indices: 45970965--45971169 Score: 229
Period size: 40 Copynumber: 5.2 Consensus size: 39
45970955 AATGATTAAT
* **
45970965 ACCCGGATTTAACAACTCGCACGACTGCCTTCGGGACTTA
1 ACCCGGATTTAA-TACTCGCACGAAAGCCTTCGGGACTTA
*
45971005 ACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTA
1 ACCCGGATTTAAT-ACTCGCACGAAAGCCTTCGGGACTTA
*
45971045 ACCCGGATTTAATACTCGCACGAATGCCTTC-GGACTTA
1 ACCCGGATTTAATACTCGCACGAAAGCCTTCGGGACTTA
45971083 ACCCGGATTTAATATCTCGCAC-AAAGGCCTTC-GGATCTTA
1 ACCCGGATTTAATA-CTCGCACGAAA-GCCTTCGGGA-CTTA
* * * *
45971123 ATCCGGATATATTCACTTAGCAC-AAAGCCTTCGGGACTTA
1 ACCCGGATTTAAT-AC-TCGCACGAAAGCCTTCGGGACTTA
*
45971163 GCCCGGA
1 ACCCGGA
45971170 CAGCATTCAA
Statistics
Matches: 149, Mismatches: 9, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
38 23 0.15
39 34 0.23
40 80 0.54
41 12 0.08
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (39 bp):
ACCCGGATTTAATACTCGCACGAAAGCCTTCGGGACTTA
Found at i:45976123 original size:40 final size:40
Alignment explanation
Indices: 45976025--45976287 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
45976015 TCCTCGTTCA
* * * * *
45976025 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
45976064 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
45976104 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
45976144 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
45976184 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
45976224 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
45976264 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
45976288 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:45981567 original size:13 final size:13
Alignment explanation
Indices: 45981517--45981582 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 13
45981507 TAAACCAAAC
*
45981517 TTTTTAAAAGTAT
1 TTTTTAAAAGCAT
* *
45981530 TTCTCAAAAGCACT
1 TTTTTAAAAGCA-T
*
45981544 TTTTT-ACAGCAT
1 TTTTTAAAAGCAT
*
45981556 TTTTTAAAAGCAG
1 TTTTTAAAAGCAT
*
45981569 TTTTCAAAAGCAT
1 TTTTTAAAAGCAT
45981582 T
1 T
45981583 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:45986281 original size:9 final size:9
Alignment explanation
Indices: 45986263--45986338 Score: 100
Period size: 9 Copynumber: 8.4 Consensus size: 9
45986253 TTTGGTTAAA
45986263 AATTAACCG
1 AATTAACCG
*
45986272 AATTACCCG
1 AATTAACCG
45986281 AATTAACCG
1 AATTAACCG
45986290 AATTAACCG
1 AATTAACCG
*
45986299 GATT-ACTCG
1 AATTAAC-CG
45986308 AATTAACCG
1 AATTAACCG
*
45986317 AATTACCCG
1 AATTAACCG
*
45986326 AATTAAACG
1 AATTAACCG
45986335 AATT
1 AATT
45986339 GAATCACTAC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
8 2 0.03
9 54 0.93
10 2 0.03
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:45991928 original size:2 final size:2
Alignment explanation
Indices: 45991921--45991948 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
45991911 GAAAAAGGAA
45991921 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
45991949 TACTGTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:46002922 original size:21 final size:21
Alignment explanation
Indices: 46002898--46002938 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
46002888 TGTGTGAAAG
* *
46002898 AGGCATACGATCGTGTGGCTA
1 AGGCACACGACCGTGTGGCTA
*
46002919 AGGCACACGCCCGTGTGGCT
1 AGGCACACGACCGTGTGGCT
46002939 TAGGGACATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.27, G:0.34, T:0.20
Consensus pattern (21 bp):
AGGCACACGACCGTGTGGCTA
Found at i:46003053 original size:21 final size:21
Alignment explanation
Indices: 46003029--46003103 Score: 116
Period size: 21 Copynumber: 3.6 Consensus size: 21
46003019 GTAAGGGTCT
*
46003029 CACATGCCCGTGTGTCCAAAA
1 CACACGCCCGTGTGTCCAAAA
* *
46003050 CACACGTCTGTGTGTCCAAAA
1 CACACGCCCGTGTGTCCAAAA
46003071 CACAC-CCCGTGTGTCCAAAA
1 CACACGCCCGTGTGTCCAAAA
46003091 CACACGCCCGTGT
1 CACACGCCCGTGT
46003104 TGGATCCATA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 18 0.38
21 30 0.62
ACGTcount: A:0.27, C:0.36, G:0.19, T:0.19
Consensus pattern (21 bp):
CACACGCCCGTGTGTCCAAAA
Found at i:46003667 original size:22 final size:23
Alignment explanation
Indices: 46003642--46003684 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
46003632 CAACCGTTTT
*
46003642 CAAAAAAGAAAA-GAAGAAAGAA
1 CAAAAAAGAAAACAAAGAAAGAA
46003664 CAAAAAAGAAAACAAAGAAAG
1 CAAAAAAGAAAACAAAGAAAG
46003685 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:46004453 original size:27 final size:25
Alignment explanation
Indices: 46004384--46004453 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 25
46004374 CCGTTTAAAA
46004384 AAATTATTTTGAAAATATTTTAAATT
1 AAATTATTTTGAAAAT-TTTTAAATT
46004410 -AA-TATGTTT-AAAA-TTTTAAATT
1 AAATTAT-TTTGAAAATTTTTAAATT
46004432 AAATTATTTTGAAGAATGTTTT
1 AAATTATTTTGAA-AAT-TTTT
46004454 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:46014868 original size:25 final size:24
Alignment explanation
Indices: 46014840--46014916 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 24
46014830 ATTCCAAAAA
46014840 TAAAATTATTTTAATATTTTAATAT
1 TAAAATTATTTTAATA-TTTAATAT
* *
46014865 T-AAATGTAATTTAATATTT-ATCT
1 TAAAAT-TATTTTAATATTTAATAT
*
46014888 TAATAA-TATTTTATTAATTTAATAT
1 TAA-AATTATTTTAAT-ATTTAATAT
46014913 TAAA
1 TAAA
46014917 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:46014912 original size:48 final size:51
Alignment explanation
Indices: 46014846--46014942 Score: 130
Period size: 48 Copynumber: 2.0 Consensus size: 51
46014836 AAAATAAAAT
*
46014846 TATTTTAATATTTTAATATTAAA-TG-TAAT-TTAATATT-TATCTTAATAA
1 TATTTTAATAATTTAATATTAAAGTGATAATCTTAATATTATAT-TTAATAA
* *
46014894 TATTTTATTAATTTAATATTAAAGTGATTATCTTAATATTATATTTAAT
1 TATTTTAATAATTTAATATTAAAGTGATAATCTTAATATTATATTTAAT
46014943 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:46020491 original size:21 final size:21
Alignment explanation
Indices: 46020467--46020506 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
46020457 CAGCTTATTA
46020467 GCATGGTTAAAT-TGTCTTAAT
1 GCAT-GTTAAATATGTCTTAAT
*
46020488 GCATGTTTAATATGTCTTA
1 GCATGTTAAATATGTCTTA
46020507 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:46021484 original size:29 final size:29
Alignment explanation
Indices: 46021451--46021506 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
46021441 CAAAAAAAAT
*
46021451 CGTAGCAAAAAGAGAAGTGCGAAAGAATC
1 CGTAGAAAAAAGAGAAGTGCGAAAGAATC
*
46021480 CGTAGAAAAAAGAGAAGTGCGGAAGAA
1 CGTAGAAAAAAGAGAAGTGCGAAAGAA
46021507 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:46026065 original size:14 final size:14
Alignment explanation
Indices: 46026048--46026078 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
46026038 AATAAAATAT
46026048 TTTCCGGAAAATGA
1 TTTCCGGAAAATGA
*
46026062 TTTCTGGAAAATGA
1 TTTCCGGAAAATGA
46026076 TTT
1 TTT
46026079 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:46028423 original size:25 final size:25
Alignment explanation
Indices: 46028391--46028439 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
46028381 GGCGTGAAAG
46028391 TGCAGAGGAGAGCTTAGAAAATGTT
1 TGCAGAGGAGAGCTTAGAAAATGTT
*
46028416 TGCAGAGGAGAGCTTGGAAAATGT
1 TGCAGAGGAGAGCTTAGAAAATGT
46028440 CTTACGGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (25 bp):
TGCAGAGGAGAGCTTAGAAAATGTT
Found at i:46035278 original size:18 final size:17
Alignment explanation
Indices: 46035245--46035283 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
46035235 TTTTATAAAT
46035245 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
46035263 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
46035280 TGTG
1 TGTG
46035284 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:46035536 original size:23 final size:23
Alignment explanation
Indices: 46035509--46035584 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
46035499 AGTGTTATTG
**
46035509 ATCAGTGGTAGCTTCGGCTATGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
46035532 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
46035555 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
46035578 ATCAGTG
1 ATCAGTG
46035585 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:46040411 original size:27 final size:27
Alignment explanation
Indices: 46040369--46040422 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
46040359 TTTGTGAGAA
46040369 AAGGAACCACAAGCTCTAGTGGTCAGT
1 AAGGAACCACAAGCTCTAGTGGTCAGT
*
46040396 AAGGAACCACAGGCTCTAGTGGTCAGT
1 AAGGAACCACAAGCTCTAGTGGTCAGT
46040423 TTTGATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (27 bp):
AAGGAACCACAAGCTCTAGTGGTCAGT
Found at i:46044450 original size:22 final size:22
Alignment explanation
Indices: 46044410--46044478 Score: 61
Period size: 25 Copynumber: 3.0 Consensus size: 22
46044400 ATTTCTGTTA
*
46044410 TATTAAATTTTAT-TAATAATAT
1 TATTAAATTATATGT-ATAATAT
*
46044432 TATTAAATTATATGTATAAAAATAA
1 TATTAAATTATATGTAT---AATAT
*
46044457 TATTAAATTATAAG-ATAATAT
1 TATTAAATTATATGTATAATAT
46044478 T
1 T
46044479 TTTATTTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
21 5 0.13
22 14 0.36
23 1 0.03
24 2 0.05
25 17 0.44
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (22 bp):
TATTAAATTATATGTATAATAT
Found at i:46048433 original size:21 final size:20
Alignment explanation
Indices: 46048409--46048447 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
46048399 TAAATTCAAG
*
46048409 TTAATTACGTCCTTTTTTTTT
1 TTAATTACAT-CTTTTTTTTT
46048430 TTAATTACATCTTTTTTT
1 TTAATTACATCTTTTTTT
46048448 CAAAATGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.18, C:0.13, G:0.03, T:0.67
Consensus pattern (20 bp):
TTAATTACATCTTTTTTTTT
Found at i:46048605 original size:30 final size:29
Alignment explanation
Indices: 46048550--46048607 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 29
46048540 TTAAAAATAC
*
46048550 AAGTACAGGGACTAAGTCCTAATTTTCATA
1 AAGTACAGGGACTAAGACC-AATTTTCATA
46048580 AAGTACAGGGACTATAGA-CACATTTTCA
1 AAGTACAGGGACTA-AGACCA-ATTTTCA
46048608 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:46054146 original size:2 final size:2
Alignment explanation
Indices: 46054139--46054173 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
46054129 GTACACCTTT
46054139 TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
46054174 TAGACATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 28 0.90
3 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:46061986 original size:24 final size:24
Alignment explanation
Indices: 46061958--46062014 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
46061948 ATTCTATTAA
*
46061958 CCTTTGTAGCGTATTCTGATTTGG
1 CCTTTGTAGCGTATTCTGATTAGG
* * * *
46061982 CCTTTATGGCGTGTTTTGATTAGG
1 CCTTTGTAGCGTATTCTGATTAGG
46062006 CCTTTGTAG
1 CCTTTGTAG
46062015 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:46062030 original size:20 final size:20
Alignment explanation
Indices: 46061995--46062057 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
46061985 TTATGGCGTG
*
46061995 TTTTGATTAGGCCTTTGTAGTA
1 TTTTG-TTA-GCCTTTGTAGCA
* *
46062017 TTTTGTTAGCCTTTATGGCA
1 TTTTGTTAGCCTTTGTAGCA
* *
46062037 TTCTGTTAGCCTTTGTGGCA
1 TTTTGTTAGCCTTTGTAGCA
46062057 T
1 T
46062058 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:46072796 original size:14 final size:14
Alignment explanation
Indices: 46072779--46072808 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
46072769 TTTCATTTTT
*
46072779 ATATATTTTTTAAA
1 ATATAATTTTTAAA
46072793 ATATAATTTTTAAA
1 ATATAATTTTTAAA
46072807 AT
1 AT
46072809 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:46079667 original size:29 final size:29
Alignment explanation
Indices: 46079634--46079731 Score: 105
Period size: 29 Copynumber: 3.5 Consensus size: 29
46079624 ATTCATATAA
46079634 TTAAATTATATTTAATAATAATTATTATT
1 TTAAATTATATTTAATAATAATTATTATT
* * * **
46079663 TTAAATTTTATTAAATCATATATT-TTAAA
1 TTAAATTATATTTAATAATA-ATTATTATT
*
46079692 TTAAAATATATTTAATAAT-A--ATTATT
1 TTAAATTATATTTAATAATAATTATTATT
46079718 TTAAATTATATTTA
1 TTAAATTATATTTA
46079732 TACTATCATA
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
26 16 0.29
27 1 0.02
29 35 0.64
30 3 0.05
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (29 bp):
TTAAATTATATTTAATAATAATTATTATT
Found at i:46079670 original size:24 final size:24
Alignment explanation
Indices: 46079643--46079693 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
46079633 ATTAAATTAT
*
46079643 ATTTAATAATAATTAT-TATTTTAA
1 ATTTAATAA-AATCATATATTTTAA
* *
46079667 ATTTTATTAAATCATATATTTTAA
1 ATTTAATAAAATCATATATTTTAA
46079691 ATT
1 ATT
46079694 AAAATATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTTAATAAAATCATATATTTTAA
Found at i:46079675 original size:91 final size:91
Alignment explanation
Indices: 46078985--46079633 Score: 1108
Period size: 91 Copynumber: 7.1 Consensus size: 91
46078975 ATGATTTTAG
*
46078985 TAAATTCATATAA-AAATATTTATTATTAAGAATTTTATG-AATTATATATCATTATTAAATTAT
1 TAAATTCATATAACAAA-ATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
46079048 ATTTAATATTAATTATTTTAAATTATA
65 ATTTAATATTAATTATTTTAAATTATA
*
46079075 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
46079140 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
* *
46079166 TAAATTCATATAAGAAAATTTATTATCAAGAA-TTT-TGAACGAGTATATATCATTATTAAATTA
1 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAA--ATTATATATCATTATTAAATTA
46079229 TATTTAATATTAATTATTTTAAATTATA
64 TATTTAATATTAATTATTTTAAATTATA
*
46079257 TAAATTCATACAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
46079322 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
* * *
46079348 GAAATTCATATAACGAAGTTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
46079413 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
46079439 TAAATTCATATAACAAAGTTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
46079504 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
* * *
46079530 TAAATTCATATAACAAAATTTATTATCAAGAATTTGATGAAGTTATATATTATTATTAAATTATA
1 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
* *
46079595 TTTAATAATAATTATATTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
46079621 CAAATTCATATAA
1 TAAATTCATATAA
46079634 TTAAATTATA
Statistics
Matches: 535, Mismatches: 18, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
89 4 0.01
90 37 0.07
91 487 0.91
92 3 0.01
93 4 0.01
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TTTAATATTAATTATTTTAAATTATA
Found at i:46079682 original size:52 final size:54
Alignment explanation
Indices: 46079583--46079729 Score: 171
Period size: 49 Copynumber: 2.8 Consensus size: 54
46079573 TATATATTAT
*
46079583 TATTAAATTATATTTAATAATAATTA-TA--TTAAATTATA-CAAATTCATATA
1 TATTAAATTATATTTAATAATAATTATTATTTTAAATTATATTAAATTCATATA
*
46079633 -ATTAAATTATATTTAATAATAATTATTATTTTAAATTTTATTAAA-TCATATA
1 TATTAAATTATATTTAATAATAATTATTATTTTAAATTATATTAAATTCATATA
* * * * *
46079685 TTTTAAATTAAAATATATTTAATAATAATTATTTTAAATTATATT
1 TATTAAATT-ATATTTA-ATAATAATTATTATTTTAAATTATATT
46079730 TATACTATCA
Statistics
Matches: 82, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
49 25 0.30
50 2 0.02
52 16 0.20
53 10 0.12
54 5 0.06
55 24 0.29
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (54 bp):
TATTAAATTATATTTAATAATAATTATTATTTTAAATTATATTAAATTCATATA
Found at i:46079962 original size:119 final size:120
Alignment explanation
Indices: 46079657--46079962 Score: 456
Period size: 121 Copynumber: 2.5 Consensus size: 120
46079647 AATAATAATT
*
46079657 ATTATTT-TAAATTTTATTAAATCATATATTTTAAATTAAAATATATTTAATAATAATTATTTTA
1 ATTATTTAT-AATTTTATTAAATCATATATTTT-AATTAAAATATATTTAATAATAATTATCTTA
* * *
46079721 AATTATATTTATACTATCATATATTATGATTTTAGGAAATTCATATAATAATATTGAG
64 AATTATATTTATACTATCATATATTATGAATTGAGGAAATTCATATAACAATATT-AG
* *
46079779 ATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAA
1 ATTATTTATAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAA
* *
46079844 TTATATTTTATAGTATCATA-ATTATGAATTGAGTAAATTCATATAACAATATT-G
66 TTATA-TTTATACTATCATATATTATGAATTGAGGAAATTCATATAACAATATTAG
* * *
46079898 ATTATTTATAATTGTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATTATTTATAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAA
46079963 ATATGATTAA
Statistics
Matches: 169, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
119 61 0.36
121 66 0.39
122 42 0.25
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.48
Consensus pattern (120 bp):
ATTATTTATAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAA
TTATATTTATACTATCATATATTATGAATTGAGGAAATTCATATAACAATATTAG
Found at i:46087043 original size:21 final size:22
Alignment explanation
Indices: 46087002--46087044 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
46086992 TTCTTGAAAG
*
46087002 TGCCTATTGGGATCATGGACTT
1 TGCCTATTGGGATCATCGACTT
46087024 TGCC-ATTGGGATTC-TCGACTT
1 TGCCTATTGGGA-TCATCGACTT
46087045 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:46094485 original size:41 final size:41
Alignment explanation
Indices: 46094440--46094586 Score: 204
Period size: 41 Copynumber: 3.6 Consensus size: 41
46094430 TCTACCTAGT
*
46094440 AGGCTTAATGCCAGTGTACCATATTAGGCTTTACGCTTAGC
1 AGGCTTAATGCCAGTGTACCATATCAGGCTTTACGCTTAGC
* * * *
46094481 AGGCTTAATGTCGGTGTACCATATCAGGCTTTACGCCTAGT
1 AGGCTTAATGCCAGTGTACCATATCAGGCTTTACGCTTAGC
* *
46094522 AGGCTTAATGCCGGTGTACCATATCAGGCTTTACACTTAGC
1 AGGCTTAATGCCAGTGTACCATATCAGGCTTTACGCTTAGC
** *
46094563 AGGCTTCGTGCCAGTGTATCATAT
1 AGGCTTAATGCCAGTGTACCATAT
46094587 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:46094580 original size:82 final size:82
Alignment explanation
Indices: 46094434--46094586 Score: 234
Period size: 82 Copynumber: 1.9 Consensus size: 82
46094424 GGGCTATCTA
* * * *
46094434 CCTAGTAGGCTTAATGCCAGTGTACCATATTAGGCTTTACGCTTAGCAGGCTTAATGTCGGTGTA
1 CCTAGTAGGCTTAATGCCAGTGTACCATATCAGGCTTTACACTTAGCAGGCTTAATGCCAGTGTA
46094499 CCATATCAGGCTTTACG
66 CCATATCAGGCTTTACG
* **
46094516 CCTAGTAGGCTTAATGCCGGTGTACCATATCAGGCTTTACACTTAGCAGGCTTCGTGCCAGTGTA
1 CCTAGTAGGCTTAATGCCAGTGTACCATATCAGGCTTTACACTTAGCAGGCTTAATGCCAGTGTA
*
46094581 TCATAT
66 CCATAT
46094587 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:46096751 original size:19 final size:20
Alignment explanation
Indices: 46096717--46096755 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
46096707 TGGACTTATT
46096717 TAAAACAAAACATAAAAATA
1 TAAAACAAAACATAAAAATA
*
46096737 TAAAA-AAAACTTAAAAATA
1 TAAAACAAAACATAAAAATA
46096756 GGGGTCACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (20 bp):
TAAAACAAAACATAAAAATA
Found at i:46097963 original size:45 final size:45
Alignment explanation
Indices: 46097893--46098002 Score: 130
Period size: 45 Copynumber: 2.4 Consensus size: 45
46097883 TTCTGGTGTC
* * * *
46097893 TTTTAGCTATGGTATTAATCGTTTGAATCGTGATGCCATAACGTA
1 TTTTAGCTATGGTCTTACTCATTTGAATCATGATGCCATAACGTA
* * * *
46097938 TTTTAGCTATGGTCTTACTCATTTGATTCATGGTGCCATAGCGTC
1 TTTTAGCTATGGTCTTACTCATTTGAATCATGATGCCATAACGTA
* *
46097983 TTTCAACTATGGTCTTACTC
1 TTTTAGCTATGGTCTTACTC
46098003 GTATTTTTTC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (45 bp):
TTTTAGCTATGGTCTTACTCATTTGAATCATGATGCCATAACGTA
Found at i:46100058 original size:18 final size:17
Alignment explanation
Indices: 46100025--46100063 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
46100015 TTTTATAAAT
46100025 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
46100043 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
46100060 TGTG
1 TGTG
46100064 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:46100316 original size:23 final size:23
Alignment explanation
Indices: 46100289--46100364 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
46100279 AGTGTTATTG
*
46100289 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
46100312 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
46100335 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
46100358 ATCAGTG
1 ATCAGTG
46100365 TTGCACTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:46106241 original size:6 final size:6
Alignment explanation
Indices: 46106230--46106256 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
46106220 ATTAGGCTTC
46106230 TTTCAA TTTCAA TTTCAA TTTCAA TTT
1 TTTCAA TTTCAA TTTCAA TTTCAA TTT
46106257 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:46107323 original size:18 final size:18
Alignment explanation
Indices: 46107289--46107326 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
46107279 TTTAATAAAG
*
46107289 TATTTAATATTATAATTT
1 TATTTAATAATATAATTT
46107307 TATTATAATAATA-AATTT
1 TATT-TAATAATATAATTT
46107325 TA
1 TA
46107327 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:46109815 original size:21 final size:21
Alignment explanation
Indices: 46109791--46109836 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
46109781 CCAAATACTT
46109791 GCAGCAAACTCTAGACATAGA
1 GCAGCAAACTCTAGACATAGA
* *
46109812 GCAGCAAACTTTAGACATAGT
1 GCAGCAAACTCTAGACATAGA
46109833 GCAG
1 GCAG
46109837 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:46116446 original size:11 final size:11
Alignment explanation
Indices: 46116370--46116446 Score: 54
Period size: 11 Copynumber: 6.9 Consensus size: 11
46116360 TATTCTAAAA
*
46116370 TTAATATTATT
1 TTAATATTAAT
46116381 TTAATAGTTTAAT
1 TTAATA--TTAAT
46116394 ATTAA-ATTAAAT
1 -TTAATATT-AAT
*
46116406 TTAATATTTAT
1 TTAATATTAAT
*
46116417 CTTAATAGT-AT
1 -TTAATATTAAT
46116428 TT--TATTAAT
1 TTAATATTAAT
46116437 TTAATATTAA
1 TTAATATTAA
46116447 AGTGATTATC
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 22 0.42
12 13 0.25
13 5 0.09
14 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (11 bp):
TTAATATTAAT
Found at i:46116600 original size:9 final size:9
Alignment explanation
Indices: 46116586--46116610 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
46116576 ATTATAATTG
46116586 AACTCTCTA
1 AACTCTCTA
46116595 AACTCTCTA
1 AACTCTCTA
46116604 AACTCTC
1 AACTCTC
46116611 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:46120609 original size:30 final size:28
Alignment explanation
Indices: 46120574--46120636 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 28
46120564 ACAATTAGAT
*
46120574 CTAAAATTTTAAATTAAAAGAT-TAGAGGGA
1 CTAAAATTTTAAAAT-AAAGATATA-A-GGA
46120604 CTAAAATTTTAAAATAAAGATATAAGGA
1 CTAAAATTTTAAAATAAAGATATAAGGA
46120632 CTAAA
1 CTAAA
46120637 TTCTGAGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 8 0.26
29 7 0.23
30 16 0.52
ACGTcount: A:0.54, C:0.05, G:0.13, T:0.29
Consensus pattern (28 bp):
CTAAAATTTTAAAATAAAGATATAAGGA
Found at i:46121909 original size:6 final size:6
Alignment explanation
Indices: 46121898--46121932 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
46121888 CCAAATTTGC
46121898 AAAA-A AAAA-A AAAAGA AAAAGA AAAAGA AAAAGA A
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA A
46121933 CTACTACTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 9 0.31
6 20 0.69
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:46124667 original size:12 final size:12
Alignment explanation
Indices: 46124650--46124694 Score: 51
Period size: 11 Copynumber: 3.9 Consensus size: 12
46124640 ACTAATCCTT
46124650 TCTCAAATTTCC
1 TCTCAAATTTCC
*
46124662 TCTC-AATTTGC
1 TCTCAAATTTCC
46124673 TCTCAAA-TTCC
1 TCTCAAATTTCC
46124684 T-TCCAAATTTC
1 TCT-CAAATTTC
46124695 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:46124692 original size:23 final size:21
Alignment explanation
Indices: 46124650--46124702 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
46124640 ACTAATCCTT
46124650 TCTCAAATTTCCTCTCAATTTGC
1 TCTCAAA-TTCCTCTCAATTT-C
46124673 TCTCAAATTCCT-TCCAAATTTC
1 TCTCAAATTCCTCT-C-AATTTC
*
46124695 TCTGAAAT
1 TCTCAAAT
46124703 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:46124778 original size:16 final size:16
Alignment explanation
Indices: 46124746--46124777 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
46124736 CTTAAATCCC
46124746 TATTTTTAAATAATTT
1 TATTTTTAAATAATTT
46124762 TATTTTTAAA-AATTT
1 TATTTTTAAATAATTT
46124777 T
1 T
46124778 TTTAAATCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTTTTAAATAATTT
Found at i:46127140 original size:22 final size:22
Alignment explanation
Indices: 46127124--46128288 Score: 1368
Period size: 22 Copynumber: 54.0 Consensus size: 22
46127114 TTTAATTGAC
46127124 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
46127146 AAACCATAACCCTAACCCTTAACTTTA
1 AAACCCT-A----AACCCTTAACTTAA
*
46127173 AAACCCTAAACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
46127195 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * * *
46127217 AAACTCT-AATCCTTGACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
46127238 AAACCCTAAACCCATAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
46127260 AAACCATAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
46127282 AAATCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
46127304 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
46127325 AAACCCTAAACTCGTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
46127347 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
46127368 AAACCTTAAACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
46127390 AAACTCTAAACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
* *
46127411 AAACACT-AACCATTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
46127432 AAACACT-AACCCTT-ACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
46127452 AAACCCCT-AACCCTTAACTTTA
1 AAA-CCCTAAACCCTTAACTTAA
46127474 AAACCCTAAA-CCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
46127495 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
46127517 AAACCCT-AACCCTTGACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
46127538 AAATCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
46127560 AAACCCT-AACCCTTGACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
46127581 AAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
46127603 AAACCCT-AACCCTTAACAT-A
1 AAACCCTAAACCCTTAACTTAA
46127623 AAACCCT-AACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
*
46127643 AAACACT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
46127664 AAA-ACTTAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
46127685 AAACCCTAAACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
46127707 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
46127728 AAACCTTAAACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
46127750 AAACCATAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
* *
46127772 AAACCAT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
46127793 AAACCCTAAACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
*
46127814 AAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
46127836 AAA-CCTTAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
46127857 AAACCCTAAACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
46127879 AAACCATAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
* *
46127901 AAACCATAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
46127923 AAACACT-AACCCTTGACTTTA
1 AAACCCTAAACCCTTAACTTAA
46127944 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
46127966 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* * *
46127987 AAACCCTAAACTCTTAATTTTA
1 AAACCCTAAACCCTTAACTTAA
*
46128009 AAACCATAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
46128031 AAACACT-AACCCTTAACTTAAA
1 AAACCCTAAACCCTTAACTT-AA
*
46128053 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
46128074 AAATCCTAAA-CCTTAACTGT-A
1 AAACCCTAAACCCTTAACT-TAA
* * * *
46128095 AAACTCTAAACTCTCAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
46128117 AAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
46128139 AAACCCT-AACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
46128160 AAACCAT-AACCCTTAAATTTA
1 AAACCCTAAACCCTTAACTTAA
* *
46128181 AAACCTTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
46128203 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
46128225 AAA-CCTTAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
46128246 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
46128267 AAATCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
46128288 A
1 A
46128289 TATAATTTGA
Statistics
Matches: 984, Mismatches: 128, Indels: 63
0.84 0.11 0.05
Matches are distributed among these distances:
20 61 0.06
21 412 0.42
22 490 0.50
23 1 0.00
26 1 0.00
27 19 0.02
ACGTcount: A:0.44, C:0.29, G:0.01, T:0.26
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:46127184 original size:28 final size:29
Alignment explanation
Indices: 46127124--46127184 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 29
46127114 TTTAATTGAC
46127124 AAACCCTAAACCCTTAACTTAAAAACCAT
1 AAACCCTAAACCCTTAACTTAAAAACCAT
* *
46127153 -AACCCT-AACCCTTAACTTTAAAACCCT
1 AAACCCTAAACCCTTAACTTAAAAACCAT
46127180 AAACC
1 AAACC
46127185 TTTAACTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.21
Consensus pattern (29 bp):
AAACCCTAAACCCTTAACTTAAAAACCAT
Found at i:46127202 original size:43 final size:44
Alignment explanation
Indices: 46127174--46128288 Score: 1331
Period size: 43 Copynumber: 26.0 Consensus size: 44
46127164 TTAACTTTAA
*
46127174 AACCCTAAACCTTTAACTTAAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * * * *
46127218 AACTCT-AATCCTTGACTTTAAAACCCTAAACCCATAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* *
46127261 AACCATAAACCCTTAACTTAAAAATCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
46127305 AACCCT-AACCCTTAACTTTAAAACCCTAAACTCGTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
46127348 AACCCT-AACCCTTAACTTTAAAACCTTAAACTCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
46127391 AACTCTAAACCCTTAACTT-AAAACACT-AACCATTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* *
46127433 AACACT-AACCCTT-ACTTAAAAACCCCT-AACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAA-CCCTAAACCCTTAACTTAAA
46127475 AACCCTAAA-CCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * * *
46127518 AACCCT-AACCCTTGACTTTAAAATCTTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
46127561 AACCCT-AACCCTTGACTTTAAAACCTTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
*
46127604 AACCCT-AACCCTTAACAT-AAAACCCT-AACCCTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * * *
46127644 AACACT-AACCCTTAACTTAAAAA-ACTTAACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* *
46127686 AACCCTAAACTCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * * *
46127729 AACCTTAAACTCTTAACTTAAAAACCATAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* *
46127773 AACCAT-AACCCTTAACTTTAAAACCCTAAACCCTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
46127815 AACCTTAAACCCTTAACTTAAAAA-CCTTAACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
46127858 AACCCTAAACTCTTAACTTAAAAACCATAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * * * *
46127902 AACCATAAACCCTTAACCTAAAAACACT-AACCCTTGACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
*
46127945 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * * *
46127988 AACCCTAAACTCTTAATTTTAAAACCATAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* *
46128032 AACACT-AACCCTTAACTTAAAAAACCCT-AACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTT-AAAAACCCTAAACCCTTAACTTAAA
* * * * *
46128075 AATCCTAAA-CCTTAACTGT-AAAACTCTAAACTCTCAAATTAAA
1 AACCCTAAACCCTTAACT-TAAAAACCCTAAACCCTTAACTTAAA
* *
46128118 AACCTTAAACCCTTAACTTAAAAACCCT-AACCTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * * * *
46128161 AACCAT-AACCCTTAAATTTAAAACCTTAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* *
46128204 AACCCTAAACCCTTAACTTAAAAA-CCTTAACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
*
46128247 AACCCT-AACCCTTAACTTAAAAATCCT-AACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
46128289 TATAATTTGA
Statistics
Matches: 930, Mismatches: 114, Indels: 56
0.85 0.10 0.05
Matches are distributed among these distances:
40 24 0.03
41 39 0.04
42 141 0.15
43 555 0.60
44 171 0.18
ACGTcount: A:0.44, C:0.29, G:0.01, T:0.27
Consensus pattern (44 bp):
AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
Found at i:46128424 original size:37 final size:38
Alignment explanation
Indices: 46128382--46128549 Score: 114
Period size: 37 Copynumber: 4.4 Consensus size: 38
46128372 TTTTGACTGG
46128382 TACTAACAATTAATA-ATTTGATATAATTTGATAATTT
1 TACTAACAATTAATACATTTGATATAATTTGATAATTT
* * * *
46128419 TACTAACTATTAATACAATT-AT-TGA-TTAATAATTT
1 TACTAACAATTAATACATTTGATATAATTTGATAATTT
* * ** * * * * * **
46128454 TACATTCACATAATGTTAGATTTGAAAAAATGTT-TTGACTGG
1 TAC--TAACA-ATTAATACATTTGATATAAT-TTGAT-AATTT
46128496 TACTAACAATTAATA-ATTTGATATAATTTGATAATTT
1 TACTAACAATTAATACATTTGATATAATTTGATAATTT
46128533 TACTAACAATTAATACA
1 TACTAACAATTAATACA
46128550 ATTATCAATT
Statistics
Matches: 92, Mismatches: 28, Indels: 21
0.65 0.20 0.15
Matches are distributed among these distances:
35 12 0.13
36 2 0.02
37 38 0.41
38 22 0.24
39 5 0.05
40 5 0.05
41 1 0.01
42 7 0.08
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (38 bp):
TACTAACAATTAATACATTTGATATAATTTGATAATTT
Found at i:46128488 original size:114 final size:114
Alignment explanation
Indices: 46128288--46128566 Score: 513
Period size: 114 Copynumber: 2.4 Consensus size: 114
46128278 CTTAACTTAA
*
46128288 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
1 ATATAATTTGATAATTTTACTAACAATTAATACAATTATCAATTAATAATTTTACATTCACATAA
*
46128353 TGTTAGATTTGAAAAATTGTTTTGACTGGTACTAACAATTAATAATTTG
66 TGTTAGATTTGAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
* **
46128402 ATATAATTTGATAATTTTACTAACTATTAATACAATTATTGATTAATAATTTTACATTCACATAA
1 ATATAATTTGATAATTTTACTAACAATTAATACAATTATCAATTAATAATTTTACATTCACATAA
46128467 TGTTAGATTTGAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
66 TGTTAGATTTGAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
46128516 ATATAATTTGATAATTTTACTAACAATTAATACAATTATCAATTAATAATT
1 ATATAATTTGATAATTTTACTAACAATTAATACAATTATCAATTAATAATT
46128567 GAAAAAAATA
Statistics
Matches: 158, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 158 1.00
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.43
Consensus pattern (114 bp):
ATATAATTTGATAATTTTACTAACAATTAATACAATTATCAATTAATAATTTTACATTCACATAA
TGTTAGATTTGAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
Found at i:46131723 original size:127 final size:127
Alignment explanation
Indices: 46131491--46131897 Score: 556
Period size: 127 Copynumber: 3.2 Consensus size: 127
46131481 AACATGCTAT
* *
46131491 TGTAGCAAAAGCGCATCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGA
* * * *
46131556 AGCATTTTTTTTAAACTATTTGCTTAAAAACGTCAA-TCGAAATTATTTCTTCCAGGACCTAC
66 AGC-GTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCTAC
* * * * *
46131618 TATAGTAAAAGCGCGTCCACGAGAGCGCGATTTCACAAATTCTTCTCAAATAGTATCCTGCTTAA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGA
* * *
46131683 AGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAAACTTAT
66 AGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCTAC
* *
46131745 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAATTTCTTCTCATAA-AGCATCCTGCTTG
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTGCTTG
* * *
46131809 AAGCG--TTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTT-TT-CATGACCTAC
65 AAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCTAC
* * *
46131868 TGTAGCAAAAGCACGTACACGTGGGCGCGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGA
46131898 CTTTAGAAAT
Statistics
Matches: 248, Mismatches: 30, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
123 33 0.13
124 2 0.01
125 40 0.16
126 29 0.12
127 142 0.57
128 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (127 bp):
TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGA
AGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCTAC
Found at i:46132000 original size:26 final size:26
Alignment explanation
Indices: 46131971--46132052 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
46131961 AACGTAATCC
46131971 AATTTTGAATAAATTATAATTAATTT
1 AATTTTGAATAAATTATAATTAATTT
** *** * *
46131997 AATTAGGAA-ACCCTA-AACCCTAATCT
1 AATTTTGAATAAATTATAA--TTAATTT
46132023 AATTTTGAATAAATTATAATTAATTT
1 AATTTTGAATAAATTATAATTAATTT
46132049 AATT
1 AATT
46132053 AGGAAACCCT
Statistics
Matches: 38, Mismatches: 14, Indels: 8
0.63 0.23 0.13
Matches are distributed among these distances:
24 2 0.05
25 3 0.08
26 28 0.74
27 3 0.08
28 2 0.05
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (26 bp):
AATTTTGAATAAATTATAATTAATTT
Found at i:46132043 original size:52 final size:52
Alignment explanation
Indices: 46131965--46132074 Score: 211
Period size: 52 Copynumber: 2.1 Consensus size: 52
46131955 ACACGAAACG
46131965 TAATCCAATTTTGAATAAATTATAATTAATTTAATTAGGAAACCCTAAACCC
1 TAATCCAATTTTGAATAAATTATAATTAATTTAATTAGGAAACCCTAAACCC
*
46132017 TAATCTAATTTTGAATAAATTATAATTAATTTAATTAGGAAACCCTAAACCC
1 TAATCCAATTTTGAATAAATTATAATTAATTTAATTAGGAAACCCTAAACCC
46132069 TAATCC
1 TAATCC
46132075 CTTATTTATT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.35
Consensus pattern (52 bp):
TAATCCAATTTTGAATAAATTATAATTAATTTAATTAGGAAACCCTAAACCC
Found at i:46132072 original size:26 final size:26
Alignment explanation
Indices: 46131991--46132072 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
46131981 AAATTATAAT
46131991 TAATTTAATTAGGAAACCCTAAACCC
1 TAATTTAATTAGGAAACCCTAAACCC
* ** *** *
46132017 TAATCTAATTTTGAATAAATTATAA--T
1 TAATTTAATTAGGAA-ACCCTA-AACCC
46132043 TAATTTAATTAGGAAACCCTAAACCC
1 TAATTTAATTAGGAAACCCTAAACCC
46132069 TAAT
1 TAAT
46132073 CCCTTATTTA
Statistics
Matches: 38, Mismatches: 14, Indels: 8
0.63 0.23 0.13
Matches are distributed among these distances:
24 2 0.05
25 3 0.08
26 28 0.74
27 3 0.08
28 2 0.05
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (26 bp):
TAATTTAATTAGGAAACCCTAAACCC
Found at i:46134499 original size:10 final size:10
Alignment explanation
Indices: 46134484--46134509 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
46134474 TTTTTCGGGA
46134484 CTTATTCGAG
1 CTTATTCGAG
46134494 CTTATTCGAG
1 CTTATTCGAG
46134504 CTTATT
1 CTTATT
46134510 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:46137479 original size:42 final size:42
Alignment explanation
Indices: 46137427--46137555 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 42
46137417 ATGCTAAAAA
46137427 AAACCCATAAGGGTTGAACGGAAGCTCATAAGAGCTGAACAG
1 AAACCCATAAGGGTTGAACGGAAGCTCATAAGAGCTGAACAG
* * *
46137469 AAACCTATAAGGGTT-AA-GTTGAAGCAT-AAAAGAGCTGAACGG
1 AAACCCATAAGGGTTGAACG--GAAGC-TCATAAGAGCTGAACAG
* * * * *
46137511 AAACCCATTAGGGTTGAACAGAAACTCATATGAG-TAAACAG
1 AAACCCATAAGGGTTGAACGGAAGCTCATAAGAGCTGAACAG
46137552 AAAC
1 AAAC
46137556 TCGTGTGAGC
Statistics
Matches: 70, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
40 1 0.01
41 12 0.17
42 54 0.77
43 3 0.04
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.17
Consensus pattern (42 bp):
AAACCCATAAGGGTTGAACGGAAGCTCATAAGAGCTGAACAG
Found at i:46137564 original size:20 final size:21
Alignment explanation
Indices: 46137527--46137574 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
46137517 ATTAGGGTTG
46137527 AACAGAAACTCATATGAG-TA
1 AACAGAAACTCATATGAGCTA
* *
46137547 AACAGAAACTCGTGTGAGCTA
1 AACAGAAACTCATATGAGCTA
46137568 AAC-GAAA
1 AACAGAAA
46137575 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:46145014 original size:22 final size:22
Alignment explanation
Indices: 46144989--46145037 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
46144979 CGCATCAATA
* *
46144989 TATGTGAGCCCTT-TATGGGACG
1 TATGAGAG-CCTTATATGAGACG
46145011 TATGAGAGCCTTATATGAGACG
1 TATGAGAGCCTTATATGAGACG
46145033 TATGA
1 TATGA
46145038 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:46149865 original size:93 final size:93
Alignment explanation
Indices: 46149757--46149942 Score: 354
Period size: 93 Copynumber: 2.0 Consensus size: 93
46149747 ATTAGCTGCA
*
46149757 ACACCCTTATCTTTCAGATTTAACCCAGAGCTGGCCTCCCCCGATTCTCTCCTTTATTGTTGTCT
1 ACACCCTTATATTTCAGATTTAACCCAGAGCTGGCCTCCCCCGATTCTCTCCTTTATTGTTGTCT
46149822 GTCCCTAAATTAGTGAGATTTTCATCGT
66 GTCCCTAAATTAGTGAGATTTTCATCGT
46149850 ACACCCTTATATTTCAGATTTAACCCAGAGCTGGCCTCCCCCGATTCTCTCCTTTATTGTTGTCT
1 ACACCCTTATATTTCAGATTTAACCCAGAGCTGGCCTCCCCCGATTCTCTCCTTTATTGTTGTCT
*
46149915 GTCCCTAAATTAGTGGGATTTTCATCGT
66 GTCCCTAAATTAGTGAGATTTTCATCGT
46149943 CCAAATTTGT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.38
Consensus pattern (93 bp):
ACACCCTTATATTTCAGATTTAACCCAGAGCTGGCCTCCCCCGATTCTCTCCTTTATTGTTGTCT
GTCCCTAAATTAGTGAGATTTTCATCGT
Found at i:46151052 original size:17 final size:18
Alignment explanation
Indices: 46151022--46151067 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
46151012 ATTTAAATTG
46151022 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
46151040 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
46151056 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
46151068 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:46151462 original size:13 final size:13
Alignment explanation
Indices: 46151444--46151469 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46151434 GCGATGAGAT
46151444 TAGATATTGTAAC
1 TAGATATTGTAAC
46151457 TAGATATTGTAAC
1 TAGATATTGTAAC
46151470 GATACTGTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
TAGATATTGTAAC
Found at i:46152314 original size:131 final size:131
Alignment explanation
Indices: 46152122--46152369 Score: 345
Period size: 136 Copynumber: 1.9 Consensus size: 131
46152112 TTAAACTACG
* *
46152122 GTCTTCGCTTTTGTGCTCTTTCAATTCAATTAAAATGGGTTTGTTTGTTTTTACTT-TTTTTTGT
1 GTCTTCGCTTTTGTGCTCTTTCAATTAAATTAAAATGGGTTTGTCTGTTTTTACTTCTTTTTTGT
* **
46152186 ACTATTTGATTCTTATTGATTGCCCCTTTTGTTGATTTTGTTGTTCTTGGCTCTTTGCAAATTAC
66 ACTATTTGATTCTTATTGATTGCCCCTTTTGTTAATTTTACTGTTCTTGGCTCTTTGCAAATTAC
46152251 A
131 A
* * * *
46152252 GTCTTTGCTTTTGTGCTCTTTCAGTTAAAATTTAATTGGGTTTGTCTGTTTTTACTTCTTTTTTT
1 GTCTTCGCTTTTGTGCTCTTTCAATT-AAATTAAAATGGGTTTGTCTGTTTTTACTTC----TTT
* *
46152317 TTTGTACTGTTTGATTCTTATTGATTGCTCCTTTTGTTAATTTTACTGTTCTT
61 TTTGTACTATTTGATTCTTATTGATTGCCCCTTTTGTTAATTTTACTGTTCTT
46152370 AGCTATTGGC
Statistics
Matches: 101, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
130 24 0.24
131 26 0.26
136 51 0.50
ACGTcount: A:0.14, C:0.14, G:0.15, T:0.57
Consensus pattern (131 bp):
GTCTTCGCTTTTGTGCTCTTTCAATTAAATTAAAATGGGTTTGTCTGTTTTTACTTCTTTTTTGT
ACTATTTGATTCTTATTGATTGCCCCTTTTGTTAATTTTACTGTTCTTGGCTCTTTGCAAATTAC
A
Found at i:46153970 original size:65 final size:65
Alignment explanation
Indices: 46153866--46153996 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
46153856 GATGGAGTAG
*
46153866 AGGAAAGCATTCACTAGTGTAGTTTTCCTCAATAAGAAGGAAAGGTATTCTTCATCTTTGTTGTA
1 AGGAAAGCATCCACTAGTGTAGTTTTCCTCAATAAGAAGGAAAGGTATTCTTCATCTTTGTTGTA
*
46153931 AGGAAAGCATCCACTATTGTAGTTTTCCTCAATAAGAAGGAAAGGTATTCTTCATCTTTGTTGTA
1 AGGAAAGCATCCACTAGTGTAGTTTTCCTCAATAAGAAGGAAAGGTATTCTTCATCTTTGTTGTA
46153996 A
1 A
46153997 TTATTCATCA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (65 bp):
AGGAAAGCATCCACTAGTGTAGTTTTCCTCAATAAGAAGGAAAGGTATTCTTCATCTTTGTTGTA
Found at i:46156969 original size:2 final size:2
Alignment explanation
Indices: 46156962--46156999 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
46156952 TTAAGAAAAT
46156962 CA CA CA CA CA CA CA CA CA 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
46157000 TATATATATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:46157823 original size:5 final size:5
Alignment explanation
Indices: 46157813--46157841 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
46157803 AAACATGCCA
46157813 ATATT ATATT ATATT ATATT ATATT ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
46157842 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:46158113 original size:30 final size:30
Alignment explanation
Indices: 46158077--46158141 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
46158067 AGGCAAGAAC
46158077 TCTTTATCCCATACAATTAGTACTCTTGCA
1 TCTTTATCCCATACAATTAGTACTCTTGCA
46158107 TCTTTATCCCATACAATTAGTACTCTTGCA
1 TCTTTATCCCATACAATTAGTACTCTTGCA
46158137 TCTTT
1 TCTTT
46158142 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:46167178 original size:15 final size:14
Alignment explanation
Indices: 46167154--46167184 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
46167144 AAAAAATTGC
46167154 TTTAGTTCAGACCT
1 TTTAGTTCAGACCT
46167168 TTTATGTTCAGACCT
1 TTTA-GTTCAGACCT
46167183 TT
1 TT
46167185 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:46168241 original size:22 final size:21
Alignment explanation
Indices: 46168215--46168265 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 21
46168205 AGAAGTTGAG
46168215 AAATGGTGAGATTAGCGATAGA
1 AAATGGTG-GATTAGCGATAGA
*
46168237 AAATGGTTGGTTTAGCGATAGA
1 AAATGG-TGGATTAGCGATAGA
46168259 AAATGGT
1 AAATGGT
46168266 TGGTTTATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 24 0.89
23 2 0.07
ACGTcount: A:0.37, C:0.04, G:0.31, T:0.27
Consensus pattern (21 bp):
AAATGGTGGATTAGCGATAGA
Found at i:46168266 original size:22 final size:22
Alignment explanation
Indices: 46168226--46168272 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
46168216 AATGGTGAGA
46168226 TTAGCGATAGAAAATGGTTGGT
1 TTAGCGATAGAAAATGGTTGGT
46168248 TTAGCGATAGAAAATGGTTGGT
1 TTAGCGATAGAAAATGGTTGGT
46168270 TTA
1 TTA
46168273 TTCCAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (22 bp):
TTAGCGATAGAAAATGGTTGGT
Found at i:46171396 original size:20 final size:20
Alignment explanation
Indices: 46171362--46171403 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
46171352 AGCTATTTAA
** *
46171362 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
46171382 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
46171402 AT
1 AT
46171404 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:46173199 original size:9 final size:9
Alignment explanation
Indices: 46173182--46173212 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
46173172 TCGAGTTGAT
46173182 TCGAATAAC
1 TCGAATAAC
*
46173191 TCGATTAAC
1 TCGAATAAC
46173200 TCGAATAAC
1 TCGAATAAC
46173209 TCGA
1 TCGA
46173213 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:46177619 original size:20 final size:20
Alignment explanation
Indices: 46177596--46177638 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
46177586 AGCTATTTAA
** *
46177596 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
46177616 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
46177636 ATA
1 ATA
46177639 TGTTTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:46180391 original size:102 final size:105
Alignment explanation
Indices: 46180277--46180528 Score: 348
Period size: 110 Copynumber: 2.4 Consensus size: 105
46180267 TGTTTTAAAA
*
46180277 TTATTTTAAAGTTATTTTGTTAGTAATTATTATAAATAGTTTGTTTAGTTTAATGTTTATTGTGA
1 TTATTTTAAAGTTATTTTGTTAGTAATTATTATAAATAGTTTGTTTAGTTTAATATTTATTGTGA
*
46180342 TTTGTTAGGTTATGAATGTAAT-TTTT-TTA-TTTTTAAT
66 TTTGCTAGGTTATGAATGTAATCTTTTATTATTTTTTAAT
* *
46180379 TTATTTTAAAGTTATTTTGTTAGTAATTTTTGTGATTAGGTTAATTGTTTGTTTAGTTTAATATT
1 TTATTTTAAAGTTATTTTGTTAGTAA----T-T-ATTA--TAAATAGTTTGTTTAGTTTAATATT
46180444 TATTGTGATTTGCTAGGTTATGAATGTAATCTTTTATTATTTTTTAAT
58 TATTGTGATTTGCTAGGTTATGAATGTAATCTTTTATTATTTTTTAAT
* * *
46180492 TTATTTTAAAGTTATTTTGTCAATAACTATTATAAAT
1 TTATTTTAAAGTTATTTTGTTAGTAATTATTATAAAT
46180529 TCGAAAAAAA
Statistics
Matches: 131, Mismatches: 8, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
102 26 0.20
105 4 0.03
106 1 0.01
107 5 0.04
108 5 0.04
110 51 0.39
111 4 0.03
112 3 0.02
113 32 0.24
ACGTcount: A:0.28, C:0.02, G:0.13, T:0.58
Consensus pattern (105 bp):
TTATTTTAAAGTTATTTTGTTAGTAATTATTATAAATAGTTTGTTTAGTTTAATATTTATTGTGA
TTTGCTAGGTTATGAATGTAATCTTTTATTATTTTTTAAT
Found at i:46180394 original size:113 final size:112
Alignment explanation
Indices: 46180252--46180510 Score: 330
Period size: 113 Copynumber: 2.3 Consensus size: 112
46180242 TAGTTTATTA
* * * *
46180252 TTATTATTTTT-ATGTTGTTTTAAAATTATTTT-AAAGTTATTTTGTTAGTAATTA-TTATAAAT
1 TTATTATTTTTAAT-TTATTTTAAAGTTATTTTGAAAG-TAATTT-TT-GTAATTAGGT-T-AAT
* *
46180314 AGTTTGTTTAGTTTAATGTTTATTGTGATTTGTTAGGTTATGAATGTAAT-TT
60 AGTTTGTTTAGTTTAATATTTATTGTGATTTGCTAGGTTATGAATGTAATCTT
** * *
46180366 TT-TTATTTTTAATTTATTTTAAAGTTATTTTGTTAGTAATTTTTGTGATTAGGTTAATTGTTTG
1 TTATTATTTTTAATTTATTTTAAAGTTATTTTGAAAGTAATTTTTGTAATTAGGTTAATAGTTTG
46180430 TTTAGTTTAATATTTATTGTGATTTGCTAGGTTATGAATGTAATCTT
66 TTTAGTTTAATATTTATTGTGATTTGCTAGGTTATGAATGTAATCTT
46180477 TTATTATTTTTTAATTTATTTTAAAGTTATTTTG
1 TTATTA-TTTTTAATTTATTTTAAAGTTATTTTG
46180511 TCAATAACTA
Statistics
Matches: 129, Mismatches: 10, Indels: 13
0.85 0.07 0.09
Matches are distributed among these distances:
110 50 0.39
111 11 0.09
112 6 0.05
113 56 0.43
114 6 0.05
ACGTcount: A:0.26, C:0.01, G:0.14, T:0.59
Consensus pattern (112 bp):
TTATTATTTTTAATTTATTTTAAAGTTATTTTGAAAGTAATTTTTGTAATTAGGTTAATAGTTTG
TTTAGTTTAATATTTATTGTGATTTGCTAGGTTATGAATGTAATCTT
Found at i:46185962 original size:24 final size:24
Alignment explanation
Indices: 46185930--46186022 Score: 68
Period size: 24 Copynumber: 4.0 Consensus size: 24
46185920 TAAAAAAATA
*
46185930 AAATAATAATGCATAACAAATTTG
1 AAATAATAATACATAACAAATTTG
* *
46185954 AAATGATAATACATAACGAATTT-
1 AAATAATAATACATAACAAATTTG
* * *
46185977 AAA-AACAAATACATAATAAATCT-
1 AAATAA-TAATACATAACAAATTTG
* *
46186000 AAGCTAATAATACATGA-AAATTT
1 AA-ATAATAATACATAACAAATTT
46186023 TATGATGCTA
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
22 1 0.02
23 23 0.43
24 28 0.52
25 2 0.04
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.28
Consensus pattern (24 bp):
AAATAATAATACATAACAAATTTG
Found at i:46187033 original size:18 final size:17
Alignment explanation
Indices: 46186995--46187033 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
46186985 AAAAAATCAA
* *
46186995 AGAAATAAAAGAAGAAG
1 AGAAAAAAAAGAAAAAG
46187012 AGAAAAAAAAGAAAACAG
1 AGAAAAAAAAGAAAA-AG
46187030 AGAA
1 AGAA
46187034 TCACCTTCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.74, C:0.03, G:0.21, T:0.03
Consensus pattern (17 bp):
AGAAAAAAAAGAAAAAG
Found at i:46188065 original size:42 final size:44
Alignment explanation
Indices: 46187971--46188079 Score: 150
Period size: 42 Copynumber: 2.5 Consensus size: 44
46187961 GATCCACCCT
* *
46187971 ACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGTTCC
1 ACTGCAACTTCAGGGAGATAAGATCTATTACTTTAATCCGCTCC
* * * *
46188015 ACTACAACTTCAGGGAGATAGGAT-TA-TGCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCTATTACTTTAATCCGCTCC
46188057 ACTGCAACTTCAGGGAGATAAGA
1 ACTGCAACTTCAGGGAGATAAGA
46188080 GTTGCCATCT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 34 0.60
43 2 0.04
44 21 0.37
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.28
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATCTATTACTTTAATCCGCTCC
Found at i:46188363 original size:88 final size:88
Alignment explanation
Indices: 46188214--46188741 Score: 887
Period size: 88 Copynumber: 6.0 Consensus size: 88
46188204 AAGATTCACC
* * *
46188214 GTCTTTGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTA
1 GTCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
46188279 CAACCGAGGGAGGCAAGGTTTGT
66 CAACCGAGGGAGGCAAGGTTTGT
* * *
46188302 GTCTTTGATCTGCTTCGCTGTCGATACAGGAAGGTAAGATCTGCTATCTTCAACCAGCTCCACTA
1 GTCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
46188367 CAACCGAGGGAGGCAAGGTTTGT
66 CAACCGAGGGAGGCAAGGTTTGT
* * * *
46188390 GTCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTACTATCTTCCACCAGATTCACTA
1 GTCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
46188455 CAACCGAGGGAGGCAAGGTTTGT
66 CAACCGAGGGAGGCAAGGTTTGT
* *
46188478 GTCTTCGATCTGCTTCGCTGTTGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCAGTA
1 GTCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
46188543 CAACCGAGGGAGGCAAGGTTTGT
66 CAACCGAGGGAGGCAAGGTTTGT
*
46188566 GTCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTTCTATCTTTC-ACCAGCTCCACT
1 GTCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATC-TTCAACCAGCTCCACT
46188630 ACAACCGAGGGAGGCAAGGTTTGT
65 ACAACCGAGGGAGGCAAGGTTTGT
* * *
46188654 GTCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCCACCAGCTCCACTA
1 GTCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
*
46188719 CAATCGAGGGAGGCAAGGTTTGT
66 CAACCGAGGGAGGCAAGGTTTGT
46188742 TCGATCTTCA
Statistics
Matches: 414, Mismatches: 24, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
87 3 0.01
88 408 0.99
89 3 0.01
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (88 bp):
GTCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
CAACCGAGGGAGGCAAGGTTTGT
Found at i:46196661 original size:52 final size:52
Alignment explanation
Indices: 46196591--46196761 Score: 245
Period size: 54 Copynumber: 3.2 Consensus size: 52
46196581 TTTCCTACTC
46196591 TTCTATTTTTTT-CTTCTCCTTCTCCTCTCGTACCTATTCTGCTTCTCTTTTT
1 TTCT-TTTTTTTCCTTCTCCTTCTCCTCTCGTACCTATTCTGCTTCTCTTTTT
* *
46196643 TTCTTTTTTTTCCTTCTCCTTTTCCTCTCGTACCTATTCTTCTTCTCTCTTTTT
1 TTCTTTTTTTTCCTTCTCCTTCTCCTCTCGTACCTATTCTGC-T-TCTCTTTTT
* * *
46196697 TTCTTTTTTTCCCTTCTCCTTCTCCTCTCATACCTATTATGCTTCTCTTTTTT
1 TTCTTTTTTTTCCTTCTCCTTCTCCTCTCGTACCTATTCTGCTTCTC-TTTTT
46196750 TTCTTTCTTTTT
1 TTCTTT-TTTTT
46196762 TCCCTTCCTT
Statistics
Matches: 106, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
51 7 0.07
52 36 0.34
53 13 0.12
54 50 0.47
ACGTcount: A:0.05, C:0.30, G:0.02, T:0.62
Consensus pattern (52 bp):
TTCTTTTTTTTCCTTCTCCTTCTCCTCTCGTACCTATTCTGCTTCTCTTTTT
Found at i:46196804 original size:5 final size:5
Alignment explanation
Indices: 46196761--46196794 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
46196751 TCTTTCTTTT
46196761 TTCCC TT-CC TTCCC TTCCC TTCCC TTCCC TTCCC
1 TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC
46196795 GTTCTCTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (5 bp):
TTCCC
Found at i:46198271 original size:43 final size:43
Alignment explanation
Indices: 46198148--46198300 Score: 114
Period size: 43 Copynumber: 3.5 Consensus size: 43
46198138 CATTAGAATT
* * *
46198148 TCGTATATGATTTACGTATAAGATCATAT-TCGGGACGTTGGCA
1 TCGTATATGATTTACGTGTAAGATCCTATCT-GGGACATTGGCA
* * ** * * * *
46198191 TCAATTTAAAATTTACGCGTAATA-CCTTGTCTAGGACATTGGCA
1 TC-GTATATGATTTACGTGTAAGATCC-TATCTGGGACATTGGCA
* *
46198235 TCGTATATGATTTACGTGTAAGATCCTATCTGGGACAGTAGCA
1 TCGTATATGATTTACGTGTAAGATCCTATCTGGGACATTGGCA
* *
46198278 TCGATATTTGA-TTACATGTAAGA
1 TCG-TATATGATTTACGTGTAAGA
46198301 CCACGTCTCG
Statistics
Matches: 82, Mismatches: 23, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
43 45 0.55
44 36 0.44
45 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (43 bp):
TCGTATATGATTTACGTGTAAGATCCTATCTGGGACATTGGCA
Found at i:46199797 original size:23 final size:23
Alignment explanation
Indices: 46199751--46200042 Score: 264
Period size: 23 Copynumber: 12.6 Consensus size: 23
46199741 ATTTGGTGTA
* *
46199751 TATATATGTTGCCCAATTTAGTG
1 TATATATGCTGTCCAATTTAGTG
*
46199774 TATGA-ATGCTGTCCAATTTGGTG
1 TAT-ATATGCTGTCCAATTTAGTG
*
46199797 TATATATGCTGT-CAATTTTTGGTG
1 TATATATGCTGTCCAA--TTTAGTG
* * *
46199821 TATAAATGCTGTCCAAATTAGTA
1 TATATATGCTGTCCAATTTAGTG
* * *
46199844 TATATATGTTGCCCAATTTAGCG
1 TATATATGCTGTCCAATTTAGTG
*
46199867 TATAAATGCTGTCCAATTTAGTG
1 TATATATGCTGTCCAATTTAGTG
*
46199890 TATATATGCTGTCAAATTTAGTG
1 TATATATGCTGTCCAATTTAGTG
* * * * * *
46199913 TATAAATACTGTTCAAATTGGTA
1 TATATATGCTGTCCAATTTAGTG
*
46199936 TATATATGCTGCCCAATTTAGTG
1 TATATATGCTGTCCAATTTAGTG
* * *
46199959 TATAAATGCTGTCCAAATTGGTG
1 TATATATGCTGTCCAATTTAGTG
* * *
46199982 TATATATGCTGTCAAATTTTGGTC
1 TATATATGCTGTCCAA-TTTAGTG
* * *
46200006 TATATAAGCTGTTCAATTTTAGAG
1 TATATATGCTGTCCAA-TTTAGTG
*
46200030 TATAAATGCTGTC
1 TATATATGCTGTC
46200043 TGATTTGATG
Statistics
Matches: 213, Mismatches: 50, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
22 4 0.02
23 154 0.72
24 52 0.24
25 3 0.01
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (23 bp):
TATATATGCTGTCCAATTTAGTG
Done.