Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 42 of 427
Found at i:10316533 original size:35 final size:35
Alignment explanation
Indices: 10316483--10316551 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
10316473 TAAATATTCA
*
10316483 ATGATAATGAGTTAGGTAAATGTTCCATGATAATC
1 ATGATAATGAGTTAGGTAAATATTCCATGATAATC
10316518 ATGATAATG-GATTAGGTAAATATTCCATGATAAT
1 ATGATAATGAG-TTAGGTAAATATTCCATGATAAT
10316552 GGGTTAGGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 1 0.03
35 31 0.97
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.35
Consensus pattern (35 bp):
ATGATAATGAGTTAGGTAAATATTCCATGATAATC
Found at i:10316546 original size:26 final size:26
Alignment explanation
Indices: 10316517--10316576 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
10316507 CCATGATAAT
10316517 CATGATAATGGATTAGGTAAATATTC
1 CATGATAATGGATTAGGTAAATATTC
* * *
10316543 CATGATAATGGGTTAGGTAAATGTTT
1 CATGATAATGGATTAGGTAAATATTC
10316569 CATGATAA
1 CATGATAA
10316577 GAATATCATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.35
Consensus pattern (26 bp):
CATGATAATGGATTAGGTAAATATTC
Found at i:10318100 original size:25 final size:26
Alignment explanation
Indices: 10318058--10318109 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
10318048 TTTACAGTTT
10318058 TACCCCTAGGAGATAATT-ACCGAAA
1 TACCCCTAGGAGATAATTGACCGAAA
* *
10318083 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGAT-AATTGACCGAAA
10318109 T
1 T
10318110 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 2 0.09
25 14 0.61
26 7 0.30
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGAGATAATTGACCGAAA
Found at i:10329689 original size:30 final size:28
Alignment explanation
Indices: 10329673--10329757 Score: 75
Period size: 29 Copynumber: 2.9 Consensus size: 28
10329663 ATTTTACATC
* *
10329673 ATTATTTATATATTATTATTATATTATAT
1 ATTATTTATATATTA-TATTATTTTACAT
*
10329702 GTT-TATTATATATTATATTATTTTTACAT
1 ATTAT-TTATATATTATATTA-TTTTACAT
10329731 ATATGATTT-TATATTATATTATATTTA
1 AT-T-ATTTATATATTATATTAT-TTTA
10329758 TTTTATATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
28 6 0.13
29 20 0.43
30 17 0.37
31 2 0.04
32 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.61
Consensus pattern (28 bp):
ATTATTTATATATTATATTATTTTACAT
Found at i:10329699 original size:5 final size:5
Alignment explanation
Indices: 10329681--10329770 Score: 60
Period size: 5 Copynumber: 17.6 Consensus size: 5
10329671 TCATTATTTA
* * *
10329681 TATAT TATTAT TATAT TATAT GTTTATT ATATAT TATAT TAT-T TTTACA
1 TATAT TA-TAT TATAT TATAT -TATA-T -TATAT TATAT TATAT TATA-T
* * *
10329730 TATAT GATTT TATAT TATAT TATAT T-TAT TTTA- TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
10329771 TAAGTCATTT
Statistics
Matches: 66, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
4 10 0.15
5 40 0.61
6 12 0.18
7 4 0.06
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:10330113 original size:16 final size:17
Alignment explanation
Indices: 10330081--10330113 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10330071 TATAAATACA
10330081 ATTTTAATATATATTAT
1 ATTTTAATATATATTAT
*
10330098 ATTTTAA-ATTTATTAT
1 ATTTTAATATATATTAT
10330114 TAAATATCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTAATATATATTAT
Found at i:10330174 original size:19 final size:19
Alignment explanation
Indices: 10330138--10330176 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10330128 TTATTATTTG
10330138 TTTATATTATACATATATT
1 TTTATATTATACATATATT
*
10330157 TTTATTATTGTACA-ATATT
1 TTTA-TATTATACATATATT
10330176 T
1 T
10330177 ATTTTTACTT
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:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTATATTATACATATATT
Found at i:10332938 original size:26 final size:26
Alignment explanation
Indices: 10332900--10332957 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
10332890 CATGAAATTC
10332900 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
10332926 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
10332952 TTATCA
1 TTATCA
10332958 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:10337278 original size:25 final size:27
Alignment explanation
Indices: 10337241--10337293 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
10337231 TCAAACATGC
10337241 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
10337267 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
10337293 A
1 A
10337294 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:10338813 original size:26 final size:26
Alignment explanation
Indices: 10338775--10338858 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
10338765 CATGAAATTC
* *
10338775 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
10338801 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
10338827 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
10338853 TTATCA
1 TTATCA
10338859 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:10340662 original size:13 final size:13
Alignment explanation
Indices: 10340644--10340675 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10340634 TTTAACAACA
10340644 GTTAAAGTTAATG
1 GTTAAAGTTAATG
*
10340657 GTTAAATTTAATG
1 GTTAAAGTTAATG
10340670 GTTAAA
1 GTTAAA
10340676 AATAAGATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (13 bp):
GTTAAAGTTAATG
Found at i:10342125 original size:5 final size:5
Alignment explanation
Indices: 10342115--10342144 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
10342105 TTATGTGATA
10342115 AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT
10342145 GGCGTCTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:10344083 original size:3 final size:3
Alignment explanation
Indices: 10344077--10344103 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10344067 TCTTCTTCTT
10344077 CTG CTG CTG CTG CTG CTG CTG CTG CTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG
10344104 ATATGATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (3 bp):
CTG
Found at i:10349174 original size:143 final size:142
Alignment explanation
Indices: 10348917--10349196 Score: 445
Period size: 143 Copynumber: 2.0 Consensus size: 142
10348907 ACGTTGAAGG
* *
10348917 TTGCTCAAGATTGGAGGCTTTCCCAGAAATCTTGGACATCATGGAGTGGTTGAGGGAACTTAATT
1 TTGCTCAAGATTAGAGACTTTCCCAGAAATCTTGGACATCATGGAGTGGTTGAGGGAACTTAATT
* *
10348982 TAAGCGGAACGGCTGTGAAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAGAAATTG
66 TAAGCGGAACCGCTGTGAAGGAATTACCATCATCAATTGACAATCTTATTGGTCTTGAGAAATTG
10349047 GTATTGAACAGA
131 GTATTGAACAGA
* * * *
10349059 TTGCTCGAGATTAGAGATTTTCCCAGAAATCTTGGACATCATGG-GTGAGGTTGAGGGATCTTGA
1 TTGCTCAAGATTAGAGACTTTCCCAGAAATCTTGGACATCATGGAGT--GGTTGAGGGAACTTAA
* *
10349123 TTTAAGCGGAACCGCTTTGAAGGAATTACCATCATCAATTGACAATTTTATTGGTCTTGAGAAAT
64 TTTAAGCGGAACCGCTGTGAAGGAATTACCATCATCAATTGACAATCTTATTGGTCTTGAGAAAT
10349188 TGGTATTGA
129 TGGTATTGA
10349197 GTAATTGTGA
Statistics
Matches: 126, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
141 2 0.02
142 40 0.32
143 84 0.67
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (142 bp):
TTGCTCAAGATTAGAGACTTTCCCAGAAATCTTGGACATCATGGAGTGGTTGAGGGAACTTAATT
TAAGCGGAACCGCTGTGAAGGAATTACCATCATCAATTGACAATCTTATTGGTCTTGAGAAATTG
GTATTGAACAGA
Found at i:10349404 original size:356 final size:355
Alignment explanation
Indices: 10348704--10349412 Score: 1141
Period size: 356 Copynumber: 2.0 Consensus size: 355
10348694 ATGCTGAAGG
* *
10348704 TTGCTCAAGATTGGAGGCTTTCCCAGAAATCTTGGACACCATGGAGTGGTTGAGGGAACTTAATT
1 TTGCTCAAGATTAGAGACTTTCCCAGAAATCTTGGACACCATGGAGTGGTTGAGGGAACTTAATT
*
10348769 TAAGCAAAACGGCTTTGAAGGAATTACCATCATCAATTGACAATCTTATTGGTCTTGAGAAATTG
66 TAAGCAAAACCGCTTTGAAGGAATTACCATCATCAATTGACAATCTTATTGGTCTTGAGAAATTG
*
10348834 GTATTGAACAACTGTGAAAACCTTGTTTACCTTCCTACCAGCCTTTATAAATTGAAATCTCTTGA
131 GTATTGAACAACTGTGAAAACCTTGTTTACCTTCCTACCAACCTTTATAAATTGAAATCTCTTGA
* * * *
10348899 AAAATTCGACGTTGAAGGTTGCTCAAGATTGGAGGCTTTCCCAGAAATCTTGGACATCATGGAGT
196 AAAATTCGAAGTTAAAGGTTGCTCAAGATTGGAGGCTTTACCAGAAATCTTGGACATCATGGAGC
* * *
10348964 GGTTGAGGGAACTTAATTTAAGCGGAACGGCTGTGAAGGAATTACCATCCTCAATTGACAATCTT
261 AGTTGAGGGAACTTAATTTAAACGGAACGGATGTGAAGGAATTACCATCCTCAATTGACAATCTT
*
10349029 ATTGGTCTTGAGAAATTGGTATTGAACAGA
326 ATTGGTCTTGAAAAATTGGTATTGAACAGA
* * * * *
10349059 TTGCTCGAGATTAGAGATTTTCCCAGAAATCTTGGACATCATGG-GTGAGGTTGAGGGATCTTGA
1 TTGCTCAAGATTAGAGACTTTCCCAGAAATCTTGGACACCATGGAGT--GGTTGAGGGAACTTAA
** *
10349123 TTTAAGCGGAACCGCTTTGAAGGAATTACCATCATCAATTGACAATTTTATTGGTCTTGAGAAAT
64 TTTAAGCAAAACCGCTTTGAAGGAATTACCATCATCAATTGACAATCTTATTGGTCTTGAGAAAT
** * * *
10349188 TGGTATTGAGTAATTGTGAAAACCTTGTTTGCCTTCCTACCAACTTTTATAAATTGAAATCTCTT
129 TGGTATTGAACAACTGTGAAAACCTTGTTTACCTTCCTACCAACCTTTATAAATTGAAATCTCTT
* *
10349253 GAAAATTTGGAAGTTAAAGGTTGCTCAAGATTGGAGGCTTTACCAGAAATCTTGGACATCATGGA
194 GAAAAATTCGAAGTTAAAGGTTGCTCAAGATTGGAGGCTTTACCAGAAATCTTGGACATCATGGA
*
10349318 GCAGTTGAGGGAACTTAATTTAAACGGAACGGATGTGAAGGAATTACCATCTTCAATTGACAATC
259 GCAGTTGAGGGAACTTAATTTAAACGGAACGGATGTGAAGGAATTACCATCCTCAATTGACAATC
10349383 TTATTGGTCTTGAAAAATTGGTATTGAACA
324 TTATTGGTCTTGAAAAATTGGTATTGAACA
10349413 ACTGTGAAAA
Statistics
Matches: 324, Mismatches: 28, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
354 2 0.01
355 39 0.12
356 283 0.87
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (355 bp):
TTGCTCAAGATTAGAGACTTTCCCAGAAATCTTGGACACCATGGAGTGGTTGAGGGAACTTAATT
TAAGCAAAACCGCTTTGAAGGAATTACCATCATCAATTGACAATCTTATTGGTCTTGAGAAATTG
GTATTGAACAACTGTGAAAACCTTGTTTACCTTCCTACCAACCTTTATAAATTGAAATCTCTTGA
AAAATTCGAAGTTAAAGGTTGCTCAAGATTGGAGGCTTTACCAGAAATCTTGGACATCATGGAGC
AGTTGAGGGAACTTAATTTAAACGGAACGGATGTGAAGGAATTACCATCCTCAATTGACAATCTT
ATTGGTCTTGAAAAATTGGTATTGAACAGA
Found at i:10351037 original size:109 final size:112
Alignment explanation
Indices: 10350914--10351124 Score: 247
Period size: 109 Copynumber: 1.9 Consensus size: 112
10350904 TCACTTTATC
* * ** * *
10350914 TTTTCTTTTCTTTTCT-TTTTTTGTATTCTATTTATTTTTTTA-AGAATATAAAAGTAT-GTTTT
1 TTTTCATTTCTTTTCTCTCTTTTAAATT-TATGTATTTTTTTATA-AA-AGAAAAGTATAGTTTT
* *
10350976 AAAATTTCTCGAAATTTT-TA-AAGTTTTCCAT-ATTTTTTCTCTGAAATT
63 AAAATTTCTAGAAATTTTATATAACTTTT-CATAATTTTTTCTCTGAAATT
* *
10351024 TTTTCATTT-TTTTCTCTCTTTTAAATTTATGTATTTTTTTATAAAAGAAAAGTATATTTTTTAA
1 TTTTCATTTCTTTTCTCTCTTTTAAATTTATGTATTTTTTTATAAAAGAAAAGTATAGTTTTAAA
10351088 ATTTCTAGAAATTTTATATAACTTTTCATAATTTTTT
66 ATTTCTAGAAATTTTATATAACTTTTCATAATTTTTT
10351125 ATTTGTTACC
Statistics
Matches: 85, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
108 9 0.11
109 41 0.48
110 22 0.26
111 13 0.15
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (112 bp):
TTTTCATTTCTTTTCTCTCTTTTAAATTTATGTATTTTTTTATAAAAGAAAAGTATAGTTTTAAA
ATTTCTAGAAATTTTATATAACTTTTCATAATTTTTTCTCTGAAATT
Found at i:10351291 original size:17 final size:16
Alignment explanation
Indices: 10351254--10351315 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 16
10351244 ATACTTTTGT
*
10351254 ATTTTTTCTTTTTTGTGA
1 ATTTTTTCTATTTT-T-A
10351272 ATTTTTTGCTATTTTTA
1 ATTTTTT-CTATTTTTA
* *
10351289 ATTTTTTCTTTTTTTT
1 ATTTTTTCTATTTTTA
10351305 ATTTATTTCTA
1 ATTT-TTTCTA
10351316 GAAAATATGA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
16 11 0.29
17 13 0.34
18 8 0.21
19 6 0.16
ACGTcount: A:0.15, C:0.06, G:0.05, T:0.74
Consensus pattern (16 bp):
ATTTTTTCTATTTTTA
Found at i:10353330 original size:2 final size:2
Alignment explanation
Indices: 10353285--10353318 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10353275 TTTTAATACC
10353285 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10353319 TCTTTTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10353567 original size:3 final size:3
Alignment explanation
Indices: 10353559--10353619 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
10353549 ATCTATATAG
10353559 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10353607 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
10353620 CCTAATATAC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10366047 original size:45 final size:43
Alignment explanation
Indices: 10365953--10366059 Score: 151
Period size: 45 Copynumber: 2.4 Consensus size: 43
10365943 AATGAGCTTC
* *
10365953 AACCCCCTAAGCAGTAGAGTAACAAGCCAAATTTACAGACCTT
1 AACCCCCTAAGCAGTAGGGTAACAAACCAAATTTACAGACCTT
* * *
10365996 AACCCCCTAAGTAGTAGGGTAACAAACTGAAGATTTACAGATCTT
1 AACCCCCTAAGCAGTAGGGTAACAAAC-CAA-ATTTACAGACCTT
10366041 AACCCCCTAAGCAGTAGGG
1 AACCCCCTAAGCAGTAGGG
10366060 AAGCAGATCA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 24 0.43
44 2 0.04
45 30 0.54
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (43 bp):
AACCCCCTAAGCAGTAGGGTAACAAACCAAATTTACAGACCTT
Found at i:10366316 original size:177 final size:177
Alignment explanation
Indices: 10365954--10366408 Score: 447
Period size: 177 Copynumber: 2.6 Consensus size: 177
10365944 ATGAGCTTCA
*
10365954 ACCCCCTAAGCAGTAGAGTAACAAGCCAAATTTACAGACCTTAACCCCCTAAGTAGTAGGGTAAC
1 ACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGACCTTAACCCCCTAAGTAGTAGGGTAAC
* * *
10366019 AAACTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAGCAGATCAGAAGACAGCGAATC
66 AAACTGAAGAATTACAGATCTTAACCCCCTAAGCAGCAGGGAAGCAAATCAGAAGACAGCGAATC
* *
10366084 TTGCCCTCCTAAAGTTGCAGCGAAGCAGATTCAAACTACCAAATTTT
131 TTGCCCTCCTAAAGTTACAGCGAAGCAGATTCAAACTACCAAATCTT
* *
10366131 AACCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGACCTTAACCCCCTAAGTAGTAGGGTAAT
1 ACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGACCTTAACCCCCTAAGTAGTAGGGTAAC
** * ** * ** * **
10366196 AGGCTGAA-AATTACAGATTTTGTCTCCCTGAAGTTGCAGTGGAA-CAAAT-TGAATCCAGCGAA
66 AAACTGAAGAATTACAGATCTTAACCCCCT-AAGCAGCAG-GGAAGCAAATCAGAAGACAGCGAA
* * * * * * *
10366258 TCTTGTCTTCCTGAAGTTACAGTGAAGCAGATTGAAGATTTA-CAGATCTT
129 TCTTGCCCTCCTAAAGTTACAGCGAAGCAGATTCAA-A-CTACCAAATCTT
* * * ** * * *
10366308 ACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTAAC-GAGCTTTAACCCTCCTAAGCAGTAGGGT
1 ACCCCCTAAGCAGTAGGGTAACA-AGCCAAATTTACAGA-CCTTAACCC-CCTAAGTAGTAGGGT
* * * * *
10366372 AACAAGCCG-A-ATTTACAGATCTTATCACCCTAAGCAG
63 AACAAACTGAAGAATTACAGATCTTAACCCCCTAAGCAG
10366409 TAAGGAAACA
Statistics
Matches: 227, Mismatches: 44, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
176 56 0.25
177 112 0.49
178 39 0.17
179 20 0.09
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (177 bp):
ACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGACCTTAACCCCCTAAGTAGTAGGGTAAC
AAACTGAAGAATTACAGATCTTAACCCCCTAAGCAGCAGGGAAGCAAATCAGAAGACAGCGAATC
TTGCCCTCCTAAAGTTACAGCGAAGCAGATTCAAACTACCAAATCTT
Found at i:10366443 original size:88 final size:85
Alignment explanation
Indices: 10366295--10366459 Score: 224
Period size: 88 Copynumber: 1.9 Consensus size: 85
10366285 CAGATTGAAG
* * * * *
10366295 ATTTACAGATCTTACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTAACGAGCTTTAACCCTCCT
1 ATTTACAGATCTTACACCCTAAGCAGTAAGGAAACAGATCGAAAGAAACGAGCCTTAA-CC-CCT
10366360 AAGCAGTAGGGTAACAAGCCGA
64 AAGCAGTAGGGTAACAAGCCGA
* *
10366382 ATTTACAGATCTTATCACCCTAAGCAGTAAGGAAACAGATC-AAAGAAGATGGGCCTTAACCCCT
1 ATTTACAGATCTTA-CACCCTAAGCAGTAAGGAAACAGATCGAAAGAA-ACGAGCCTTAACCCCT
10366446 AAGCAGTAGGGTAA
64 AAGCAGTAGGGTAA
10366460 TAGGCTGAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
86 17 0.25
87 20 0.29
88 32 0.46
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.20
Consensus pattern (85 bp):
ATTTACAGATCTTACACCCTAAGCAGTAAGGAAACAGATCGAAAGAAACGAGCCTTAACCCCTAA
GCAGTAGGGTAACAAGCCGA
Found at i:10366726 original size:88 final size:87
Alignment explanation
Indices: 10366562--10366766 Score: 286
Period size: 88 Copynumber: 2.3 Consensus size: 87
10366552 TTCAAACCAC
* *
10366562 CAAGCTTTAACCCCCTAAGCAGTAGGGTAACAGACTAAATTTACAGATCTTAACCCCCTAAGCAG
1 CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGACTAAATTTACAGATCTTAAACCCCTAAGCAG
*
10366627 TAGGGAAACAGATCAAAGGCGA
66 TAGGGAAACAGATCAAAGACGA
** * * * *
10366649 TGAGCCTTAAACCCCTAAGCAGTAGGGTAACA-AGCTGATTTTACAAGATTTTAAACCCCTAAGC
1 CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGA-CTAAATTTAC-AGATCTTAAACCCCTAAGC
* *
10366713 AGTAGGGAAACAGATCAATGATGA
64 AGTAGGGAAACAGATCAAAGACGA
10366737 CAAGCCTTAACCCCCTAAGCAGTAGGGTAA
1 CAAGCCTTAACCCCCTAAGCAGTAGGGTAA
10366767 TAGGTTGAAA
Statistics
Matches: 102, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
86 1 0.01
87 36 0.35
88 65 0.64
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (87 bp):
CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGACTAAATTTACAGATCTTAAACCCCTAAGCAG
TAGGGAAACAGATCAAAGACGA
Found at i:10366752 original size:44 final size:44
Alignment explanation
Indices: 10366562--10366763 Score: 164
Period size: 44 Copynumber: 4.6 Consensus size: 44
10366552 TTCAAACCAC
* * * *
10366562 CAAGCTTTAACCCCCTAAGCAGTAGGGTAACAGACTAAAT--TTA
1 CAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGA-TCAATGATGA
* * **
10366605 C-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGCGA
1 CAAG-CCTTAACCCCCTAAGCAGTAGGGAAACAGATCAATGATGA
** * * * *
10366649 TGAGCCTTAAACCCCTAAGCAGTAGGGTAACA-AGC--TGATTTTA
1 CAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGATCAATGA--TGA
** *
10366692 CAAGATTTTAAACCCCTAAGCAGTAGGGAAACAGATCAATGATGA
1 CAAG-CCTTAACCCCCTAAGCAGTAGGGAAACAGATCAATGATGA
10366737 CAAGCCTTAACCCCCTAAGCAGTAGGG
1 CAAGCCTTAACCCCCTAAGCAGTAGGG
10366764 TAATAGGTTG
Statistics
Matches: 123, Mismatches: 26, Indels: 19
0.73 0.15 0.11
Matches are distributed among these distances:
41 1 0.01
42 5 0.04
43 33 0.27
44 71 0.58
45 10 0.08
47 3 0.02
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (44 bp):
CAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGATCAATGATGA
Found at i:10367596 original size:20 final size:20
Alignment explanation
Indices: 10367561--10367598 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10367551 TATACATATA
* *
10367561 AATAAAAAACATAAAAAAAT
1 AATAAAAAAAAGAAAAAAAT
10367581 AATAAAAAAAAGAAAAAA
1 AATAAAAAAAAGAAAAAA
10367599 TTACCCCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.84, C:0.03, G:0.03, T:0.11
Consensus pattern (20 bp):
AATAAAAAAAAGAAAAAAAT
Found at i:10368500 original size:2 final size:2
Alignment explanation
Indices: 10368453--10368488 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10368443 TTTTAATACC
10368453 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10368489 TCTTTTATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10368737 original size:3 final size:3
Alignment explanation
Indices: 10368729--10368774 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
10368719 ATCTATATAG
10368729 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10368775 CCTAATGTAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10370909 original size:21 final size:22
Alignment explanation
Indices: 10370879--10370928 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
10370869 ATTCTATTGT
* *
10370879 TTTTGTTGCTATTTTTCCA-TG
1 TTTTGCTGCTATTTTCCCACTG
10370900 TTTTGCTGCTATTTTCCCACTG
1 TTTTGCTGCTATTTTCCCACTG
10370922 TTTTGCT
1 TTTTGCT
10370929 ACCATTTCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.08, C:0.20, G:0.14, T:0.58
Consensus pattern (22 bp):
TTTTGCTGCTATTTTCCCACTG
Found at i:10370935 original size:22 final size:21
Alignment explanation
Indices: 10370889--10370935 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
10370879 TTTTGTTGCT
* * *
10370889 ATTTTTCCATGTTTTGCTGCT
1 ATTTTCCCATGTTTTGCTACC
10370910 ATTTTCCCACTGTTTTGCTACC
1 ATTTTCCCA-TGTTTTGCTACC
10370932 ATTT
1 ATTT
10370936 CACAATTATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.13, C:0.23, G:0.11, T:0.53
Consensus pattern (21 bp):
ATTTTCCCATGTTTTGCTACC
Found at i:10373407 original size:2 final size:2
Alignment explanation
Indices: 10373400--10373430 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10373390 GCTATGCCAT
10373400 TA TA TA 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
10373431 TAATCGTGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10383305 original size:12 final size:11
Alignment explanation
Indices: 10383275--10383339 Score: 62
Period size: 12 Copynumber: 5.8 Consensus size: 11
10383265 TTTACAAATA
*
10383275 AAATATAT-AC
1 AAATATATAAT
10383285 AAATCATATAAT
1 AAAT-ATATAAT
10383297 AAATAATATAA-
1 AAAT-ATATAAT
10383308 AAATATATAAT
1 AAATATATAAT
*
10383319 AAAATCTATAAT
1 -AAATATATAAT
*
10383331 ATATATATA
1 AAATATATA
10383340 TATATAAAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
10 10 0.22
11 15 0.33
12 21 0.46
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.34
Consensus pattern (11 bp):
AAATATATAAT
Found at i:10383323 original size:23 final size:23
Alignment explanation
Indices: 10383271--10383329 Score: 77
Period size: 22 Copynumber: 2.6 Consensus size: 23
10383261 ATAATTTACA
*
10383271 AATAAAATATATACAAATCATAT
1 AATAAAATATATAAAAATCATAT
10383294 AAT-AAATAATATAAAAAT-ATAT
1 AATAAAAT-ATATAAAAATCATAT
*
10383316 AATAAAATCTATAA
1 AATAAAATATATAA
10383330 TATATATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 16 0.50
23 16 0.50
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (23 bp):
AATAAAATATATAAAAATCATAT
Found at i:10383493 original size:16 final size:15
Alignment explanation
Indices: 10383429--10383516 Score: 65
Period size: 16 Copynumber: 5.7 Consensus size: 15
10383419 AAATATGATA
*
10383429 AAAAATATAAAATAAT
1 AAAAATATATAAT-AT
*
10383445 AATAATA-ATAATAT
1 AAAAATATATAATAT
* * *
10383459 AATAAGTATTTTTATAT
1 AA-AAATA-TATAATAT
10383476 AAAAATATAGTAATAT
1 AAAAATATA-TAATAT
10383492 AAATAATATAT-A-AT
1 AAA-AATATATAATAT
10383506 AAAAATATATA
1 AAAAATATATA
10383517 CCATATAGTA
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
13 7 0.12
14 9 0.16
15 9 0.16
16 19 0.33
17 13 0.23
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (15 bp):
AAAAATATATAATAT
Found at i:10384051 original size:16 final size:16
Alignment explanation
Indices: 10384016--10384063 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
10384006 CTATTTTAAG
10384016 TTTATTTT-AATTTTA
1 TTTATTTTAAATTTTA
10384031 TTTATTTTAAATTATTA
1 TTTATTTTAAATT-TTA
*
10384048 -TTATTTTAGATTTTA
1 TTTATTTTAAATTTTA
10384063 T
1 T
10384064 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 11 0.38
16 15 0.52
17 3 0.10
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TTTATTTTAAATTTTA
Found at i:10384970 original size:17 final size:19
Alignment explanation
Indices: 10384939--10384976 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
10384929 TTCCTTTAAA
10384939 TTATTTCACTATTTA-TTT
1 TTATTTCACTATTTACTTT
*
10384957 TTATTTCA-TCTTTACTTT
1 TTATTTCACTATTTACTTT
10384975 TT
1 TT
10384977 GCTTTTTACG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTCACTATTTACTTT
Found at i:10386251 original size:6 final size:7
Alignment explanation
Indices: 10386230--10386254 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10386220 TGTTTAAATA
10386230 TTTATTT
1 TTTATTT
10386237 TTTATTT
1 TTTATTT
10386244 TTTATTT
1 TTTATTT
10386251 TTTA
1 TTTA
10386255 AGGCTCGGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:10386642 original size:39 final size:39
Alignment explanation
Indices: 10386598--10386682 Score: 102
Period size: 39 Copynumber: 2.2 Consensus size: 39
10386588 TTATTTTCTT
*
10386598 ATAATTTCTATACTTTTTT-AATAATTT-AATTTTTTAAAA
1 ATAATTTCTATA-TTTTTTGAAT-ATTTAAAATTTTTAAAA
* *
10386637 ATAATTTTTATATTTTTTGAATTTTTAAAATTTTTAAAA
1 ATAATTTCTATATTTTTTGAATATTTAAAATTTTTAAAA
10386676 AGTAATT
1 A-TAATT
10386683 ATTAATGTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
38 9 0.22
39 26 0.65
40 5 0.12
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (39 bp):
ATAATTTCTATATTTTTTGAATATTTAAAATTTTTAAAA
Found at i:10392619 original size:213 final size:212
Alignment explanation
Indices: 10392274--10393321 Score: 1275
Period size: 213 Copynumber: 4.9 Consensus size: 212
10392264 TCAAGTATTC
* * * * * * *
10392274 ATAAACTGAAATCTCTCG-AGTATTTCGATCTTCAAGGTTGCTCCAGATTGGAGATTTTCCCTGA
1 ATAAATTGAAATCTCTTGAAATA-TTCAATCTT-AAAGTTGCTCAAGATTGGAGATTTTCCCAGA
* * **** * **
10392338 AATCATGGACACTATGGAGAGGTTG-AGGGTTCTTGATTTAAGTGGAACGGCTTTGAAGGGCTTA
64 AATCATGGACACCATGGAGAGGATGTA-TAAACTTGATTTAAGCGGAACGGCTTTGAAGGAATTA
* * * * *
10392402 CCATCCTCAATTGATAATCTTATTGGTCTTGAGGATTTGAGATTGAACTACTGTGAAGATCTTGT
128 CCATCCTCAATTGACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGT
*
10392467 TTGCCTTCCTAAAAGCTTTT
193 TTGCCTTCCTAACAGCTTTT
* * *
10392487 ATAAATTGGAATCTCTTGAAA-ATTTCAATCTTGGAAA-TTGCTCAATATTGGAGACTTTCCCAG
1 ATAAATTGAAATCTCTTGAAATA-TTCAATCTT--AAAGTTGCTCAAGATTGGAGATTTTCCCAG
* * *
10392550 AAATCTTGGACGCCATGGAG-GAGATGTATAAACTTGATTTAAGCGGAACGGCTTTGAAAGAATT
63 AAATCATGGACACCATGGAGAG-GATGTATAAACTTGATTTAAGCGGAACGGCTTTGAAGGAATT
* * *
10392614 ACCATCCTCAATTGCCAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTCAAAACCTTA
127 ACCATCCTCAATTGACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTG
*
10392679 TTTGCCTTCCTAATAGCTTTT
192 TTTGCCTTCCTAACAGCTTTT
** *
10392700 ATAAATTGAAATCTCTTGAGTTATTCAATCTTGAAGGTTGCTCAAGATTGGAGATTTTCCCAGAA
1 ATAAATTGAAATCTCTTGAAATATTCAATCTT-AAAGTTGCTCAAGATTGGAGATTTTCCCAGAA
* *
10392765 ATCATGGACACCATGGAGAGGCTGTATGAAA-TTGATTTAAGCGGGACGGCTTTGAAGGAATTAC
65 ATCATGGACACCATGGAGAGGATGTAT-AAACTTGATTTAAGCGGAACGGCTTTGAAGGAATTAC
* ** * *
10392829 CATCCTCAATTGCCAATCTTATTGGTCTTAAATATTTGGGATTGAACAACTGTGAAAATCTTGTT
129 CATCCTCAATTGACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTT
* *
10392894 TGCCTTCCTGACAGTTTTT
194 TGCCTTCCTAACAGCTTTT
* * * *
10392913 ATAAATTGAAATCTCTTGAGATATTCAATGTTAAAGGTTGCTCGAGATTGGAGATTTTCCCTGAA
1 ATAAATTGAAATCTCTTGAAATATTCAATCTTAAA-GTTGCTCAAGATTGGAGATTTTCCCAGAA
* * * * * *
10392978 ATTATGGACACCATGGAAAGGTTGTATGAACTTGATTTAAGTGGAACAGCTTTGAAGGAATTACC
65 ATCATGGACACCATGGAGAGGATGTATAAACTTGATTTAAGCGGAACGGCTTTGAAGGAATTACC
* * * *
10393043 ATCCTCAATTGGCAATCTTATTAGTCTTAAGGATTTCAGATTGAACAACTGTGAAAACCTTATTT
130 ATCCTCAATTGACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTTT
** *
10393108 ATCTTCCTAACAGTTTTT
195 GCCTTCCTAACAGCTTTT
* * *
10393126 ATAAATTGCAATCTCTTGAGAA-ATTCAATCTTAAAGGTTGCTCAAGATTGGAAATTTTTCCAGA
1 ATAAATTGAAATCTCTTGA-AATATTCAATCTTAAA-GTTGCTCAAGATTGGAGATTTTCCCAGA
* * * * *
10393190 AATCATGGACACCATGGAG-GGATTGTATGAACTTGATTTAAGCAGAACAGTTTTAAAGGAATTA
64 AATCATGGACACCATGGAGAGGA-TGTATAAACTTGATTTAAGCGGAACGGCTTTGAAGGAATTA
* * *
10393254 CCATCCTCAATTGATAATTTTATTGGTCTTAAGGATTTGAGATTGAACGACTGTGAAAACCTTGT
128 CCATCCTCAATTGACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGT
10393319 TTG
193 TTG
10393322 TAGTAATTCA
Statistics
Matches: 726, Mismatches: 97, Indels: 24
0.86 0.11 0.03
Matches are distributed among these distances:
212 10 0.01
213 706 0.97
214 10 0.01
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (212 bp):
ATAAATTGAAATCTCTTGAAATATTCAATCTTAAAGTTGCTCAAGATTGGAGATTTTCCCAGAAA
TCATGGACACCATGGAGAGGATGTATAAACTTGATTTAAGCGGAACGGCTTTGAAGGAATTACCA
TCCTCAATTGACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTTTG
CCTTCCTAACAGCTTTT
Found at i:10392994 original size:426 final size:424
Alignment explanation
Indices: 10392274--10393321 Score: 1406
Period size: 426 Copynumber: 2.5 Consensus size: 424
10392264 TCAAGTATTC
* * * * * *
10392274 ATAAACTGAAATCTCTCGAGTATTTCGATCTTCAAGGTTGCTCCAGATTGGAGATTTTCCCTGAA
1 ATAAATTGAAATCTCTTGAGTA-TTCAATCTTAAAGGTTGCTCAAGATTGGAGATTTTCCCAGAA
* * ** * **
10392339 ATCATGGACACTATGGAGAGGTTG-AGGGTTCTTGATTTAAGTGGAACGGCTTTGAAGGGCTTAC
65 ATCATGGACACCATGGAGAGGTTGTA-TGAACTTGATTTAAGCGGAACGGCTTTGAAGGAATTAC
* * *
10392403 CATCCTCAATTGATAATCTTATTGGTCTTGAGGATTTGAGATTGAACTACTGTGAAGATCTTGTT
129 CATCCTCAATTGATAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAATCTTGTT
* *
10392468 TGCCTTCCTAAAAGCTTTTATAAATTGGAATCTCTTGAAAATTTCAATCTTGGAAATTGCTCAAT
194 TGCCTTCCTAAAAGCTTTTATAAATTGAAATCTCTTGAAAATTTCAATCTT-GAAATTGCTCAAG
* *
10392533 ATTGGAGACTTTCCCAGAAATCTTGGACGCCATGG-AGGAGATGTATAAACTTGATTTAAGCGGA
258 ATTGGAGACTTTCCCAGAAATCTTGGACACCATGGAAAG-GATGTATAAACTTGATTTAAGCGGA
* * *
10392597 ACGGCTTTGAAAGAATTACCATCCTCAATTGCCAATCTTATTGGTCTTAAGGATTTGAGATTGAA
322 ACAGCTTTGAAAGAATTACCATCCTCAATTGCCAATCTTATTAGTCTTAAGGATTTCAGATTGAA
* *
10392662 CAACTGTCAAAACCTTATTTGCCTTCCTAATAGCTTTT
387 CAACTGTCAAAACCTTATTTACCTTCCTAACAGCTTTT
*
10392700 ATAAATTGAAATCTCTTGAGTTATTCAATCTTGAAGGTTGCTCAAGATTGGAGATTTTCCCAGAA
1 ATAAATTGAAATCTCTTGAG-TATTCAATCTTAAAGGTTGCTCAAGATTGGAGATTTTCCCAGAA
* * *
10392765 ATCATGGACACCATGGAGAGGCTGTATGAAATTGATTTAAGCGGGACGGCTTTGAAGGAATTACC
65 ATCATGGACACCATGGAGAGGTTGTATGAACTTGATTTAAGCGGAACGGCTTTGAAGGAATTACC
** ** *
10392830 ATCCTCAATTGCCAATCTTATTGGTCTTAAATATTTGGGATTGAACAACTGTGAAAATCTTGTTT
130 ATCCTCAATTGATAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAATCTTGTTT
* * * * * *
10392895 GCCTTCCTGACAGTTTTTATAAATTGAAATCTCTTG-AGATATTCAATGTT-AAAGGTTGCTCGA
195 GCCTTCCTAAAAGCTTTTATAAATTGAAATCTCTTGAAAAT-TTCAATCTTGAAA--TTGCTCAA
* * * * *
10392958 GATTGGAGATTTTCCCTGAAAT-TATGGACACCATGGAAAGGTTGTATGAACTTGATTTAAGTGG
257 GATTGGAGACTTTCCCAGAAATCT-TGGACACCATGGAAAGGATGTATAAACTTGATTTAAGCGG
* *
10393022 AACAGCTTTGAAGGAATTACCATCCTCAATTGGCAATCTTATTAGTCTTAAGGATTTCAGATTGA
321 AACAGCTTTGAAAGAATTACCATCCTCAATTGCCAATCTTATTAGTCTTAAGGATTTCAGATTGA
* * *
10393087 ACAACTGTGAAAACCTTATTTATCTTCCTAACAGTTTTT
386 ACAACTGTCAAAACCTTATTTACCTTCCTAACAGCTTTT
* * * *
10393126 ATAAATTGCAATCTCTTGAGAAATTCAATCTTAAAGGTTGCTCAAGATTGGAAATTTTTCCAGAA
1 ATAAATTGAAATCTCTTGAG-TATTCAATCTTAAAGGTTGCTCAAGATTGGAGATTTTCCCAGAA
* * * *
10393191 ATCATGGACACCATGGAG-GGATTGTATGAACTTGATTTAAGCAGAACAGTTTTAAAGGAATTAC
65 ATCATGGACACCATGGAGAGG-TTGTATGAACTTGATTTAAGCGGAACGGCTTTGAAGGAATTAC
* * *
10393255 CATCCTCAATTGATAATTTTATTGGTCTTAAGGATTTGAGATTGAACGACTGTGAAAACCTTGTT
129 CATCCTCAATTGATAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAATCTTGTT
10393320 TG
194 TG
10393322 TAGTAATTCA
Statistics
Matches: 544, Mismatches: 70, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
424 3 0.01
425 6 0.01
426 530 0.97
427 5 0.01
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (424 bp):
ATAAATTGAAATCTCTTGAGTATTCAATCTTAAAGGTTGCTCAAGATTGGAGATTTTCCCAGAAA
TCATGGACACCATGGAGAGGTTGTATGAACTTGATTTAAGCGGAACGGCTTTGAAGGAATTACCA
TCCTCAATTGATAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAATCTTGTTTG
CCTTCCTAAAAGCTTTTATAAATTGAAATCTCTTGAAAATTTCAATCTTGAAATTGCTCAAGATT
GGAGACTTTCCCAGAAATCTTGGACACCATGGAAAGGATGTATAAACTTGATTTAAGCGGAACAG
CTTTGAAAGAATTACCATCCTCAATTGCCAATCTTATTAGTCTTAAGGATTTCAGATTGAACAAC
TGTCAAAACCTTATTTACCTTCCTAACAGCTTTT
Found at i:10395238 original size:18 final size:17
Alignment explanation
Indices: 10395212--10395245 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10395202 CAAGGTTTTT
*
10395212 TTTATAAATTATATAAAG
1 TTTAAAAATTAT-TAAAG
10395230 TTTAAAAATTATTAAA
1 TTTAAAAATTATTAAA
10395246 AATTTATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TTTAAAAATTATTAAAG
Found at i:10396196 original size:6 final size:6
Alignment explanation
Indices: 10396179--10396210 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
10396169 TGCCTTCTTC
10396179 TCCCCTT TCCCCT TCCCCT TCCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT T
10396211 GGGTTGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
TCCCCT
Found at i:10396257 original size:19 final size:17
Alignment explanation
Indices: 10396233--10396269 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
10396223 AAATCAGTGC
10396233 CATTCCTTCTTCCGTTCTT
1 CATTCCTTC-TCC-TTCTT
10396252 CATTCCTTCTCCTTCTT
1 CATTCCTTCTCCTTCTT
10396269 C
1 C
10396270 GGTTCCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.05, C:0.41, G:0.03, T:0.51
Consensus pattern (17 bp):
CATTCCTTCTCCTTCTT
Found at i:10396338 original size:25 final size:25
Alignment explanation
Indices: 10396310--10396357 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
10396300 GTAAGGCTCT
*
10396310 TTCTCCTTCTTCCGTTCTTCATTCC
1 TTCTCCTTCTTCCGTTATTCATTCC
10396335 TTCTCCTTCTTCCGTTATTCATT
1 TTCTCCTTCTTCCGTTATTCATT
10396358 TTCTCTTCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.06, C:0.35, G:0.04, T:0.54
Consensus pattern (25 bp):
TTCTCCTTCTTCCGTTATTCATTCC
Found at i:10401709 original size:14 final size:14
Alignment explanation
Indices: 10401690--10401716 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10401680 TTTTAAATTT
10401690 AAATCCTAATTCTA
1 AAATCCTAATTCTA
10401704 AAATCCTAATTCT
1 AAATCCTAATTCT
10401717 CAAGCGCTAC
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:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATCCTAATTCTA
Found at i:10408247 original size:23 final size:23
Alignment explanation
Indices: 10408221--10408269 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
10408211 CTTAATTGTA
10408221 GATAGGCTTTAATCTTGATC-ATC
1 GATAGGCTTTAATCTTG-TCTATC
*
10408244 GATAGGTTTTAATCTTGTCTATC
1 GATAGGCTTTAATCTTGTCTATC
10408267 GAT
1 GAT
10408270 GTAACTCAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.43
Consensus pattern (23 bp):
GATAGGCTTTAATCTTGTCTATC
Found at i:10415760 original size:1 final size:1
Alignment explanation
Indices: 10415754--10415789 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
10415744 CTTCTTCCTC
10415754 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10415790 GCATTTGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:10419790 original size:40 final size:39
Alignment explanation
Indices: 10419732--10419924 Score: 140
Period size: 40 Copynumber: 4.8 Consensus size: 39
10419722 GGATATAGCG
* * * *
10419732 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTG
1 ACTCGCACAATTGCCTTCGGGACATAGCCCGGTT-TAGTA
* *
10419772 ATTCGCACAATTGCCTTCGGGA-ATTAGCCCGGATTTAATA
1 ACTCGCACAATTGCCTTCGGGACA-TAGCCCGG-TTTAGTA
* * *
10419812 ACTCGCACGAA-TGCCTTCGGGACTTAACCCGGTTTTGGTA
1 ACTCGCAC-AATTGCCTTCGGGACATAGCCCGG-TTTAGTA
* * * *
10419852 ACTCGCACAAATGCCTTCGGGA-GTTGACCCGGATTTAGTC
1 ACTCGCACAATTGCCTTCGGGACATAG-CCCGG-TTTAGTA
* ** *
10419892 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACAATTGCCTTCGGGACATAGCCCGG
10419925 ACACCATTTG
Statistics
Matches: 123, Mismatches: 22, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
39 4 0.03
40 90 0.73
41 27 0.22
42 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
ACTCGCACAATTGCCTTCGGGACATAGCCCGGTTTAGTA
Found at i:10419844 original size:80 final size:80
Alignment explanation
Indices: 10419732--10419924 Score: 217
Period size: 80 Copynumber: 2.4 Consensus size: 80
10419722 GGATATAGCG
* * * * * * *
10419732 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
10419797 -AGCCCGGATTTAATA
66 GA-CCCGGATTTAATA
* * * *
10419812 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAGTT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
* *
10419877 GACCCGGATTTAGTC
66 GACCCGGATTTAATA
* * *
10419892 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACGAATGCCTTCGGGACTTAGCCCGG
10419925 ACACCATTTG
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
80 67 0.71
81 27 0.29
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
GACCCGGATTTAATA
Found at i:10419913 original size:41 final size:39
Alignment explanation
Indices: 10419774--10419925 Score: 160
Period size: 40 Copynumber: 3.8 Consensus size: 39
10419764 TTATAGTGAT
* *
10419774 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAATAAC
1 TCGCACAAATGCCTTCGGGAATTA-CCCGGATTTAGTAAC
* * * *
10419814 TCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* *
10419854 TCGCACAAATGCCTTCGGGAGTTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* * *
10419894 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGAATTA-CCCGGA
10419926 CACCATTTGA
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
40 67 0.71
41 27 0.29
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
TCGCACAAATGCCTTCGGGAATTACCCGGATTTAGTAAC
Found at i:10426435 original size:44 final size:45
Alignment explanation
Indices: 10426340--10426473 Score: 144
Period size: 44 Copynumber: 3.0 Consensus size: 45
10426330 ACAGGACAGA
* * *
10426340 ACAGAAATGAGCCATGTAAGCCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
10426386 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
10426430 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
10426474 CAGGATATTG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 36 0.49
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:10431630 original size:23 final size:23
Alignment explanation
Indices: 10431597--10431640 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
10431587 GGCTAATTTG
*
10431597 GTAGTGTTTTTGAA-AAGTGCTGT
1 GTAGTGCTTTT-AAGAAGTGCTGT
10431620 GTAGTGCTTTTAAGAAGTGCT
1 GTAGTGCTTTTAAGAAGTGCT
10431641 TTTGAAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.41
Consensus pattern (23 bp):
GTAGTGCTTTTAAGAAGTGCTGT
Found at i:10441663 original size:19 final size:19
Alignment explanation
Indices: 10441639--10441949 Score: 97
Period size: 19 Copynumber: 16.1 Consensus size: 19
10441629 AATCTAACCC
10441639 TATATATTTATTATTATTA
1 TATATATTTATTATTATTA
* *
10441658 TATATATATTTTATATTGTTA
1 TATATAT-TTAT-TATTATTA
* *
10441679 TTTGT-TTTATT-TT-TTA
1 TATATATTTATTATTATTA
10441695 -ACCT-TATTT-TTA-TATTA
1 TA--TATATTTATTATTATTA
10441712 TATATTATAATTATT-TTATTA
1 TATA-TAT--TTATTATTATTA
10441733 TATATTATTTA-TATTATTA
1 TATA-TATTTATTATTATTA
10441752 T-TATTATTTATTATATATTA
1 TATA-TATTTATTAT-TATTA
* ** *
10441772 T-T-T-TTCACAAATTGTTA
1 TATATATTTA-TTATTATTA
10441789 T-TAT-TTTACATTATTATT-
1 TATATATTT--ATTATTATTA
10441807 TATATA-TTATTATTA-TA
1 TATATATTTATTATTATTA
*
10441824 TTATATGTTTATTAATTATATA
1 -TATATATTTATT-ATTAT-TA
*
10441846 TATTATATATTATTTTTATATA
1 TA-TATAT-TTATTATTAT-TA
*
10441868 TATACTTTTATATTATATATTA
1 TATA-TATT-TATTAT-TATTA
10441890 TA-ATTATTT-TATATTATTA
1 TATA-TATTTAT-TATTATTA
* *
10441909 TGTCATTTTTA-TATTATTA
1 TAT-ATATTTATTATTATTA
* *
10441928 TACATTTTTATCTATATATTA
1 TATATATTTAT-TAT-TATTA
10441949 T
1 T
10441950 TATCATTAAA
Statistics
Matches: 226, Mismatches: 25, Indels: 80
0.68 0.08 0.24
Matches are distributed among these distances:
16 9 0.04
17 25 0.11
18 34 0.15
19 54 0.24
20 29 0.13
21 41 0.18
22 26 0.12
23 8 0.04
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (19 bp):
TATATATTTATTATTATTA
Found at i:10441733 original size:14 final size:15
Alignment explanation
Indices: 10441705--10441950 Score: 117
Period size: 16 Copynumber: 16.6 Consensus size: 15
10441695 ACCTTATTTT
*
10441705 TATATTA-TATATTA
1 TATATTATTTTATTA
10441719 TA-ATTATTTTATTA
1 TATATTATTTTATTA
10441733 TATATTATTTATATTA
1 TATATTATTT-TATTA
10441749 T-TATTATTATTTATTA
1 TATATTA-T-TTTATTA
*
10441765 TATATTATTTT-TCA
1 TATATTATTTTATTA
* * * *
10441779 CAAATTGTTATTATTT
1 TATATTATT-TTATTA
* *
10441795 TACATTATTAT-TTA
1 TATATTATTTTATTA
10441809 TATATTA--TTATTA
1 TATATTATTTTATTA
10441822 TAT-TATATGTTTA-T-
1 TATAT-TAT-TTTATTA
*
10441836 TA-ATTATATATATTA
1 TATATTAT-TTTATTA
10441851 TATATTATTTTTATATA
1 TATATTA-TTTTAT-TA
*
10441868 TATACTT-TTATATTA
1 TATA-TTATTTTATTA
* *
10441883 TATATTATAATTATTT
1 TATATTAT-TTTATTA
* * *
10441899 TATATTATTATGTCA
1 TATATTATTTTATTA
* *
10441914 T-TTTTATATTATTA
1 TATATTATTTTATTA
*
10441928 TACA-T-TTTTATCTA
1 TATATTATTTTAT-TA
10441942 TATATTATT
1 TATATTATT
10441951 ATCATTAAAG
Statistics
Matches: 171, Mismatches: 35, Indels: 50
0.67 0.14 0.20
Matches are distributed among these distances:
12 2 0.01
13 23 0.13
14 47 0.27
15 32 0.19
16 51 0.30
17 14 0.08
18 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (15 bp):
TATATTATTTTATTA
Found at i:10441741 original size:3 final size:3
Alignment explanation
Indices: 10441698--10441957 Score: 107
Period size: 3 Copynumber: 84.0 Consensus size: 3
10441688 TTTTTTAACC
* *
10441698 TTA TTT TTA -TA TTA TATA TTA TAA TTA TT- TTA TTA TATA TTA TT-
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* ** *
10441742 TATA TTA TTA TTA TTA TTTA TTA TATA TTA TTT TTCA CAAA TTG TTA
1 T-TA TTA TTA TTA TTA -TTA TTA T-TA TTA TTA TT-A -TTA TTA TTA
*
10441789 TTA TT- TTA -CA TTA TTA TTTA TATA TTA TTA TTA -TA TTA -TA TGT-
1 TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA T-TA
*
10441832 TTA TTAA TTA -TA TATA TTA TATA TTA TTT TTA TATA TATA CTT- TTA
1 TTA TT-A TTA TTA T-TA TTA T-TA TTA TTA TTA T-TA T-TA -TTA TTA
* *
10441878 -TA TTA TATA TTA TAA TTA TT- TTA -TA TTA TTA TGTCA TTT TTA -TA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA T-T-A TTA TTA TTA
* * *
10441922 TTA TTA TACA TTT TTA TCTA TATA TTA TTA TCA TTA
1 TTA TTA T-TA TTA TTA T-TA T-TA TTA TTA TTA TTA
10441958 AAGGTTTTAA
Statistics
Matches: 196, Mismatches: 27, Indels: 68
0.67 0.09 0.23
Matches are distributed among these distances:
2 25 0.13
3 118 0.60
4 50 0.26
5 3 0.02
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:10441744 original size:37 final size:36
Alignment explanation
Indices: 10441698--10441909 Score: 145
Period size: 32 Copynumber: 6.2 Consensus size: 36
10441688 TTTTTTAACC
10441698 TTATT-TTTATATTATATATTATAATTATTTTATTA
1 TTATTATTTATATTATATATTATAATTATTTTATTA
10441733 TATATTATTTATATTAT-TA-T-T-ATTA-TTTATTA
1 T-TATTATTTATATTATATATTATAATTATTTTATTA
* * * * * *
10441765 TATATTATTT-T-TCACAAATTGTTATTATTTTA-CA
1 T-TATTATTTATATTATATATTATAATTATTTTATTA
* *
10441799 TTATTATTTATA-TAT-TATTATTA-TATTATATGT-
1 TTATTATTTATATTATATATTATAATTATTTTAT-TA
*
10441832 TTATTA-AT-TA-TATATATTATATATTATTTTTATATA
1 TTATTATTTATATTATATATTATA-ATTA-TTTTAT-TA
*
10441868 TATACT-TTTATATTATATATTATAATTATTTTA-TA
1 T-TATTATTTATATTATATATTATAATTATTTTATTA
10441903 TTATTAT
1 TTATTAT
10441910 GTCATTTTTA
Statistics
Matches: 139, Mismatches: 17, Indels: 42
0.70 0.09 0.21
Matches are distributed among these distances:
30 2 0.01
31 7 0.05
32 31 0.22
33 26 0.19
34 14 0.10
35 16 0.12
36 7 0.05
37 19 0.14
38 6 0.04
39 11 0.08
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (36 bp):
TTATTATTTATATTATATATTATAATTATTTTATTA
Found at i:10441902 original size:74 final size:73
Alignment explanation
Indices: 10441725--10441945 Score: 181
Period size: 74 Copynumber: 3.0 Consensus size: 73
10441715 ATTATAATTA
* *
10441725 TTTTA-TTATATATTAT--TTATATTATTATTATTAT-TTA-TTATATATTATTTTTCACAAATT
1 TTTTATTTATATATTATAATTATATTA-TATTATTATGTAATTTATATATTA-TTAT-AC--ATT
* *
10441785 GTTAT-TATTTTAC
61 TTTATATA-TATAC
* *
10441798 ATTATTATTTATATATTATTATTATATTATATGT-TTAT-TAATTATATATATTA-TATATTATT
1 -TT-TTATTTATATATTATAATTATATTATAT-TATTATGTAATT-TATATATTATTATA-CATT
10441860 TTTATATATATAC
61 TTTATATATATAC
* * *
10441873 TTTTATATTATATATTATAATTATTTTATATTATTATGTCATTTTTATATTATTATACATTTTTA
1 TTTTAT-TTATATATTATAATTATATTATATTATTATGTAATTTATATATTATTATACATTTTTA
*
10441938 TCTATATA
65 TATATATA
10441946 TTATTATCAT
Statistics
Matches: 123, Mismatches: 11, Indels: 26
0.77 0.07 0.16
Matches are distributed among these distances:
73 5 0.04
74 52 0.42
75 22 0.18
76 14 0.11
77 11 0.09
78 10 0.08
79 9 0.07
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (73 bp):
TTTTATTTATATATTATAATTATATTATATTATTATGTAATTTATATATTATTATACATTTTTAT
ATATATAC
Found at i:10441908 original size:13 final size:13
Alignment explanation
Indices: 10441641--10441909 Score: 109
Period size: 13 Copynumber: 20.8 Consensus size: 13
10441631 TCTAACCCTA
10441641 TATATTTATTATTAT
1 TATA-TTATTATT-T
10441656 TATA-TATATATTT
1 TATATTAT-TATTT
*
10441669 TATATTGTTATTT
1 TATATTATTATTT
10441682 GT-T-TTATT-TTT
1 -TATATTATTATTT
10441693 TA-ACCTTA-T-TTT
1 TATA--TTATTATTT
*
10441705 TATATTA-TATAT
1 TATATTATTATTT
10441717 TATA--ATTATTT
1 TATATTATTATTT
10441728 TATTATATATTA-TT
1 TA-TAT-TATTATTT
10441742 TATATTATTATTAT
1 TATATTATTATT-T
10441756 TAT-TTATTA---
1 TATATTATTATTT
10441765 TATATTATT-TTT
1 TATATTATTATTT
* *
10441777 CACAAATTGTTATTATTT
1 ----TA-TATTATTATTT
*
10441795 TACATTATTA-TT
1 TATATTATTATTT
10441807 TATA-TATTATTAT
1 TATATTATTATT-T
10441820 TATATTA-TATGTT
1 TATATTATTAT-TT
*
10441833 TATTAATTATATATAT
1 TA-T-ATTAT-TATTT
10441849 TATA-TATTATTT
1 TATATTATTATTT
10441861 T-TATATATATACTTT
1 TATAT-TAT-TA-TTT
*
10441876 TATATTA-TATAT
1 TATATTATTATTT
10441888 TATA--ATTATTT
1 TATATTATTATTT
10441899 TATATTATTAT
1 TATATTATTAT
10441910 GTCATTTTTA
Statistics
Matches: 198, Mismatches: 14, Indels: 86
0.66 0.05 0.29
Matches are distributed among these distances:
9 3 0.02
10 8 0.04
11 28 0.14
12 40 0.20
13 58 0.29
14 23 0.12
15 19 0.10
16 7 0.04
17 9 0.05
18 3 0.02
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (13 bp):
TATATTATTATTT
Found at i:10442286 original size:26 final size:26
Alignment explanation
Indices: 10442238--10442287 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
10442228 TTATAAATAT
* * * *
10442238 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
10442264 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
10442288 TTATTATTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:10446033 original size:15 final size:15
Alignment explanation
Indices: 10445997--10446046 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
10445987 CGATATCTTT
10445997 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
10446011 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
*
10446027 TTT-CATCACAT-CA
1 TTTGCATCTCATGCA
10446040 TTTGCAT
1 TTTGCAT
10446047 TCAAAGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:10451323 original size:15 final size:16
Alignment explanation
Indices: 10451303--10451335 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
10451293 TATATATTTT
10451303 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
10451318 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
10451335 T
1 T
10451336 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:10451439 original size:20 final size:22
Alignment explanation
Indices: 10451385--10451440 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
10451375 TTAAGAATTA
* *
10451385 TTTTAGTAT-TATTTTTATTTG
1 TTTTAATATATATTTTTATGTG
*
10451406 TTTTAATATTTATTTTTATGT-
1 TTTTAATATATATTTTTATGTG
10451427 TTTTAA-ATATATTT
1 TTTTAATATATATTT
10451441 GATTTATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 14 0.45
22 10 0.32
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (22 bp):
TTTTAATATATATTTTTATGTG
Found at i:10451801 original size:40 final size:40
Alignment explanation
Indices: 10451741--10451967 Score: 328
Period size: 40 Copynumber: 5.7 Consensus size: 40
10451731 CAATTGAGGA
* *
10451741 TTATATCCGGGTTAAGTCCCAAAGGCATTCGTGTTGGTTG
1 TTATTTCCGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTG
*
10451781 CTATTTCCGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTG
*
10451821 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTG
* *
10451861 TTATTTCCGGGTTAAGCCCCAAAGGCATTCGTGCTGGTCG
1 TTATTTCCGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTG
* * *
10451901 CTATTTCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTG
** * * *
10451941 TTACATCCGGGCTAAATCCCGAAGGCA
1 TTATTTCCGGGTTAAGTCCCAAAGGCA
10451968 ATTGGGTTGG
Statistics
Matches: 169, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 169 1.00
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.32
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTG
Found at i:10451961 original size:120 final size:120
Alignment explanation
Indices: 10451741--10451967 Score: 364
Period size: 120 Copynumber: 1.9 Consensus size: 120
10451731 CAATTGAGGA
* * *
10451741 TTATATCCGGGTTAAGTCCCAAAGGCATTCGTGTTGGTTGCTATTTCCGGGTTAAGTCCCAAAGG
1 TTATATCCGGGTTAAGCCCCAAAGGCATTCGTGCTGGTCGCTATTTCCGGGTTAAGTCCCAAAGG
** * *
10451806 CATTCGTGCTGGTTGTTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
66 CATTCGTGCTGGTTGTTACATCCGGGCTAAATCCCGAAGGCATTCGTGCTGGTTG
* *
10451861 TTATTTCCGGGTTAAGCCCCAAAGGCATTCGTGCTGGTCGCTATTTCCGGGTTAAGTCCCGAAGG
1 TTATATCCGGGTTAAGCCCCAAAGGCATTCGTGCTGGTCGCTATTTCCGGGTTAAGTCCCAAAGG
*
10451926 CATTTGTGCTGGTTGTTACATCCGGGCTAAATCCCGAAGGCA
66 CATTCGTGCTGGTTGTTACATCCGGGCTAAATCCCGAAGGCA
10451968 ATTGGGTTGG
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
120 97 1.00
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.32
Consensus pattern (120 bp):
TTATATCCGGGTTAAGCCCCAAAGGCATTCGTGCTGGTCGCTATTTCCGGGTTAAGTCCCAAAGG
CATTCGTGCTGGTTGTTACATCCGGGCTAAATCCCGAAGGCATTCGTGCTGGTTG
Found at i:10460131 original size:58 final size:58
Alignment explanation
Indices: 10460041--10460158 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
10460031 TAAGAAGCTT
10460041 GGAGCTGTAATATATCTCCCTTTTGTTCAACACGAATCTAAATGTGTATATACTGTTC
1 GGAGCTGTAATATATCTCCCTTTTGTTCAACACGAATCTAAATGTGTATATACTGTTC
10460099 GGAGCTGTAATATATCTCCCTTTTGTTCAACACGAATCTAAATGTGTATATACTGTTC
1 GGAGCTGTAATATATCTCCCTTTTGTTCAACACGAATCTAAATGTGTATATACTGTTC
10460157 GG
1 GG
10460159 TTTTAAATAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (58 bp):
GGAGCTGTAATATATCTCCCTTTTGTTCAACACGAATCTAAATGTGTATATACTGTTC
Found at i:10467067 original size:19 final size:19
Alignment explanation
Indices: 10467045--10467082 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
10467035 GGGTTTGTTT
10467045 TTTCTTGTTGGGAAATCTC
1 TTTCTTGTTGGGAAATCTC
10467064 TTTCTTGTTGGGAAATCTC
1 TTTCTTGTTGGGAAATCTC
10467083 AAATTTGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.21, T:0.47
Consensus pattern (19 bp):
TTTCTTGTTGGGAAATCTC
Found at i:10471438 original size:93 final size:93
Alignment explanation
Indices: 10471326--10471497 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
10471316 CGCCCATAAG
* *
10471326 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10471391 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
10471419 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10471484 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
10471498 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:10471494 original size:46 final size:46
Alignment explanation
Indices: 10471319--10471494 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
10471309 TGTAACCCGC
* * *
10471319 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
10471365 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
10471415 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
10471458 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
10471495 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:10479785 original size:31 final size:31
Alignment explanation
Indices: 10479742--10479803 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
10479732 TCGTCTAAGG
10479742 TAGAAGAAAACACTTTTGGTTTAAAAATACC
1 TAGAAGAAAACACTTTTGGTTTAAAAATACC
*
10479773 TAGACGAAAACACTTTTGGTTTAAAAATACC
1 TAGAAGAAAACACTTTTGGTTTAAAAATACC
10479804 ACTCTTCGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.29
Consensus pattern (31 bp):
TAGAAGAAAACACTTTTGGTTTAAAAATACC
Found at i:10484364 original size:3 final size:3
Alignment explanation
Indices: 10484356--10484396 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
10484346 AATTGGGTAT
10484356 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10484397 TCATATGCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10485238 original size:38 final size:39
Alignment explanation
Indices: 10485196--10485277 Score: 112
Period size: 38 Copynumber: 2.1 Consensus size: 39
10485186 AAATTTAAAT
* * * *
10485196 TTTTTTACAATCTTTTACAATTTTTAATGA-TTTTATAA
1 TTTTTTACAATATTTTACAAATTCTAATAATTTTTATAA
*
10485234 TTTTTTACAATATTTTACAAATTCTAATAATTTTTTTAA
1 TTTTTTACAATATTTTACAAATTCTAATAATTTTTATAA
10485273 TTTTT
1 TTTTT
10485278 ATTACTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
38 26 0.68
39 12 0.32
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (39 bp):
TTTTTTACAATATTTTACAAATTCTAATAATTTTTATAA
Found at i:10485239 original size:10 final size:10
Alignment explanation
Indices: 10485196--10485253 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
10485186 AAATTTAAAT
10485196 TTTTTTACAA
1 TTTTTTACAA
*
10485206 TCTTTTACAA
1 TTTTTTACAA
10485216 -TTTTT--AA
1 TTTTTTACAA
* *
10485223 TGATTTTATAA
1 T-TTTTTACAA
10485234 TTTTTTACAA
1 TTTTTTACAA
*
10485244 TATTTTACAA
1 TTTTTTACAA
10485254 ATTCTAATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
7 2 0.05
9 8 0.21
10 25 0.66
11 3 0.08
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.57
Consensus pattern (10 bp):
TTTTTTACAA
Found at i:10485366 original size:19 final size:20
Alignment explanation
Indices: 10485332--10485372 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
10485322 GTAAAAAGAA
*
10485332 TATAATTTTATTTATATTTT
1 TATAATTCTATTTATATTTT
10485352 TATAATTCT-TTTATATTTT
1 TATAATTCTATTTATATTTT
10485371 TA
1 TA
10485373 AATATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TATAATTCTATTTATATTTT
Found at i:10490452 original size:5 final size:5
Alignment explanation
Indices: 10490442--10490475 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
10490432 TTTTATTACC
10490442 ATATA ATATA ATATA ATATA ATATA AT-TA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
10490476 TGCTACAAAT
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:10492255 original size:18 final size:21
Alignment explanation
Indices: 10492223--10492265 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
10492213 ATTAATTAAT
10492223 TTTTAAAAAATTAAA-A-ATA
1 TTTTAAAAAATTAAAGATATA
10492242 TTTTAAAAAA-TAAAGATATA
1 TTTTAAAAAATTAAAGATATA
10492262 TTTT
1 TTTT
10492266 TATATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.18
19 11 0.50
20 7 0.32
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
TTTTAAAAAATTAAAGATATA
Found at i:10492302 original size:18 final size:18
Alignment explanation
Indices: 10492259--10492303 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
10492249 AAATAAAGAT
* *
10492259 ATATTTTTATATTTTTTA
1 ATATTTTAATAATTTTTA
* *
10492277 GTAATTTAATAATTTTTA
1 ATATTTTAATAATTTTTA
10492295 ATATTTTAA
1 ATATTTTAA
10492304 AACAATTTTT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
ATATTTTAATAATTTTTA
Found at i:10492315 original size:21 final size:19
Alignment explanation
Indices: 10492289--10492329 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
10492279 AATTTAATAA
10492289 TTTTTAATATTTTAAAACAAT
1 TTTTTAA-ATTTTAAAA-AAT
10492310 TTTTTAAATTTTAAAAAAT
1 TTTTTAAATTTTAAAAAAT
10492329 T
1 T
10492330 AATTAATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 9 0.45
21 7 0.35
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTTAAATTTTAAAAAAT
Found at i:10492335 original size:19 final size:21
Alignment explanation
Indices: 10492292--10492336 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
10492282 TTAATAATTT
**
10492292 TTAATATTTTAAAACAATTTT
1 TTAATATTTTAAAACAATTAA
10492313 TTAA-ATTTTAAAA-AATTAA
1 TTAATATTTTAAAACAATTAA
10492332 TTAAT
1 TTAAT
10492337 TGCTGATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 8 0.38
20 9 0.43
21 4 0.19
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATATTTTAAAACAATTAA
Found at i:10495723 original size:24 final size:24
Alignment explanation
Indices: 10495679--10495724 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
10495669 TTTTGCTTAA
* *
10495679 TTTATTTTGTAATCATGTTTTTAC
1 TTTATTTTATAATCATATTTTTAC
10495703 TTTATTTTAT-ATACATATTTTT
1 TTTATTTTATAAT-CATATTTTT
10495725 TTCCTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.65
Consensus pattern (24 bp):
TTTATTTTATAATCATATTTTTAC
Found at i:10501854 original size:5 final size:5
Alignment explanation
Indices: 10501844--10501874 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
10501834 GATAATGGCG
*
10501844 ATAGT ATAGT ATAGT ACAGT ATAGT ATAGT A
1 ATAGT ATAGT ATAGT ATAGT ATAGT ATAGT A
10501875 CAATGAATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.35
Consensus pattern (5 bp):
ATAGT
Found at i:10501866 original size:15 final size:15
Alignment explanation
Indices: 10501846--10501876 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10501836 TAATGGCGAT
10501846 AGTATAGTATAGTAC
1 AGTATAGTATAGTAC
10501861 AGTATAGTATAGTAC
1 AGTATAGTATAGTAC
10501876 A
1 A
10501877 ATGAATGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.32
Consensus pattern (15 bp):
AGTATAGTATAGTAC
Found at i:10504253 original size:45 final size:45
Alignment explanation
Indices: 10504202--10504291 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
10504192 CTAGTAAGAA
*
10504202 AACATCATCAAAAAGCTGCTTCTAGTGGCAGATAAGTGAAAATTT
1 AACATCATCAAAAAGCAGCTTCTAGTGGCAGATAAGTGAAAATTT
10504247 AACATCATCAAAAAGCAGCTTCTAGTGGCAGATAAGTGAAAATTT
1 AACATCATCAAAAAGCAGCTTCTAGTGGCAGATAAGTGAAAATTT
10504292 TGTAACCAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.26
Consensus pattern (45 bp):
AACATCATCAAAAAGCAGCTTCTAGTGGCAGATAAGTGAAAATTT
Found at i:10504970 original size:6 final size:6
Alignment explanation
Indices: 10504959--10504983 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10504949 TGATGGTTAA
10504959 TGGTTT TGGTTT TGGTTT TGGTTT T
1 TGGTTT TGGTTT TGGTTT TGGTTT T
10504984 CCCCTCAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (6 bp):
TGGTTT
Found at i:10506120 original size:2 final size:2
Alignment explanation
Indices: 10506113--10506148 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10506103 AATTCATGAA
10506113 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10506149 TAGTTCATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10508611 original size:3 final size:3
Alignment explanation
Indices: 10508603--10508649 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
10508593 TCGTCTTGTT
10508603 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10508650 TTGAAATTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10513087 original size:34 final size:34
Alignment explanation
Indices: 10513044--10513111 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
10513034 ATAATGCTCT
10513044 TGTTATTAAATTAATTTCGATTTTTGAGATGTCA
1 TGTTATTAAATTAATTTCGATTTTTGAGATGTCA
10513078 TGTTATTAAATTAATTTCGATTTTTGAGATGTCA
1 TGTTATTAAATTAATTTCGATTTTTGAGATGTCA
10513112 ACAAAAGATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (34 bp):
TGTTATTAAATTAATTTCGATTTTTGAGATGTCA
Found at i:10517533 original size:10 final size:10
Alignment explanation
Indices: 10517516--10517574 Score: 73
Period size: 10 Copynumber: 5.9 Consensus size: 10
10517506 TTAAATTCTA
10517516 AAAGATAAAT
1 AAAGATAAAT
*
10517526 ATAGATAAAT
1 AAAGATAAAT
*
10517536 AAAGATAATT
1 AAAGATAAAT
*
10517546 AAAGATAATT
1 AAAGATAAAT
*
10517556 AAAAATAAAT
1 AAAGATAAAT
*
10517566 GAAGATAAA
1 AAAGATAAA
10517575 AGCTAAAATG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 42 1.00
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:10519966 original size:12 final size:13
Alignment explanation
Indices: 10519935--10519979 Score: 58
Period size: 12 Copynumber: 3.5 Consensus size: 13
10519925 TTCACTTCTT
10519935 ATTTCAATATC-TCA
1 ATTTCAAT-TCAT-A
10519949 ATTTCAATTCAT-
1 ATTTCAATTCATA
10519961 ATTTCAATTCATA
1 ATTTCAATTCATA
10519974 ATTTCA
1 ATTTCA
10519980 CTTTCACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 12 0.41
13 8 0.28
14 9 0.31
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTTCAATTCATA
Found at i:10519985 original size:26 final size:26
Alignment explanation
Indices: 10519924--10519982 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
10519914 TTCATCCTAT
*
10519924 TTTCACTTCTTATTTCAATATCTCAA
1 TTTCACTTCATATTTCAATATCTCAA
*
10519950 TTTCAATTCATATTTCAAT-TCAT-AA
1 TTTCACTTCATATTTCAATATC-TCAA
10519975 TTTCACTT
1 TTTCACTT
10519983 TCACATACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 11 0.38
26 18 0.62
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (26 bp):
TTTCACTTCATATTTCAATATCTCAA
Found at i:10521609 original size:20 final size:22
Alignment explanation
Indices: 10521580--10521637 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 22
10521570 TGTTTTTTTC
*
10521580 CCTTTCTTTTTTC-AAGAAA-A
1 CCTTTTTTTTTTCAAAGAAACA
*
10521600 CCTTTTTTTTTACAAAGAAACA
1 CCTTTTTTTTTTCAAAGAAACA
**
10521622 AATTTTTTTTTT-AAAG
1 CCTTTTTTTTTTCAAAG
10521638 TAGGCGTACC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 11 0.35
21 10 0.32
22 10 0.32
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.48
Consensus pattern (22 bp):
CCTTTTTTTTTTCAAAGAAACA
Found at i:10533014 original size:76 final size:72
Alignment explanation
Indices: 10532921--10533109 Score: 281
Period size: 76 Copynumber: 2.6 Consensus size: 72
10532911 TCTGATTTTT
*
10532921 ATTTCTG-TTTCATAATTCAACTCATACTGCAAGAAGTGAGTCGAGCCTCAAGACACGTTGAGGT
1 ATTTCTGTTTTCAAAATTCAACTCATACTGCAAGAAGTGAGTCGAGCCTCAAGACACGTTGAGGT
10532985 ATTTTCA
66 ATTTTCA
* *
10532992 ATTTCTGTCTTTCAAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACATGTTG
1 ATTTCTGT-TTTC---AAAATTCAACTCATACTGCAAGAAGTGAGTCGAGCCTCAAGACACGTTG
10533057 AGGTATTTTCA
62 AGGTATTTTCA
* * *
10533068 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGT
1 ATTTCTGTTTTCAAAATTCAACTCATACTGCAAGAAGTGAGT
10533110 TGAACCTTAG
Statistics
Matches: 107, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
71 7 0.07
72 27 0.25
73 4 0.04
75 4 0.04
76 65 0.61
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (72 bp):
ATTTCTGTTTTCAAAATTCAACTCATACTGCAAGAAGTGAGTCGAGCCTCAAGACACGTTGAGGT
ATTTTCA
Found at i:10533282 original size:77 final size:73
Alignment explanation
Indices: 10533150--10533397 Score: 277
Period size: 72 Copynumber: 3.3 Consensus size: 73
10533140 CAATTTCCAT
* *
10533150 TTTTCAATTTCTGCCTTTCAAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGACTTGGC
1 TTTTCAATTTCTGTCTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTGG-
* *
10533215 TCACGTGCTGAGCTA
61 ACACGT--TGAGGTA
*
10533230 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCTTCAGGACA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTT--GGACA
10533295 CGTTGAGGTA
64 CGTTGAGGTA
* * * *
10533305 ATTTCAATTTCTGT-TTTC--AAAATTCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CT-TGGACA
10533367 CGTTGAGGTA
64 CGTTGAGGTA
* *
10533377 TTTTCAATTTCCGTTTTTCAA
1 TTTTCAATTTCTGTCTTTCAA
10533398 TTTCTGCCTT
Statistics
Matches: 149, Mismatches: 12, Indels: 19
0.83 0.07 0.11
Matches are distributed among these distances:
72 58 0.39
73 6 0.04
74 4 0.03
75 19 0.13
76 3 0.02
77 39 0.26
78 2 0.01
80 18 0.12
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (73 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTGGACACG
TTGAGGTA
Found at i:10533530 original size:167 final size:160
Alignment explanation
Indices: 10533230--10533560 Score: 466
Period size: 167 Copynumber: 2.0 Consensus size: 160
10533220 TGCTGAGCTA
*
10533230 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCTTCAGGACA
1 TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCTT-AGGACA
* * * *
10533295 CGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGTGAGAGGTGAGTTGAGCCT
65 CGCTGAGCTAATTTCAATTTCTGTTTTCAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* *
10533360 CGGGACACGTTGAGGTATTTTCAATTTCCGT
130 CGGGACACGCTGAGGTAATTTCAATTTCCGT
* *
10533391 TTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGC
1 TTTTCAATTTCTGCCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAG-CTTAGG-
* *
10533455 TCACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAGTCAACTCATATTGCGAGAGGTGAGT
62 --ACACGCTGAGCTAATTTCAATTTCTGT-TTTC-AAAAGTCAACTCATATTGCGAGAGGTGAGT
*
10533520 TGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGT
123 TGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCCGT
10533558 TTT
1 TTT
10533561 CAAAATTCAA
Statistics
Matches: 150, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
161 18 0.12
162 2 0.01
163 34 0.23
164 3 0.02
165 23 0.15
166 4 0.03
167 66 0.44
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (160 bp):
TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCTTAGGACAC
GCTGAGCTAATTTCAATTTCTGTTTTCAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
GGGACACGCTGAGGTAATTTCAATTTCCGT
Found at i:10533574 original size:239 final size:237
Alignment explanation
Indices: 10532979--10533783 Score: 1016
Period size: 239 Copynumber: 3.4 Consensus size: 237
10532969 CAAGACACGT
* * * *
10532979 TGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCC
1 TGAGCTATTTTCAATTTCTGTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * *
10533044 TCAAGACATGTTGAGGTATTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAGGTGAG
65 TCAGGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAGGTGAG
* * * *
10533109 TTGAACCTTAGATCACACACCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAAA
130 TTGAGCC-TCG---AGACA-CGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC-AAAA
* *
10533174 AAAAATCGACTCATATTGCGAGAGGTGAGTTGAGACTTGGCTCACGTGC
189 AAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGC
* *
10533223 TGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCTT
1 TGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
10533288 CAGGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGTGAGAGGTGAGT
66 CAGGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGT
*
10533353 TGAGCCTCGGGACACGTTGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAA
131 TGAGCCTCGAGACAC---GAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAA
10533418 ATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGC
193 ATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGC
*
10533463 TGAGCTATTTTCAATTTCTGTCTTTC-AAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * ** *
10533527 CGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGATT
66 CAGGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGT
* * * *
10533592 TGAGCCTCAAGACAC-----A--TT-GATGT--G-TTTTCAATTTCTGTCTTTC--AAAAAAATC
131 TGAGCCTCGAGACACGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATC
* * *
10533644 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGC
196 GACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGC
* * * * * *
10533684 TAAGGTAATTTCAATTTCTGT-TGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCT
1 TGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * *
10533748 CAGGTCACACGTCGAGGTATTTTCAATTTCCGTTTT
66 CAGG--ACACGTTGAGGTAATTTCAATTTCTGTTTT
10533784 TTAATTTTTG
Statistics
Matches: 508, Mismatches: 46, Indels: 35
0.86 0.08 0.06
Matches are distributed among these distances:
220 3 0.01
221 61 0.12
223 64 0.13
224 2 0.00
225 18 0.04
226 1 0.00
228 3 0.01
229 2 0.00
231 1 0.00
238 1 0.00
239 110 0.22
240 77 0.15
241 38 0.07
242 2 0.00
243 93 0.18
244 32 0.06
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (237 bp):
TGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CAGGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGT
TGAGCCTCGAGACACGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATC
GACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGC
Found at i:10533742 original size:74 final size:75
Alignment explanation
Indices: 10533391--10533777 Score: 455
Period size: 74 Copynumber: 5.1 Consensus size: 75
10533381 CAATTTCCGT
* * *
10533391 TTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGC
1 TTTTCAATTTCTGTCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-
* *
10533455 TCACGCGCTGAGCTA
63 --ACACGCTGAGGTA
* *
10533470 TTTTCAATTTCTGTCTTTC-AAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
10533534 CGCTGAGGTA
66 CGCTGAGGTA
* * ** * *
10533544 ATTTCAATTTCTGT-TTTC--AAAATTCAACTCATATTGCGAGAAATGATTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
** * *
10533606 CATTGATGTG
66 CGCTGAGGTA
10533616 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
10533681 CGCTAAGGTA
66 CGCTGAGGTA
* * * *
10533691 ATTTCAATTTCTGT-TGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
10533755 CACG-TCGAGGTA
64 CACGCT-GAGGTA
10533767 TTTTCAATTTC
1 TTTTCAATTTC
10533778 CGTTTTTTAA
Statistics
Matches: 267, Mismatches: 34, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
72 57 0.21
73 8 0.03
74 68 0.25
75 58 0.22
76 56 0.21
77 2 0.01
79 18 0.07
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (75 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTA
Found at i:10534052 original size:106 final size:107
Alignment explanation
Indices: 10533800--10534052 Score: 341
Period size: 110 Copynumber: 2.3 Consensus size: 107
10533790 TTTGCCTTAA
* *
10533800 AAAAAAATCGACTCATATTGCGAGAGGTGATTTGAGCTTTTTAATTTCTGCGAGAAATGAGTTGA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTAATTTCTGCGAGAAATGAGTTGA
* * **
10533865 GCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTTTTTTTTTTC
66 GCCTAGGCTCACG-GCTGAGCTATTTTCAAGTTC--TTGCTTTTC
* **
10533910 AAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTAATTTCTGCGAGAGGTGAGTTGA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTAATTTCTGCGAGAAATGAGTTGA
* *
10533975 GCCTCAGG-TCAC-GCTGAGGTGCTTTTCAAGTTC-TGCTTTTC
66 GCCT-AGGCTCACGGCTGAGCT-ATTTTCAAGTTCTTGCTTTTC
10534016 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
10534053 CTCAGGACAT
Statistics
Matches: 129, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
106 42 0.33
108 7 0.05
109 10 0.08
110 68 0.53
111 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (107 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTAATTTCTGCGAGAAATGAGTTGA
GCCTAGGCTCACGGCTGAGCTATTTTCAAGTTCTTGCTTTTC
Found at i:10534106 original size:18 final size:18
Alignment explanation
Indices: 10534072--10534107 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10534062 TGTTGAGGTA
* *
10534072 TTTTCAATTTCTGTTTTT
1 TTTTCAATTTATATTTTT
10534090 TTTTCAATTTATATTTTT
1 TTTTCAATTTATATTTTT
10534108 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.08, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTCAATTTATATTTTT
Found at i:10534188 original size:70 final size:69
Alignment explanation
Indices: 10534105--10534331 Score: 240
Period size: 76 Copynumber: 3.1 Consensus size: 69
10534095 AATTTATATT
*
10534105 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTGGGACACGCTGAGGTATTGTTAAT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTCGGGACACGCTGAGGTATT-TTAAT
10534170 TTTTG
65 TTTTG
* ** ** *
10534175 TTTCAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTCGGGACACGCTGAGGTATTTT-AA
*
10534240 TTTCTGTC
64 TTT-T-TG
*
10534248 TTTCAAAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGC-CGCAGGACACGCTGAGGTAATT
1 TTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTCG--GGACACGCTGAGGT-ATT
* *
10534312 TCAATTTCTG
60 TTAATTTTTG
10534322 TTGTCAAAAA
1 TT-TCAAAAA
10534332 AAAAATCAAC
Statistics
Matches: 128, Mismatches: 18, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
70 37 0.29
71 22 0.17
72 6 0.05
73 5 0.04
74 4 0.03
75 3 0.02
76 47 0.37
77 4 0.03
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (69 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTCGGGACACGCTGAGGTATTTTAATT
TTTG
Found at i:10534195 original size:91 final size:91
Alignment explanation
Indices: 10534018--10534195 Score: 216
Period size: 91 Copynumber: 2.0 Consensus size: 91
10534008 TGCTTTTCAA
* *
10534018 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
***** * *
10534083 TGTTTTTTTTTCAATTTATATTTTTC
66 TGTTTAAAACTCAACTCATATTTTTC
**
10534109 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTGGGACACGCTGAGGTATTGTT-AATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT-TTCAATTT
*
10534172 TTGTTTCAAAACTCAACTCATATT
65 CTGTTT-AAAACTCAACTCATATT
10534196 GCGAGAAATG
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
90 27 0.37
91 46 0.63
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (91 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTAAAACTCAACTCATATTTTTC
Found at i:10534276 original size:76 final size:77
Alignment explanation
Indices: 10534179--10534397 Score: 282
Period size: 76 Copynumber: 2.8 Consensus size: 77
10534169 TTTTTGTTTC
* ** *
10534179 AAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
*
10534244 TGTCTTTC-AAAA
66 TGT-TGTCAAAAA
* * *
10534256 AAAAA-CAACTCATATTGCGAGAGGTGAGTTGAGCCGCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
10534320 TGTTGTCAAAAA
66 TGTTGTCAAAAA
* * *
10534332 AAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAAGTCACACG-TCGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACACGCT-GAGGTATTTTCAAT
10534396 TT
63 TT
10534398 TCGTTTTTCA
Statistics
Matches: 123, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
75 3 0.02
76 65 0.53
77 34 0.28
78 1 0.01
79 20 0.16
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (77 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
TGTTGTCAAAAA
Found at i:10534579 original size:173 final size:166
Alignment explanation
Indices: 10534233--10534628 Score: 417
Period size: 173 Copynumber: 2.3 Consensus size: 166
10534223 TGCTGAGGTA
*
10534233 TTTTCAATTTCTGTCTTTCAAAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCGCAGGAC
1 TTTTCAATTTCTGTCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCGCAGGAC
* * * ** *
10534298 ACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAAAATCAACTCGTATTGTGAGAGGCGAGTT
65 ACACTGAGGTAATTTCAATTTATGTTGTC--AAAAAAAACCAACTCACATTGCGAGAGGCGAGTT
* *
10534363 GAGCCTCAAGTCACACGTCGAGGTATTTTCAATTTTCGT
128 GAGCCTCAAGTCACACGTCGAGGTATTTTCAAATCTCGT
* **
10534402 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCA-GATC
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCGCAGGA-C
* * * *
10534466 ACACATTGAGGTATTTTTTTTTCAATTTATATTTTTC-AAAAAAACCAACTCACATTGCGAGATG
65 ACAC--TGAGGTA-----ATTTCAATTTAT-GTTGTCAAAAAAAACCAACTCACATTGCGAGAGG
* *** *
10534530 TGAGTTGAGCCTTGGGTCACATGTCGAGGTATTTTCAAAATCT-GT
122 CGAGTTGAGCCTCAAGTCACACGTCGAGGTATTTTC-AAATCTCGT
* * *
10534575 TTTTCAAGTTCTGT-TTTC--AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCC
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
10534629 TTGGCTCACG
Statistics
Matches: 191, Mismatches: 26, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
167 2 0.01
168 41 0.21
169 19 0.10
170 39 0.20
172 4 0.02
173 68 0.36
174 4 0.02
175 10 0.05
176 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (166 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCGCAGGACA
CACTGAGGTAATTTCAATTTATGTTGTCAAAAAAAACCAACTCACATTGCGAGAGGCGAGTTGAG
CCTCAAGTCACACGTCGAGGTATTTTCAAATCTCGT
Found at i:10534666 original size:88 final size:88
Alignment explanation
Indices: 10534505--10534666 Score: 225
Period size: 88 Copynumber: 1.8 Consensus size: 88
10534495 TATTTTTCAA
* * *
10534505 AAAAACCAACTCACATTGCGAGATGTGAGTTGAGCCTTGGGTCACATGTCGAGGTATTTTCAAAA
1 AAAAACCAACTCACATTACGAGAAGTGAGTTGAGCCTTGGCTCACATGTCGAGGTATTTTCAAAA
*
10534570 TCTGTTTTTCAAGTTCTGTTTTC
66 TCTATTTTTCAAGTTCTGTTTTC
* * * * * **
10534593 AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTTGGCTCACGTGTTGAGTTATTTTCAATT
1 AAAAACCAACTCACATTACGAGAAGTGAGTTGAGCCTTGGCTCACATGTCGAGGTATTTTCAAAA
10534658 TCTATTTTT
66 TCTATTTTT
10534667 TTCAAAAAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
88 63 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (88 bp):
AAAAACCAACTCACATTACGAGAAGTGAGTTGAGCCTTGGCTCACATGTCGAGGTATTTTCAAAA
TCTATTTTTCAAGTTCTGTTTTC
Found at i:10534725 original size:30 final size:30
Alignment explanation
Indices: 10534689--10534750 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
10534679 CAACTCATAT
*
10534689 TGCGAGAGGTGAGTTGAGCTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGCCTTTTAATTTC
10534719 TGCGAGAGGTGAGTTGAGCCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGCCTTTTAATTTC
10534749 TG
1 TG
10534751 TTTTCAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.19, C:0.11, G:0.31, T:0.39
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGCCTTTTAATTTC
Found at i:10535569 original size:17 final size:18
Alignment explanation
Indices: 10535532--10535571 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
10535522 CCATCCCCTG
*
10535532 GCCACCCCCATACCATCT
1 GCCACCACCATACCATCT
*
10535550 GCCACCACCATGCC-TCT
1 GCCACCACCATACCATCT
10535567 GCCAC
1 GCCAC
10535572 ACCTGTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.20, C:0.55, G:0.10, T:0.15
Consensus pattern (18 bp):
GCCACCACCATACCATCT
Found at i:10535789 original size:11 final size:10
Alignment explanation
Indices: 10535768--10535801 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
10535758 AGAGGTTTAG
*
10535768 TTTTGTTCTT
1 TTTTTTTCTT
10535778 TTTTTTTCCTT
1 TTTTTTT-CTT
10535789 TTTTTTTCTT
1 TTTTTTTCTT
10535799 TTT
1 TTT
10535802 GTTCTCTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:10535880 original size:20 final size:22
Alignment explanation
Indices: 10535851--10535908 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 22
10535841 TTGTTTTTTC
*
10535851 CCTTTCTTTTTTC-AAGAAA-A
1 CCTTTTTTTTTTCAAAGAAACA
*
10535871 CCTTTTTTTTTACAAAGAAACA
1 CCTTTTTTTTTTCAAAGAAACA
**
10535893 AATTTTTTTTTT-AAAG
1 CCTTTTTTTTTTCAAAG
10535909 TAGGCGTACC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 11 0.35
21 10 0.32
22 10 0.32
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.48
Consensus pattern (22 bp):
CCTTTTTTTTTTCAAAGAAACA
Found at i:10536511 original size:3 final size:3
Alignment explanation
Indices: 10536503--10536535 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
10536493 TTATTGTAGA
10536503 TAT TAT TAT TAT TAT TAT T-T TA- TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
10536536 CCAAATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10537830 original size:3 final size:3
Alignment explanation
Indices: 10537820--10537885 Score: 98
Period size: 3 Copynumber: 22.0 Consensus size: 3
10537810 TTTATTTTTT
* *
10537820 TAA T-A TAA TAA GAT TAA ATAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
10537865 TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
10537886 AACAAAATTT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.04
3 52 0.91
4 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10538715 original size:71 final size:71
Alignment explanation
Indices: 10538622--10538778 Score: 167
Period size: 71 Copynumber: 2.2 Consensus size: 71
10538612 CCTCGCGTTG
** * **
10538622 GTTGG-TAATACCGACTATAGATGTGC-CCTGTACTGGTTAGATACTCCGACAATGTTTTGCGCC
1 GTTGGATAA-ACCGACTATAGATGTGCTCC-ACACTGGTCAGATAAACCGACAATGTTTTGCGCC
* *
10538685 TAATACTA
64 CAACACTA
*
10538693 GTTGGATAAACCGA-TGATAGATGTGCTCCACACTTGTCAGATAAACCGACAATGTTTTGCGCCC
1 GTTGGATAAACCGACT-ATAGATGTGCTCCACACTGGTCAGATAAACCGACAATGTTTTGCGCCC
*
10538757 AACACTT
65 AACACTA
* *
10538764 GTCGGATAAATCGAC
1 GTTGGATAAACCGAC
10538779 AATATCATAA
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
70 1 0.01
71 65 0.92
72 5 0.07
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (71 bp):
GTTGGATAAACCGACTATAGATGTGCTCCACACTGGTCAGATAAACCGACAATGTTTTGCGCCCA
ACACTA
Found at i:10538772 original size:36 final size:36
Alignment explanation
Indices: 10538667--10538781 Score: 108
Period size: 36 Copynumber: 3.2 Consensus size: 36
10538657 GTTAGATACT
* * * *
10538667 CCGACAATGTTTTGCGCCTAATACTAGTTGGATAAA
1 CCGACAATGTTTTGCGCCCAACACTTGTCGGATAAA
** * * * *
10538703 CCGATGATAGATGTGC-TCC-ACACTTGTCAGATAAA
1 CCGACAAT-GTTTTGCGCCCAACACTTGTCGGATAAA
10538738 CCGACAATGTTTTGCGCCCAACACTTGTCGGATAAA
1 CCGACAATGTTTTGCGCCCAACACTTGTCGGATAAA
*
10538774 TCGACAAT
1 CCGACAAT
10538782 ATCATAAGAG
Statistics
Matches: 59, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
34 5 0.08
35 20 0.34
36 29 0.49
37 5 0.08
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (36 bp):
CCGACAATGTTTTGCGCCCAACACTTGTCGGATAAA
Found at i:10551807 original size:21 final size:21
Alignment explanation
Indices: 10551783--10551824 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10551773 GTTTATAAAA
*
10551783 TTATTATAAAAATAAATTATT
1 TTATCATAAAAATAAATTATT
* *
10551804 TTATCGTAAATATAAATTATT
1 TTATCATAAAAATAAATTATT
10551825 ATTTAATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
TTATCATAAAAATAAATTATT
Found at i:10555423 original size:40 final size:40
Alignment explanation
Indices: 10555368--10555451 Score: 159
Period size: 40 Copynumber: 2.1 Consensus size: 40
10555358 AATATTTTTT
*
10555368 TATTATAAATTGGAATATGCTCATGTTGAACATATATCTA
1 TATTATAAAATGGAATATGCTCATGTTGAACATATATCTA
10555408 TATTATAAAATGGAATATGCTCATGTTGAACATATATCTA
1 TATTATAAAATGGAATATGCTCATGTTGAACATATATCTA
10555448 TATT
1 TATT
10555452 TAAGGATAAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (40 bp):
TATTATAAAATGGAATATGCTCATGTTGAACATATATCTA
Found at i:10557215 original size:2 final size:2
Alignment explanation
Indices: 10557180--10557207 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10557170 ACGTATTTTC
10557180 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10557208 GTTATATAGT
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10557481 original size:22 final size:21
Alignment explanation
Indices: 10557451--10557493 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
10557441 TACTACGTAC
*
10557451 ACATATTATTATTTTTAATATAT
1 ACATATTA-TATGTTT-ATATAT
10557474 ACAT-TTATATGTTTATATAT
1 ACATATTATATGTTTATATAT
10557494 CGTTATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 6 0.32
22 3 0.16
23 4 0.21
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (21 bp):
ACATATTATATGTTTATATAT
Found at i:10560181 original size:30 final size:30
Alignment explanation
Indices: 10560146--10560233 Score: 124
Period size: 30 Copynumber: 2.9 Consensus size: 30
10560136 CACCGCCATG
*
10560146 ACACACGGGCGTGTGGTCTACCTGTGTGTC
1 ACACACGGGCGTGTGGTCTACCCGTGTGTC
*
10560176 ACACACGGGCGTGTGATCTACCCGTGTGTC
1 ACACACGGGCGTGTGGTCTACCCGTGTGTC
* *
10560206 ATACATGGGCGTGTGGATC-ACCCGTGTG
1 ACACACGGGCGTGTGG-TCTACCCGTGTG
10560234 GAAGTGCCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
30 50 0.96
31 2 0.04
ACGTcount: A:0.16, C:0.26, G:0.33, T:0.25
Consensus pattern (30 bp):
ACACACGGGCGTGTGGTCTACCCGTGTGTC
Found at i:10562308 original size:17 final size:18
Alignment explanation
Indices: 10562278--10562316 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
10562268 ACAAAAGTGT
*
10562278 AAAAGAAAAGGAAAAATA
1 AAAAGAAAAGGAAAAAGA
*
10562296 AAAATAAAA-GAAAAAGA
1 AAAAGAAAAGGAAAAAGA
10562313 AAAA
1 AAAA
10562317 CAATTTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (18 bp):
AAAAGAAAAGGAAAAAGA
Found at i:10563616 original size:18 final size:18
Alignment explanation
Indices: 10563588--10563626 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
10563578 AGTGGAAAGA
10563588 AAAACCAAGAAAATAAAAT
1 AAAACCAAG-AAATAAAAT
*
10563607 AAAA-CAAGAATTAAAAT
1 AAAACCAAGAAATAAAAT
10563624 AAA
1 AAA
10563627 GAGAGTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 4 0.21
19 4 0.21
ACGTcount: A:0.74, C:0.08, G:0.05, T:0.13
Consensus pattern (18 bp):
AAAACCAAGAAATAAAAT
Found at i:10563766 original size:15 final size:16
Alignment explanation
Indices: 10563736--10563816 Score: 51
Period size: 16 Copynumber: 5.1 Consensus size: 16
10563726 AGTGGTGCGT
*
10563736 GATGAGAGGTGAAGGG
1 GATGAGAGGAGAAGGG
10563752 GATGAG-GGAGAAGGG
1 GATGAGAGGAGAAGGG
* *
10563767 GAAAGGAGAGGGGGAAGGG
1 G--ATGAGA-GGAGAAGGG
* * * *
10563786 GAAGAAAGGAAAAAGG
1 GATGAGAGGAGAAGGG
10563802 GA-GA-AGGAGAAGGG
1 GATGAGAGGAGAAGGG
10563816 G
1 G
10563817 GCTGGTTGGG
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
14 9 0.18
15 11 0.22
16 14 0.27
17 8 0.16
19 9 0.18
ACGTcount: A:0.41, C:0.00, G:0.56, T:0.04
Consensus pattern (16 bp):
GATGAGAGGAGAAGGG
Found at i:10566355 original size:18 final size:19
Alignment explanation
Indices: 10566332--10566371 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
10566322 TTCCTTTAAA
*
10566332 TTATTTCGTTATTTA-TTT
1 TTATTTCATTATTTACTTT
*
10566350 TTATTTCATTTTTTACTTT
1 TTATTTCATTATTTACTTT
10566369 TTA
1 TTA
10566372 CTTTTTACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72
Consensus pattern (19 bp):
TTATTTCATTATTTACTTT
Found at i:10566371 original size:7 final size:7
Alignment explanation
Indices: 10566359--10566391 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
10566349 TTTATTTCAT
10566359 TTTTTAC
1 TTTTTAC
10566366 TTTTTAC
1 TTTTTAC
10566373 TTTTTAC
1 TTTTTAC
10566380 TTTTTAC
1 TTTTTAC
10566387 GTTTT
1 -TTTT
10566392 CTTGTGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 21 0.84
8 4 0.16
ACGTcount: A:0.12, C:0.12, G:0.03, T:0.73
Consensus pattern (7 bp):
TTTTTAC
Found at i:10567671 original size:18 final size:16
Alignment explanation
Indices: 10567636--10567666 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10567626 CTGCTCCGAG
10567636 ATTTTTTGCTCCTTTT
1 ATTTTTTGCTCCTTTT
*
10567652 ATTTTTTTCTCCTTT
1 ATTTTTTGCTCCTTT
10567667 CTTATCTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.19, G:0.03, T:0.71
Consensus pattern (16 bp):
ATTTTTTGCTCCTTTT
Done.