Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 49 of 109
Found at i:16022781 original size:29 final size:28
Alignment explanation
Indices: 16022706--16022784 Score: 95
Period size: 29 Copynumber: 2.8 Consensus size: 28
16022696 TATATTAAAT
*
16022706 CAAGAGTCCACAGTGACTATCCACCAAA
1 CAAGAGTCTACAGTGACTATCCACCAAA
* * *
16022734 TAAGAGTCTAGCAATGACTATCTACCAAA
1 CAAGAGTCTA-CAGTGACTATCCACCAAA
*
16022763 CAAGAGTCTGACAGCGACTATC
1 CAAGAGTCT-ACAGTGACTATC
16022785 ATTTAAGAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 8 0.19
29 33 0.79
30 1 0.02
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.19
Consensus pattern (28 bp):
CAAGAGTCTACAGTGACTATCCACCAAA
Found at i:16024136 original size:6 final size:6
Alignment explanation
Indices: 16024111--16024152 Score: 66
Period size: 6 Copynumber: 6.7 Consensus size: 6
16024101 TAAAATTTTA
16024111 AAATCT AAAATCT AAAATCT AAATCT AAATCT AAATCT AAAT
1 AAATCT -AAATCT -AAATCT AAATCT AAATCT AAATCT AAAT
16024153 TCAAATTCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 22 0.63
7 13 0.37
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATCT
Found at i:16024291 original size:31 final size:30
Alignment explanation
Indices: 16024253--16024399 Score: 128
Period size: 31 Copynumber: 4.9 Consensus size: 30
16024243 TTAATATAAC
* *
16024253 ATTTGGTATCTGAACTTGACACTTTTTCCTA
1 ATTTGGTACCTAAACTTGACACTTTTTCC-A
*
16024284 ATTTGGTACCTAAACCTT----TTTTTGGTCCA
1 ATTTGGTACCTAAA-CTTGACACTTTT--TCCA
* *
16024313 ATTTGGCA-CTCAAACTTGACCCTTTTTCC-
1 ATTTGGTACCT-AAACTTGACACTTTTTCCA
* *
16024342 -TTTGGCACCTAAACTTGGCACTTTTTCCTA
1 ATTTGGTACCTAAACTTGACACTTTTTCC-A
16024372 ATTTGGTACCTAAACTTGACACTTTTTC
1 ATTTGGTACCTAAACTTGACACTTTTTC
16024400 TTAAGTTGAT
Statistics
Matches: 95, Mismatches: 9, Indels: 24
0.74 0.07 0.19
Matches are distributed among these distances:
28 32 0.34
29 13 0.14
30 6 0.06
31 37 0.39
32 7 0.07
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (30 bp):
ATTTGGTACCTAAACTTGACACTTTTTCCA
Found at i:16024968 original size:60 final size:60
Alignment explanation
Indices: 16024838--16025005 Score: 151
Period size: 60 Copynumber: 2.8 Consensus size: 60
16024828 AAATTTAGGA
* * * * * *
16024838 ACCAAATTAAACCTAAAAAAAACCTTAGGTACCAAATTAGAAAAAAAAAATCCAAGTTTAGGT
1 ACCAAATTGAGCC-AAAAAAAA-ATTAGATACCAAATTAG-AAAAAAAAATCCAAGTTCAGAT
***
16024901 ACCAAATTGAGACCAAAAAAAAATTAGATACCAAATTAGAAAAAAGTGT-CAAGTTCAGAT
1 ACCAAATTGAG-CCAAAAAAAAATTAGATACCAAATTAGAAAAAAAAATCCAAGTTCAGAT
* * ** *
16024961 ACTAAATTGAGTCAAAAAATAGTTTAGATACTAAATTA-AAAAAAA
1 ACCAAATTGAGCCAAAAAA-AAATTAGATACCAAATTAGAAAAAAA
16025006 TTAAATACCA
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
59 13 0.15
60 34 0.39
61 7 0.08
62 15 0.17
63 17 0.19
64 2 0.02
ACGTcount: A:0.55, C:0.12, G:0.11, T:0.22
Consensus pattern (60 bp):
ACCAAATTGAGCCAAAAAAAAATTAGATACCAAATTAGAAAAAAAAATCCAAGTTCAGAT
Found at i:16033150 original size:24 final size:24
Alignment explanation
Indices: 16033117--16033175 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
16033107 AAAAAGCCTA
* *
16033117 TAACGAGTAGCT-CTAAAGAGCAAT
1 TAACGGGTAGCTCCGAAA-AGCAAT
* *
16033141 TAACTGGTAGCTCCGAAAAGTAAT
1 TAACGGGTAGCTCCGAAAAGCAAT
16033165 TAACGGGTAGC
1 TAACGGGTAGC
16033176 ACCAGATAGC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (24 bp):
TAACGGGTAGCTCCGAAAAGCAAT
Found at i:16036482 original size:7 final size:7
Alignment explanation
Indices: 16036470--16036496 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
16036460 CTACCAAGTA
16036470 CTAACTG
1 CTAACTG
16036477 CTAACTG
1 CTAACTG
16036484 CTAACTG
1 CTAACTG
16036491 CTAACT
1 CTAACT
16036497 ACTGTAACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (7 bp):
CTAACTG
Found at i:16036718 original size:14 final size:12
Alignment explanation
Indices: 16036691--16036742 Score: 58
Period size: 11 Copynumber: 4.5 Consensus size: 12
16036681 GTTTTTATTA
16036691 TTTATTAT-ATT
1 TTTATTATAATT
16036702 TTTATTGAATAATT
1 TTTATT--ATAATT
16036716 TTT-TTATAATT
1 TTTATTATAATT
16036727 TTTATT-T-ATT
1 TTTATTATAATT
16036737 TTTATT
1 TTTATT
16036743 GTTATTACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
10 9 0.24
11 16 0.43
12 2 0.05
13 4 0.11
14 6 0.16
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (12 bp):
TTTATTATAATT
Found at i:16036869 original size:15 final size:15
Alignment explanation
Indices: 16036849--16036880 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16036839 TTTAACTGGT
*
16036849 TTTTTATTATTTATA
1 TTTTTATTATATATA
16036864 TTTTTATTATATATA
1 TTTTTATTATATATA
16036879 TT
1 TT
16036881 ATATTTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTATTATATATA
Found at i:16036884 original size:20 final size:19
Alignment explanation
Indices: 16036848--16036906 Score: 72
Period size: 20 Copynumber: 3.3 Consensus size: 19
16036838 TTTTAACTGG
16036848 TTTT-TTATTAT-TTATAT
1 TTTTATTATTATATTATAT
16036865 TTTTATTATATATATTATAT
1 TTTTATTAT-TATATTATAT
*
16036885 TTATATTATT-TATT-TAT
1 TTTTATTATTATATTATAT
16036902 TTTTA
1 TTTTA
16036907 GAAATTTTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
17 11 0.30
18 8 0.22
19 4 0.11
20 14 0.38
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTATTATTATATTATAT
Found at i:16043299 original size:27 final size:25
Alignment explanation
Indices: 16043239--16043326 Score: 88
Period size: 25 Copynumber: 3.4 Consensus size: 25
16043229 AACATTACTT
16043239 ATAAAAAATAAATATGTATATAAAA
1 ATAAAAAATAAATATGTATATAAAA
* * *
16043264 ACAACAAATATACATATGTATATATAA
1 ATAA-AAA-ATAAATATGTATATAAAA
* * *
16043291 ATAAAAAATAATTACAG-ATAAAAAA
1 ATAAAAAATAAATA-TGTATATAAAA
16043316 ATAAAAAATAA
1 ATAAAAAATAA
16043327 TTACATTATG
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
25 25 0.49
26 7 0.14
27 19 0.37
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.25
Consensus pattern (25 bp):
ATAAAAAATAAATATGTATATAAAA
Found at i:16044764 original size:44 final size:45
Alignment explanation
Indices: 16044699--16045110 Score: 349
Period size: 44 Copynumber: 9.3 Consensus size: 45
16044689 GCCAATACAT
* * *
16044699 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACTAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACTAATATAG
* * * * *
16044744 GAACACAAGATCTG-TATCTTCGATCCACTTCACTACCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACTAATATAG
* * * * * * *
16044788 GAAAACAGGATCTACTATCTTCGATTTACTTCACGC-C-AATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGC-CACTAATATAG
* * * *
16044832 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACTAATATAG
* *
16044877 GAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACTAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACTAATATAG
* * * * *
16044920 GAAGACAGGACCTGCTATCTTCGATCTACTTCACGC-C-AATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGC-CACTAATATAG
* * * ** *
16044964 GAAGACAAGATCTGTTTTCTTTGATCTACTTCGCCACTAGCATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACTAATATAG
* * * * *
16045009 GAAGATAAGCTCTGC-ATCTTCGATCCACTTCGCTACCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACTAATATAG
* * * * *
16045053 GAAGACAGGATCTGCTACCTTCGATCTACTTCACGC-C-AATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGC-CACTAATATAG
16045097 GAAGACAAGATCTG
1 GAAGACAAGATCTG
16045111 TTTTCTTTTT
Statistics
Matches: 286, Mismatches: 70, Indels: 23
0.75 0.18 0.06
Matches are distributed among these distances:
43 23 0.08
44 182 0.64
45 81 0.28
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (45 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACTAATATAG
Found at i:16045118 original size:133 final size:132
Alignment explanation
Indices: 16044667--16045117 Score: 731
Period size: 133 Copynumber: 3.4 Consensus size: 132
16044657 GAACAAAATT
* *
16044667 TGCTATCTTCGATTTATTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
1 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
* * *
16044732 CCACTAGTATGGGAACACAAGATCTGTATCTTCGATCCACTTCACTACCAATATAGGAAAACAGG
66 CCACTAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGG
16044797 ATC
130 ATC
* *
16044800 TACTATCTTCGATTTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
1 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
* *
16044865 CCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACTAATATAGGAAGACAGGA
66 CCACTAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGA
*
16044930 CC
131 TC
* *
16044932 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTTGATCTACTTCG
1 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
* * *
16044997 CCACTAGCATGGGAAGATAAGCTCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGG
66 CCACTAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGG
16045062 ATC
130 ATC
* *
16045065 TGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTT
1 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
16045118 TTTAACCTAT
Statistics
Matches: 298, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
132 121 0.41
133 177 0.59
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (132 bp):
TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
CCACTAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGA
TC
Found at i:16045300 original size:2 final size:2
Alignment explanation
Indices: 16045293--16045319 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16045283 TGCAGAATGC
16045293 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 T
16045320 TTGTGTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16056969 original size:26 final size:29
Alignment explanation
Indices: 16056940--16056992 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
16056930 ATAAAATATC
16056940 AAATAAATG-A-GTAAA-ATAAATAAAAA
1 AAATAAATGAATGTAAACATAAATAAAAA
*
16056966 AAATACATGAATGTAAACATAAATAAA
1 AAATAAATGAATGTAAACATAAATAAA
16056993 TAGCGAGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
27 1 0.04
28 5 0.22
29 9 0.39
ACGTcount: A:0.68, C:0.04, G:0.08, T:0.21
Consensus pattern (29 bp):
AAATAAATGAATGTAAACATAAATAAAAA
Found at i:16057416 original size:27 final size:25
Alignment explanation
Indices: 16057356--16057443 Score: 88
Period size: 25 Copynumber: 3.4 Consensus size: 25
16057346 AACATTACTT
16057356 ATAAAAAATAAATATGTATATAAAA
1 ATAAAAAATAAATATGTATATAAAA
* * *
16057381 ACAACAAATATACATATGTATATATAA
1 ATAA-AAA-ATAAATATGTATATAAAA
* * *
16057408 ATAAAAAATAATTACAG-ATAAAAAA
1 ATAAAAAATAAATA-TGTATATAAAA
16057433 ATAAAAAATAA
1 ATAAAAAATAA
16057444 TTACATTATG
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
25 25 0.49
26 7 0.14
27 19 0.37
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.25
Consensus pattern (25 bp):
ATAAAAAATAAATATGTATATAAAA
Found at i:16060317 original size:23 final size:23
Alignment explanation
Indices: 16060286--16060336 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
16060276 ACCTACTTTC
* * *
16060286 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGAGATA
16060309 TTACAGTAGTAATTTTCGAGATA
1 TTACAGTAGTAATTTTCGAGATA
16060332 TTACA
1 TTACA
16060337 AACGAGATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGAGATA
Found at i:16078518 original size:30 final size:31
Alignment explanation
Indices: 16078483--16078547 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
16078473 GTAAATTTAA
* *
16078483 ATTTTATTTATTAAAATATTGAAAT-TTTTT
1 ATTTTAATCATTAAAATATTGAAATATTTTT
* * *
16078513 ATTTTAATCATTTAACTATTTAAATATTTTT
1 ATTTTAATCATTAAAATATTGAAATATTTTT
16078544 ATTT
1 ATTT
16078548 AAGTTACTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 20 0.69
31 9 0.31
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (31 bp):
ATTTTAATCATTAAAATATTGAAATATTTTT
Found at i:16079816 original size:45 final size:42
Alignment explanation
Indices: 16079746--16079866 Score: 113
Period size: 45 Copynumber: 2.9 Consensus size: 42
16079736 ATTACACCAC
* * * *
16079746 GTTTGGTTCGCTGTATTGGATTAGAGGTGTAATAGCAAATCAACT
1 GTTTGGTTGGATGTAATGGAATAGAGGTGTAATAGCAAAT---CT
* *
16079791 GTTTGGTTGGATGTAATGGAATAGAGGCGTAATAG-TAATCT
1 GTTTGGTTGGATGTAATGGAATAGAGGTGTAATAGCAAATCT
* * *
16079832 -TGTGTTTGGTTG-AATGGAATAGAGGTGTAATAGCA
1 GTTTGGTTGGATGTAATGGAATAGAGGTGTAATAGCA
16079867 TAATGGAAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
39 20 0.31
40 9 0.14
41 2 0.03
44 3 0.05
45 30 0.47
ACGTcount: A:0.28, C:0.07, G:0.31, T:0.35
Consensus pattern (42 bp):
GTTTGGTTGGATGTAATGGAATAGAGGTGTAATAGCAAATCT
Found at i:16081041 original size:29 final size:29
Alignment explanation
Indices: 16081008--16081075 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
16080998 AACAAATGCA
* *
16081008 ACAATTTCCAGTTTGGA-TGAAAACAGCAG
1 ACAATTTCCAATTT-CATTGAAAACAGCAG
*
16081037 ACAATTTCCAATTTCATTGAAAACTGCAG
1 ACAATTTCCAATTTCATTGAAAACAGCAG
*
16081066 ACGATTTCCA
1 ACAATTTCCA
16081076 TTGCAACAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 1 0.03
29 33 0.97
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.28
Consensus pattern (29 bp):
ACAATTTCCAATTTCATTGAAAACAGCAG
Found at i:16082072 original size:14 final size:15
Alignment explanation
Indices: 16082039--16082072 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16082029 AGTGTTCATC
*
16082039 CAAAACAGAACCATA
1 CAAAACAGAAACATA
16082054 CAAAACAGAAACA-A
1 CAAAACAGAAACATA
16082068 CAAAA
1 CAAAA
16082073 TCTGCTACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.68, C:0.24, G:0.06, T:0.03
Consensus pattern (15 bp):
CAAAACAGAAACATA
Found at i:16083476 original size:23 final size:25
Alignment explanation
Indices: 16083430--16083487 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
16083420 GTTGGCTAGC
* * *
16083430 TTAAACGGTGTGTTTTTGTCTTTAG
1 TTAAACGGTGTGTTATTGTATTTAA
16083455 TTAAACGGTGTG-TATTG-ATTTAA
1 TTAAACGGTGTGTTATTGTATTTAA
*
16083478 TTAAATGGTG
1 TTAAACGGTG
16083488 CGTTTTGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 13 0.45
24 4 0.14
25 12 0.41
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.47
Consensus pattern (25 bp):
TTAAACGGTGTGTTATTGTATTTAA
Found at i:16083641 original size:6 final size:6
Alignment explanation
Indices: 16083630--16083694 Score: 75
Period size: 6 Copynumber: 11.3 Consensus size: 6
16083620 TCATTTCCAA
*
16083630 TTCTCT TTCTCT TTCTCT TTCTCT CTCTCT CTTCTC- TTCTC- TTCTC-
1 TTCTCT TTCTCT TTCTCT TTCTCT TTCTCT -TTCTCT TTCTCT TTCTCT
*
16083676 TTCTC- TTCTCT TTGTCT TT
1 TTCTCT TTCTCT TTCTCT TT
16083695 TTATTTCTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
5 20 0.37
6 30 0.56
7 4 0.07
ACGTcount: A:0.00, C:0.35, G:0.02, T:0.63
Consensus pattern (6 bp):
TTCTCT
Found at i:16083667 original size:5 final size:5
Alignment explanation
Indices: 16083630--16083687 Score: 75
Period size: 5 Copynumber: 11.4 Consensus size: 5
16083620 TCATTTCCAA
16083630 TTCTC TTTCTC TTTCTC TT-TC -TCTC TCTCTC TTCTC TTCTC TTCTC
1 TTCTC -TTCTC -TTCTC TTCTC TTCTC T-TCTC TTCTC TTCTC TTCTC
16083676 TTCTC TTCTC TT
1 TTCTC TTCTC TT
16083688 TGTCTTTTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
3 1 0.02
4 4 0.08
5 28 0.57
6 16 0.33
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (5 bp):
TTCTC
Found at i:16084445 original size:137 final size:137
Alignment explanation
Indices: 16084190--16084459 Score: 380
Period size: 137 Copynumber: 2.0 Consensus size: 137
16084180 AAACTCGAAC
* *
16084190 TGTAACACCTCTAACCCGCATCTGTCGCCAAATTAGGGTTACGGAGCATTACCGTACAATCAAAA
1 TGTAACACCCCTAACCCGCATCTATCGCCAAATTAGGGTTACGGAGCATTACCGTACAATCAAAA
* * *
16084255 ACATTCAAACACCATAACATTCAATAATTTAAATATATCATAAATCATCCAATCACATGCGTTTC
66 ACATTCAAACACCATAACATTCAATAATTTAAATATATCATAAACCATCCAATCACATACATTTC
16084320 ATCTAAA
131 ATCTAAA
* * * * * * *
16084327 TGTAACACCCCTAACCCGCCTCTATTGTCGAATTAGGGTTACAGG-GTATTACTGTACAATCAGA
1 TGTAACACCCCTAACCCGCATCTATCGCCAAATTAGGGTTAC-GGAGCATTACCGTACAATCAAA
* * * *
16084391 AATATTCAAACATCATAACATTCAATAATTTAAATATATCATAAACCATTCAATCGCATACATTT
65 AACATTCAAACACCATAACATTCAATAATTTAAATATATCATAAACCATCCAATCACATACATTT
16084456 CATC
130 CATC
16084460 CCTAAATCGA
Statistics
Matches: 116, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
137 114 0.98
138 2 0.02
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.29
Consensus pattern (137 bp):
TGTAACACCCCTAACCCGCATCTATCGCCAAATTAGGGTTACGGAGCATTACCGTACAATCAAAA
ACATTCAAACACCATAACATTCAATAATTTAAATATATCATAAACCATCCAATCACATACATTTC
ATCTAAA
Found at i:16090392 original size:15 final size:16
Alignment explanation
Indices: 16090372--16090408 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
16090362 ACAAAATCAA
16090372 ATAAAA-TTACATAAT
1 ATAAAAGTTACATAAT
*
16090387 ATAAAAGTTACATTAT
1 ATAAAAGTTACATAAT
16090403 ATAAAA
1 ATAAAA
16090409 ATTAAATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
ATAAAAGTTACATAAT
Found at i:16090534 original size:19 final size:19
Alignment explanation
Indices: 16090533--16090663 Score: 79
Period size: 19 Copynumber: 6.6 Consensus size: 19
16090523 CATACAAAAT
16090533 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
16090552 TACAAAA-TACTA-ATCCAA
1 TACAAAATTACAATATTC-A
* * *
16090570 AACTATAAA-TACAAAATTAA
1 TAC-A-AAATTACAATATTCA
*
16090590 TTATAAAATAATTACAATATTCA
1 -TACAAAAT--T-ACAATATTCA
*
16090613 TACAAAATTATAATATTCA
1 TACAAAATTACAATATTCA
* *
16090632 CACAAAAAGTTACAATATACA
1 TAC-AAAA-TTACAATATTCA
16090653 TACAAAATTAC
1 TACAAAATTAC
16090664 CATTGGCGCC
Statistics
Matches: 85, Mismatches: 16, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
17 3 0.04
18 7 0.08
19 26 0.31
20 18 0.21
21 15 0.18
22 8 0.09
23 8 0.09
ACGTcount: A:0.56, C:0.15, G:0.01, T:0.29
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:16090545 original size:27 final size:27
Alignment explanation
Indices: 16090507--16090559 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
16090497 NNNNNNNNNN
*
16090507 ACAATATTACAATATTCATACAAAATT
1 ACAAAATTACAATATTCATACAAAATT
16090534 ACAAAATTACAATATTCATACAAAAT
1 ACAAAATTACAATATTCATACAAAAT
16090560 ACTAATCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (27 bp):
ACAAAATTACAATATTCATACAAAATT
Found at i:16090648 original size:21 final size:20
Alignment explanation
Indices: 16090599--16090663 Score: 80
Period size: 19 Copynumber: 3.3 Consensus size: 20
16090589 ATTATAAAAT
16090599 AATTACAATATTCATAC-AA
1 AATTACAATATTCATACAAA
* *
16090618 AATTATAATATTCACACAAA
1 AATTACAATATTCATACAAA
*
16090638 AAGTTACAATATACATAC-AA
1 AA-TTACAATATTCATACAAA
16090658 AATTAC
1 AATTAC
16090664 CATTGGCGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
19 19 0.49
20 8 0.21
21 12 0.31
ACGTcount: A:0.54, C:0.15, G:0.02, T:0.29
Consensus pattern (20 bp):
AATTACAATATTCATACAAA
Found at i:16098362 original size:37 final size:37
Alignment explanation
Indices: 16098321--16098392 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
16098311 AAGAGAAATG
16098321 AGAAGGAAAGGAAAATGATTTTGGAATTTGTAAAAGA
1 AGAAGGAAAGGAAAATGATTTTGGAATTTGTAAAAGA
*
16098358 AGAAGGAAATGAAAATGATTTTGGAATTTGTAAAA
1 AGAAGGAAAGGAAAATGATTTTGGAATTTGTAAAA
16098393 CAAGCTTTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.00, G:0.25, T:0.26
Consensus pattern (37 bp):
AGAAGGAAAGGAAAATGATTTTGGAATTTGTAAAAGA
Found at i:16101234 original size:51 final size:51
Alignment explanation
Indices: 16101176--16101354 Score: 358
Period size: 51 Copynumber: 3.5 Consensus size: 51
16101166 CCGGTTCATA
16101176 TAGTAGCCTGCACATAGTACTACACATGTAACCATTTTCATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTAACCATTTTCATCTGATACACG
16101227 TAGTAGCCTGCACATAGTACTACACATGTAACCATTTTCATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTAACCATTTTCATCTGATACACG
16101278 TAGTAGCCTGCACATAGTACTACACATGTAACCATTTTCATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTAACCATTTTCATCTGATACACG
16101329 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACATAGTACTACACA
16101355 CGTGACCTAG
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 128 1.00
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTAACCATTTTCATCTGATACACG
Found at i:16101276 original size:25 final size:25
Alignment explanation
Indices: 16101196--16101327 Score: 74
Period size: 25 Copynumber: 5.2 Consensus size: 25
16101186 CACATAGTAC
16101196 TACACATGTAACCATTTTCATCTGA
1 TACACATGTAACCATTTTCATCTGA
* * *** *
16101221 TACACGTAGTAGCC-TGCACAT-AGTA
1 TACACAT-GTAACCATTTTCATCTG-A
16101246 CTACACATGTAACCATTTTCATCTGA
1 -TACACATGTAACCATTTTCATCTGA
* * *** *
16101272 TACACGTAGTAGCC-TGCACAT-AGTA
1 TACACAT-GTAACCATTTTCATCTG-A
16101297 CTACACATGTAACCATTTTCATCTGA
1 -TACACATGTAACCATTTTCATCTGA
16101323 TACAC
1 TACAC
16101328 GTAGTAGCCT
Statistics
Matches: 73, Mismatches: 24, Indels: 20
0.62 0.21 0.17
Matches are distributed among these distances:
24 2 0.03
25 37 0.51
26 32 0.44
27 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (25 bp):
TACACATGTAACCATTTTCATCTGA
Found at i:16114303 original size:17 final size:17
Alignment explanation
Indices: 16114281--16114313 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
16114271 GCTTTTCATT
16114281 TTTTTTATG-ATTTTTTA
1 TTTTTT-TGAATTTTTTA
16114298 TTTTTTTGAATTTTTT
1 TTTTTTTGAATTTTTT
16114314 TACAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTTTTTGAATTTTTTA
Found at i:16118481 original size:57 final size:57
Alignment explanation
Indices: 16118405--16118522 Score: 164
Period size: 57 Copynumber: 2.1 Consensus size: 57
16118395 TTTCTTACCG
* * * * *
16118405 TATCGTGTTTTAAGTAATTTATTACAGTGATTGAATTTAGAGAACATTTTATTTATT
1 TATCATGTTTTAAGTAATTTATTACAGTCACTGAATTTAGAAAACATTTTATTTACT
* * *
16118462 TATCATGTTTTATGTAATTTATTATAGTCACTGAATTTAGAAAATATTTTATTTACT
1 TATCATGTTTTAAGTAATTTATTACAGTCACTGAATTTAGAAAACATTTTATTTACT
16118519 TATC
1 TATC
16118523 GTGGTTGCGT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.50
Consensus pattern (57 bp):
TATCATGTTTTAAGTAATTTATTACAGTCACTGAATTTAGAAAACATTTTATTTACT
Found at i:16121306 original size:5 final size:5
Alignment explanation
Indices: 16121296--16121330 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
16121286 TATAATGCGT
16121296 AATTA AATTA AATTA AATTA AATTA AATTA AATTA
1 AATTA AATTA AATTA AATTA AATTA AATTA AATTA
16121331 TTTAAAATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATTA
Found at i:16122022 original size:10 final size:11
Alignment explanation
Indices: 16121990--16122019 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
16121980 ATTTATATGT
16121990 GTTTTATTTTC
1 GTTTTATTTTC
16122001 -TTTTATTTTC
1 GTTTTATTTTC
16122011 GTTTTATTT
1 GTTTTATTT
16122020 CGTATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.77
Consensus pattern (11 bp):
GTTTTATTTTC
Found at i:16134121 original size:29 final size:31
Alignment explanation
Indices: 16134087--16134173 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 31
16134077 CCGTGTAGTT
*
16134087 CACAAGACCTAGCACACGGTCATGTGG-TC-
1 CACAAGACCTAGCACACGGCCATGTGGCTCA
* *
16134116 CACAAGACCT-GACACATGGCCGTGTGGCTCA
1 CACAAGACCTAG-CACACGGCCATGTGGCTCA
16134147 TCACATAG-CCTAGCACACGGCCATGTG
1 -CACA-AGACCTAGCACACGGCCATGTG
16134174 ACCAAAGTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
28 1 0.02
29 22 0.47
30 2 0.04
32 19 0.40
33 3 0.06
ACGTcount: A:0.26, C:0.32, G:0.24, T:0.17
Consensus pattern (31 bp):
CACAAGACCTAGCACACGGCCATGTGGCTCA
Found at i:16136841 original size:39 final size:39
Alignment explanation
Indices: 16136787--16136864 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
16136777 ACTCTACGAC
* *
16136787 TAAGAGTATCAGCCACAATATTAGCCTTATCGGGATGGT
1 TAAGAGCATCAGCCACAATATGAGCCTTATCGGGATGGT
*
16136826 TAAGAGCATCAGCCACAATATGAGTCTTATCGGGATGGT
1 TAAGAGCATCAGCCACAATATGAGCCTTATCGGGATGGT
16136865 ACTCTATAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (39 bp):
TAAGAGCATCAGCCACAATATGAGCCTTATCGGGATGGT
Found at i:16136966 original size:46 final size:46
Alignment explanation
Indices: 16136910--16137051 Score: 275
Period size: 46 Copynumber: 3.1 Consensus size: 46
16136900 ATCCATTTAC
*
16136910 TTTGCCTAAGGTTCAACTCCTTTTAAGTCAACAGATACTTAAGGCT
1 TTTGCTTAAGGTTCAACTCCTTTTAAGTCAACAGATACTTAAGGCT
16136956 TTTGCTTAAGGTTCAACTCCTTTTAAGTCAACAGATACTTAAGGCT
1 TTTGCTTAAGGTTCAACTCCTTTTAAGTCAACAGATACTTAAGGCT
16137002 TTTGCTTAAGGTTCAACTCCTTTTAAGTCAACAGATACTTAAGGCT
1 TTTGCTTAAGGTTCAACTCCTTTTAAGTCAACAGATACTTAAGGCT
16137048 TTTG
1 TTTG
16137052 TGATCGATGT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 95 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.37
Consensus pattern (46 bp):
TTTGCTTAAGGTTCAACTCCTTTTAAGTCAACAGATACTTAAGGCT
Found at i:16142509 original size:18 final size:17
Alignment explanation
Indices: 16142479--16142512 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
16142469 TAATTGTAAA
16142479 TTTAAATTATAATTATT
1 TTTAAATTATAATTATT
16142496 TTTAAATGTATAATTAT
1 TTTAAAT-TATAATTAT
16142513 CACAACTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTAAATTATAATTATT
Found at i:16151879 original size:80 final size:80
Alignment explanation
Indices: 16151735--16151935 Score: 242
Period size: 80 Copynumber: 2.5 Consensus size: 80
16151725 TATTGGAAAC
* * * * ***
16151735 CCAACTTTGTAACAAAAAAACTAAGTTTCTATTGGAGACCCAATTTTGTAATTGAATACTTTGTA
1 CCAACTTTGTAAC-GAAAAACTAAATTTCTATTGGA-AACCAAGTTTGTAACCAAATACTTTGTA
*
16151800 ATTGTGCGTGAGTGTAT
64 ATTGTGCGTGACTGTAT
* *
16151817 CCAACTTTGTAACGAAAAACTAAATTTTTATTGGAAATCAAGTTTGTAACCAAATACTTTGTAAT
1 CCAACTTTGTAACGAAAAACTAAATTTCTATTGGAAACCAAGTTTGTAACCAAATACTTTGTAAT
* *
16151882 TGTGTGTGACTGTGT
66 TGTGCGTGACTGTAT
*
16151897 CCAACTTTATAACCG-AAAACTAAAATTTCTATTGGAAAC
1 CCAACTTTGTAA-CGAAAAACT-AAATTTCTATTGGAAAC
16151936 TTAACTTTGT
Statistics
Matches: 102, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
80 53 0.52
81 36 0.35
82 13 0.13
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.35
Consensus pattern (80 bp):
CCAACTTTGTAACGAAAAACTAAATTTCTATTGGAAACCAAGTTTGTAACCAAATACTTTGTAAT
TGTGCGTGACTGTAT
Found at i:16152495 original size:39 final size:39
Alignment explanation
Indices: 16152449--16152546 Score: 128
Period size: 38 Copynumber: 2.5 Consensus size: 39
16152439 ATTTACAAAG
16152449 TATTTGGTTACAAAGTTGGGTTTTCAATA-AGAATTTTAA
1 TATTTGGTTACAAAGTTGGGTTTTCAATAGA-AATTTTAA
** * *
16152488 TATTTGGTTACAAAGTT-GAATTTCAGTAGAAATTTTAC
1 TATTTGGTTACAAAGTTGGGTTTTCAATAGAAATTTTAA
*
16152526 TGTTTGGTTACAAAGTTGGGT
1 TATTTGGTTACAAAGTTGGGT
16152547 ACACTCGCAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
38 31 0.62
39 19 0.38
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (39 bp):
TATTTGGTTACAAAGTTGGGTTTTCAATAGAAATTTTAA
Found at i:16152625 original size:43 final size:39
Alignment explanation
Indices: 16152532--16152627 Score: 104
Period size: 43 Copynumber: 2.3 Consensus size: 39
16152522 TTACTGTTTG
* *
16152532 GTTACAAAGTTGGGTACACTCGCATATAAATGAGTATTTG
1 GTTACAAAGTTGGGTACACTCGCAAATAAA-GAGTATTTA
*
16152572 GTTATAAAGTTGGGTACACCTACGCACAATTACAA-AGTATTTA
1 GTTACAAAGTTGGGTACA-CT-CGCA-AA-TA-AAGAGTATTTA
16152615 GTTACAAAGTTGG
1 GTTACAAAGTTGG
16152628 AATTTCAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
40 17 0.36
41 2 0.04
42 4 0.09
43 20 0.43
44 2 0.04
45 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (39 bp):
GTTACAAAGTTGGGTACACTCGCAAATAAAGAGTATTTA
Found at i:16152858 original size:58 final size:58
Alignment explanation
Indices: 16152735--16152917 Score: 149
Period size: 58 Copynumber: 3.2 Consensus size: 58
16152725 TATAATATAT
** * ** *
16152735 AACATATCTAAATATATAACAACATTTTTATA-ATAACTACCAAAATCT-T-AT-TATAAC
1 AACATATCTACTTAAATAACAACA-TTTTATACA-AA-TAATAAAATCTATAATATATACC
* * * * *
16152792 AGCATATCTACTTAAATGATAATATTTTATACAAATACTAAAATCTATAATATATACC
1 AACATATCTACTTAAATAACAACATTTTATACAAATAATAAAATCTATAATATATACC
* * *** * *
16152850 AACATATCTATTTATATAACAACATTTTATATGGATAATAAAATTTATAATATATAGC
1 AACATATCTACTTAAATAACAACATTTTATACAAATAATAAAATCTATAATATATACC
16152908 AACATATCTA
1 AACATATCTA
16152918 ACATCTTCCA
Statistics
Matches: 101, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
55 10 0.10
56 10 0.10
57 20 0.20
58 61 0.60
ACGTcount: A:0.48, C:0.13, G:0.03, T:0.37
Consensus pattern (58 bp):
AACATATCTACTTAAATAACAACATTTTATACAAATAATAAAATCTATAATATATACC
Found at i:16155005 original size:30 final size:31
Alignment explanation
Indices: 16154966--16155034 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
16154956 AAAATTAATA
16154966 AAATATTT-AAAATATTTTTTATAATTT-AATT
1 AAAT-TTTAAAAATA-TTTTTATAATTTAAATT
* *
16154997 TAATTTTAAAAATATTTTTATATTTTAAATT
1 AAATTTTAAAAATATTTTTATAATTTAAATT
16155028 AAATTTT
1 AAATTTT
16155035 GATCGAGCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 14 0.42
31 19 0.58
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (31 bp):
AAATTTTAAAAATATTTTTATAATTTAAATT
Found at i:16156070 original size:8 final size:7
Alignment explanation
Indices: 16156042--16156067 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
16156032 ACACGATTGT
16156042 AAAAAGA
1 AAAAAGA
16156049 AAAAAGA
1 AAAAAGA
16156056 AAAAAGA
1 AAAAAGA
16156063 AAAAA
1 AAAAA
16156068 AGAGTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:16162784 original size:19 final size:20
Alignment explanation
Indices: 16162749--16162806 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
16162739 ACTTGTTTTA
*
16162749 AAACAATT-TAATTTTGATTG
1 AAACAATTCTAA-CTTGATTG
16162769 AAA-AATTCTAACTTGATTG
1 AAACAATTCTAACTTGATTG
* *
16162788 AAACCATTTTAACTTGATT
1 AAACAATTCTAACTTGATT
16162807 AAAGGTTGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 14 0.42
20 19 0.58
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (20 bp):
AAACAATTCTAACTTGATTG
Found at i:16170286 original size:23 final size:23
Alignment explanation
Indices: 16170256--16170301 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
16170246 TATACAAAAA
*
16170256 GACTATAACTAATTCATAGCTAT
1 GACTATAACTAATTAATAGCTAT
*
16170279 GACTATAACTAGTTAATAGCTAT
1 GACTATAACTAATTAATAGCTAT
16170302 AAATTGGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (23 bp):
GACTATAACTAATTAATAGCTAT
Found at i:16174265 original size:25 final size:25
Alignment explanation
Indices: 16174237--16174287 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
16174227 CAGAAAGCTC
16174237 GATTTTAAGTGTCTTAAGTCTTGAA
1 GATTTTAAGTGTCTTAAGTCTTGAA
16174262 GATTTTAAGTGTCTTAAGTCTTGAA
1 GATTTTAAGTGTCTTAAGTCTTGAA
16174287 G
1 G
16174288 CAATATGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (25 bp):
GATTTTAAGTGTCTTAAGTCTTGAA
Found at i:16174561 original size:27 final size:27
Alignment explanation
Indices: 16174529--16174582 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
16174519 AATTAAAGTT
16174529 AAATTTGTAATCTTACTTATTTACATG
1 AAATTTGTAATCTTACTTATTTACATG
16174556 AAATTTGTAATCTTACTTATTTACATG
1 AAATTTGTAATCTTACTTATTTACATG
16174583 CTAATTTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.48
Consensus pattern (27 bp):
AAATTTGTAATCTTACTTATTTACATG
Found at i:16175391 original size:21 final size:23
Alignment explanation
Indices: 16175351--16175393 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
16175341 ATTAACTTGA
16175351 TAAATATTATATTAATTTAATAT
1 TAAATATTATATTAATTTAATAT
*
16175374 TAAATCTTAT-TTAA-TTAATA
1 TAAATATTATATTAATTTAATA
16175394 GAAAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 4 0.21
23 9 0.47
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAATATTATATTAATTTAATAT
Found at i:16175399 original size:21 final size:22
Alignment explanation
Indices: 16175334--16175403 Score: 54
Period size: 25 Copynumber: 3.1 Consensus size: 22
16175324 AATCACTTTA
* *
16175334 ATATTAAATTAACTTGATAAATATT
1 ATATTAATTTAA-TAGA-AAAT-TT
**
16175359 ATATTAATTTAATATTAAATCTT
1 ATATTAATTTAATAGAAAAT-TT
16175382 AT-TTAA-TTAATAGAAAATTT
1 ATATTAATTTAATAGAAAATTT
16175402 AT
1 AT
16175404 CTATAAGATA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 4 0.11
21 10 0.26
22 4 0.11
23 8 0.21
24 1 0.03
25 11 0.29
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (22 bp):
ATATTAATTTAATAGAAAATTT
Found at i:16175554 original size:100 final size:101
Alignment explanation
Indices: 16175431--16175632 Score: 397
Period size: 100 Copynumber: 2.0 Consensus size: 101
16175421 AATTGAATTT
16175431 GATATTAAGATAATCAAAATAATATTATTTTTTAAATAATTAATCTGAAATCAAATTCTCTAGTA
1 GATATTAAGATAATCAAAATAATATTATTTTTTAAATAATTAATCTGAAATCAAATTCTCTAGTA
16175496 TAGTCCCAAGAGGCCCGGTTTCACATACCAGGCCCG
66 TAGTCCCAAGAGGCCCGGTTTCACATACCAGGCCCG
16175532 GATATTAAGAT-ATCAAAATAATATTATTTTTTAAATAATTAATCTGAAATCAAATTCTCTAGTA
1 GATATTAAGATAATCAAAATAATATTATTTTTTAAATAATTAATCTGAAATCAAATTCTCTAGTA
16175596 TAGTCCCAAGAGGCCCGGTTTCACATACCAGGCCCG
66 TAGTCCCAAGAGGCCCGGTTTCACATACCAGGCCCG
16175632 G
1 G
16175633 TTTGACTAGT
Statistics
Matches: 101, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
100 90 0.89
101 11 0.11
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (101 bp):
GATATTAAGATAATCAAAATAATATTATTTTTTAAATAATTAATCTGAAATCAAATTCTCTAGTA
TAGTCCCAAGAGGCCCGGTTTCACATACCAGGCCCG
Found at i:16176999 original size:197 final size:191
Alignment explanation
Indices: 16176573--16177012 Score: 447
Period size: 197 Copynumber: 2.3 Consensus size: 191
16176563 CCGTAAATGA
* * * * * *
16176573 TCAAGCATTAGGGGCGCTACTCGAAAAACGCCAC-AAAAAGTTGGGCAAAACGACATCGCTTTCT
1 TCAAGCATTAGCGGCGCT-CTTGGAAAACGCCGCAAAAAAGTTGAGCAAAACGACATCACTTTCT
* * *
16176637 TTTTGAGCTTTAGTGCCATTAACGGCGCATTTTAACAAATGCCGCAACAAATTGAAAATTTGCGG
65 TTTTGAGCTTTAGTGCCATTAACGGCGCATTTTAACAAACGCCGCAACAAATCGAAAATTAGCGG
* * * * * *
16176702 CGCTTTTTGAAAAACGAGGCTAAATATCATTAGCGGCGCTTCCTATAAAACGCCGCTAAAGG
130 CACTTTCTGAAAAACGAGGCTAAATATCAATAGCGGCGATTCATATAAAACGCCACTAAAGG
* * * * * * *
16176764 TCAAACATTAGCAGCAC-CTTACGGATAAGGCTGCAAAAAAGTTGAGCAAAACGACATCATTTTC
1 TCAAGCATTAGCGGCGCTCTT--GGAAAACGCCGCAAAAAAGTTGAGCAAAACGACATCACTTTC
** * * * * *
16176828 TATTTTGAGCTTTAGTGGTATTAGCGTCGCTTTTTAACAAACGCCGCAATAAATCGAGAATTAGC
64 T-TTTTGAGCTTTAGTGCCATTAACGGCGCATTTTAACAAACGCCGCAACAAATCGAAAATTAGC
* * *
16176893 GGCACTTTCTGAGAAACAC-A-GCTAAAGATCGATCAATAGCGGCGATTTATGTAAAACGCCATT
128 GGCACTTTCTGA-AAA-ACGAGGCT-AA-AT--ATCAATAGCGGCGATTCATATAAAACGCCACT
*
16176956 ATAGG
187 AAAGG
*
16176961 TCAAGCATTAGCGGCGCGTCTTGGAAAACGCCGCAAAAAATTTGAGCAAAAC
1 TCAAGCATTAGCGGCGC-TCTTGGAAAACGCCGCAAAAAAGTTGAGCAAAAC
16177013 ATCGTCGTTC
Statistics
Matches: 197, Mismatches: 40, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
189 2 0.01
191 20 0.10
192 27 0.14
193 66 0.34
194 6 0.03
195 4 0.02
197 69 0.35
199 3 0.02
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (191 bp):
TCAAGCATTAGCGGCGCTCTTGGAAAACGCCGCAAAAAAGTTGAGCAAAACGACATCACTTTCTT
TTTGAGCTTTAGTGCCATTAACGGCGCATTTTAACAAACGCCGCAACAAATCGAAAATTAGCGGC
ACTTTCTGAAAAACGAGGCTAAATATCAATAGCGGCGATTCATATAAAACGCCACTAAAGG
Found at i:16177422 original size:20 final size:20
Alignment explanation
Indices: 16177397--16177435 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16177387 TTGTAATATA
16177397 TATATTTAAGGTTTAGGGTG
1 TATATTTAAGGTTTAGGGTG
* *
16177417 TATATTTATGGTTTGGGGT
1 TATATTTAAGGTTTAGGGT
16177436 TTAAGGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.49
Consensus pattern (20 bp):
TATATTTAAGGTTTAGGGTG
Found at i:16177453 original size:7 final size:7
Alignment explanation
Indices: 16177421--16177509 Score: 63
Period size: 7 Copynumber: 12.9 Consensus size: 7
16177411 AGGGTGTATA
*
16177421 TTTATGG
1 TTTAGGG
*
16177428 TTTGGGG
1 TTTAGGG
*
16177435 TTTAAGG
1 TTTAGGG
16177442 TTTAGGG
1 TTTAGGG
*
16177449 TTTAGGA
1 TTTAGGG
* *
16177456 TTTATGA
1 TTTAGGG
*
16177463 TTTAGTG
1 TTTAGGG
* *
16177470 TTAAGAG
1 TTTAGGG
*
16177477 TTTAGTG
1 TTTAGGG
* *
16177484 TTTACGA
1 TTTAGGG
16177491 TTTA-GG
1 TTTAGGG
16177497 TTTAGGG
1 TTTAGGG
16177504 TTTAGG
1 TTTAGG
16177510 AGGTTTTTTT
Statistics
Matches: 63, Mismatches: 18, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
6 5 0.08
7 58 0.92
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:16177479 original size:28 final size:27
Alignment explanation
Indices: 16177439--16177510 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
16177429 TTGGGGTTTA
* * *
16177439 AGGTTTAGGGTTTAGGATTTATGATTT
1 AGGTTAAGAGTTTAGGATTTACGATTT
16177466 AGTGTTAAGAGTTTAGTG-TTTACGATTT
1 AG-GTTAAGAGTTTAG-GATTTACGATTT
* *
16177494 AGGTTTAGGGTTTAGGA
1 AGGTTAAGAGTTTAGGA
16177511 GGTTTTTTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
26 1 0.03
27 13 0.35
28 22 0.59
29 1 0.03
ACGTcount: A:0.24, C:0.01, G:0.31, T:0.44
Consensus pattern (27 bp):
AGGTTAAGAGTTTAGGATTTACGATTT
Found at i:16177762 original size:9 final size:9
Alignment explanation
Indices: 16177733--16177769 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
16177723 TGAGTTTTCG
16177733 AATTCGAAT
1 AATTCGAAT
*
16177742 AACTCGAAT
1 AATTCGAAT
16177751 AATTCGAAT
1 AATTCGAAT
*
16177760 AATTCAAAT
1 AATTCGAAT
16177769 A
1 A
16177770 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:16179136 original size:125 final size:125
Alignment explanation
Indices: 16178836--16179242 Score: 539
Period size: 125 Copynumber: 3.3 Consensus size: 125
16178826 AAGTCAATCG
* * *
16178836 TTAGCGGCGTTTTTCTCAAAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTGGACAAAAAACGC
1 TTAGTGGCGTTTTTCTCAAAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTGGTCTAAAAACGC
* ** * * *
16178901 CGCAACAATGTATTAAAAATTGTACAAGACGGCGCCGTTTGGTTACATG-AATTTAATTT
66 CGCAACAATGTATTAAAAATTGTACAAAACGGCGTTGTTTAGTTACAGGAAATTAAATTT
* ** *
16178960 TTAGTGGCATTTTTCTCAAAAACGTTGCAAAAGGTAAGCAATAGCGGCGTTTGGTCTAAAAACGT
1 TTAGTGGCGTTTTTCTCAAAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTGGTCTAAAAACGC
*
16179025 CGCAACAATGTATTAAAAATTGTACAAAACGGCATTGTTTAGTTACAGGAAATTAAATTT
66 CGCAACAATGTATTAAAAATTGTACAAAACGGCGTTGTTTAGTTACAGGAAATTAAATTT
* * * * *
16179085 TTAGTGGTGTTTTTCTCAGAAATGCCGCAAAAGGTAAGCAATAGTGGCGTTTGGTCTAAAACCGC
1 TTAGTGGCGTTTTTCTCAAAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTGGTCTAAAAACGC
** * * * * *
16179150 CGCAACTGTGTATTAAAAATTGTGCAAAACGGTGTTGTTTCGTTATAGGAAATTAATTTT
66 CGCAACAATGTATTAAAAATTGTACAAAACGGCGTTGTTTAGTTACAGGAAATTAAATTT
* *
16179210 TTAGTGGCGTTTTTGCT-GAAAACGCTGCAAAAG
1 TTAGTGGCGTTTTT-CTCAAAAACGCCGCAAAAG
16179243 TTATAAAATT
Statistics
Matches: 245, Mismatches: 36, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
124 101 0.41
125 142 0.58
126 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (125 bp):
TTAGTGGCGTTTTTCTCAAAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTGGTCTAAAAACGC
CGCAACAATGTATTAAAAATTGTACAAAACGGCGTTGTTTAGTTACAGGAAATTAAATTT
Found at i:16180594 original size:9 final size:9
Alignment explanation
Indices: 16180580--16180649 Score: 61
Period size: 9 Copynumber: 7.8 Consensus size: 9
16180570 TCTAATTTCC
*
16180580 ACATAACAT
1 ACATAACTT
16180589 ACATAACTT
1 ACATAACTT
*
16180598 ACATAATTT
1 ACATAACTT
*
16180607 ACATAA-AT
1 ACATAACTT
* * *
16180615 ATATATCAT
1 ACATAACTT
*
16180624 ATCAAAACTT
1 A-CATAACTT
16180634 ACATAACTT
1 ACATAACTT
16180643 ACATAAC
1 ACATAAC
16180650 GAAATACTAA
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
8 5 0.10
9 39 0.80
10 5 0.10
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (9 bp):
ACATAACTT
Found at i:16182869 original size:43 final size:43
Alignment explanation
Indices: 16182822--16182916 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
16182812 AAATGGTACT
* * *
16182822 TTTAGCGGCGTTTGTGAAAAAAGCGTCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTCGTGAAAAAAGAGCCGCTAAAGGTCATGTTC
* *
16182865 TTTAGCGGTGTTCGTGATAAAAGAGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTCGTGAAAAAAGAGCCGCTAAAGGTCATGTTC
16182908 TTTAGCGGC
1 TTTAGCGGC
16182917 ATTTATGTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTCGTGAAAAAAGAGCCGCTAAAGGTCATGTTC
Found at i:16190033 original size:12 final size:12
Alignment explanation
Indices: 16190018--16190056 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
16190008 AATTGGTTTA
16190018 TTATTATTATAT
1 TTATTATTATAT
16190030 TTATTATTATAT
1 TTATTATTATAT
16190042 TTA-TATTATTAT
1 TTATTATTA-TAT
16190054 TTA
1 TTA
16190057 CATTAGGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 5 0.19
12 21 0.81
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATTATTATAT
Found at i:16201439 original size:51 final size:51
Alignment explanation
Indices: 16201338--16201439 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 51
16201328 AAGGAGAAGG
* ** * * * * *
16201338 GACCAAGGTGAAAACCCGCAAAGGGCGTTTTGATTCCTAAATAACGAAAAA
1 GACCAAGGTGAAAACCCACAAAGGGCACTTTAAGTCCAAAAAAACAAAAAA
*
16201389 GACCAAGGTGAAAACCCACAAAGGGCACTTTAAGTCCAAAAAAATAAAAAA
1 GACCAAGGTGAAAACCCACAAAGGGCACTTTAAGTCCAAAAAAACAAAAAA
16201440 TAAACCAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.47, C:0.20, G:0.19, T:0.15
Consensus pattern (51 bp):
GACCAAGGTGAAAACCCACAAAGGGCACTTTAAGTCCAAAAAAACAAAAAA
Found at i:16203891 original size:50 final size:50
Alignment explanation
Indices: 16203804--16204096 Score: 415
Period size: 50 Copynumber: 5.8 Consensus size: 50
16203794 ATTTGGGTAA
* * *
16203804 AGAGGTCCCATGTAAGACCATGTCTAGGACATTGCGTTGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
16203854 AGAGGTCCCATGTAAGACCATGTCTGGGGCATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
16203904 AGAGGTCCCATGTAAGACCATGTATGGGACATGGAGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
16203954 AGAGGTCCCATGTAAGACCATGTCTGGGACACGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * * *
16204004 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATAGGCACCAATATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * *
16204054 AGAACATCCCATGTAAGACCATGTCTGGGACATGACTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
16204097 TGTTATGATC
Statistics
Matches: 217, Mismatches: 25, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
50 184 0.85
51 33 0.15
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:16209880 original size:13 final size:13
Alignment explanation
Indices: 16209862--16209886 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16209852 TAATTTATAT
16209862 GTGTGAAAATTTC
1 GTGTGAAAATTTC
16209875 GTGTGAAAATTT
1 GTGTGAAAATTT
16209887 TATCATTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:16217052 original size:44 final size:43
Alignment explanation
Indices: 16216476--16217070 Score: 156
Period size: 44 Copynumber: 13.5 Consensus size: 43
16216466 GAAAATTGTA
* * ** *
16216476 AATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCAAAGACGGC
1 AATCTTATCTCCCTAGGCAGTAGTGGAGCAGATTGAAGACGAC
* * *
16216519 GAA-CTTATCTTCCCAAGGCAGTAG-GGAAGCAGATTTAAG-CCAC
1 -AATCTTATC-TCCCTAGGCAGTAGTGG-AGCAGATTGAAGACGAC
** * * * * * **
16216562 TAGCCTTATCTCCCT-GAGTAGCAGTGGAGTAGGTTGAAAATTAC
1 -AATCTTATCTCCCTAG-GCAGTAGTGGAGCAGATTGAAGACGAC
* * * *
16216606 ATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACGGC
1 A-ATCTTATCTCCCTAGGCAGTAGTGGAGCAGATTGAAGACGAC
* * * * * *
16216650 GAATTTTATCTTCCCAAGACAGTAG-GGAAGCAAATTTAAG-CCAC
1 -AATCTTATC-TCCCTAGGCAGTAGTGG-AGCAGATTGAAGACGAC
** * * * **
16216694 TAGCCTTATCTCCCT-GAGCAGTAGTGGAGTAGGTTGAAAATTAC
1 -AATCTTATCTCCCTAG-GCAGTAGTGGAGCAGATTGAAGACGAC
* * * * **
16216738 AGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTG
1 A-ATCTTATCTCCCTAGGCAGTAGTGGAGCAGATTGAAGA-CGAC
* * * * * *
16216783 AATTTTATCTTCCCAAGGCAATAAG-GAAGCAGATTTAAG-CCAGC
1 AATCTTATC-TCCCTAGGCAGT-AGTGGAGCAGATTGAAGACGA-C
** ** * * * * **
16216827 AGCCTTATCTCCCT-GAGCAACAGTGGCGTAGGTTGAAAATTAC
1 AATCTTATCTCCCTAG-GCAGTAGTGGAGCAGATTGAAGACGAC
* **
16216870 AGATCTTATCTCCCTCA-GAAGTAGTGGAGCAGATCAAAGACGAC
1 A-ATCTTATCTCCCT-AGGCAGTAGTGGAGCAGATTGAAGACGAC
* * * * * *
16216914 GAATTTTATCTTCCCAAGGTAGTAG-GGAAGCAGATTTAAGTC-ATT
1 -AATCTTATC-TCCCTAGGCAGTAGTGG-AGCAGATTGAAGACGA-C
** * * * * **
16216959 AGCCTTATCTCCCT-GAGCAGCAGTGGAGTAGGTTGAAAATTAC
1 AATCTTATCTCCCTAG-GCAGTAGTGGAGCAGATTGAAGACGAC
* *
16217002 AGATCTTATCTCCCTAGGCAGTAGTGGAGCAGATCGAAGACGGC
1 A-ATCTTATCTCCCTAGGCAGTAGTGGAGCAGATTGAAGACGAC
* *
16217046 GAATCTTATCTTCCTAAGACAGTAG
1 -AATCTTATCTCCCT-AGGCAGTAG
16217071 GGAATCAAAT
Statistics
Matches: 381, Mismatches: 132, Indels: 75
0.65 0.22 0.13
Matches are distributed among these distances:
42 6 0.02
43 83 0.22
44 217 0.57
45 73 0.19
46 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.25
Consensus pattern (43 bp):
AATCTTATCTCCCTAGGCAGTAGTGGAGCAGATTGAAGACGAC
Found at i:16217140 original size:132 final size:132
Alignment explanation
Indices: 16216432--16217123 Score: 1037
Period size: 132 Copynumber: 5.2 Consensus size: 132
16216422 CGAAGATACC
* * ** *
16216432 AGCCTTATCTCCTTGAGCAACACTGGAGTAGGTTGAAAATTGTAAATCTTATCTCCCTAAGCAGT
1 AGCCTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * *
16216497 AGTGGAGCAAATCAAAGACGGCGAA-CTTATCTTCCCAAGGCAGTAGGGAAGCAGATTTAAGCCA
66 AGTGGAGCAGATCGAAGACGGCGAATTTTATCTTCCCAAGGCAGTAGGGAAGCAGATTTAAGCCA
16216561 CT
131 CT
* * *
16216563 AGCCTTATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAAATTACATATCTTATCTCCCTAAGCAGT
1 AGCCTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * *
16216628 AGTGGAGCAGATCGAAAACGGCGAATTTTATCTTCCCAAGACAGTAGGGAAGCAAATTTAAGCCA
66 AGTGGAGCAGATCGAAGACGGCGAATTTTATCTTCCCAAGGCAGTAGGGAAGCAGATTTAAGCCA
16216693 CT
131 CT
** *
16216695 AGCCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATTTTATCTCCCTAAGCAGT
1 AGCCTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * * *
16216760 AGTGGAGCAGATCGAAGATGGTGAATTTTATCTTCCCAAGGCAATAAGGAAGCAGATTTAAGCCA
66 AGTGGAGCAGATCGAAGACGGCGAATTTTATCTTCCCAAGGCAGTAGGGAAGCAGATTTAAGCCA
16216825 GC-
131 -CT
* * *
16216827 AGCCTTATCTCCCTGAGCAACAGTGGCGTAGGTTGAAAATTACAGATCTTATCTCCCTCAGAAGT
1 AGCCTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * * *
16216892 AGTGGAGCAGATCAAAGACGACGAATTTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGTCA
66 AGTGGAGCAGATCGAAGACGGCGAATTTTATCTTCCCAAGGCAGTAGGGAAGCAGATTTAAGCCA
*
16216957 TT
131 CT
* *
16216959 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAGGCAGT
1 AGCCTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * * * *
16217024 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGACAGTAGGGAATCAAATTTAAGCCA
66 AGTGGAGCAGATCGAAGACGGCGAATTTTATCTTCCCAAGGCAGTAGGGAAGCAGATTTAAGCCA
16217089 CT
131 CT
16217091 AGCCTTATCTCCCTGAGCAACAGTGGAGTAGGT
1 AGCCTTATCTCCCTGAGCAACAGTGGAGTAGGT
16217124 CGAAGATTGT
Statistics
Matches: 503, Mismatches: 55, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
131 80 0.16
132 422 0.84
133 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (132 bp):
AGCCTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGGCGAATTTTATCTTCCCAAGGCAGTAGGGAAGCAGATTTAAGCCA
CT
Found at i:16217183 original size:88 final size:87
Alignment explanation
Indices: 16217091--16217262 Score: 227
Period size: 88 Copynumber: 2.0 Consensus size: 87
16217081 TTAAGCCACT
* * * * * *
16217091 AGCCTTATCTCCCTGAGCAACAGTGGAGTAGGTCGAAGATTGTAGATCTTGTCTTCCTGTACTGG
1 AGCCTTATCTCCCTGAGCAACAGCGGAGCAGGTCGAAAATAGCAGATCTTGCCTTCCTGTACTGG
*
16217156 CAGTGAAGCAGATCAGAAGCACC
66 CAATGAAGCAGATC-GAAGCACC
** * * *
16217179 AGCCTTATCTCCCTGAGCAGTAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCTTGTATTGG
1 AGCCTTATCTCCCTGAGCAACAGCGGAGCAGGTCGAAAATAGCAGATCTTGCCTTCCTGTACTGG
16217244 CAATGAAGCAGATCGAAGC
66 CAATGAAGCAGATCGAAGC
16217263 CAATAATCCT
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
87 5 0.07
88 67 0.93
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (87 bp):
AGCCTTATCTCCCTGAGCAACAGCGGAGCAGGTCGAAAATAGCAGATCTTGCCTTCCTGTACTGG
CAATGAAGCAGATCGAAGCACC
Found at i:16219020 original size:15 final size:15
Alignment explanation
Indices: 16219000--16219029 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16218990 TTGGTTTAGC
16219000 CATAAACTTGCAAGT
1 CATAAACTTGCAAGT
16219015 CATAAACTTGCAAGT
1 CATAAACTTGCAAGT
16219030 TTATCCGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (15 bp):
CATAAACTTGCAAGT
Found at i:16219482 original size:43 final size:43
Alignment explanation
Indices: 16219434--16219683 Score: 324
Period size: 43 Copynumber: 5.8 Consensus size: 43
16219424 GTGTCGCTAA
* * *
16219434 CTTTAGCAGCGCTCTTCCCATAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
16219477 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
* *
16219520 CTTTGGCGGCGCTTTTCCTACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
*
16219563 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
* ** * * * *
16219606 CTTTAGCAGCGCTTTTCCCTGAAGCGCCGCTAAAAAACAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
* * *
16219649 CATTT-GCGACGC-TTTCTCCAAAAACGCCACTAAAG
1 C-TTTAGCGGCGCTTTTC-CCACAAACGCCGCTAAAG
16219684 GTCACAAAAA
Statistics
Matches: 184, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.02
43 177 0.96
44 3 0.02
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.20
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
Found at i:16224562 original size:24 final size:25
Alignment explanation
Indices: 16224512--16224559 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
16224502 CATTATTGCT
16224512 TTTTTATAAATTGATTTATTTTTTG
1 TTTTTATAAATTGATTTATTTTTTG
16224537 TTTTTATAAATTGATTTATTTTT
1 TTTTTATAAATTGATTTATTTTT
16224560 GTTGCTTACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (25 bp):
TTTTTATAAATTGATTTATTTTTTG
Found at i:16224740 original size:107 final size:107
Alignment explanation
Indices: 16224607--16224800 Score: 316
Period size: 107 Copynumber: 1.8 Consensus size: 107
16224597 ACAAAATTTT
* * * ** *
16224607 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATTTTTTATTTTGTTCTTTATAAA
1 TTTCATTTCGAACAAAACGACACCGTTTTGCTATGCTAAAAAAATTTTATTTTATTCTTTATAAA
16224672 TTGATTTATTTTTTGCGGCGTTTTTATAAAAAAACGCCGCTA
66 TTGATTTATTTTTTGCGGCGTTTTTATAAAAAAACGCCGCTA
* *
16224714 TTTCATTTCGAACAAAATGACACCGTTTTGCTATGCTAAAAAAATTTTATTTTATTTTTTATAAA
1 TTTCATTTCGAACAAAACGACACCGTTTTGCTATGCTAAAAAAATTTTATTTTATTCTTTATAAA
16224779 TTGATTTATTTTTTGCGGCGTT
66 TTGATTTATTTTTTGCGGCGTT
16224801 CAAAAAAAAT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
107 79 1.00
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (107 bp):
TTTCATTTCGAACAAAACGACACCGTTTTGCTATGCTAAAAAAATTTTATTTTATTCTTTATAAA
TTGATTTATTTTTTGCGGCGTTTTTATAAAAAAACGCCGCTA
Found at i:16224807 original size:52 final size:53
Alignment explanation
Indices: 16224751--16224853 Score: 199
Period size: 53 Copynumber: 2.0 Consensus size: 53
16224741 TTGCTATGCT
16224751 AAAAAAA-TTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGGCGTTCA
1 AAAAAAATTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGGCGTTCA
16224803 AAAAAAATTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGGCGTT
1 AAAAAAATTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGGCGTT
16224854 TTNNNNNNNN
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 7 0.14
53 43 0.86
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (53 bp):
AAAAAAATTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGGCGTTCA
Found at i:16226096 original size:73 final size:73
Alignment explanation
Indices: 16225975--16226148 Score: 242
Period size: 73 Copynumber: 2.4 Consensus size: 73
16225965 CTGAGCATTA
* *
16225975 GCGGCGCTTTCCTAAAAATGCCGCTAAATCCCCGAAAGCTCATAAAACGACGTCGTTGAGCTTAG
1 GCGGCGCTTTCCTAAAAATGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGAGCTTAG
16226040 GCTTTTTT
66 GCTTTTTT
* * * * *
16226048 GTGGCGCTTTCTTAAAAACT-CTGCTAAATCCCCAAAAGCTCAGAAAACGACGTTGTTGGGCTTA
1 GCGGCGCTTTCCTAAAAA-TGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGAGCTTA
*
16226112 GGTTTTTTT
65 GGCTTTTTT
* *
16226121 GCGGCGCTTTCCCAAAAACGCCGCTAAA
1 GCGGCGCTTTCCTAAAAATGCCGCTAAA
16226149 GCCCTGAGCA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
73 85 0.99
74 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (73 bp):
GCGGCGCTTTCCTAAAAATGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGAGCTTAG
GCTTTTTT
Found at i:16226235 original size:187 final size:187
Alignment explanation
Indices: 16225916--16226262 Score: 550
Period size: 187 Copynumber: 1.9 Consensus size: 187
16225906 NNNNNNNNNN
*
16225916 TTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGTCCTGAGCATTAGCGGCG
1 TTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCG
* * * *
16225981 CTTTCCTAAAAATGCCGCTAAATCCCCGAAAGCTCATAAAACGACGTCGTTGAGCTTAGGCTTTT
66 CTTTCCTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCATTGAGCTTAGGCTTTT
* * * * *
16226046 TTGTGGCGCTTTCTTAAAAACTCTGCTAAATCCCCAAAAGCTCAGAAAACGACGTTG
131 TTGCGACGCTTTCTCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTTG
16226103 TTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCG
1 TTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCG
* * ** * *
16226168 CTTTCTTAAAAACGCCGCTAAATCCCTAAAAGCTCAGAAAACGGTGTCATTGGGCTTAGGTTTTT
66 CTTTCCTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCATTGAGCTTAGGCTTTT
16226233 TTGCGACGCTTTCTCAAAAACGCCGCTAAA
131 TTGCGACGCTTTCTCAAAAACGCCGCTAAA
16226263 GCCCTGAGCA
Statistics
Matches: 144, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
187 144 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (187 bp):
TTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCG
CTTTCCTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCATTGAGCTTAGGCTTTT
TTGCGACGCTTTCTCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTTG
Found at i:16226251 original size:114 final size:114
Alignment explanation
Indices: 16226050--16226486 Score: 666
Period size: 114 Copynumber: 3.9 Consensus size: 114
16226040 GCTTTTTTGT
* * *
16226050 GGCGCTTTCTTAAAAACTCTGCTAAATCCCCAAAAGCTCAGAAAACGACGTTGTTGGGCTTAGGT
1 GGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGT
16226115 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
66 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
* ** *
16226164 GGCGCTTTCTTAAAAACGCCGCTAAATCCCTAAAAGCTCAGAAAACGGTGTCATTGGGCTTAGGT
1 GGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGT
* *
16226229 TTTTTTGCGACGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
66 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
* * * *
16226278 AGG-ACTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTGGGGCTTAGG
1 -GGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTAGG
*
16226342 -TTTTTTGTGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
65 TTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
* * * *
16226391 GGCGCTTTCTTAGAAACGCCGCTAAATCCCCGAAAGCTCAGGAAACGATGTCGTTGGGCTTAGG-
1 GGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGT
*
16226455 -TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
66 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAA
16226487 TGCTTATTTT
Statistics
Matches: 293, Mismatches: 28, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
112 32 0.11
113 101 0.34
114 158 0.54
115 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (114 bp):
GGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGT
TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
Found at i:16226415 original size:227 final size:226
Alignment explanation
Indices: 16226054--16226486 Score: 717
Period size: 227 Copynumber: 1.9 Consensus size: 226
16226044 TTTTGTGGCG
* * *
16226054 CTTTCTTAAAAACTCTGCTAAATCCCCAAAAGCTCAGAAAACGACGTTGTTGGGCTTAGGTTTTT
1 CTTTCTTAAAAACTCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTGGGGCTTAGGTTTTT
16226119 TTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCC
66 TTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCC
* *
16226184 GCTAAATCCCTAAAAGCTCAGAAAACGGTGTCATTGGGCTTAGGTTTTTTTGCGACGCTTTCTCA
131 GCTAAATCCCCAAAAGCTCAGAAAACGATGTCATTGGGCTTAGG--TTTTTGCGACGCTTTCTCA
16226249 AAAACGCCGCTAAAGCCCTGAGCATTAGCAGGA
194 AAAACGCCGCTAAAGCCCTGAGCATTAGCAGGA
*
16226282 CTTTCTTAAAAA-TGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTGGGGCTTAGG-TTT
1 CTTTCTTAAAAACT-CCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTGGGGCTTAGGTTTT
* *
16226345 TTTGTGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAGAAACGC
65 TTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGC
* * * *
16226410 CGCTAAATCCCCGAAAGCTCAGGAAACGATGTCGTTGGGCTTAGGTTTTTGCGGCGCTTTCTCAA
130 CGCTAAATCCCCAAAAGCTCAGAAAACGATGTCATTGGGCTTAGGTTTTTGCGACGCTTTCTCAA
16226475 AAACGCCGCTAA
195 AAACGCCGCTAA
16226487 TGCTTATTTT
Statistics
Matches: 192, Mismatches: 12, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
225 31 0.16
227 107 0.56
228 54 0.28
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (226 bp):
CTTTCTTAAAAACTCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTGGGGCTTAGGTTTTT
TTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCC
GCTAAATCCCCAAAAGCTCAGAAAACGATGTCATTGGGCTTAGGTTTTTGCGACGCTTTCTCAAA
AACGCCGCTAAAGCCCTGAGCATTAGCAGGA
Found at i:16234448 original size:2 final size:2
Alignment explanation
Indices: 16234443--16234468 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16234433 CCCTCCCCTT
16234443 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
16234469 AGTCCCCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:16237289 original size:12 final size:12
Alignment explanation
Indices: 16237274--16237304 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
16237264 CCATGTTGCG
16237274 TGCCATTGCCCT
1 TGCCATTGCCCT
*
16237286 TGCCCTTGCCCT
1 TGCCATTGCCCT
16237298 TGCCATT
1 TGCCATT
16237305 CTGTTCGACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.06, C:0.42, G:0.16, T:0.35
Consensus pattern (12 bp):
TGCCATTGCCCT
Found at i:16238842 original size:16 final size:16
Alignment explanation
Indices: 16238821--16238851 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16238811 ATTTTATAGT
16238821 ATTTTAAAAAAAATCA
1 ATTTTAAAAAAAATCA
*
16238837 ATTTTAAAAGAAATC
1 ATTTTAAAAAAAATC
16238852 TAAAAATAAA
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:0.58, C:0.06, G:0.03, T:0.32
Consensus pattern (16 bp):
ATTTTAAAAAAAATCA
Found at i:16243201 original size:25 final size:25
Alignment explanation
Indices: 16243173--16243228 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
16243163 CATATAACAT
* * *
16243173 GAAGCTTATGTGAGCTGTGTAATGG
1 GAAGCTTATCTGAGCTGTATAACGG
*
16243198 GAAGCTTATCTGGGCTGTATAACGG
1 GAAGCTTATCTGAGCTGTATAACGG
16243223 GAAGCT
1 GAAGCT
16243229 CATAAGAGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.12, G:0.34, T:0.29
Consensus pattern (25 bp):
GAAGCTTATCTGAGCTGTATAACGG
Found at i:16243321 original size:74 final size:74
Alignment explanation
Indices: 16243223--16243403 Score: 199
Period size: 73 Copynumber: 2.5 Consensus size: 74
16243213 TGTATAACGG
* * * * *
16243223 GAAGCTCA-TAAGAGCCATAT-TCGGAAAGCTCATGTGAGCCAATAAT-GAGTAGCTCTGAAAAG
1 GAAGCTCACGAAGAACCATATATCGGAAAGCTCATGCGAGCC-AT-ATCGAGAAGCTCCGAAAAG
16243285 CCATTAATCAA
64 CCATTAATCAA
* * * * *
16243296 GAAGCTC-CGGATAACCATATATCGGAAAGTTCAAGCGAGCCATATCGAGAAGCTCCGAAGAGCC
1 GAAGCTCACGAAGAACCATATATCGGAAAGCTCATGCGAGCCATATCGAGAAGCTCCGAAAAGCC
16243360 ATTAATCAA
66 ATTAATCAA
* * *
16243369 GAAGCTCACGAAGAGCCATATAACGGAACGCTCAT
1 GAAGCTCACGAAGAACCATATATCGGAAAGCTCAT
16243404 AAGAGCTGCG
Statistics
Matches: 87, Mismatches: 17, Indels: 7
0.78 0.15 0.06
Matches are distributed among these distances:
72 2 0.02
73 48 0.55
74 37 0.43
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (74 bp):
GAAGCTCACGAAGAACCATATATCGGAAAGCTCATGCGAGCCATATCGAGAAGCTCCGAAAAGCC
ATTAATCAA
Found at i:16243401 original size:26 final size:25
Alignment explanation
Indices: 16243332--16243402 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 25
16243322 AAGTTCAAGC
16243332 GAGCCATAT--CGAGAAGCTC-CGAA
1 GAGCCATATAACG-GAAGCTCACGAA
*
16243355 GAGCCAT-TAATCAAGAAGCTCACGAA
1 GAGCCATATAA-C-GGAAGCTCACGAA
16243381 GAGCCATATAACGGAACGCTCA
1 GAGCCATATAACGGAA-GCTCA
16243403 TAAGAGCTGC
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
22 1 0.03
23 7 0.18
25 11 0.28
26 17 0.44
27 3 0.08
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.14
Consensus pattern (25 bp):
GAGCCATATAACGGAAGCTCACGAA
Found at i:16244092 original size:37 final size:37
Alignment explanation
Indices: 16244049--16244124 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
16244039 TTAGAATTTT
16244049 TCCATAAATTTTGCTTCTTTTCAATTTAGTCTCAAAA
1 TCCATAAATTTTGCTTCTTTTCAATTTAGTCTCAAAA
16244086 TCCATAAATTTTGCTTCTTTTCAATTTAGTCTCAAAA
1 TCCATAAATTTTGCTTCTTTTCAATTTAGTCTCAAAA
16244123 TC
1 TC
16244125 ATGTTTTCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.29, C:0.20, G:0.05, T:0.46
Consensus pattern (37 bp):
TCCATAAATTTTGCTTCTTTTCAATTTAGTCTCAAAA
Found at i:16251395 original size:30 final size:29
Alignment explanation
Indices: 16251345--16251404 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
16251335 AACATTTAAT
16251345 TATTTTTTTAAATTTAAAAATATTAAAAA
1 TATTTTTTTAAATTTAAAAATATTAAAAA
* * *
16251374 TATTTTTTATAACTTTTAAAATTTTAAAAA
1 TATTTTTT-TAAATTTAAAAATATTAAAAA
16251404 T
1 T
16251405 TTATTCAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
TATTTTTTTAAATTTAAAAATATTAAAAA
Found at i:16263020 original size:138 final size:138
Alignment explanation
Indices: 16262786--16263042 Score: 325
Period size: 138 Copynumber: 1.9 Consensus size: 138
16262776 AAAAGCTCCG
* * * * * *
16262786 AGCTGTCATTTTATGGCTCGTAGGTTAAACACTGCAGCCCTAAACAATTGGTGATAGTTAAAAAC
1 AGCTGTCATTTTATGGCTCGCAGGTTAAACACCGCAACCCTAAACAATTAGCGAGAGTTAAAAAC
** * * * * * *
16262851 TCTTAGCTGTCATTTCATGGATCGCAAGTTAAACACCGCAGCCTCAAACAGTTATTGAGAGTTAA
66 TCCCAACTATAATTTCAAGGATCGCAAGTTAAACACCGCAACCCCAAACAGTTATTGAGAGTTAA
16262916 AAGTTTTT
131 AAGTTTTT
* *
16262924 AGCTGTCATTTTATGGCTCGCAGGTTGAACACCGCAACCCTAAACAATTAGCGAGAGTTAAAAGC
1 AGCTGTCATTTTATGGCTCGCAGGTTAAACACCGCAACCCTAAACAATTAGCGAGAGTTAAAAAC
* * * * *
16262989 TCCCAACTATAATTTTAAGGCTTGCATGTTAAACACCGCAACCCCAAATAGTTA
66 TCCCAACTATAATTTCAAGGATCGCAAGTTAAACACCGCAACCCCAAACAGTTA
16263043 GCGAGTGTCA
Statistics
Matches: 98, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
138 98 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.28
Consensus pattern (138 bp):
AGCTGTCATTTTATGGCTCGCAGGTTAAACACCGCAACCCTAAACAATTAGCGAGAGTTAAAAAC
TCCCAACTATAATTTCAAGGATCGCAAGTTAAACACCGCAACCCCAAACAGTTATTGAGAGTTAA
AAGTTTTT
Found at i:16263029 original size:69 final size:69
Alignment explanation
Indices: 16262764--16263047 Score: 282
Period size: 69 Copynumber: 4.1 Consensus size: 69
16262754 ACCAAAATAG
* * * *
16262764 TTAGCGAGAGTTAAAAGCTCCGAGCTGTCATTTTATGGCTCGTAGGTTAAACACTGCAGCCCTAA
1 TTAGCGAGAGTTAAAAGCTCCTAGCTGTCATTTTATGGCTCGCAGGTTAAACACCGCAACCCTAA
16262829 ACAA
66 ACAA
* * * * * * * * *
16262833 TTGGTGATAGTTAAAAACTCTTAGCTGTCATTTCATGGATCGCAAGTTAAACACCGC-AGCCTCA
1 TTAGCGAGAGTTAAAAGCTCCTAGCTGTCATTTTATGGCTCGCAGGTTAAACACCGCAACCCT-A
*
16262897 AACAG
65 AACAA
** * ** *
16262902 TTATTGAGAGTTAAAAGTTTTTAGCTGTCATTTTATGGCTCGCAGGTTGAACACCGCAACCCTAA
1 TTAGCGAGAGTTAAAAGCTCCTAGCTGTCATTTTATGGCTCGCAGGTTAAACACCGCAACCCTAA
16262967 ACAA
66 ACAA
* * * * * * * *
16262971 TTAGCGAGAGTTAAAAGCTCCCAACTATAATTTTAAGGCTTGCATGTTAAACACCGCAACCCCAA
1 TTAGCGAGAGTTAAAAGCTCCTAGCTGTCATTTTATGGCTCGCAGGTTAAACACCGCAACCCTAA
* *
16263036 ATAG
66 ACAA
16263040 TTAGCGAG
1 TTAGCGAG
16263048 TGTCATTTTA
Statistics
Matches: 171, Mismatches: 42, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
68 3 0.02
69 164 0.96
70 4 0.02
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (69 bp):
TTAGCGAGAGTTAAAAGCTCCTAGCTGTCATTTTATGGCTCGCAGGTTAAACACCGCAACCCTAA
ACAA
Found at i:16263144 original size:121 final size:121
Alignment explanation
Indices: 16262927--16263168 Score: 304
Period size: 121 Copynumber: 2.0 Consensus size: 121
16262917 AGTTTTTAGC
* * * * *
16262927 TGTCATTTTATGGCTCGCAGGTTGAACACCGCAACCCTAAACAATTAGCGAGAGTTAAAAGCTCC
1 TGTCATTTTATGGCTCACAGGTTAAACACCGCAACCCCAAACAATTAACGAGAGTTAAAAGCTAC
* * * *
16262992 CAACTATAATTTTAAGGCTTGCATGTTAAACACCGCAACCCCAAATAGTTAGCGAG
66 CAACTATAATTTTAAGGCTCGCACGTCAAACACCGCAACCCCAAACAGTTAGCGAG
* * * *
16263048 TGTCATTTTATGGCTCACAGGTTAAACACTGCAGCCCCAAACAGTTAACGAGAGTTAAAAGCTAT
1 TGTCATTTTATGGCTCACAGGTTAAACACCGCAACCCCAAACAATTAACGAGAGTTAAAAGCTAC
* * * ** * *
16263113 CAACTTTCATTTTATGGCTCGCACGTCAAACATTGTAGCCCCAAACAGTTAGCGAG
66 CAACTATAATTTTAAGGCTCGCACGTCAAACACCGCAACCCCAAACAGTTAGCGAG
16263169 AGCTAAAAAC
Statistics
Matches: 101, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
121 101 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (121 bp):
TGTCATTTTATGGCTCACAGGTTAAACACCGCAACCCCAAACAATTAACGAGAGTTAAAAGCTAC
CAACTATAATTTTAAGGCTCGCACGTCAAACACCGCAACCCCAAACAGTTAGCGAG
Found at i:16263161 original size:69 final size:69
Alignment explanation
Indices: 16263048--16263204 Score: 208
Period size: 69 Copynumber: 2.3 Consensus size: 69
16263038 AGTTAGCGAG
* * * *
16263048 TGTCATTTTATGGCTCACAGGTTAAACACTGCAGCCCCAAACAGTTAACGAGAGTTAAAAGCTAT
1 TGTCATTTTATGGCTCACACGTCAAACACTGCAGCCCCAAACAGTTAACGAGAGCTAAAAACT-T
16263113 C-AAC
65 CTAAC
* * * * *
16263117 TTTCATTTTATGGCTCGCACGTCAAACATTGTAGCCCCAAACAGTTAGCGAGAGCTAAAAACTTC
1 TGTCATTTTATGGCTCACACGTCAAACACTGCAGCCCCAAACAGTTAACGAGAGCTAAAAACTTC
16263182 TAAC
66 TAAC
*
16263186 TGTCATTTTAGGGCTCACA
1 TGTCATTTTATGGCTCACA
16263205 GGTCCAATAC
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
68 2 0.03
69 73 0.97
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (69 bp):
TGTCATTTTATGGCTCACACGTCAAACACTGCAGCCCCAAACAGTTAACGAGAGCTAAAAACTTC
TAAC
Found at i:16266471 original size:46 final size:46
Alignment explanation
Indices: 16266399--16266538 Score: 228
Period size: 46 Copynumber: 3.0 Consensus size: 46
16266389 ACAATGCTAT
* *
16266399 AACTCAGTATAG-TTTCTTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTC-TTCACTGAAACACCATACCTACTTTTCAC
*
16266445 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
16266491 AACTTAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
16266537 AA
1 AA
16266539 TTTTCCATGG
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
46 84 0.95
47 4 0.05
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:16271915 original size:31 final size:32
Alignment explanation
Indices: 16271873--16271952 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 32
16271863 AATATGAATG
*
16271873 ATTACAGGGTATGAAAATGCAAATGTG-ACCA
1 ATTACAAGGTATGAAAATGCAAATGTGAACCA
* * **
16271904 ATTACAAGGTATG-ATATACAAATGTGAATGA
1 ATTACAAGGTATGAAAATGCAAATGTGAACCA
*
16271935 A-TACAAAGTATGAAAATG
1 ATTACAAGGTATGAAAATG
16271953 TAATATGTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
30 21 0.54
31 18 0.46
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.25
Consensus pattern (32 bp):
ATTACAAGGTATGAAAATGCAAATGTGAACCA
Found at i:16271940 original size:30 final size:30
Alignment explanation
Indices: 16271862--16271949 Score: 79
Period size: 30 Copynumber: 2.9 Consensus size: 30
16271852 ATATATGTGA
* * * *
16271862 AAATATGAATGATTACAGGGTATGAAAATGC
1 AAATGTGAATGAATACAAGGTATG-AAATAC
** *
16271893 AAATGTG-ACCAATTACAAGGTATGATATAC
1 AAATGTGAATGAA-TACAAGGTATGAAATAC
*
16271923 AAATGTGAATGAATACAAAGTATGAAA
1 AAATGTGAATGAATACAAGGTATGAAA
16271950 ATGTAATATG
Statistics
Matches: 44, Mismatches: 11, Indels: 5
0.73 0.18 0.08
Matches are distributed among these distances:
30 25 0.57
31 19 0.43
ACGTcount: A:0.48, C:0.08, G:0.19, T:0.25
Consensus pattern (30 bp):
AAATGTGAATGAATACAAGGTATGAAATAC
Found at i:16272769 original size:17 final size:17
Alignment explanation
Indices: 16272743--16272782 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
16272733 ATTAAATTAG
*
16272743 TTTT-AATTAATTAATT
1 TTTTCAATTAAATAATT
16272759 TTTTCAATTAAATAATT
1 TTTTCAATTAAATAATT
*
16272776 TTCTCAA
1 TTTTCAA
16272783 CCCAATTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTCAATTAAATAATT
Found at i:16278028 original size:88 final size:89
Alignment explanation
Indices: 16277911--16278088 Score: 349
Period size: 88 Copynumber: 2.0 Consensus size: 89
16277901 GGGACGAAAA
16277911 ATTAATAGAAAATGATAAAATAATATGTTTTCAATGGCAATTTTGTAAATTAATGAAAGTTAAAA
1 ATTAATAGAAAATGATAAAATAATATGTTTTCAATGGCAATTTTGTAAATTAATGAAAGTTAAAA
16277976 CAAAAATTAAAGAATGAATTAATC
66 CAAAAATTAAAGAATGAATTAATC
16278000 ATTAATAG-AAATGATAAAATAATATGTTTTCAATGGCAATTTTGTAAATTAATGAAAGTTAAAA
1 ATTAATAGAAAATGATAAAATAATATGTTTTCAATGGCAATTTTGTAAATTAATGAAAGTTAAAA
16278064 CAAAAATTAAAGAATGAATTAATC
66 CAAAAATTAAAGAATGAATTAATC
16278088 A
1 A
16278089 AATTTACTTT
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 81 0.91
89 8 0.09
ACGTcount: A:0.52, C:0.04, G:0.11, T:0.33
Consensus pattern (89 bp):
ATTAATAGAAAATGATAAAATAATATGTTTTCAATGGCAATTTTGTAAATTAATGAAAGTTAAAA
CAAAAATTAAAGAATGAATTAATC
Found at i:16280501 original size:30 final size:30
Alignment explanation
Indices: 16280467--16280528 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
16280457 TAAATTAACA
16280467 AACAAATACCTCTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
* *
16280497 AACAAATGCCTTTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
16280527 AA
1 AA
16280529 TAGTAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.24
Consensus pattern (30 bp):
AACAAATACCTCTAAAATAATAACAAAATT
Found at i:16286051 original size:18 final size:18
Alignment explanation
Indices: 16286007--16286054 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
16285997 GCAATAAAAA
16286007 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAATTGAAT
* *
16286025 AACGATTTGTAAA-TGAAT
1 AATGTTTTG-AAATTGAAT
16286043 AATGTTTTGAAA
1 AATGTTTTGAAA
16286055 AGAAACGACA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 19 0.76
19 3 0.12
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.40
Consensus pattern (18 bp):
AATGTTTTGAAATTGAAT
Found at i:16286508 original size:21 final size:21
Alignment explanation
Indices: 16286482--16286529 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
16286472 TAAGGCATGG
*
16286482 TTAGTTTAGTTGGATTTTGAT
1 TTAGTTTAGATGGATTTTGAT
16286503 TTAGTTTAGATGGATTTTGAT
1 TTAGTTTAGATGGATTTTGAT
*
16286524 CTAGTT
1 TTAGTT
16286530 GAATTGTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.02, G:0.23, T:0.54
Consensus pattern (21 bp):
TTAGTTTAGATGGATTTTGAT
Found at i:16288462 original size:54 final size:54
Alignment explanation
Indices: 16288404--16288533 Score: 206
Period size: 54 Copynumber: 2.4 Consensus size: 54
16288394 CCCGTGTAAG
*
16288404 TCACTATTTTAAGACACACGGTCATGTCGTTGGCCGTGTCTCAGACCATGTTAC
1 TCACTATTTTAAGACACACGGTCATGTCATTGGCCGTGTCTCAGACCATGTTAC
* * *
16288458 TCACTGTTTTAAAACACACGGTCATGTCATTGGTCGTGTCTCAGACCATGTTAC
1 TCACTATTTTAAGACACACGGTCATGTCATTGGCCGTGTCTCAGACCATGTTAC
*
16288512 TCAATTATTTTAAGACACACGG
1 TC-ACTATTTTAAGACACACGG
16288534 CTGTGTGGGT
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
54 52 0.76
55 16 0.24
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (54 bp):
TCACTATTTTAAGACACACGGTCATGTCATTGGCCGTGTCTCAGACCATGTTAC
Found at i:16295803 original size:3 final size:3
Alignment explanation
Indices: 16295795--16295832 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
16295785 ATACTATGAC
16295795 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 TT
16295833 CCTACTATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:16300503 original size:6 final size:6
Alignment explanation
Indices: 16300492--16300518 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
16300482 ATATCATTGA
16300492 TGACAT TGACAT TGACAT TGACAT TGA
1 TGACAT TGACAT TGACAT TGACAT TGA
16300519 TAATTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (6 bp):
TGACAT
Found at i:16301202 original size:18 final size:19
Alignment explanation
Indices: 16301160--16301204 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
16301150 TCAAGATCTT
16301160 AAATTAATGTGGTCCAAAG
1 AAATTAATGTGGTCCAAAG
16301179 AAATTAATGTGGTCCAAA-
1 AAATTAATGTGGTCCAAAG
16301197 AAATTAAT
1 AAATTAAT
16301205 TAGTAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.29
Consensus pattern (19 bp):
AAATTAATGTGGTCCAAAG
Found at i:16302634 original size:2 final size:2
Alignment explanation
Indices: 16302627--16302674 Score: 51
Period size: 2 Copynumber: 23.5 Consensus size: 2
16302617 ATATAAGATC
** **
16302627 AT AT AT AT AT AT AT AT AT NNN NN 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 AT AT AT
16302670 AT AT A
1 AT AT A
16302675 AAACTTGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:16303157 original size:40 final size:41
Alignment explanation
Indices: 16303104--16303229 Score: 143
Period size: 40 Copynumber: 3.1 Consensus size: 41
16303094 AAAACGTCGG
*
16303104 TAAAAATCGAGCATTAGCGGCGA-TTTATGAAAATCGCCAC
1 TAAAAATCGAGCATTAGCGGCGATTTTATGAAAAACGCCAC
* * * * *
16303144 TAAATATCAAGCATTAGTGGC-ATTTTCTGAAAAACGCCGC
1 TAAAAATCGAGCATTAGCGGCGATTTTATGAAAAACGCCAC
*
16303184 TAAAAAT-GAGCATTAGCGGCGTTTTTTAT-AAAAACGCCAC
1 TAAAAATCGAGCATTAGCGGCG-ATTTTATGAAAAACGCCAC
*
16303224 AAAAAA
1 TAAAAA
16303230 CCAAAGCTCA
Statistics
Matches: 70, Mismatches: 13, Indels: 6
0.79 0.15 0.07
Matches are distributed among these distances:
39 12 0.17
40 53 0.76
41 5 0.07
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (41 bp):
TAAAAATCGAGCATTAGCGGCGATTTTATGAAAAACGCCAC
Found at i:16303332 original size:41 final size:41
Alignment explanation
Indices: 16303287--16303421 Score: 125
Period size: 41 Copynumber: 3.3 Consensus size: 41
16303277 GTTTTCAAAA
* * *
16303287 AAGCGCTGCTAATGCTCGGTTCTTTAGCGGCGTTTTTGGAG
1 AAGCGCCGCTAATACTAGGTTCTTTAGCGGCGTTTTTGGAG
*
16303328 AAGCGCCGCTAATACTATGTTCTTTAGCGGCGTTTTT-GA-
1 AAGCGCCGCTAATACTAGGTTCTTTAGCGGCGTTTTTGGAG
* * * * *
16303367 AATGGCGCCGCTAATTCT--CTTGGCTTTAGTGGCGTTTTTGAAA
1 AA--GCGCCGCTAATACTAGGTT--CTTTAGCGGCGTTTTTGGAG
16303410 AAGCGCCGCTAA
1 AAGCGCCGCTAA
16303422 AGATATTTTA
Statistics
Matches: 80, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
39 4 0.05
40 2 0.03
41 71 0.89
42 1 0.01
43 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (41 bp):
AAGCGCCGCTAATACTAGGTTCTTTAGCGGCGTTTTTGGAG
Found at i:16303828 original size:21 final size:20
Alignment explanation
Indices: 16303794--16303834 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
16303784 GTATGGATTA
*
16303794 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
16303814 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
16303835 AGACGTTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:16305147 original size:27 final size:27
Alignment explanation
Indices: 16305087--16305148 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
16305077 AAATATATAC
* *
16305087 ATATAAATATGAAAATATTCATTAAAA
1 ATATATATAGGAAAATATTCATTAAAA
* * *
16305114 AGA-ATATAGGAAAATATTCGTTTAAA
1 ATATATATAGGAAAATATTCATTAAAA
16305140 ATATATATA
1 ATATATATA
16305149 TGTGTACATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (27 bp):
ATATATATAGGAAAATATTCATTAAAA
Found at i:16305247 original size:13 final size:14
Alignment explanation
Indices: 16305223--16305254 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
16305213 AATTAATAAA
16305223 ATAAATAAAAAAAC
1 ATAAATAAAAAAAC
16305237 ATAAA-AAAAAAAC
1 ATAAATAAAAAAAC
16305250 -TAAAT
1 ATAAAT
16305255 TGAATTGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.24
13 8 0.47
14 5 0.29
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (14 bp):
ATAAATAAAAAAAC
Found at i:16305735 original size:19 final size:19
Alignment explanation
Indices: 16305711--16305844 Score: 196
Period size: 19 Copynumber: 6.8 Consensus size: 19
16305701 AATCATATAT
16305711 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
16305730 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
16305749 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
16305770 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
16305791 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
16305810 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
16305829 TATAAGATTGCATATC
1 TCTAAGATTGCATATC
16305845 CTCAAAAATT
Statistics
Matches: 106, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
19 66 0.62
21 40 0.38
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:16305866 original size:61 final size:60
Alignment explanation
Indices: 16305688--16305843 Score: 174
Period size: 61 Copynumber: 2.6 Consensus size: 60
16305678 AAATTAAATC
* * * **
16305688 TCTAAGATTACAAAATCATATATTCTAAGATTGC--ATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCAATATCATATA---TAAGATTGCATATATCAAATCTAAGATTCCATATCATA
* * *
16305749 TCTAAGATTGCATATATCATATCTAAGATTGCATATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCA-ATATCATATATAAGATTGCATATATCAAATCTAAGATTCCATATCATA
*
16305810 TCTAGGATTGC-ATATCATATATAAGATTGCATAT
1 TCTAAGATTGCAATATCATATATAAGATTGCATAT
16305844 CCTCAAAAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
59 31 0.36
61 46 0.54
62 8 0.09
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (60 bp):
TCTAAGATTGCAATATCATATATAAGATTGCATATATCAAATCTAAGATTCCATATCATA
Found at i:16306172 original size:84 final size:82
Alignment explanation
Indices: 16306029--16306900 Score: 416
Period size: 84 Copynumber: 10.2 Consensus size: 82
16306019 CAGTCTGTCT
* * * *
16306029 CACTGCAACTTCA-GGAGGATAAGACTTGCTTATTTAGTTTGCTTCACTGCAACTTCAGGGAGAT
1 CACTGCAACTTCAGGGA-GATAAGA-TTG-GT-TTTAATCTGCTCCACTGCAACTTCAGGGAGAT
* *
16306093 ATGACTAGATGCGATCTGCT-
62 AAGACTAGATGCAATCTGCTC
* * *
16306113 CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATA
1 CACTGCAACTTCAGGGAGATAAGAT-T--GGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * *
16306178 GGATTATCA-GCTTTAATCTGCTC
63 AGACTA-GATGC---AATCTGCTC
* * *** ** *
16306201 CACTGCAACTTCAGGGAGATAAGATTTGATGCGATCTGCT-CTTTGCAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGGGAGATAAGATTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* ** *
16306265 TCTAAAGTTTTAATCCGCTC
66 -CT--AGATGCAATCTGCTC
* * *** ** *
16306285 CACTGCAACTTCAGGGAGATAAGATTTGATGCGATCTGCT-CTTTGCAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGGGAGATAAGATTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* ** *
16306349 TCTAAAGTTTTAATCCGCTC
66 -CT--AGATGCAATCTGCTC
* * *
16306369 CACTGCAATTTCAGGGAGATAAGATTATCGGCTTTAATCTGCTCCACTACAACTTCAGGGAGATA
1 CACTGCAACTTCAGGGAGATAAGA-T-T-GGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * * *
16306434 AGACTTGCCATCTTCAGTCTGCCC
63 AGACTAG--A--TGCAATCTGCTC
* *
16306458 CACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
1 CACTGCAACTTCAGGGA-GATAAGA-TTGGTT--TTAATCTGCTCCACTGCAACTTCAGGGAGAT
*
16306522 AAGACTAGATGCGATCTGCT-
62 AAGACTAGATGCAATCTGCTC
* * * * *
16306542 CTCTGCAACTTCAGAGAGATAAGATCTAAAGTTTTAATCCGCTCCACTGCAATTTCAGGGAGATA
1 CACTGCAACTTCAGGGAGATAAGAT-T--GGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * **
16306607 AGATTATCGGCTTTAATCTGCTC
63 AGACTA---GATGCAATCTGCTC
* ** ** ** * *
16306630 CACTACAACTTCAGGGAGATAAGACTTCCATCATTCTAATCCACTCTGCTACAACTTTAGGGAGA
1 CACTGCAACTTCAGGGAGATAAGA-TT-GGT--TT-TAATCTGCTCCACTGCAACTTCAGGGAGA
* * * ** *
16306695 TAGGATTTGTTTATTTAGTCTTGCTC
61 TAAGACTAG---ATGCAATC-TGCTC
* * * * *** * ** *
16306721 CACT-AAACTTCAGGGAGATAAGACTAGATGCGATCTGCT-CTCTGCAACTTCAAAGAGATAAAA
1 CACTGCAACTTCAGGGAGATAAGATTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * **
16306784 TTTGAGGTTTTAAT-TCGCTC
66 -CT-A-GATGCAATCT-GCTC
* *
16306804 CACTGCAACTTCAGGGAGATAGGACTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
1 CACTGCAACTTCAGGGAGATAAGA-T-T-GGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
*
16306869 AGACTAGATGCGATCTGCT-
63 AGACTAGATGCAATCTGCTC
*
16306888 CTCTGCAACTTCA
1 CACTGCAACTTCA
16306901 NNNNNNNNNN
Statistics
Matches: 615, Mismatches: 123, Indels: 100
0.73 0.15 0.12
Matches are distributed among these distances:
82 1 0.00
83 10 0.02
84 294 0.48
85 38 0.06
86 8 0.01
87 45 0.07
88 89 0.14
89 68 0.11
90 53 0.09
91 9 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (82 bp):
CACTGCAACTTCAGGGAGATAAGATTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
CTAGATGCAATCTGCTC
Found at i:16306257 original size:128 final size:128
Alignment explanation
Indices: 16306068--16306900 Score: 661
Period size: 128 Copynumber: 6.5 Consensus size: 128
16306058 TTATTTAGTT
* *
16306068 TGCTTCACTGCAACTTCAGGGAGATATGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
*
16306133 AAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTTAATC
66 AAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTTAATC
* * *
16306196 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGATGCGATCTGCTCTTTGCAACTTCAGAGAGAT
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
* * *
16306261 AAGATCTAAAGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATT-TGATGC---GATC
66 AAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTATCA-GCTTTAATC
** * * *** * * * *
16306321 TGCT-CTTTGCAACTTCAGAGAGATAAGATCTAAAGTTTTAATCCGCTCCACTGCAATTTCAGGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-CT--AGATGCGATCTGCT-CTCTGCAACTTCAGAG
* * * * ** * *
16306385 AGATAAGAT-TATCGGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGCCATCTTC
62 AGATAAGATCTA-AGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGA-TTATCAGCTTT
*
16306449 AGTC
125 AATC
* * * * * * *
16306453 TGCCCCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGG
1 TGCTCCACTGCAACTTCAGGGA-GATAAGACTAG-ATGC-GA-TCTGCT-CTCTGCAACTTCAGA
* *** * * * * *
16306517 GAGATAAGA-CT-A-GATGCGATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTA-AAGTTTT
61 GAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCAGCTTT
16306577 AATC
125 AATC
* * * * *** * * *
16306581 CGCTCCACTGCAATTTCAGGGAGATAAGATTATCGGCTTTAATCTGCTCCACTACAACTTCAGGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTA---GATGCGATCTGCT-CTCTGCAACTTCAGAG
* *** * * ** * * * * *
16306646 AGATAAGACTTCCATCATTCTAATCCACTCTGCTACAACTTTAGGGAGATAGGATTTGTTTA--T
62 AGATAAGA--TCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGA-TT-ATCAGCT
*
16306709 TTAGTC
123 TTAATC
* *
16306715 TTGCTCCACT-AAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGA
1 -TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
* * * * * * *
16306779 TAAAATTTGAGGTTTTAATTCGCTCCACTGCAACTTCAGGGAGATAGGACTATCGGCTTTAATC
65 TAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTTAATC
16306843 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCA
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCA
16306901 NNNNNNNNNN
Statistics
Matches: 553, Mismatches: 117, Indels: 70
0.75 0.16 0.09
Matches are distributed among these distances:
124 21 0.04
125 8 0.01
126 1 0.00
127 22 0.04
128 310 0.56
129 29 0.05
130 31 0.06
131 13 0.02
132 10 0.02
133 54 0.10
134 44 0.08
135 9 0.02
136 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (128 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
AAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTTAATC
Found at i:16306346 original size:40 final size:40
Alignment explanation
Indices: 16306204--16306349 Score: 166
Period size: 40 Copynumber: 3.5 Consensus size: 40
16306194 TCTGCTCCAC
*
16306204 TGCAACTTCAGGGAGATAAGATTTGATGCGATCTGCTCTT
1 TGCAACTTCAGAGAGATAAGATTTGATGCGATCTGCTCTT
* * *** * **
16306244 TGCAACTTCAGAGAGATAAGATCTAAAGTTTTAATCCGCTCCAC
1 TGCAACTTCAGAGAGATAAGAT-T--TGATGCGATCTGCT-CTT
*
16306288 TGCAACTTCAGGGAGATAAGATTTGATGCGATCTGCTCTT
1 TGCAACTTCAGAGAGATAAGATTTGATGCGATCTGCTCTT
16306328 TGCAACTTCAGAGAGATAAGAT
1 TGCAACTTCAGAGAGATAAGAT
16306350 CTAAAGTTTT
Statistics
Matches: 83, Mismatches: 19, Indels: 8
0.75 0.17 0.07
Matches are distributed among these distances:
40 43 0.52
41 9 0.11
43 9 0.11
44 22 0.27
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (40 bp):
TGCAACTTCAGAGAGATAAGATTTGATGCGATCTGCTCTT
Found at i:16306874 original size:44 final size:43
Alignment explanation
Indices: 16306029--16306874 Score: 509
Period size: 44 Copynumber: 19.6 Consensus size: 43
16306019 CAGTCTGTCT
* * * *
16306029 CACTGCAACTTCA-GGAGGATAAGACT-TGCTTATTTAGTTTGCTT
1 CACTGCAACTTCAGGGA-GATAAGACTATG--GATTTAATCTGCTC
* ***
16306073 CACTGCAACTTCAGGGAGATATGACTA--GATGCGATCTGCT-
1 CACTGCAACTTCAGGGAGATAAGACTATGGATTTAATCTGCTC
* * * * *
16306113 CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTC
1 CACTGCAACTTCAGGGAGATAAGA-CTATGGATTTAATCTGCTC
* * * *
16306157 CACTGCAACTTCAGGGAGATAGGATTATCAGCTTTAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGACTAT-GGATTTAATCTGCTC
* ***
16306201 CACTGCAACTTCAGGGAGATAAGA-T-TTGATGCGATCTGCT-
1 CACTGCAACTTCAGGGAGATAAGACTATGGATTTAATCTGCTC
** * ** * *
16306241 CTTTGCAACTTCAGAGAGATAAGATCTAAAGTTTTAATCCGCTC
1 CACTGCAACTTCAGGGAGATAAGA-CTATGGATTTAATCTGCTC
* ***
16306285 CACTGCAACTTCAGGGAGATAAGA-T-TTGATGCGATCTGCT-
1 CACTGCAACTTCAGGGAGATAAGACTATGGATTTAATCTGCTC
** * ** * *
16306325 CTTTGCAACTTCAGAGAGATAAGATCTAAAGTTTTAATCCGCTC
1 CACTGCAACTTCAGGGAGATAAGA-CTATGGATTTAATCTGCTC
* * *
16306369 CACTGCAATTTCAGGGAGATAAGATTATCGGCTTTAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGACTAT-GGATTTAATCTGCTC
* * * *
16306413 CACTACAACTTCAGGGAGATAAGACT-TGCCATCTTCAGTCTGCCC
1 CACTGCAACTTCAGGGAGATAAGACTATG-GAT-TT-AATCTGCTC
* * *
16306458 CACTGCAACTTCA-GGAGGATAAGACT-TGCTTACTTAGTCTGCTC
1 CACTGCAACTTCAGGGA-GATAAGACTATG--GATTTAATCTGCTC
***
16306502 CACTGCAACTTCAGGGAGATAAGACTA--GATGCGATCTGCT-
1 CACTGCAACTTCAGGGAGATAAGACTATGGATTTAATCTGCTC
* * ** * *
16306542 CTCTGCAACTTCAGAGAGATAAGATCTAAAGTTTTAATCCGCTC
1 CACTGCAACTTCAGGGAGATAAGA-CTATGGATTTAATCTGCTC
* * *
16306586 CACTGCAATTTCAGGGAGATAAGATTATCGGCTTTAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGACTAT-GGATTTAATCTGCTC
* * **
16306630 CACTACAACTTCAGGGAGATAAGACTTCCAT-CATTCTAATCCACTC
1 CACTGCAACTTCAGGGAGATAAGAC-T--ATGGATT-TAATCTGCTC
** * * * * * *
16306676 TGCTACAACTTTAGGGAGATAGGA-TTTGTTTATTTAGTCTTGCTC
1 CACTGCAACTTCAGGGAGATAAGACTATG--GATTTAATC-TGCTC
* ***
16306721 CACT-AAACTTCAGGGAGATAAGACTA--GATGCGATCTGCT-
1 CACTGCAACTTCAGGGAGATAAGACTATGGATTTAATCTGCTC
* ** * * *
16306760 CTCTGCAACTTCAAAGAGATAA-AATTTGAGGTTTTAAT-TCGCTC
1 CACTGCAACTTCAGGGAGATAAGACTAT--GGATTTAATCT-GCTC
* *
16306804 CACTGCAACTTCAGGGAGATAGGACTATCGGCTTTAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGACTAT-GGATTTAATCTGCTC
16306848 CACTGCAACTTCAGGGAGATAAGACTA
1 CACTGCAACTTCAGGGAGATAAGACTA
16306875 GATGCGATCT
Statistics
Matches: 609, Mismatches: 147, Indels: 92
0.72 0.17 0.11
Matches are distributed among these distances:
39 5 0.01
40 103 0.17
41 41 0.07
42 7 0.01
43 48 0.08
44 320 0.53
45 54 0.09
46 29 0.05
47 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (43 bp):
CACTGCAACTTCAGGGAGATAAGACTATGGATTTAATCTGCTC
Found at i:16308542 original size:8 final size:8
Alignment explanation
Indices: 16308529--16308570 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
16308519 TTCACTTTTA
16308529 TTTTTTGT
1 TTTTTTGT
16308537 TTTTTTG-
1 TTTTTTGT
16308544 -TTTTTG-
1 TTTTTTGT
16308550 -TTTTTGT
1 TTTTTTGT
16308557 TTTTTTGT
1 TTTTTTGT
16308565 TTTTTT
1 TTTTTT
16308571 TTGAATCTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.38
8 20 0.62
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (8 bp):
TTTTTTGT
Found at i:16308547 original size:14 final size:13
Alignment explanation
Indices: 16308524--16308572 Score: 71
Period size: 14 Copynumber: 3.6 Consensus size: 13
16308514 TTTCTTTCAC
*
16308524 TTTTATTTTTTGT
1 TTTTTTTTTTTGT
16308537 TTTTTTGTTTTTGT
1 TTTTTT-TTTTTGT
16308551 TTTTGTTTTTTTGT
1 TTTT-TTTTTTTGT
16308565 TTTTTTTT
1 TTTTTTTT
16308573 GAATCTGAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
13 9 0.27
14 22 0.67
15 2 0.06
ACGTcount: A:0.02, C:0.00, G:0.10, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTTTGT
Found at i:16308547 original size:20 final size:19
Alignment explanation
Indices: 16308524--16308572 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 19
16308514 TTTCTTTCAC
16308524 TTTTATTTTTTGTTTTTTTG
1 TTTT-TTTTTTGTTTTTTTG
16308544 TTTTTGTTTTTGTTTTTTTG
1 TTTTT-TTTTTGTTTTTTTG
16308564 TTTTTTTTT
1 TTTTTTTTT
16308573 GAATCTGAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.02, C:0.00, G:0.10, T:0.88
Consensus pattern (19 bp):
TTTTTTTTTTGTTTTTTTG
Found at i:16314495 original size:7 final size:7
Alignment explanation
Indices: 16314483--16314512 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
16314473 NNNNNAAAAT
16314483 AAATAAA
1 AAATAAA
16314490 AAAT-AA
1 AAATAAA
16314496 AAATAAA
1 AAATAAA
16314503 AAATAAA
1 AAATAAA
16314510 AAA
1 AAA
16314513 ACTTAATTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAATAAA
Found at i:16314501 original size:13 final size:13
Alignment explanation
Indices: 16314483--16314511 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
16314473 NNNNNAAAAT
16314483 AAATAAAAAATAA
1 AAATAAAAAATAA
16314496 AAATAAAAAATAA
1 AAATAAAAAATAA
16314509 AAA
1 AAA
16314512 AACTTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAATAAAAAATAA
Found at i:16314867 original size:57 final size:56
Alignment explanation
Indices: 16314806--16314967 Score: 127
Period size: 59 Copynumber: 2.8 Consensus size: 56
16314796 GATTAAATGG
16314806 TATCTACAAATTA-A-ATC-TCTAAGATTACAAAATCATATATTCTAAGATTGC-ATATCA
1 TATCTA-AAATTATATATCATCTAAGATTAC-AAATC--ATA-TCTAAGATTGCAATATCA
* *
16314863 TATCTAAGATTATATATCATATCTAAGATTACATATCATATCTAAGATTGCATATATCA
1 TATCTAAAATTATATATC--ATCTAAGATTACAAATCATATCTAAGATTGCA-ATATCA
** * * *
16314922 TATCTAGGATTGCATATCAT-ATCTAGGATTGCATATCATATCTAAG
1 TATCTAAAATT--ATAT-ATCATCTAAGATTACAAATCATATCTAAG
16314968 GGGTATCTCT
Statistics
Matches: 90, Mismatches: 5, Indels: 18
0.80 0.04 0.16
Matches are distributed among these distances:
56 5 0.06
57 18 0.20
58 6 0.07
59 40 0.44
60 4 0.04
61 15 0.17
62 2 0.02
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.37
Consensus pattern (56 bp):
TATCTAAAATTATATATCATCTAAGATTACAAATCATATCTAAGATTGCAATATCA
Found at i:16314870 original size:19 final size:19
Alignment explanation
Indices: 16314846--16315108 Score: 279
Period size: 19 Copynumber: 13.8 Consensus size: 19
16314836 AATCATATAT
16314846 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
16314865 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
*
16314884 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
16314903 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
16314924 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
16314943 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
16314962 TCTAAG---GGGTATC---
1 TCTAAGATTGCATATCATA
* *
16314975 TCTAAGATTACAAAATCATA
1 TCTAAGATTGC-ATATCATA
16314995 TCTTCTAAGATTGCATATCATA
1 ---TCTAAGATTGCATATCATA
* ** *
16315017 TCAAAGATTATACATCATA
1 TCTAAGATTGCATATCATA
16315036 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
16315055 TCTAAGATTGCATATCAATA
1 TCTAAGATTGCATATC-ATA
*
16315075 TCTAGGA-TGCATATCATA
1 TCTAAGATTGCATATCATA
*
16315093 TATAAGATTGCATATC
1 TCTAAGATTGCATATC
16315109 CTCAAAAATT
Statistics
Matches: 205, Mismatches: 25, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
13 6 0.03
16 5 0.02
17 3 0.01
18 8 0.04
19 139 0.68
20 9 0.04
21 18 0.09
22 7 0.03
23 10 0.05
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:16315046 original size:93 final size:90
Alignment explanation
Indices: 16314884--16315060 Score: 239
Period size: 93 Copynumber: 1.9 Consensus size: 90
16314874 ATATATCATA
* * * * * *
16314884 TCTAAGATTACATATCATATCTAAGATTGCATATATCATATCTAGGATTGCATATCATATCTAGG
1 TCTAAGATTACAAATCATATCTAAGATTGCA-ATATCATATCAAAGATTACACATCATATCTAAG
16314949 ATTGCATATCATATCTAAGGGGTATC
65 ATTGCATATCATATCTAAGGGGTATC
*
16314975 TCTAAGATTACAAAATCATATCTTCTAAGATTGC-ATATCATATCAAAGATTATACATCATATCT
1 TCTAAGATTAC-AAATCATA---TCTAAGATTGCAATATCATATCAAAGATTACACATCATATCT
16315039 AAGATTGCATATCATATCTAAG
62 AAGATTGCATATCATATCTAAG
16315061 ATTGCATATC
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
91 11 0.15
92 7 0.09
93 46 0.61
95 11 0.15
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (90 bp):
TCTAAGATTACAAATCATATCTAAGATTGCAATATCATATCAAAGATTACACATCATATCTAAGA
TTGCATATCATATCTAAGGGGTATC
Done.