Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 164 of 297
Found at i:55306272 original size:30 final size:30
Alignment explanation
Indices: 55306229--55306287 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
55306219 GGAGGTGGGA
55306229 TGGGAAGGAAGTAAAAATTTTAGGGGGAAAG
1 TGGGAAGGAAGTAAAAATTTT-GGGGGAAAG
55306260 TGGGAA-GAAGTAAAAATTTTGGGGGAAA
1 TGGGAAGGAAGTAAAAATTTTGGGGGAAA
55306288 ATAAAAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 8 0.29
30 14 0.50
31 6 0.21
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.20
Consensus pattern (30 bp):
TGGGAAGGAAGTAAAAATTTTGGGGGAAAG
Found at i:55307769 original size:21 final size:19
Alignment explanation
Indices: 55307726--55307772 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
55307716 CAAATACGCC
*
55307726 AACAGAAGCTCGAAAGCTG
1 AACAGAAGCTCGAAAGCTA
55307745 AACAGAAGCTCGAAAGAGCTA
1 AACAGAAGCTCG-AA-AGCTA
55307766 AACAGAA
1 AACAGAA
55307773 AGTAAAACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 12 0.48
20 2 0.08
21 11 0.44
ACGTcount: A:0.49, C:0.19, G:0.23, T:0.09
Consensus pattern (19 bp):
AACAGAAGCTCGAAAGCTA
Found at i:55312461 original size:32 final size:32
Alignment explanation
Indices: 55312420--55312484 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
55312410 TGGCTGCCGA
55312420 AAGCACAACAAATATATGAACTTAAATGTCTT
1 AAGCACAACAAATATATGAACTTAAATGTCTT
55312452 AAGCACAACAAATATATGAACTTAAATGTCTT
1 AAGCACAACAAATATATGAACTTAAATGTCTT
55312484 A
1 A
55312485 CATTTTTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (32 bp):
AAGCACAACAAATATATGAACTTAAATGTCTT
Found at i:55318685 original size:53 final size:53
Alignment explanation
Indices: 55318604--55318749 Score: 195
Period size: 53 Copynumber: 2.7 Consensus size: 53
55318594 CTTACACGGT
* *
55318604 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGAAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGAAATCACATTA
* *
55318659 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGAAATCACATTA
** *
55318712 TCACATTGCACCGATGCCATAGCCCATCTATGGTCTTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTA
55318750 AACGGGCACA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 75 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGAAATCACATTA
Found at i:55324598 original size:30 final size:30
Alignment explanation
Indices: 55324545--55324602 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
55324535 CACGATCATG
* *
55324545 ACACACGGGTGTGTGGTCTACCCATGTGTC
1 ACACACGGGCGTGTGGTCGACCCATGTGTC
55324575 ACACACGGGCGTGTGGAT-GACCCATGTG
1 ACACACGGGCGTGTGG-TCGACCCATGTG
55324603 GAAGATCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.19, C:0.26, G:0.33, T:0.22
Consensus pattern (30 bp):
ACACACGGGCGTGTGGTCGACCCATGTGTC
Found at i:55329164 original size:17 final size:17
Alignment explanation
Indices: 55329135--55329196 Score: 72
Period size: 18 Copynumber: 3.6 Consensus size: 17
55329125 CTTCAAAAAT
* *
55329135 AAATAAAAGAAAGA-CA
1 AAATAAAATAAAGATAA
55329151 AAATGAAAATAAAGATAA
1 AAAT-AAAATAAAGATAA
*
55329169 AAATAAAAATAAAAATAA
1 AAAT-AAAATAAAGATAA
55329187 AAATAAAATA
1 AAATAAAATA
55329197 GATGGACTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
16 4 0.10
17 15 0.38
18 21 0.52
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (17 bp):
AAATAAAATAAAGATAA
Found at i:55329168 original size:6 final size:6
Alignment explanation
Indices: 55329150--55329194 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
55329140 AAAGAAAGAC
* *
55329150 AAAATG AAAATA AAGATA AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
55329195 TAGATGGACT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:55329633 original size:86 final size:86
Alignment explanation
Indices: 55329481--55329832 Score: 690
Period size: 86 Copynumber: 4.1 Consensus size: 86
55329471 GGCCAAACAT
55329481 TATATG-A-TTTAATAGATATGGATTTGCATGTCAATTTTGCCATTTCCAAATTAGTGGCCGACC
1 TATATGTATTTTAATAGATATGGATTTGCATGTCAATTTTGCCATTTCCAAATTAGTGGCCGACC
55329544 ATGTTGATTGCTTGAGATAAA
66 ATGTTGATTGCTTGAGATAAA
55329565 TATATGTATTTTAATAGATATGGATTTGCATGTCAATTTTGCCATTTCCAAATTAGTGGCCGACC
1 TATATGTATTTTAATAGATATGGATTTGCATGTCAATTTTGCCATTTCCAAATTAGTGGCCGACC
55329630 ATGTTGATTGCTTGAGATAAA
66 ATGTTGATTGCTTGAGATAAA
55329651 TATATGTATTTTAATAGATATGGATTTGCATGTCAATTTTGCCATTTCCAAATTAGTGGCCGACC
1 TATATGTATTTTAATAGATATGGATTTGCATGTCAATTTTGCCATTTCCAAATTAGTGGCCGACC
55329716 ATGTTGATTGCTTGAGATAAA
66 ATGTTGATTGCTTGAGATAAA
55329737 TATATGTATTTTAATAGATATGGATTTGCATGTCAATTTTGCCATTTCCAAATTAGTGGCCGACC
1 TATATGTATTTTAATAGATATGGATTTGCATGTCAATTTTGCCATTTCCAAATTAGTGGCCGACC
55329802 ATGTTGATTGCTTGAGATAAA
66 ATGTTGATTGCTTGAGATAAA
55329823 TATATGTATT
1 TATATGTATT
55329833 ATATATATAT
Statistics
Matches: 266, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
84 6 0.02
85 1 0.00
86 259 0.97
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.40
Consensus pattern (86 bp):
TATATGTATTTTAATAGATATGGATTTGCATGTCAATTTTGCCATTTCCAAATTAGTGGCCGACC
ATGTTGATTGCTTGAGATAAA
Found at i:55331437 original size:39 final size:40
Alignment explanation
Indices: 55331383--55331524 Score: 218
Period size: 39 Copynumber: 3.6 Consensus size: 40
55331373 TAATGGAGAA
*
55331383 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAAGTCCCGCAGGCATTCGTGCTGGTG
*
55331422 TTATATCCGGGCT-AAGTCCCGCAGGCATTCGTGGTGGTG
1 TTATATCCGGGCTAAAGTCCCGCAGGCATTCGTGCTGGTG
* *
55331461 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCTAAAGTCCCGCAGGCATTCGTGCTGGTG
55331500 TTATATCCGGGCTTAAAGTCCCGCA
1 TTATATCCGGGC-TAAAGTCCCGCA
55331525 TGCTTTGTGG
Statistics
Matches: 96, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 71 0.74
40 25 0.26
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (40 bp):
TTATATCCGGGCTAAAGTCCCGCAGGCATTCGTGCTGGTG
Found at i:55334059 original size:65 final size:65
Alignment explanation
Indices: 55333949--55334078 Score: 217
Period size: 65 Copynumber: 2.0 Consensus size: 65
55333939 GAAGCGCTTA
* *
55333949 TTTAGAGTCTAAGCTTGACTTACCTCTCTGTTGCGTGGTCTTGGTGGT-TCGAGGAGTTTACACT
1 TTTAGAGTCTAAGCTCGACTTACCTCTCTGTTGCGTGGTCATGGTGGTGT-GAGGAGTTTACACT
55334013 C
65 C
*
55334014 TTTATAGTCTAAGCTCGACTTACCTCTCTGTTGCGTGGTCATGGTGGTGTGAGGAGTTTACACTC
1 TTTAGAGTCTAAGCTCGACTTACCTCTCTGTTGCGTGGTCATGGTGGTGTGAGGAGTTTACACTC
55334079 CTCATTCTTG
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
65 60 0.98
66 1 0.02
ACGTcount: A:0.16, C:0.20, G:0.26, T:0.38
Consensus pattern (65 bp):
TTTAGAGTCTAAGCTCGACTTACCTCTCTGTTGCGTGGTCATGGTGGTGTGAGGAGTTTACACTC
Found at i:55335111 original size:11 final size:11
Alignment explanation
Indices: 55335097--55335141 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
55335087 AGATAAATAT
55335097 TATTTTATTAA
1 TATTTTATTAA
*
55335108 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
55335121 TATTTTATTAT
1 TATTTTATTAA
55335132 TATTTTATTA
1 TATTTTATTA
55335142 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:55337257 original size:23 final size:25
Alignment explanation
Indices: 55337212--55337258 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
55337202 AATAAATATA
*
55337212 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
55337237 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
55337259 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:55343911 original size:21 final size:21
Alignment explanation
Indices: 55343887--55343928 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
55343877 CTTTTTAATT
55343887 AATTGACTAACCAAACGTTAA
1 AATTGACTAACCAAACGTTAA
** *
55343908 AATTTTCTAACGAAACGTTAA
1 AATTGACTAACCAAACGTTAA
55343929 TACTAACTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.29
Consensus pattern (21 bp):
AATTGACTAACCAAACGTTAA
Found at i:55350183 original size:46 final size:46
Alignment explanation
Indices: 55350120--55350287 Score: 230
Period size: 46 Copynumber: 3.7 Consensus size: 46
55350110 CAACATGTGT
* * * *
55350120 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
* *
55350166 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
*
55350212 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGA
* * *
55350258 GTAAGACCATAGTTGAAAGACACTATGGCA
1 GTAAGACCATGGTTGAAAGATACCATGGCA
55350288 TCACGTCAAA
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 108 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
Found at i:55350593 original size:23 final size:25
Alignment explanation
Indices: 55350548--55350594 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
55350538 AATAAATATA
*
55350548 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
55350573 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
55350595 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:55351752 original size:4 final size:4
Alignment explanation
Indices: 55351745--55351813 Score: 63
Period size: 4 Copynumber: 17.0 Consensus size: 4
55351735 TTTCTCCTTC
*
55351745 CTTT CTTT CCTT -TTT CTTTT CTTT CTTT CTTT C-TT -TTT CTTT CTGTTT
1 CTTT CTTT CTTT CTTT C-TTT CTTT CTTT CTTT CTTT CTTT CTTT C--TTT
*
55351793 CGTTT CTAT CTTT CTTT CTTT
1 C-TTT CTTT CTTT CTTT CTTT
55351814 TTATTTATTC
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
3 6 0.11
4 36 0.65
5 9 0.16
6 4 0.07
ACGTcount: A:0.01, C:0.23, G:0.03, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:55351805 original size:33 final size:34
Alignment explanation
Indices: 55351746--55351815 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 34
55351736 TTCTCCTTCC
* * *
55351746 TTTCTTTCCTTTTTCTTTTCTTTCTTTCTTTCTT
1 TTTCTTTCCTGTTTCGTTTCTATCTTTCTTTCTT
55351780 TTTCTTT-CTGTTTCGTTTCTATCTTTCTTTCTT
1 TTTCTTTCCTGTTTCGTTTCTATCTTTCTTTCTT
55351813 TTT
1 TTT
55351816 ATTTATTCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 26 0.79
34 7 0.21
ACGTcount: A:0.01, C:0.21, G:0.03, T:0.74
Consensus pattern (34 bp):
TTTCTTTCCTGTTTCGTTTCTATCTTTCTTTCTT
Found at i:55354402 original size:23 final size:23
Alignment explanation
Indices: 55354376--55354423 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
55354366 GGTAATAATA
55354376 ATGTAAATGTGTAATAAATACAT
1 ATGTAAATGTGTAATAAATACAT
* * * *
55354399 ATGTACATTTGTAATACATATAT
1 ATGTAAATGTGTAATAAATACAT
55354422 AT
1 AT
55354424 TTATTTATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (23 bp):
ATGTAAATGTGTAATAAATACAT
Found at i:55354951 original size:93 final size:93
Alignment explanation
Indices: 55354792--55354976 Score: 352
Period size: 93 Copynumber: 2.0 Consensus size: 93
55354782 GGATTAAATT
*
55354792 GAAGAATAAATTAAAAGTTTTGTGTAAAAAGGGACTAATTTGTAAACTTGTGAAATTTAAAGAAA
1 GAAGAATAAATTAAAAGTTTTGTGTAAAAAAGGACTAATTTGTAAACTTGTGAAATTTAAAGAAA
55354857 AATTCTAAATTTTATGAAATATAAGTGC
66 AATTCTAAATTTTATGAAATATAAGTGC
55354885 GAAGAATAAATTAAAAGTTTTGTGTAAAAAAGGACTAATTTGTAAACTTGTGAAATTTAAAGAAA
1 GAAGAATAAATTAAAAGTTTTGTGTAAAAAAGGACTAATTTGTAAACTTGTGAAATTTAAAGAAA
*
55354950 AATTCTGAATTTTATGAAATATAAGTG
66 AATTCTAAATTTTATGAAATATAAGTG
55354977 TTGTAAATGT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 90 1.00
ACGTcount: A:0.46, C:0.04, G:0.16, T:0.34
Consensus pattern (93 bp):
GAAGAATAAATTAAAAGTTTTGTGTAAAAAAGGACTAATTTGTAAACTTGTGAAATTTAAAGAAA
AATTCTAAATTTTATGAAATATAAGTGC
Found at i:55355470 original size:68 final size:68
Alignment explanation
Indices: 55355396--55355533 Score: 258
Period size: 68 Copynumber: 2.0 Consensus size: 68
55355386 AATTAATAAA
*
55355396 TGGGTGAAATTCCGTTTGAATATTGGTGATCAATGGATAATGGAAATTTCCCAAAATATATGAGG
1 TGGGTGAAATTCCGTTTGAATATTGGTGATCAATGGATAATGAAAATTTCCCAAAATATATGAGG
55355461 TTC
66 TTC
*
55355464 TGGGTGAAATTCCGTTTGAATATTGGTGATCGATGGATAATGAAAATTTCCCAAAATATATGAGG
1 TGGGTGAAATTCCGTTTGAATATTGGTGATCAATGGATAATGAAAATTTCCCAAAATATATGAGG
55355529 TTC
66 TTC
55355532 TG
1 TG
55355534 CATGTGTTGC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (68 bp):
TGGGTGAAATTCCGTTTGAATATTGGTGATCAATGGATAATGAAAATTTCCCAAAATATATGAGG
TTC
Found at i:55355693 original size:40 final size:39
Alignment explanation
Indices: 55355591--55355668 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 39
55355581 AGCCTTCTCG
55355591 AGAAT-TA-AAAGTGAATAGGATTTATTCCTGATTCACT
1 AGAATATATAAAGTGAATAGGATTTATTCCTGATTCACT
* *
55355628 AGAAATATATAAAGTGGATAGGATTTGTTCCTGATTCACT
1 AG-AATATATAAAGTGAATAGGATTTATTCCTGATTCACT
55355668 A
1 A
55355669 TGGTAACTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
37 2 0.06
38 3 0.08
39 2 0.06
40 29 0.81
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (39 bp):
AGAATATATAAAGTGAATAGGATTTATTCCTGATTCACT
Found at i:55361169 original size:39 final size:39
Alignment explanation
Indices: 55361126--55362029 Score: 1749
Period size: 39 Copynumber: 23.2 Consensus size: 39
55361116 CGAAATCTAG
*
55361126 CTGAAGCACATAAGTGCTAAACGGAAGCTC-GAAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAG-AGGCTAA
55361165 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
55361204 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
55361243 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
55361282 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
55361321 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
55361360 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
55361399 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
55361438 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
55361477 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
55361516 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
55361555 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
55361594 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
55361633 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
55361672 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
55361711 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
55361750 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
55361789 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
55361828 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
55361867 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
55361906 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
*
55361945 CTGAAGCACATAAGTGCTAAACGGAAGCCTAGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
*
55361984 CTAAAGCACATAAGTGCTAAACGGAAGCCC-GAAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCAG-AGGCTAA
55362023 CTGAAGC
1 CTGAAGC
55362030 TCATCAGAGC
Statistics
Matches: 858, Mismatches: 5, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
38 1 0.00
39 856 1.00
40 1 0.00
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.13
Consensus pattern (39 bp):
CTGAAGCACATAAGTGCTAAACGGAAGCCCAGAGGCTAA
Found at i:55367046 original size:11 final size:11
Alignment explanation
Indices: 55367030--55367082 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
55367020 TATACTAGAT
55367030 AAATAATAATA
1 AAATAATAATA
55367041 AAATAATAAT-
1 AAATAATAATA
* *
55367051 AAATATCTCATAA
1 AAATA-ATAAT-A
*
55367064 AAATATTAATA
1 AAATAATAATA
55367075 AAATAATA
1 AAATAATA
55367083 TTTATCTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 5 0.15
11 21 0.62
12 3 0.09
13 5 0.15
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (11 bp):
AAATAATAATA
Found at i:55374397 original size:15 final size:15
Alignment explanation
Indices: 55374377--55374405 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
55374367 GTGAAATAAA
55374377 CTGAAATAATAAAAG
1 CTGAAATAATAAAAG
55374392 CTGAAATAATAAAA
1 CTGAAATAATAAAA
55374406 TATTGTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.10, T:0.21
Consensus pattern (15 bp):
CTGAAATAATAAAAG
Found at i:55374475 original size:67 final size:68
Alignment explanation
Indices: 55374403--55374722 Score: 242
Period size: 67 Copynumber: 4.5 Consensus size: 68
55374393 TGAAATAATA
*
55374403 AAATATTGTGAAATGAACTGAAATAATAAAATAAATATTAATGTAT-AATATATCTAATACTTAA
1 AAATATTGTGAAATAAACTGAAATAATAAAATAAATATTAATGTATAAATATATCTAATACTTAA
55374467 AAT
66 AAT
* * *
55374470 AAATATTGTGAAATAAACTGAAATAATAAAAGCTGAAATAATAAAATATTGTGAAATGA-A-CTG
1 AAATATTGTGAAATAAACTGAAATAATAAAA--T-AAAT-AT-TAAT-GTAT-AAAT-ATATCT-
*
55374533 AAATA-ATAAAAT
57 -AATACTTAAAAT
* * * * * * *
55374545 AAATATTAATGTATAATATATCT--AATACTTAAAATAAATATT-GTGAAATAAACTGAAATAAT
1 AAATATT-GTG-A-AATA-AACTGAAATA-ATAAAATAAATATTAATG-TATAAA-T-ATAT-CT
* *
55374607 AAAAGCTGAAATAAT
57 AATA-CT-TAA-AAT
*
55374622 AAAATATTGTGAAATGAACTGAAATAATAAAATAAATATTAATGTAT-AATATATCTAATACTTA
1 -AAATATTGTGAAATAAACTGAAATAATAAAATAAATATTAATGTATAAATATATCTAATACTTA
55374686 AAAT
65 AAAT
55374690 AAATATTGTGAAATAAACTGAAATAATAAAATA
1 AAATATTGTGAAATAAACTGAAATAATAAAATA
55374723 TTATAATAAA
Statistics
Matches: 196, Mismatches: 28, Indels: 58
0.70 0.10 0.21
Matches are distributed among these distances:
67 62 0.32
68 3 0.02
69 3 0.02
70 6 0.03
71 9 0.05
72 11 0.06
73 7 0.04
74 9 0.05
75 40 0.20
76 17 0.09
77 10 0.05
78 16 0.08
79 3 0.02
ACGTcount: A:0.56, C:0.04, G:0.09, T:0.31
Consensus pattern (68 bp):
AAATATTGTGAAATAAACTGAAATAATAAAATAAATATTAATGTATAAATATATCTAATACTTAA
AAT
Found at i:55374490 original size:110 final size:110
Alignment explanation
Indices: 55374352--55374720 Score: 738
Period size: 110 Copynumber: 3.4 Consensus size: 110
55374342 GCAAAATATG
55374352 CTTAAAATAAATATTGTGAAATAAACTGAAATAATAAAAGCTGAAATAATAAAATATTGTGAAAT
1 CTTAAAATAAATATTGTGAAATAAACTGAAATAATAAAAGCTGAAATAATAAAATATTGTGAAAT
55374417 GAACTGAAATAATAAAATAAATATTAATGTATAATATATCTAATA
66 GAACTGAAATAATAAAATAAATATTAATGTATAATATATCTAATA
55374462 CTTAAAATAAATATTGTGAAATAAACTGAAATAATAAAAGCTGAAATAATAAAATATTGTGAAAT
1 CTTAAAATAAATATTGTGAAATAAACTGAAATAATAAAAGCTGAAATAATAAAATATTGTGAAAT
55374527 GAACTGAAATAATAAAATAAATATTAATGTATAATATATCTAATA
66 GAACTGAAATAATAAAATAAATATTAATGTATAATATATCTAATA
55374572 CTTAAAATAAATATTGTGAAATAAACTGAAATAATAAAAGCTGAAATAATAAAATATTGTGAAAT
1 CTTAAAATAAATATTGTGAAATAAACTGAAATAATAAAAGCTGAAATAATAAAATATTGTGAAAT
55374637 GAACTGAAATAATAAAATAAATATTAATGTATAATATATCTAATA
66 GAACTGAAATAATAAAATAAATATTAATGTATAATATATCTAATA
55374682 CTTAAAATAAATATTGTGAAATAAACTGAAATAATAAAA
1 CTTAAAATAAATATTGTGAAATAAACTGAAATAATAAAA
55374721 TATTATAATA
Statistics
Matches: 259, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 259 1.00
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.31
Consensus pattern (110 bp):
CTTAAAATAAATATTGTGAAATAAACTGAAATAATAAAAGCTGAAATAATAAAATATTGTGAAAT
GAACTGAAATAATAAAATAAATATTAATGTATAATATATCTAATA
Found at i:55374507 original size:15 final size:15
Alignment explanation
Indices: 55374487--55374515 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
55374477 GTGAAATAAA
55374487 CTGAAATAATAAAAG
1 CTGAAATAATAAAAG
55374502 CTGAAATAATAAAA
1 CTGAAATAATAAAA
55374516 TATTGTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.10, T:0.21
Consensus pattern (15 bp):
CTGAAATAATAAAAG
Found at i:55374617 original size:15 final size:15
Alignment explanation
Indices: 55374597--55374625 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
55374587 GTGAAATAAA
55374597 CTGAAATAATAAAAG
1 CTGAAATAATAAAAG
55374612 CTGAAATAATAAAA
1 CTGAAATAATAAAA
55374626 TATTGTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.10, T:0.21
Consensus pattern (15 bp):
CTGAAATAATAAAAG
Found at i:55375814 original size:69 final size:69
Alignment explanation
Indices: 55375698--55375835 Score: 244
Period size: 69 Copynumber: 2.0 Consensus size: 69
55375688 ATAAGGAAGC
55375698 ACGCAGCTATAATATTTTATATTACCTCCCTGTTGTATATCCTTTTCAATATATAACCTTAGATT
1 ACGCAGCTATAATATTTTATATTACCTCCCTGTTGTATATCCTTTTCAATATATAACCTTAGATT
55375763 TGTA
66 TGTA
55375767 ACGCAGCTATAATATTTTATTATTACCTCCCTG-TGTTATATCC-TTTCAATATATAACCTTAGA
1 ACGCAGCTATAATATTTTA-TATTACCTCCCTGTTG-TATATCCTTTTCAATATATAACCTTAGA
55375830 TTTGTA
64 TTTGTA
55375836 GTACTAATTT
Statistics
Matches: 67, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
69 47 0.70
70 20 0.30
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.43
Consensus pattern (69 bp):
ACGCAGCTATAATATTTTATATTACCTCCCTGTTGTATATCCTTTTCAATATATAACCTTAGATT
TGTA
Found at i:55376154 original size:33 final size:33
Alignment explanation
Indices: 55376117--55376219 Score: 179
Period size: 33 Copynumber: 3.1 Consensus size: 33
55376107 CTTGAAGTAC
*
55376117 ACATATACCAACAATTAATTTTAGGTCAATTAT
1 ACATAAACCAACAATTAATTTTAGGTCAATTAT
*
55376150 ACATACACCAACAATTAATTTTAGGTCAATTAT
1 ACATAAACCAACAATTAATTTTAGGTCAATTAT
*
55376183 ACATAAACCAAGAATTAATTTTAGGTCAATTAT
1 ACATAAACCAACAATTAATTTTAGGTCAATTAT
55376216 ACAT
1 ACAT
55376220 GCTTTATAAT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 67 1.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.34
Consensus pattern (33 bp):
ACATAAACCAACAATTAATTTTAGGTCAATTAT
Found at i:55376412 original size:33 final size:33
Alignment explanation
Indices: 55376375--55376438 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
55376365 ATAAAAATAA
*
55376375 ACCAAGAATTAATTTTAGGTCAATTATACATAC
1 ACCAACAATTAATTTTAGGTCAATTATACATAC
55376408 ACCAACAATTAATTTTAGGTCAATTATACAT
1 ACCAACAATTAATTTTAGGTCAATTATACAT
55376439 GCTTTATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (33 bp):
ACCAACAATTAATTTTAGGTCAATTATACATAC
Found at i:55376610 original size:219 final size:219
Alignment explanation
Indices: 55376156--55376579 Score: 821
Period size: 219 Copynumber: 1.9 Consensus size: 219
55376146 TTATACATAC
* *
55376156 ACCAACAATTAATTTTAGGTCAATTATACATAAACCAAGAATTAATTTTAGGTCAATTATACATG
1 ACCAAGAATTAATTTTAGGTCAATTATACATAAACCAACAATTAATTTTAGGTCAATTATACATG
55376221 CTTTATAATTTCTTTATTGTTTGGGTGATTGATAAAGAAATGAAATTAAAGTTGAAACGATATCA
66 CTTTATAATTTCTTTATTGTTTGGGTGATTGATAAAGAAATGAAATTAAAGTTGAAACGATATCA
55376286 TTTAGTAGATACTATTTTGCTTCGTGTGTTCTAAATTTGTATTGTTTATTTTATTTGATAATGTG
131 TTTAGTAGATACTATTTTGCTTCGTGTGTTCTAAATTTGTATTGTTTATTTTATTTGATAATGTG
55376351 TAATTGCAACGTAAATAAAAATAA
196 TAATTGCAACGTAAATAAAAATAA
*
55376375 ACCAAGAATTAATTTTAGGTCAATTATACATACACCAACAATTAATTTTAGGTCAATTATACATG
1 ACCAAGAATTAATTTTAGGTCAATTATACATAAACCAACAATTAATTTTAGGTCAATTATACATG
55376440 CTTTATAATTTCTTTATTGTTTGGGTGATTGATAAAGAAATGAAATTAAAGTTGAAACGATATCA
66 CTTTATAATTTCTTTATTGTTTGGGTGATTGATAAAGAAATGAAATTAAAGTTGAAACGATATCA
55376505 TTTAGTAGATACTATTTTGCTTCGTGTGTTCTAAATTTGTATTGTTTATTTTATTTGATAATGTG
131 TTTAGTAGATACTATTTTGCTTCGTGTGTTCTAAATTTGTATTGTTTATTTTATTTGATAATGTG
55376570 TAATTGCAAC
196 TAATTGCAAC
55376580 TTCAATTCAT
Statistics
Matches: 202, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
219 202 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (219 bp):
ACCAAGAATTAATTTTAGGTCAATTATACATAAACCAACAATTAATTTTAGGTCAATTATACATG
CTTTATAATTTCTTTATTGTTTGGGTGATTGATAAAGAAATGAAATTAAAGTTGAAACGATATCA
TTTAGTAGATACTATTTTGCTTCGTGTGTTCTAAATTTGTATTGTTTATTTTATTTGATAATGTG
TAATTGCAACGTAAATAAAAATAA
Found at i:55381620 original size:2 final size:2
Alignment explanation
Indices: 55381613--55381643 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
55381603 GACGAGAAAA
55381613 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
55381644 TTATACCAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:55386565 original size:18 final size:20
Alignment explanation
Indices: 55386530--55386570 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
55386520 ATATAATTTT
*
55386530 AAAATATATATAATACATCA
1 AAAATATATATAAAACATCA
55386550 AAAATAT-TA-AAAACATCA
1 AAAATATATATAAAACATCA
55386568 AAA
1 AAA
55386571 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 2 0.10
20 7 0.35
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAATATATATAAAACATCA
Found at i:55386697 original size:30 final size:30
Alignment explanation
Indices: 55386653--55386715 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
55386643 ACTTAACAAG
55386653 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
55386683 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
55386713 CAA
1 CAA
55386716 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:55386792 original size:22 final size:22
Alignment explanation
Indices: 55386744--55386802 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
55386734 ATATTCAAAT
*
55386744 AATAACAATAAAATAGTAACAA
1 AATAAAAATAAAATAGTAACAA
* * * **
55386766 CATAATAATAAAATGGTCGCAA
1 AATAAAAATAAAATAGTAACAA
*
55386788 AATAAAAAGAAAATA
1 AATAAAAATAAAATA
55386803 CAAGAAAATA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.19
Consensus pattern (22 bp):
AATAAAAATAAAATAGTAACAA
Found at i:55387374 original size:17 final size:19
Alignment explanation
Indices: 55387352--55387389 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
55387342 TAATTGAAGA
55387352 TATTCA-AATA-GTATAAT
1 TATTCACAATATGTATAAT
*
55387369 TATTCACTATATGTATAAT
1 TATTCACAATATGTATAAT
55387388 TA
1 TA
55387390 GTTTTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (19 bp):
TATTCACAATATGTATAAT
Found at i:55388637 original size:28 final size:27
Alignment explanation
Indices: 55388581--55388652 Score: 83
Period size: 29 Copynumber: 2.6 Consensus size: 27
55388571 TTAAAATTTT
*
55388581 AAAATTAAAAATTTATTAAAATAATATG
1 AAAATTAAAAA-TTATTAAAATAACATG
*
55388609 AAAAATTAAAAATTACTTAAAA-AGCATG
1 -AAAATTAAAAATTA-TTAAAATAACATG
55388637 AAAATATAAAAATTAT
1 AAAAT-TAAAAATTAT
55388653 ATTTTAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 6 0.15
28 16 0.41
29 17 0.44
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (27 bp):
AAAATTAAAAATTATTAAAATAACATG
Found at i:55391046 original size:43 final size:43
Alignment explanation
Indices: 55390999--55391196 Score: 204
Period size: 43 Copynumber: 4.7 Consensus size: 43
55390989 TTGGCCTTTC
*
55390999 GCGATGCTTTCTTAAAAAACGCCGCTAAAGACCAGGACTTTTA
1 GCGATGCTTTTTTAAAAAACGCCGCTAAAGACCAGGACTTTTA
* *
55391042 GCGATGATTTTTTAATAAACGCCGCTAAAGACCAGGACTTTTA
1 GCGATGCTTTTTTAAAAAACGCCGCTAAAGACCAGGACTTTTA
** * *
55391085 GCGGCGCTTTTTTAAAAAACGCCACTAAAGACCAGTACTTTTA
1 GCGATGCTTTTTTAAAAAACGCCGCTAAAGACCAGGACTTTTA
** * **** **
55391128 GCG--GCACTTTT-AAAAATGCCGCTAATTTGCAATACTTTTA
1 GCGATGCTTTTTTAAAAAACGCCGCTAAAGACCAGGACTTTTA
**
55391168 GCGGCGCTTTTTTTAAAAAACGCCGCTAA
1 GCGATGC-TTTTTTAAAAAACGCCGCTAA
55391197 TTTGCCCAGT
Statistics
Matches: 130, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
40 25 0.19
41 6 0.05
42 2 0.02
43 84 0.65
44 13 0.10
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (43 bp):
GCGATGCTTTTTTAAAAAACGCCGCTAAAGACCAGGACTTTTA
Found at i:55391100 original size:86 final size:83
Alignment explanation
Indices: 55391004--55391196 Score: 235
Period size: 86 Copynumber: 2.3 Consensus size: 83
55390994 CTTTCGCGAT
* *
55391004 GCTTTCTTAAAAAACGCCGCTAAAGACCAGGACTTTTAGCGATG-ATTTTTTAATAAACGCCGCT
1 GCTTTTTTAAAAAACGCCGCTAAAGACCAGGACTTTTAGCG--GCA-CTTTTAA-AAACGCCGCT
*
55391068 AAAGACCAGGACTTTTAGCGGC
62 AAAGACCAAGACTTTTAGCGGC
* * * **
55391090 GCTTTTTTAAAAAACGCCACTAAAGACCAGTACTTTTAGCGGCACTTTTAAAAATGCCGCTAATT
1 GCTTTTTTAAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCACTTTTAAAAACGCCGCTAAAG
** *
55391155 TGCAATACTTTTAGCGGC
66 ACCAAGACTTTTAGCGGC
55391173 GCTTTTTTTAAAAAACGCCGCTAA
1 GC-TTTTTTAAAAAACGCCGCTAA
55391197 TTTGCCCAGT
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
83 27 0.29
84 27 0.29
85 1 0.01
86 38 0.41
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (83 bp):
GCTTTTTTAAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCACTTTTAAAAACGCCGCTAAAG
ACCAAGACTTTTAGCGGC
Found at i:55391164 original size:40 final size:42
Alignment explanation
Indices: 55391078--55391201 Score: 126
Period size: 40 Copynumber: 2.9 Consensus size: 42
55391068 AAAGACCAGG
* * **** *
55391078 ACTTTTAGCGGCGCTTTTTTAAAAAACGCCACTAAAGACCAGT
1 ACTTTTAGCGGCAC-TTTTTAAAAAACGCCGCTAATTTGCAAT
*
55391121 ACTTTTAGCGGCAC-TTTT-AAAAATGCCGCTAATTTGCAAT
1 ACTTTTAGCGGCACTTTTTAAAAAACGCCGCTAATTTGCAAT
*
55391161 ACTTTTAGCGGCGCTTTTTTTAAAAAACGCCGCTAATTTGC
1 ACTTTTAGCGGCAC--TTTTTAAAAAACGCCGCTAATTTGC
55391202 CCAGTTTTGT
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
40 28 0.42
41 4 0.06
43 17 0.25
44 18 0.27
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (42 bp):
ACTTTTAGCGGCACTTTTTAAAAAACGCCGCTAATTTGCAAT
Found at i:55391514 original size:21 final size:21
Alignment explanation
Indices: 55391490--55391534 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
55391480 TTCTGTTCTG
*
55391490 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCGCGCTGCTGC
55391511 CTCCGCCTCCCGCGCTGCTGC
1 CTCCGCCTCCCGCGCTGCTGC
55391532 CTC
1 CTC
55391535 AGCTCTAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.00, C:0.58, G:0.20, T:0.22
Consensus pattern (21 bp):
CTCCGCCTCCCGCGCTGCTGC
Found at i:55399971 original size:24 final size:24
Alignment explanation
Indices: 55399939--55400008 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
55399929 CTAACCAAAG
55399939 CATATTATAATACAATTTTCATAA
1 CATATTATAATACAATTTTCATAA
**
55399963 CATATTATAAATA-AGATAGT-ATAA
1 CATATTAT-AATACA-ATTTTCATAA
*
55399987 CATTATTATAATACGATTTTCA
1 CA-TATTATAATACAATTTTCA
55400009 CAGTCACAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
24 22 0.61
25 14 0.39
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (24 bp):
CATATTATAATACAATTTTCATAA
Found at i:55400760 original size:24 final size:24
Alignment explanation
Indices: 55400728--55400773 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
55400718 TTGTATTTGT
55400728 AAACAGAGACTTAGAAATTAAAAG
1 AAACAGAGACTTAGAAATTAAAAG
*
55400752 AAACAGAGACTTAGGAATTAAA
1 AAACAGAGACTTAGAAATTAAA
55400774 GTTACTTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.57, C:0.09, G:0.17, T:0.17
Consensus pattern (24 bp):
AAACAGAGACTTAGAAATTAAAAG
Found at i:55401482 original size:42 final size:41
Alignment explanation
Indices: 55401422--55401527 Score: 112
Period size: 41 Copynumber: 2.6 Consensus size: 41
55401412 AAATATTTGC
** *
55401422 GGCG-TTTTTATTTAAAACGCCGGTATAGGTCAACTTTTAGT
1 GGCGTTTTTTATTTAAAACGCCACTATAGCTC-ACTTTTAGT
* *
55401463 GGCGTTTTTTA-TTATAAACGCCACTATAGCTCATTTTTTGT
1 GGCGTTTTTTATTTA-AAACGCCACTATAGCTCACTTTTAGT
*
55401504 GGCGTTTTTTA--AAAAACGCCACTA
1 GGCGTTTTTTATTTAAAACGCCACTA
55401528 ATTCACAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
39 11 0.19
40 1 0.02
41 25 0.44
42 20 0.35
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (41 bp):
GGCGTTTTTTATTTAAAACGCCACTATAGCTCACTTTTAGT
Found at i:55401681 original size:72 final size:71
Alignment explanation
Indices: 55401589--55401734 Score: 256
Period size: 72 Copynumber: 2.0 Consensus size: 71
55401579 TTATTTCAAA
* * *
55401589 TTTTCCCGCTGAGATTATCATTTTTTATATTTTTTATTTAACTTTGTAACTAAAATATTAAATTT
1 TTTTCCTGCTGAGACTATCATTTTTTATATTTTTTATTTAACTTAGTAACTAAAATATTAAATTT
55401654 TAACTT
66 TAACTT
55401660 TTTNTCCTGCTGAGACTATCATTTTTTATATTTTTTATTTAACTTAGTAACTAAAATATTAAATT
1 TTT-TCCTGCTGAGACTATCATTTTTTATATTTTTTATTTAACTTAGTAACTAAAATATTAAATT
55401725 TTAACTT
65 TTAACTT
55401732 TTT
1 TTT
55401735 AAGTTTTTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 3 0.04
72 68 0.96
ACGTcount: A:0.29, C:0.11, G:0.05, T:0.53
Consensus pattern (71 bp):
TTTTCCTGCTGAGACTATCATTTTTTATATTTTTTATTTAACTTAGTAACTAAAATATTAAATTT
TAACTT
Found at i:55401779 original size:7 final size:7
Alignment explanation
Indices: 55401769--55401808 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
55401759 ACTAAACCTT
55401769 AAACCCC
1 AAACCCC
55401776 AAACCCC
1 AAACCCC
*
55401783 AAACCCT
1 AAACCCC
*
55401790 AAATCCC
1 AAACCCC
55401797 AAACCCC
1 AAACCCC
55401804 AAACC
1 AAACC
55401809 ATAAGCCCCG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.45, C:0.50, G:0.00, T:0.05
Consensus pattern (7 bp):
AAACCCC
Found at i:55401779 original size:21 final size:21
Alignment explanation
Indices: 55401755--55401817 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
55401745 TTCTAAAATT
* *
55401755 AAACACTAAACCTTAAACCCC
1 AAACACCAAACCCTAAACCCC
* *
55401776 AAACCCCAAACCCTAAATCCC
1 AAACACCAAACCCTAAACCCC
* * *
55401797 AAACCCCAAACCATAAGCCCC
1 AAACACCAAACCCTAAACCCC
55401818 GTACCATAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.44, C:0.44, G:0.02, T:0.10
Consensus pattern (21 bp):
AAACACCAAACCCTAAACCCC
Found at i:55401858 original size:14 final size:14
Alignment explanation
Indices: 55401754--55401861 Score: 51
Period size: 14 Copynumber: 7.8 Consensus size: 14
55401744 TTTCTAAAAT
* *
55401754 TAAACACTAAACCT
1 TAAACCCTAAACCA
* *
55401768 TAAACCCCAAACCC
1 TAAACCCTAAACCA
*
55401782 CAAACCCTAAATCC-
1 TAAACCCTAAA-CCA
* *
55401796 CAAACCCCAAACCA
1 TAAACCCTAAACCA
* ***
55401810 TAAGCCCCGTACCA
1 TAAACCCTAAACCA
*
55401824 T-AACCATAAAACC-
1 TAAACCCT-AAACCA
* *
55401837 CAATCCCTAAACCA
1 TAAACCCTAAACCA
55401851 TAAACCCTAAA
1 TAAACCCTAAA
55401862 ATCCTAAATC
Statistics
Matches: 69, Mismatches: 20, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
13 10 0.14
14 57 0.83
15 2 0.03
ACGTcount: A:0.45, C:0.40, G:0.02, T:0.13
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:55402110 original size:7 final size:7
Alignment explanation
Indices: 55402073--55402131 Score: 55
Period size: 7 Copynumber: 8.4 Consensus size: 7
55402063 TAAGACCCTG
*
55402073 ACCCTAT
1 ACCCTAA
*
55402080 ACCATAA
1 ACCCTAA
55402087 ACCCTAA
1 ACCCTAA
* **
55402094 GCTATAA
1 ACCCTAA
55402101 ACCCTAA
1 ACCCTAA
*
55402108 ACCCCAA
1 ACCCTAA
*
55402115 ACCCTAG
1 ACCCTAA
55402122 ACCCTAA
1 ACCCTAA
55402129 ACC
1 ACC
55402132 TTAATTAACC
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.41, C:0.41, G:0.03, T:0.15
Consensus pattern (7 bp):
ACCCTAA
Found at i:55402252 original size:22 final size:22
Alignment explanation
Indices: 55402239--55402281 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
55402229 AACCATTAAC
*
55402239 CCTTAAACTCTTAAGCCCTAAA
1 CCTTAAACCCTTAAGCCCTAAA
*
55402261 CCTTAAACCCTTAAACCCTAA
1 CCTTAAACCCTTAAGCCCTAA
55402282 TATTGCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.35, G:0.02, T:0.26
Consensus pattern (22 bp):
CCTTAAACCCTTAAGCCCTAAA
Found at i:55402260 original size:15 final size:15
Alignment explanation
Indices: 55402236--55402277 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
55402226 ATTAACCATT
55402236 AACCCTTAAACTCTTA
1 AACCCTTAAAC-CTTA
*
55402252 AGCCC-TAAACCTTA
1 AACCCTTAAACCTTA
55402266 AACCCTTAAACC
1 AACCCTTAAACC
55402278 CTAATATTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 8 0.35
15 11 0.48
16 4 0.17
ACGTcount: A:0.38, C:0.36, G:0.02, T:0.24
Consensus pattern (15 bp):
AACCCTTAAACCTTA
Found at i:55402274 original size:8 final size:8
Alignment explanation
Indices: 55402236--55402279 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
55402226 ATTAACCATT
55402236 AACCCTTA
1 AACCCTTA
*
55402244 AACTCTTA
1 AACCCTTA
*
55402252 AGCCC-TA
1 AACCCTTA
55402259 AA-CCTTA
1 AACCCTTA
55402266 AACCCTTA
1 AACCCTTA
55402274 AACCCT
1 AACCCT
55402280 AATATTGCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
6 2 0.07
7 7 0.23
8 21 0.70
ACGTcount: A:0.36, C:0.36, G:0.02, T:0.25
Consensus pattern (8 bp):
AACCCTTA
Found at i:55402341 original size:14 final size:14
Alignment explanation
Indices: 55402306--55402335 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
55402296 AATATCTTAG
55402306 ACCCTAAATAATAA
1 ACCCTAAATAATAA
55402320 ACCCTAAATAATAA
1 ACCCTAAATAATAA
55402334 AC
1 AC
55402336 TTTAAAACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (14 bp):
ACCCTAAATAATAA
Found at i:55402542 original size:14 final size:13
Alignment explanation
Indices: 55402492--55402538 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
55402482 ATAAACCTCA
55402492 AACCCTAAATCAT
1 AACCCTAAATCAT
* *
55402505 AAAACATAAATCAT
1 -AACCCTAAATCAT
55402519 CAACCCTAAATCAT
1 -AACCCTAAATCAT
55402533 AACCCT
1 AACCCT
55402539 TAAACCTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 6 0.21
14 22 0.79
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (13 bp):
AACCCTAAATCAT
Found at i:55403593 original size:12 final size:12
Alignment explanation
Indices: 55403576--55403602 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
55403566 GTTTTCTTTT
55403576 AAAACGCCGCTA
1 AAAACGCCGCTA
55403588 AAAACGCCGCTA
1 AAAACGCCGCTA
55403600 AAA
1 AAA
55403603 GTCTGTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:55405961 original size:21 final size:21
Alignment explanation
Indices: 55405935--55405989 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
55405925 AACAGCGGTG
*
55405935 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
55405956 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
55405977 GCGGTGAGATTAG
1 GCGGTGAGATTAG
55405990 AAACAATGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.09, G:0.40, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:55406302 original size:22 final size:22
Alignment explanation
Indices: 55406251--55406302 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
55406241 TTTTATAGTT
55406251 ATAATTAAATATTTTTTATAACA
1 ATAA-TAAATATTTTTTATAACA
*
55406274 ATGATAAATATTATTTTCAT-A-A
1 ATAATAAATATT-TTTT-ATAACA
55406296 ATAATAA
1 ATAATAA
55406303 CATTATACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 15 0.60
23 8 0.32
24 2 0.08
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (22 bp):
ATAATAAATATTTTTTATAACA
Found at i:55406900 original size:100 final size:100
Alignment explanation
Indices: 55406727--55406926 Score: 400
Period size: 100 Copynumber: 2.0 Consensus size: 100
55406717 GTTCAATCAC
55406727 AGAGCGTAACGAAGAATGGGCATGATTAAAGATTTCTTTTTTTCCAGATACTTGATGATTACCTC
1 AGAGCGTAACGAAGAATGGGCATGATTAAAGATTTCTTTTTTTCCAGATACTTGATGATTACCTC
55406792 GACGAAAATCAGGTAAATGATATCGTTCCCCCCTA
66 GACGAAAATCAGGTAAATGATATCGTTCCCCCCTA
55406827 AGAGCGTAACGAAGAATGGGCATGATTAAAGATTTCTTTTTTTCCAGATACTTGATGATTACCTC
1 AGAGCGTAACGAAGAATGGGCATGATTAAAGATTTCTTTTTTTCCAGATACTTGATGATTACCTC
55406892 GACGAAAATCAGGTAAATGATATCGTTCCCCCCTA
66 GACGAAAATCAGGTAAATGATATCGTTCCCCCCTA
55406927 TATGGACCTA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (100 bp):
AGAGCGTAACGAAGAATGGGCATGATTAAAGATTTCTTTTTTTCCAGATACTTGATGATTACCTC
GACGAAAATCAGGTAAATGATATCGTTCCCCCCTA
Found at i:55415376 original size:38 final size:38
Alignment explanation
Indices: 55415334--55415409 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
55415324 ATAGTTACGA
55415334 GTATCCATATTTTTTCATAATCATAACCCATATATTTT
1 GTATCCATATTTTTTCATAATCATAACCCATATATTTT
55415372 GTATCCATATTTTTTCATAATCATAACCCATATATTTT
1 GTATCCATATTTTTTCATAATCATAACCCATATATTTT
55415410 CTTCTTTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.47
Consensus pattern (38 bp):
GTATCCATATTTTTTCATAATCATAACCCATATATTTT
Found at i:55420330 original size:24 final size:24
Alignment explanation
Indices: 55420303--55420351 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
55420293 AGGAGCCCCG
55420303 TAACAATTACTAATATTAGTTTGA
1 TAACAATTACTAATATTAGTTTGA
55420327 TAACAATTACTAATATTAGTTTGA
1 TAACAATTACTAATATTAGTTTGA
55420351 T
1 T
55420352 GGAGAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (24 bp):
TAACAATTACTAATATTAGTTTGA
Found at i:55420937 original size:17 final size:17
Alignment explanation
Indices: 55420889--55420943 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 17
55420879 AAGTTTTGGG
55420889 AGTTTAGGGGGAAGTAAA
1 AGTTT-GGGGGAAGTAAA
* *
55420907 ACTTTTTAGGGGAAGTAAA
1 A--GTTTGGGGGAAGTAAA
55420926 AGTTTGGGGGAA-TAAA
1 AGTTTGGGGGAAGTAAA
55420942 AG
1 AG
55420944 GAAAAAAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 6 0.19
17 9 0.29
18 1 0.03
19 12 0.39
20 3 0.10
ACGTcount: A:0.38, C:0.02, G:0.35, T:0.25
Consensus pattern (17 bp):
AGTTTGGGGGAAGTAAA
Found at i:55431609 original size:46 final size:45
Alignment explanation
Indices: 55431524--55431628 Score: 124
Period size: 46 Copynumber: 2.3 Consensus size: 45
55431514 TGTGCTAGTG
*
55431524 TAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCCAGTA
1 TAAGACATGTCTGGGACATGCATT-GCCACATTACGAGAGCCAGTA
* * *
55431570 TAAGACATGTCTGGGACATGCA-T-CGACATTGAGACGAGAGCTAGTG
1 TAAGACATGTCTGGGACATGCATTGCCACATT---ACGAGAGCCAGTA
55431616 TAAGACATGTCTG
1 TAAGACATGTCTG
55431629 TAACACCCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
43 6 0.12
45 1 0.02
46 45 0.87
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (45 bp):
TAAGACATGTCTGGGACATGCATTGCCACATTACGAGAGCCAGTA
Found at i:55454356 original size:27 final size:26
Alignment explanation
Indices: 55454300--55454356 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
55454290 CAACCTTAAC
* * *
55454300 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTGTACA
* *
55454326 CCTAGGGGTAAATCTGTAAATTGTCCA
1 CCTAGGGGTAAATCAGT-AATTGTACA
55454353 CCTA
1 CCTA
55454357 TAAAGGCATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTGTACA
Found at i:55455425 original size:42 final size:42
Alignment explanation
Indices: 55455360--55455444 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
55455350 TAAAGCTTAA
55455360 AAATAATAGTAAGGAAATGGTGTAGGGAAGAGTGGTAGAAGG
1 AAATAATAGTAAGGAAATGGTGTAGGGAAGAGTGGTAGAAGG
* *
55455402 AAATAATAGTAAGGAAGTTGTGTAGGGAAGAGTGGTAGAAGG
1 AAATAATAGTAAGGAAATGGTGTAGGGAAGAGTGGTAGAAGG
55455444 A
1 A
55455445 TTCGGCTATG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (42 bp):
AAATAATAGTAAGGAAATGGTGTAGGGAAGAGTGGTAGAAGG
Found at i:55457249 original size:25 final size:25
Alignment explanation
Indices: 55457219--55457273 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
55457209 TTATCGTTTA
* *
55457219 AGCTCAATA-GAGCTTACTGTCCAT
1 AGCTCAAGAGGAGCTTACTGACCAT
*
55457243 CAGCTCAGGAGGAGCTTACTGACCAT
1 -AGCTCAAGAGGAGCTTACTGACCAT
55457269 AGCTC
1 AGCTC
55457274 GAAAGAGTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (25 bp):
AGCTCAAGAGGAGCTTACTGACCAT
Found at i:55465359 original size:48 final size:48
Alignment explanation
Indices: 55465281--55465377 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
55465271 CCTTAGAACA
* * *
55465281 TCCAAAAGGAAAAATTGAGGATGTATTGGTACGTGTAGATAAATTTAT
1 TCCAAAAGAAAAAATCGAGGACGTATTGGTACGTGTAGATAAATTTAT
*
55465329 TCCAGAAGAAAAAATCGAGGACGTATTGGTACGTGTAGATAAATTTAT
1 TCCAAAAGAAAAAATCGAGGACGTATTGGTACGTGTAGATAAATTTAT
55465377 T
1 T
55465378 TTCCCTGCTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (48 bp):
TCCAAAAGAAAAAATCGAGGACGTATTGGTACGTGTAGATAAATTTAT
Found at i:55465995 original size:24 final size:24
Alignment explanation
Indices: 55465968--55466015 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
55465958 ATATTCGTGG
55465968 CATTAGCCCATCTGTTTACATGCA
1 CATTAGCCCATCTGTTTACATGCA
* * *
55465992 CATTAGTCCGTCTGTTTGCATGCA
1 CATTAGCCCATCTGTTTACATGCA
55466016 TAAGGTCATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (24 bp):
CATTAGCCCATCTGTTTACATGCA
Found at i:55468585 original size:146 final size:146
Alignment explanation
Indices: 55468399--55468693 Score: 581
Period size: 146 Copynumber: 2.0 Consensus size: 146
55468389 ATTATACAGA
55468399 AGTAAAAATATGTTATCGTTTATTTCATTTGAAACTAGACTCATTAAGGAGTCTAAGTATATAAA
1 AGTAAAAATATGTTATCGTTTATTTCATTTGAAACTAGACTCATTAAGGAGTCTAAGTATATAAA
55468464 TTTTATCTTATAACAATTTTTGTACCATTTATAATGATTTTCTGAAAACAGAACAGGGGACCTCG
66 TTTTATCTTATAACAATTTTTGTACCATTTATAATGATTTTCTGAAAACAGAACAGGGGACCTCG
55468529 AAGTCATTTTGACTCT
131 AAGTCATTTTGACTCT
55468545 AGTAAAAATATGTTATCGTTTATTTCATTTGAAACTAGACTCATTAAGGAGTCTAAGTATATAAA
1 AGTAAAAATATGTTATCGTTTATTTCATTTGAAACTAGACTCATTAAGGAGTCTAAGTATATAAA
*
55468610 TTTTATCTTATAACCATTTTTGTACCATTTATAATGATTTTCTGAAAACAGAACAGGGGACCTCG
66 TTTTATCTTATAACAATTTTTGTACCATTTATAATGATTTTCTGAAAACAGAACAGGGGACCTCG
55468675 AAGTCATTTTGACTCT
131 AAGTCATTTTGACTCT
55468691 AGT
1 AGT
55468694 CCATGCCACT
Statistics
Matches: 148, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 148 1.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (146 bp):
AGTAAAAATATGTTATCGTTTATTTCATTTGAAACTAGACTCATTAAGGAGTCTAAGTATATAAA
TTTTATCTTATAACAATTTTTGTACCATTTATAATGATTTTCTGAAAACAGAACAGGGGACCTCG
AAGTCATTTTGACTCT
Found at i:55469244 original size:39 final size:39
Alignment explanation
Indices: 55469187--55469394 Score: 290
Period size: 39 Copynumber: 5.3 Consensus size: 39
55469177 CGGGACTTTA
* *
55469187 AGCCCGAATATAATACCAGCACGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
* *
55469226 AGCCCGGATATAACACCAGCACGAATGCCTTTGGGGTTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
* * *
55469265 AGCCTGGATATAACACCAGCACAAATGCCTTTGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
* ** *
55469304 AGCCCGGATATAACCCCAGCACGAATGCCTTCAAGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
* * *
55469343 AGCCCGGATATAACACCAGCACGAATTCCTTCAGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
55469382 AGCCCGGATATAA
1 AGCCCGGATATAA
55469395 TTCTCCATTA
Statistics
Matches: 152, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 152 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
Found at i:55475179 original size:39 final size:39
Alignment explanation
Indices: 55475112--55475368 Score: 381
Period size: 39 Copynumber: 6.5 Consensus size: 39
55475102 ACAAAGCATG
* * *
55475112 CGGGACTTTAAGCCCGAATATAATACCAGTACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
55475153 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
55475192 TGGG-CTTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
55475231 CGGGCCTTAGCCCGGATATAACCCCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
55475270 CGAGACTTAGCCCGAATATAACATCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
55475309 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
55475348 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
55475369 TTCTCCATTA
Statistics
Matches: 197, Mismatches: 17, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
38 1 0.01
39 188 0.95
40 3 0.02
41 5 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:55486096 original size:47 final size:47
Alignment explanation
Indices: 55486023--55486116 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
55486013 TCTTGGTCTA
*
55486023 CTCTTTCCTGATCTTTCCAGTACTGAAGTGGCTCGACTAAATTCCTC
1 CTCTTTCCCGATCTTTCCAGTACTGAAGTGGCTCGACTAAATTCCTC
* * *
55486070 CTCTTTCCCGATCTTTTCGGTGCTGAAGTGGCTCGACTAAATTCCTC
1 CTCTTTCCCGATCTTTCCAGTACTGAAGTGGCTCGACTAAATTCCTC
55486117 TTTACATTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.17, C:0.30, G:0.17, T:0.36
Consensus pattern (47 bp):
CTCTTTCCCGATCTTTCCAGTACTGAAGTGGCTCGACTAAATTCCTC
Found at i:55488183 original size:37 final size:37
Alignment explanation
Indices: 55488130--55488232 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
55488120 CGAATAGTCC
*
55488130 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
55488167 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
55488204 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
55488233 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:55488431 original size:48 final size:48
Alignment explanation
Indices: 55488373--55489339 Score: 1880
Period size: 48 Copynumber: 20.1 Consensus size: 48
55488363 ATATACACAC
* *
55488373 ATCTCCTACATAATTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55488421 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55488469 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55488517 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55488565 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55488613 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55488661 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55488709 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55488757 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55488805 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55488853 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55488901 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55488949 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55488997 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55489045 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55489093 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55489141 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55489189 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
55489237 TTCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
55489285 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCTCATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55489333 ATCTCAT
1 ATCTCAT
55489340 TCGACTTTAC
Statistics
Matches: 912, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 912 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:55489341 original size:28 final size:28
Alignment explanation
Indices: 55489309--55489595 Score: 140
Period size: 28 Copynumber: 11.1 Consensus size: 28
55489299 TCACATTAGC
55489309 CATTCGGCTTTACCTCATATACATATCT
1 CATTCGGCTTTACCTCATATACATATCT
* *
55489337 CATTCGACTTTACCACATATACATATCT
1 CATTCGGCTTTACCTCATATACATATCT
* * ** * *
55489365 CA-T---ATATATTTCACAT---TAGC-
1 CATTCGGCTTTACCTCATATACATATCT
55489385 CATTCGGCTTTACCTCATATACATATCT
1 CATTCGGCTTTACCTCATATACATATCT
* *
55489413 CATTCGACTTTACCACATATACATATCT
1 CATTCGGCTTTACCTCATATACATATCT
* * ** * *
55489441 CA-T---ATATATTTCACAT---TAGC-
1 CATTCGGCTTTACCTCATATACATATCT
*
55489461 CATTCGGCTTTACCTCAT-TCACACTAGC-
1 CATTCGGCTTTACCTCATAT-ACA-TATCT
*
55489489 CATTCGGCTTTACCACATATACATATCT
1 CATTCGGCTTTACCTCATATACATATCT
* * ** * *
55489517 CA-T---ATATATTTCACAT---TAGC-
1 CATTCGGCTTTACCTCATATACATATCT
55489537 CATTCGGCTTTACCTCATATACATATCT
1 CATTCGGCTTTACCTCATATACATATCT
* *
55489565 CATTCGACTTTACCACATATACATATCT
1 CATTCGGCTTTACCTCATATACATATCT
55489593 CAT
1 CAT
55489596 ACATATTTCA
Statistics
Matches: 186, Mismatches: 46, Indels: 54
0.65 0.16 0.19
Matches are distributed among these distances:
20 6 0.03
21 12 0.06
23 1 0.01
24 43 0.23
27 12 0.06
28 111 0.60
29 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.06, T:0.37
Consensus pattern (28 bp):
CATTCGGCTTTACCTCATATACATATCT
Found at i:55489348 original size:76 final size:76
Alignment explanation
Indices: 55489261--55489638 Score: 661
Period size: 76 Copynumber: 5.0 Consensus size: 76
55489251 TCACACTAGC
*
55489261 CATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCTCA
1 CATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCTCA
55489326 TATACATATCT
66 TATACATATCT
55489337 CATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCTCA
1 CATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCTCA
55489402 TATACATATCT
66 TATACATATCT
55489413 CATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCTCA
1 CATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCTCA
*
55489478 T-TCACACTAGC-
66 TAT-ACA-TATCT
*
55489489 CATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCTCA
1 CATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCTCA
55489554 TATACATATCT
66 TATACATATCT
* * *
55489565 CATTCGACTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
1 CATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCTCA
*
55489630 TATATATAT
66 TATACATAT
55489639 TTATCTTGTA
Statistics
Matches: 289, Mismatches: 9, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
75 4 0.01
76 281 0.97
77 4 0.01
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.37
Consensus pattern (76 bp):
CATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCTCA
TATACATATCT
Found at i:55489396 original size:48 final size:48
Alignment explanation
Indices: 55489337--55489567 Score: 172
Period size: 48 Copynumber: 4.6 Consensus size: 48
55489327 ATACATATCT
*
55489337 CATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGC
1 CATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGC
* **
55489385 CATTCGGCTTTACCTCATATACATATCTCAT-TCGACTTTACCACATATA--
1 CATTCGGCTTTACCACATATACATATCTCATATATA-TTT--CACAT-TAGC
* * * * *
55489434 CATATC-TCATATATATTTCACAT-TAGCCAT-TCGGC-TTTACCTCA-TTCACACTAGC
1 CAT-TCGGC-T-T-TA--CCACATATA--CATATC-TCATATA--T-ATTTCACATTAGC
55489489 CATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGC
1 CATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGC
*
55489537 CATTCGGCTTTACCTCATATACATATCTCAT
1 CATTCGGCTTTACCACATATACATATCTCAT
55489568 TCGACTTTAC
Statistics
Matches: 142, Mismatches: 17, Indels: 48
0.69 0.08 0.23
Matches are distributed among these distances:
47 3 0.02
48 73 0.51
49 8 0.06
50 18 0.13
51 5 0.04
52 4 0.03
53 5 0.04
54 14 0.10
55 9 0.06
56 2 0.01
58 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.06, T:0.37
Consensus pattern (48 bp):
CATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGC
Found at i:55489465 original size:124 final size:123
Alignment explanation
Indices: 55489165--55489474 Score: 364
Period size: 124 Copynumber: 2.5 Consensus size: 123
55489155 TCACACTAGC
* *
55489165 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
1 CATTCGACTTTACCACATATACATATCTCATATATATTTCACA-TAGCCATTCGGCTTTACCACA
*
55489230 TATACATTTCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT
65 TATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT
** * * * * *
55489289 CATATATA-TTT--CACAT-TAGCCAT-TCGGC-TTTACCTCATAT-ACATATCTCATTCGACTT
1 CAT-TCGACTTTACCACATATA--CATATC-TCATATA--T-ATTTCACATAGC-CATTCGGCTT
* * *
55489347 TACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCTCATATACATATC
58 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATC
55489412 T
123 T
55489413 CATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACC
1 CATTCGACTTTACCACATATACATATCTCATATATATTTCACA-TAGCCATTCGGCTTTACC
55489475 TCATTCACAC
Statistics
Matches: 150, Mismatches: 20, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
121 2 0.01
122 9 0.06
123 12 0.08
124 104 0.69
125 11 0.07
126 10 0.07
127 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.37
Consensus pattern (123 bp):
CATTCGACTTTACCACATATACATATCTCATATATATTTCACATAGCCATTCGGCTTTACCACAT
ATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT
Found at i:55491613 original size:28 final size:28
Alignment explanation
Indices: 55491547--55491674 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
55491537 CATGAGATTG
* * **
55491547 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
55491576 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
55491604 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
55491633 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
55491661 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
55491675 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:55491636 original size:57 final size:57
Alignment explanation
Indices: 55491547--55491674 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
55491537 CATGAGATTG
*
55491547 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
55491604 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
55491661 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
55491675 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:55494720 original size:16 final size:17
Alignment explanation
Indices: 55494699--55494737 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
55494689 GCTGTAACGC
55494699 CCCAAAAATCTCGAAA-
1 CCCAAAAATCTCGAAAT
55494715 CCCAAAAATCTCGAAAT
1 CCCAAAAATCTCGAAAT
55494732 CCCAAA
1 CCCAAA
55494738 CTTTTTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.49, C:0.33, G:0.05, T:0.13
Consensus pattern (17 bp):
CCCAAAAATCTCGAAAT
Found at i:55496286 original size:29 final size:29
Alignment explanation
Indices: 55496253--55496354 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
55496243 TGAATGCGAC
55496253 TGGGCCTAATGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* * *
55496282 TGGGCCTAATAGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
55496311 TGGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
55496339 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
55496355 GACACAGGTA
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
28 16 0.25
29 48 0.75
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:55496321 original size:58 final size:57
Alignment explanation
Indices: 55496253--55496363 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 57
55496243 TGAATGCGAC
* * *
55496253 TGGGCCTAATGGGCCATATAAATGTGATTTGGGCCTAATAGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATATGA-TTGGGCCTAATAGGCCAGACACAGGTGATT
* * *
55496311 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCCAGACACAGGT
1 TGGGCCTAATGGGCCATATAAATATGATTGGGCCTAATAGGCCAGACACAGGT
55496364 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 22 0.47
58 25 0.53
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (57 bp):
TGGGCCTAATGGGCCATATAAATATGATTGGGCCTAATAGGCCAGACACAGGTGATT
Found at i:55502464 original size:16 final size:16
Alignment explanation
Indices: 55502440--55502476 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
55502430 TTTAAAAAGG
*
55502440 AAAACAAATGAATCTT
1 AAAAAAAATGAATCTT
*
55502456 AAAAAAAATGAGTCTT
1 AAAAAAAATGAATCTT
55502472 AAAAA
1 AAAAA
55502477 CTTAATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.22
Consensus pattern (16 bp):
AAAAAAAATGAATCTT
Found at i:55509189 original size:14 final size:13
Alignment explanation
Indices: 55509166--55509196 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
55509156 GGGATATCAA
55509166 AACAATAATTAAG
1 AACAATAATTAAG
55509179 AACACATAATTAAG
1 AACA-ATAATTAAG
55509193 AACA
1 AACA
55509197 GGTTAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:55512851 original size:40 final size:40
Alignment explanation
Indices: 55512796--55513013 Score: 202
Period size: 40 Copynumber: 5.5 Consensus size: 40
55512786 TGGATGATAA
55512796 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
55512836 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * ** * * *
55512876 CCGAGATTTGT--TGATATGTGCATGAATGTTTG-GA-TGA-TA-A-
1 CCGGGCTAAGTCCCGA-A-G-GCAT---T-TGTGCGAGTTACTATAT
55512916 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
55512956 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* * *
55512996 -CTGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
55513014 TACTTGGCTT
Statistics
Matches: 145, Mismatches: 18, Indels: 31
0.75 0.09 0.16
Matches are distributed among these distances:
35 3 0.02
36 3 0.02
37 2 0.01
38 4 0.03
39 23 0.16
40 92 0.63
41 6 0.04
42 4 0.03
43 2 0.01
44 3 0.02
45 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:55512929 original size:120 final size:122
Alignment explanation
Indices: 55512714--55512996 Score: 470
Period size: 120 Copynumber: 2.3 Consensus size: 122
55512704 TGGATGATAA
*
55512714 CCGGGCTAAGTCCCGAAGGCATTT-A-CGTTAGTGACTAGT-TCCGGATGATTTGTTGATATGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCG--AGTTACTA-TATCCGGATGATTTGTTGATATGTG
55512776 CATGAATGTTTGGATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
63 CATGAATGTTTGGATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
55512836 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC-GA-GATTTGTTGATATGTGCAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATCCGGATGATTTGTTGATATGTGCAT
55512899 GAATGTTTGGATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
66 GAATGTTTGGATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
55512956 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATC
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CTATATC
55512997 TGGTTAAATC
Statistics
Matches: 154, Mismatches: 3, Indels: 10
0.92 0.02 0.06
Matches are distributed among these distances:
119 2 0.01
120 113 0.73
121 3 0.02
122 34 0.22
124 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (122 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATCCGGATGATTTGTTGATATGTGCAT
GAATGTTTGGATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:55528704 original size:40 final size:40
Alignment explanation
Indices: 55527825--55528690 Score: 1637
Period size: 40 Copynumber: 21.6 Consensus size: 40
55527815 TTGAATGATG
* * *
55527825 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
55527865 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55527905 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55527945 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55527985 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55528025 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55528065 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55528105 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55528145 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55528185 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55528225 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55528265 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55528305 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55528345 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55528385 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55528425 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55528465 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55528505 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55528545 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55528585 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55528625 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
55528666 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
55528691 AACGAGTAGC
Statistics
Matches: 816, Mismatches: 8, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
40 807 0.99
41 9 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55536423 original size:27 final size:27
Alignment explanation
Indices: 55536362--55536513 Score: 214
Period size: 27 Copynumber: 5.6 Consensus size: 27
55536352 TAAATTGTAC
*
55536362 AGCACTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
*
55536390 AGCACTAAGTGTGCGAATTGAGTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
55536417 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
55536444 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
55536472 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
55536499 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55536514 GACTTAATAT
Statistics
Matches: 112, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
27 69 0.62
28 43 0.38
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:55536428 original size:55 final size:55
Alignment explanation
Indices: 55536362--55536513 Score: 234
Period size: 55 Copynumber: 2.8 Consensus size: 55
55536352 TAAATTGTAC
55536362 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGA-ATTGAGTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGAGTATGT
* * * *
55536417 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGAGTATGT
* *
55536472 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
55536514 GACTTAATAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 24 0.27
55 64 0.73
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGAGTATGT
Found at i:55536476 original size:82 final size:82
Alignment explanation
Indices: 55536362--55536513 Score: 241
Period size: 82 Copynumber: 1.9 Consensus size: 82
55536352 TAAATTGTAC
* * *
55536362 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGAGTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
55536427 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
55536444 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
55536509 GTGCG
66 GTGCG
55536514 GACTTAATAT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 63 1.00
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:55538426 original size:43 final size:42
Alignment explanation
Indices: 55538357--55538448 Score: 157
Period size: 43 Copynumber: 2.2 Consensus size: 42
55538347 AATCTTTGCT
*
55538357 ATGTCATGGGGATGATATTCGGCCTAGGTAGATTTTGTGTTA
1 ATGTCATGGGGATGATATTCGACCTAGGTAGATTTTGTGTTA
*
55538399 ATGCTCATGGGGATTATATTCGACCTAGGTAGATTTTGTGTTA
1 ATG-TCATGGGGATGATATTCGACCTAGGTAGATTTTGTGTTA
55538442 ATGTCAT
1 ATGTCAT
55538449 TGCATGCTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
42 7 0.15
43 40 0.85
ACGTcount: A:0.23, C:0.11, G:0.27, T:0.39
Consensus pattern (42 bp):
ATGTCATGGGGATGATATTCGACCTAGGTAGATTTTGTGTTA
Found at i:55540230 original size:40 final size:40
Alignment explanation
Indices: 55539311--55540216 Score: 1717
Period size: 40 Copynumber: 22.6 Consensus size: 40
55539301 TTGAATGATG
* * *
55539311 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
55539351 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55539391 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55539431 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55539471 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55539511 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55539551 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55539591 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55539631 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55539671 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55539711 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55539751 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55539791 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55539831 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55539871 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55539911 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55539951 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55539991 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55540031 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55540071 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55540111 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
55540151 TCCGGGTGAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
55540192 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
55540217 AACGAGTAGC
Statistics
Matches: 855, Mismatches: 9, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
40 846 0.99
41 9 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55546556 original size:27 final size:27
Alignment explanation
Indices: 55546526--55547029 Score: 540
Period size: 27 Copynumber: 18.5 Consensus size: 27
55546516 AAATTGTACA
55546526 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTT
* ** * *
55546553 GCACTATGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATGTT
* * **
55546580 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTT
*
55546607 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTT
55546635 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTT
* ** * *
55546662 GCACTATGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATGTT
* * **
55546689 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTT
*
55546716 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTT
55546744 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTT
* ** * *
55546771 GCACTATGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATGTT
* * **
55546798 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTT
*
55546825 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTT
55546853 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTT
* ** * *
55546880 GCACTATGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATGTT
* * **
55546907 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTT
*
55546934 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTT
* * *
55546962 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGATTTGACTATGTT
* * * *
55546989 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTT
*
55547016 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
55547030 GGTGTAGCAC
Statistics
Matches: 404, Mismatches: 69, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
27 312 0.77
28 92 0.23
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTT
Found at i:55546716 original size:109 final size:109
Alignment explanation
Indices: 55546525--55547104 Score: 944
Period size: 109 Copynumber: 5.4 Consensus size: 109
55546515 TAAATTGTAC
55546525 AGCACTAAGTGTGCGATTTGACTATGTTGCACTATGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTTGCACTATGTGTGCGAAATGAATATGATGCACTAAGTG
55546590 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
66 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
55546634 AGCACTAAGTGTGCGATTTGACTATGTTGCACTATGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTTGCACTATGTGTGCGAAATGAATATGATGCACTAAGTG
55546699 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
66 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
55546743 AGCACTAAGTGTGCGATTTGACTATGTTGCACTATGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTTGCACTATGTGTGCGAAATGAATATGATGCACTAAGTG
55546808 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
66 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
55546852 AGCACTAAGTGTGCGATTTGACTATGTTGCACTATGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTTGCACTATGTGTGCGAAATGAATATGATGCACTAAGTG
55546917 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
66 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
* * * * ** * *
55546961 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-ATAGCACTGAGT
1 AGCACTAAGTGTGCGATTTGACTATGTTGCACTATGTGTGCGAAATGAATATGAT-GCACTAAGT
* ** *
55547025 GTGCG----G---GTGTAGCACTAAGTGTGCGAGTTTGATTATGT
65 GTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
* * *
55547063 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGA-GTGTGCG
1 AGCACTAAGTGTGCGATTTGACTATGTTGCACT-ATGTGTGCG
55547105 GACTTAATAT
Statistics
Matches: 453, Mismatches: 16, Indels: 11
0.94 0.03 0.02
Matches are distributed among these distances:
102 64 0.14
103 1 0.00
105 1 0.00
108 2 0.00
109 385 0.85
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (109 bp):
AGCACTAAGTGTGCGATTTGACTATGTTGCACTATGTGTGCGAAATGAATATGATGCACTAAGTG
TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:55547064 original size:28 final size:27
Alignment explanation
Indices: 55547032--55547104 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
55547022 AGTGTGCGGG
*
55547032 TGTAGCACTAAGTGTGCGAGTTTGATTA
1 TGTAGCACTAAGTGTGCGAG-TTGACTA
55547060 TGTAGCACTAAGTGTGCGAGTTGACTA
1 TGTAGCACTAAGTGTGCGAGTTGACTA
* *
55547087 TATAGCACTGAGTGTGCG
1 TGTAGCACTAAGTGTGCG
55547105 GACTTAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.52
28 20 0.48
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.32
Consensus pattern (27 bp):
TGTAGCACTAAGTGTGCGAGTTGACTA
Found at i:55547075 original size:48 final size:47
Alignment explanation
Indices: 55546986--55547077 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 47
55546976 ATTTGATTAC
*
55546986 GTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGGT
1 GTAGCACTAAGTGTGCGAGTTGATTATATAGCACTAAGTGTGCGGGT
*
55547033 GTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCG
1 GTAGCACTAAGTGTGCGAG-TTGATTATATAGCACTAAGTGTGCG
55547078 AGTTGACTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
47 19 0.45
48 23 0.55
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.30
Consensus pattern (47 bp):
GTAGCACTAAGTGTGCGAGTTGATTATATAGCACTAAGTGTGCGGGT
Found at i:55547080 original size:75 final size:74
Alignment explanation
Indices: 55546958--55547105 Score: 269
Period size: 75 Copynumber: 2.0 Consensus size: 74
55546948 AGTTTGACTA
*
55546958 TGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGA
1 TGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGA
55547023 GTGTGCGGG
66 GTGTGCGGG
*
55547032 TGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTG
1 TGTAGCACTAAGTGTGCGA-TTTGATTACGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTG
55547097 AGTGTGCGG
65 AGTGTGCGG
55547106 ACTTAATATA
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
74 19 0.27
75 52 0.73
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.31
Consensus pattern (74 bp):
TGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGA
GTGTGCGGG
Found at i:55547115 original size:27 final size:27
Alignment explanation
Indices: 55547034--55547115 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
55547024 TGTGCGGGTG
* * *
55547034 TAGCACTAAGTGTGCGAGTTTGATTATG
1 TAGCACTAAGTGTGCGA-CTTGAATATA
* *
55547062 TAGCACTAAGTGTGCGAGTTGACTATA
1 TAGCACTAAGTGTGCGACTTGAATATA
*
55547089 TAGCACTGAGTGTGCGGACTT-AATATA
1 TAGCACTAAGTGTGC-GACTTGAATATA
55547116 CATTCGTGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 26 0.55
28 21 0.45
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGACTTGAATATA
Found at i:55554715 original size:43 final size:43
Alignment explanation
Indices: 55554629--55554715 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
55554619 AAATCATACA
**
55554629 ATGCCAACGTCCCAGACGTGGTCTTACACGTAGCCACAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAATCG
* *
55554672 ATGCC-ACTGTCCCAGACAG-GGTCTTACTCGTAAACACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACAAATCG
55554715 A
1 A
55554716 AACCACATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 2 0.05
43 35 0.92
44 1 0.03
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.21
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAATCG
Found at i:55567809 original size:274 final size:274
Alignment explanation
Indices: 55567320--55567867 Score: 1051
Period size: 274 Copynumber: 2.0 Consensus size: 274
55567310 AGGGTTTGAT
*
55567320 ACTCGAATTACGAGCTCAGTAGACTCAACAGGTAGAGTCTTACTGGATGCTAAGGTTTCGCATAC
1 ACTCGAATTACGAACTCAGTAGACTCAACAGGTAGAGTCTTACTGGATGCTAAGGTTTCGCATAC
55567385 ATATGAATGAGTAGAACCAGGGTCAATCAATGCAATCACATTAGTATCAAAGAGAGTGAAGGTAC
66 ATATGAATGAGTAGAACCAGGGTCAATCAATGCAATCACATTAGTATCAAAGAGAGTGAAGGTAC
55567450 CAGTGATGACGTCAGGGGAGGATGCCTCCTCTCGTGCGCGAATGGCATATGCTCTAGCAGGAGTA
131 CAGTGATGACGTCAGGGGAGGATGCCTCCTCTCGTGCGCGAATGGCATATGCTCTAGCAGGAGTA
*
55567515 CGGTTCTCGGCTCGAACAGCCATATCAGAGACCCCTCTCTGACTACCACCCCTACCTCCTAAAAT
196 CGGTTCTCGGCTCGAACAGCCATATCAGAGACCCCTCACTGACTACCACCCCTACCTCCTAAAAT
55567580 TCTCGGTGGTCTAC
261 TCTCGGTGGTCTAC
55567594 ACTCGAATTACGAACTCAGTAGACTCAACAGGTAGAGTCTTACTGGATGCTAAGGTTTCGCATAC
1 ACTCGAATTACGAACTCAGTAGACTCAACAGGTAGAGTCTTACTGGATGCTAAGGTTTCGCATAC
*
55567659 ATATGAATGAGTAGAGCCAGGGTCAATCAATGCAATCACATTAGTATCAAAGAGAGTGAAGGTAC
66 ATATGAATGAGTAGAACCAGGGTCAATCAATGCAATCACATTAGTATCAAAGAGAGTGAAGGTAC
55567724 CAGTGATGACGTCAGGGGAGGATGCCTCCTCTCGTGCGCGAATGGCATATGCTCTAGCAGGAGTA
131 CAGTGATGACGTCAGGGGAGGATGCCTCCTCTCGTGCGCGAATGGCATATGCTCTAGCAGGAGTA
* *
55567789 CGGTTCTCGGCTCGAACAGCCGTATCAGAGGCCCCTCACTGACTACCACCCCTACCTCCTAAAAT
196 CGGTTCTCGGCTCGAACAGCCATATCAGAGACCCCTCACTGACTACCACCCCTACCTCCTAAAAT
55567854 TCTCGGTGGTCTAC
261 TCTCGGTGGTCTAC
55567868 CTCTAGTTGT
Statistics
Matches: 269, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
274 269 1.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (274 bp):
ACTCGAATTACGAACTCAGTAGACTCAACAGGTAGAGTCTTACTGGATGCTAAGGTTTCGCATAC
ATATGAATGAGTAGAACCAGGGTCAATCAATGCAATCACATTAGTATCAAAGAGAGTGAAGGTAC
CAGTGATGACGTCAGGGGAGGATGCCTCCTCTCGTGCGCGAATGGCATATGCTCTAGCAGGAGTA
CGGTTCTCGGCTCGAACAGCCATATCAGAGACCCCTCACTGACTACCACCCCTACCTCCTAAAAT
TCTCGGTGGTCTAC
Found at i:55570764 original size:28 final size:28
Alignment explanation
Indices: 55570701--55570909 Score: 305
Period size: 28 Copynumber: 7.5 Consensus size: 28
55570691 ATATTAAGTC
* *
55570701 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
55570728 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
55570756 CGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
*
55570784 CGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
55570812 TGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
55570840 CGCACACTTCGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
55570868 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
55570895 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55570910 GCACAATTTA
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
27 40 0.24
28 129 0.76
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:55570929 original size:56 final size:55
Alignment explanation
Indices: 55570701--55570934 Score: 290
Period size: 56 Copynumber: 4.2 Consensus size: 55
55570691 ATATTAAGTC
* * * *
55570701 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACACAATCAAACT
* * *
55570756 CGCACACTTAGTGCTACATAATCAAATTCGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACACAATCAAACT
* * * *
55570812 TGCACACTTAGTGCTACATAATCAAGCTCGCACACTTCGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAA-CTCGCACACTTAGTGCTACACAATCAAACT
* * * *
55570868 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAAC-
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACACAA-TCAAACT
55570923 CTGCACACTTAG
1 C-GCACACTTAG
55570935 CGCCAATCTC
Statistics
Matches: 157, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
55 42 0.27
56 115 0.73
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACACAATCAAACT
Found at i:55570929 original size:84 final size:83
Alignment explanation
Indices: 55570701--55570934 Score: 308
Period size: 84 Copynumber: 2.8 Consensus size: 83
55570691 ATATTAAGTC
* * * * *
55570701 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAATTCGCACACTTAGTGCTACATAATTAAACTCGCACACTTA
*
55570766 GTGCTACATAATCAAATT
66 GTGCTACATAATCAAACT
* * *
55570784 CGCACACTTAGTGCTACATAATCAAATTTGCACACTTAGTGCTACATAATCAAGCTCGCACACTT
1 CGCACACTTAGTGCTACATAATC-AATTCGCACACTTAGTGCTACATAATTAAACTCGCACACTT
* *
55570849 CGTGCTACATAGTCAAACT
65 AGTGCTACATAATCAAACT
* * *
55570868 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAAC-CTGCACACT
1 CGCACACTTAGTGCTACATAATCAATTCGCACACTTAGTGCTACATAA-TTAAACTC-GCACACT
55570932 TAG
64 TAG
55570935 CGCCAATCTC
Statistics
Matches: 132, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
83 44 0.33
84 88 0.67
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.27
Consensus pattern (83 bp):
CGCACACTTAGTGCTACATAATCAATTCGCACACTTAGTGCTACATAATTAAACTCGCACACTTA
GTGCTACATAATCAAACT
Found at i:55571226 original size:87 final size:87
Alignment explanation
Indices: 55571080--55571252 Score: 337
Period size: 87 Copynumber: 2.0 Consensus size: 87
55571070 TCCATTCAGC
55571080 ATCATTACATAGACGTTATGACCATTTAAATTAATACAAACTATATGCTTAATGACTTACTTTAT
1 ATCATTACATAGACGTTATGACCATTTAAATTAATACAAACTATATGCTTAATGACTTACTTTAT
*
55571145 GTTGGGTAAAATAATTCCGAGA
66 GTTGGGTAAAAGAATTCCGAGA
55571167 ATCATTACATAGACGTTATGACCATTTAAATTAATACAAACTATATGCTTAATGACTTACTTTAT
1 ATCATTACATAGACGTTATGACCATTTAAATTAATACAAACTATATGCTTAATGACTTACTTTAT
55571232 GTTGGGTAAAAGAATTCCGAG
66 GTTGGGTAAAAGAATTCCGAG
55571253 TCGGCTACTC
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (87 bp):
ATCATTACATAGACGTTATGACCATTTAAATTAATACAAACTATATGCTTAATGACTTACTTTAT
GTTGGGTAAAAGAATTCCGAGA
Found at i:55574649 original size:22 final size:22
Alignment explanation
Indices: 55574617--55574666 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
55574607 TTACCCTCAA
55574617 TGTTG-ACCCATAATCCATTAT
1 TGTTGAACCCATAATCCATTAT
55574638 TGTTGAACCCATAATCCATTAT
1 TGTTGAACCCATAATCCATTAT
55574660 TGTTGAA
1 TGTTGAA
55574667 ATCCCCTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (22 bp):
TGTTGAACCCATAATCCATTAT
Found at i:55576483 original size:11 final size:11
Alignment explanation
Indices: 55576467--55576496 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
55576457 GATTTCATGT
55576467 TTTCGTGAAAA
1 TTTCGTGAAAA
55576478 TTTCGTGAAAA
1 TTTCGTGAAAA
55576489 TTTCGTGA
1 TTTCGTGA
55576497 TGAAATTCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (11 bp):
TTTCGTGAAAA
Found at i:55587413 original size:30 final size:30
Alignment explanation
Indices: 55587379--55587436 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
55587369 ACAAGCAGAG
* *
55587379 ACACGAGCATTTGTCTTAGCCGTGTGAAAC
1 ACACGAGCATGTGTCTTAGCCATGTGAAAC
* * *
55587409 ACACGGGCGTGTGTCTTGGCCATGTGAA
1 ACACGAGCATGTGTCTTAGCCATGTGAA
55587437 TCCTGCACCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.26
Consensus pattern (30 bp):
ACACGAGCATGTGTCTTAGCCATGTGAAAC
Found at i:55589938 original size:31 final size:31
Alignment explanation
Indices: 55589903--55589981 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
55589893 TTTAATGGTT
*
55589903 ACTGGGCCGAAGCTTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
55589934 ACTGGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
55589965 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
55589982 ACTATAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:55590077 original size:42 final size:42
Alignment explanation
Indices: 55590008--55590096 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
55589998 CCCTTAGGCT
* ** *
55590008 CATTTCAATATCACATGTAATGTCAATGGATGTATGCAAGCC
1 CATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCC
55590050 CATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCC
1 CATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCC
55590092 CATTT
1 CATTT
55590097 GGGGAGACTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.30
Consensus pattern (42 bp):
CATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCC
Found at i:55590263 original size:24 final size:25
Alignment explanation
Indices: 55590236--55590287 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
55590226 GCCTAGCCTC
55590236 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
55590260 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
55590285 TTT
1 TTT
55590288 CGGTAAACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:55590271 original size:25 final size:25
Alignment explanation
Indices: 55590243--55590312 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
55590233 CTCTTTTAAT
*
55590243 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
55590268 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* * *
55590293 AACTAGGCCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
55590313 ATCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:55591163 original size:27 final size:27
Alignment explanation
Indices: 55591102--55591165 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
55591092 GGCGTATTCA
55591102 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* *
55591129 TCACTTTACCCTACAAGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
55591156 TCTTTTTACC
1 TCATTTTACC
55591166 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:55591324 original size:56 final size:54
Alignment explanation
Indices: 55591227--55591352 Score: 146
Period size: 56 Copynumber: 2.3 Consensus size: 54
55591217 ACAAACAAAG
* *
55591227 GGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTTTAGAAAGTCAAC
1 GGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAA-TTTTACAAA-TCAAC
* * * * *
55591283 GGTATTTCTGTAATTTTGTAAATCAAGGGTATTT-TGGTAATTTTACAAATTAAG
1 GGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCT-ATAATTTTACAAATCAAC
*
55591337 GGTATTTCGGTAATTT
1 GGTATTTCAGTAATTT
55591353 CACAAACCAG
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
54 18 0.30
55 9 0.15
56 34 0.56
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (54 bp):
GGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAATTTTACAAATCAAC
Found at i:55591357 original size:27 final size:27
Alignment explanation
Indices: 55591197--55591431 Score: 170
Period size: 27 Copynumber: 8.7 Consensus size: 27
55591187 TTCATCCTAC
* * * * *
55591197 AAGGGTGTTTTGGTAAATCTACAAACA
1 AAGGGTATTTCGGTAATTTTACAAACT
* ** *
55591224 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTCGGTAATTTTACAAACT
* ** * *
55591251 AATGGTATTTCTATAATTTTTAGAAAGT
1 AAGGGTATTTCGGTAA-TTTTACAAACT
* * **
55591279 CAACGGTATTTCTGTAATTTTGTAAA-T
1 -AAGGGTATTTCGGTAATTTTACAAACT
* *
55591306 CAAGGGTATTTTGGTAATTTTACAAATT
1 -AAGGGTATTTCGGTAATTTTACAAACT
*
55591334 AAGGGTATTTCGGTAATTTCACAAAC-
1 AAGGGTATTTCGGTAATTTTACAAACT
* * *
55591360 CAGTGTATGTCGGTAATTTTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
* *
55591387 AGGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
*
55591414 -AGGGATATTTTGGTAATT
1 AAGGG-TATTTCGGTAATT
55591432 CTATCCTACA
Statistics
Matches: 166, Mismatches: 37, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
26 25 0.15
27 112 0.67
28 15 0.09
29 14 0.08
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
AAGGGTATTTCGGTAATTTTACAAACT
Found at i:55591473 original size:80 final size:79
Alignment explanation
Indices: 55591303--55591473 Score: 177
Period size: 80 Copynumber: 2.1 Consensus size: 79
55591293 TAATTTTGTA
* *
55591303 AATCAAGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGTAT
1 AATCAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGGGTAT
* *
55591368 GTCGGTAATTTTAC
66 GTCAGTAATTTCAC
* * * **
55591382 AAACTAGGGGTATTTTGGTAATTTTACAAACT-AGGGATATTTTGGTAA-TTCTATCCTA-CAGG
1 AATC-AAGGGTATTTTGGTAATTTTACAAACTAAGGG-TATTTCGGTAATTTC-A-CAAACCAGG
*
55591444 GATATTTCAGTAATTTCAC
62 G-TATGTCAGTAATTTCAC
*
55591463 AATCGAGGGTA
1 AATCAAGGGTA
55591474 AAACGGTAAT
Statistics
Matches: 74, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
79 10 0.14
80 45 0.61
81 19 0.26
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.37
Consensus pattern (79 bp):
AATCAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGGGTAT
GTCAGTAATTTCAC
Found at i:55591595 original size:84 final size:84
Alignment explanation
Indices: 55591463--55591652 Score: 287
Period size: 84 Copynumber: 2.3 Consensus size: 84
55591453 GTAATTTCAC
* * *
55591463 AATCGAGGGTAAAACGGTAA-TC--TTGTAAATTAAGGGTAAAATGGTAATTTTGTAAATCAAGG
1 AATCGAGGGTAAAATGGTAATTCTATTATAAATTAAGGGTAAAATGATAATTTTGTAAATCAAGG
*
55591525 GTAAAACGGTAATTCTGTA
66 GTAAAACGGTAATTCTATA
* *
55591544 AATCGAGGGTAAAATGGTAATTCTATTATAAATTGAGGGTAAAATGATAATTTTGTAAATCGAGG
1 AATCGAGGGTAAAATGGTAATTCTATTATAAATTAAGGGTAAAATGATAATTTTGTAAATCAAGG
*
55591609 GTGAAACGGTAATTCTATA
66 GTAAAACGGTAATTCTATA
*
55591628 AATCAAGGGTAAAATGGTAATTCTA
1 AATCGAGGGTAAAATGGTAATTCTA
55591653 CAAATCGAGG
Statistics
Matches: 98, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
81 19 0.19
82 2 0.02
84 77 0.79
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.31
Consensus pattern (84 bp):
AATCGAGGGTAAAATGGTAATTCTATTATAAATTAAGGGTAAAATGATAATTTTGTAAATCAAGG
GTAAAACGGTAATTCTATA
Found at i:55591650 original size:27 final size:27
Alignment explanation
Indices: 55591463--55591663 Score: 215
Period size: 27 Copynumber: 7.3 Consensus size: 27
55591453 GTAATTTCAC
*
55591463 AATCGAGGGTAAAACGGTAA-TCTTGTA
1 AATCGAGGGTAAAATGGTAATTC-TGTA
** *
55591490 AATTAAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
55591517 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
55591544 AATCGAGGGTAAAATGGTAATTCTATTATA
1 AATCGAGGGTAAAATGGTAATTC---TGTA
* * *
55591574 AATTGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * *
55591601 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* **
55591628 AATCAAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTGTA
55591655 AATCGAGGG
1 AATCGAGGG
55591664 CATTTCAGTA
Statistics
Matches: 145, Mismatches: 25, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
27 121 0.83
28 1 0.01
30 23 0.16
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:55594563 original size:22 final size:22
Alignment explanation
Indices: 55594538--55594613 Score: 95
Period size: 22 Copynumber: 3.6 Consensus size: 22
55594528 ATACTATTTT
*
55594538 TTTATTATTTTACTTAAGTTAA
1 TTTATTAATTTACTTAAGTTAA
* *
55594560 TTTATTAATTTACCT-A-TT-T
1 TTTATTAATTTACTTAAGTTAA
*
55594579 TTTATTATTTTACTTAAGTTAA
1 TTTATTAATTTACTTAAGTTAA
55594601 TTTATTAATTTAC
1 TTTATTAATTTAC
55594614 CTATTGAAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
19 13 0.30
20 3 0.07
21 3 0.07
22 25 0.57
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.61
Consensus pattern (22 bp):
TTTATTAATTTACTTAAGTTAA
Found at i:55594564 original size:19 final size:19
Alignment explanation
Indices: 55594542--55594606 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
55594532 TATTTTTTTA
55594542 TTATTTTACTTAAGTTAAT
1 TTATTTTACTTAAGTTAAT
* * **
55594561 TTATTAATTTACCT-ATTTTTT
1 TTA-T--TTTACTTAAGTTAAT
55594582 ATTATTTTACTTAAGTTAAT
1 -TTATTTTACTTAAGTTAAT
55594602 TTATT
1 TTATT
55594607 AATTTACCTA
Statistics
Matches: 33, Mismatches: 8, Indels: 10
0.65 0.16 0.20
Matches are distributed among these distances:
19 14 0.42
20 5 0.15
21 5 0.15
22 9 0.27
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (19 bp):
TTATTTTACTTAAGTTAAT
Done.