Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 170 of 438
Found at i:52162473 original size:22 final size:22
Alignment explanation
Indices: 52162447--52162491 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
52162437 ATTATGTGTA
52162447 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
52162469 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
52162491 T
1 T
52162492 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:52171149 original size:20 final size:20
Alignment explanation
Indices: 52171126--52171164 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52171116 AAAATGAATA
*
52171126 GTAATTGTCATGAATTATCT
1 GTAAATGTCATGAATTATCT
*
52171146 GTAAATGTTATGAATTATC
1 GTAAATGTCATGAATTATC
52171165 AAGTAATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (20 bp):
GTAAATGTCATGAATTATCT
Found at i:52171172 original size:20 final size:19
Alignment explanation
Indices: 52171125--52171174 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
52171115 GAAAATGAAT
*
52171125 AGTAATTGTCATGAATTATC
1 AGTAA-TGTTATGAATTATC
*
52171145 TGTAAATGTTATGAATTATC
1 AGT-AATGTTATGAATTATC
52171165 AAGTAATGTT
1 -AGTAATGTT
52171175 CCGTAATCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (19 bp):
AGTAATGTTATGAATTATC
Found at i:52172566 original size:17 final size:17
Alignment explanation
Indices: 52172544--52172577 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
52172534 AAAAAAATTT
*
52172544 CCAGACAAGTTGGTTAC
1 CCAGACAAGCTGGTTAC
52172561 CCAGACAAGCTGGTTAC
1 CCAGACAAGCTGGTTAC
52172578 TGCATCACTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (17 bp):
CCAGACAAGCTGGTTAC
Found at i:52173924 original size:40 final size:41
Alignment explanation
Indices: 52173866--52174100 Score: 189
Period size: 40 Copynumber: 5.9 Consensus size: 41
52173856 GGATATAGCG
* * * * *
52173866 ACTCGCTCGATTGTCTTCGGGACA-TCGCCCGG-TTATAGTG
1 ACTCGCACAATTGCCTTCGGGACATTAGCCCGGATT-TAGTA
* *
52173906 ATTCGTACAATTGCCTTCGGGA-ATTAGCCCGGATTTAGTA
1 ACTCGCACAATTGCCTTCGGGACATTAGCCCGGATTTAGTA
* * * *
52173946 ACTCGCACAAATGCCTTCGGGAC-TTAACCCGGTTTTGGTA
1 ACTCGCACAATTGCCTTCGGGACATTAGCCCGGATTTAGTA
* * * * *
52173986 ACTCGCACAAATGCCTTCGAGAC-TTAACCCGGTTTTGGTA
1 ACTCGCACAATTGCCTTCGGGACATTAGCCCGGATTTAGTA
* * *
52174026 ACTAGCACAAATGCCTTCGGGA-ATT-GACCCGGATTTAGTC
1 ACTCGCACAATTGCCTTCGGGACATTAG-CCCGGATTTAGTA
* **
52174066 ACTTAGCACAAAAGCCTTCGGGAC-TTAGCCCGGAT
1 AC-TCGCACAATTGCCTTCGGGACATTAGCCCGGAT
52174101 ACCATTCGAA
Statistics
Matches: 166, Mismatches: 21, Indels: 15
0.82 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 134 0.81
41 30 0.18
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (41 bp):
ACTCGCACAATTGCCTTCGGGACATTAGCCCGGATTTAGTA
Found at i:52174098 original size:41 final size:40
Alignment explanation
Indices: 52173912--52174100 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
52173902 AGTGATTCGT
* * *
52173912 ACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGC
1 ACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGC
* * * *
52173952 ACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGC
1 ACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGC
* * * *
52173992 ACAAATGCCTTCGAGACTTAACCCGGTTTTGGTAACTAGC
1 ACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGC
* *
52174032 ACAAATGCCTTCGGGAATT-GACCCGGATTTAGTCACTTAGC
1 ACAAATGCCTTCGGGACTTAG-CCCGGATTTAGTAAC-TAGC
*
52174073 ACAAAAGCCTTCGGGACTTAGCCCGGAT
1 ACAAATGCCTTCGGGACTTAGCCCGGAT
52174101 ACCATTCGAA
Statistics
Matches: 131, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
40 102 0.78
41 28 0.21
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
ACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGC
Found at i:52174812 original size:2 final size:2
Alignment explanation
Indices: 52174805--52174832 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
52174795 CATGTGCAAA
52174805 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52174833 GCTAGAGCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52182056 original size:40 final size:39
Alignment explanation
Indices: 52182012--52182230 Score: 226
Period size: 40 Copynumber: 5.5 Consensus size: 39
52182002 GCTCGATTGT
* * *
52182012 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
52182052 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
52182092 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
52182132 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
52182172 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
52182213 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
52182231 ATACCATTCG
Statistics
Matches: 156, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 2 0.01
40 127 0.81
41 25 0.16
42 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:52182110 original size:80 final size:79
Alignment explanation
Indices: 52182012--52182232 Score: 271
Period size: 80 Copynumber: 2.7 Consensus size: 79
52182002 GCTCGATTGT
* * * * *
52182012 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
52182077 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * * *
52182092 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGT
1 CTTCGGGACTTAACCCGG-TTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
52182157 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * * *
52182172 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 CTTCGGGACTTAACCCGG-TTTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
52182233 ACCATTCGAA
Statistics
Matches: 119, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
80 88 0.74
81 31 0.26
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAACCCGGTTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
ACTCGCACAAATGC
Found at i:52183193 original size:31 final size:31
Alignment explanation
Indices: 52183155--52183218 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
52183145 AAAAAGAAAG
52183155 TCCAAGAGCCATCAATCCACCATCACATGTA
1 TCCAAGAGCCATCAATCCACCATCACATGTA
52183186 TCCAAGAGCCATCAATCCACCATCACATGTA
1 TCCAAGAGCCATCAATCCACCATCACATGTA
52183217 TC
1 TC
52183219 ATTAGCAAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.36, G:0.09, T:0.20
Consensus pattern (31 bp):
TCCAAGAGCCATCAATCCACCATCACATGTA
Found at i:52184927 original size:43 final size:42
Alignment explanation
Indices: 52184837--52184945 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 42
52184827 TCAATGCCTC
* *
52184837 TGTCCCAGACAGGGTCTTACACGAAATCAAATACGATGTCGA
1 TGTCCCAGACACGGTCTTACACGAAATCAAATACGAGGTCGA
* * * *
52184879 TGTCCCAGACATGGTCTTATACGTAAATCTCAAT-CGAGGCTTG-
1 TGTCCCAGACACGGTCTTACACG-AAATC-AAATACGAGG-TCGA
52184922 TGTCCCAGACACGGTCTTACACGA
1 TGTCCCAGACACGGTCTTACACGA
52184946 CGTCTCAGAC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
42 22 0.39
43 30 0.53
44 5 0.09
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (42 bp):
TGTCCCAGACACGGTCTTACACGAAATCAAATACGAGGTCGA
Found at i:52195305 original size:25 final size:24
Alignment explanation
Indices: 52195276--52195323 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
52195266 AAATTTCAAT
* *
52195276 TTTATTTAATTATTTAATTTTTTAA
1 TTTATTCAATTA-TTAATATTTTAA
52195301 TTTATTCAATTATTAATATTTTA
1 TTTATTCAATTATTAATATTTTA
52195324 TACTAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTATTCAATTATTAATATTTTAA
Found at i:52196848 original size:129 final size:124
Alignment explanation
Indices: 52196559--52196904 Score: 351
Period size: 129 Copynumber: 2.8 Consensus size: 124
52196549 TATGTGAAAA
* * *** * * *
52196559 AAACACCGCTAAAGAACATGACCTTTAGCGGTGCTTTACCCACAAAAGCTGCTTTAAAACATGAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGTGTTTTTTTCACAAAAGCTGCTATAGAACATGTC
*
52196624 CTTTAGCGGCGCTTTTATCACAAATG-CCAGAACATGAACTTTAGCGATGCTTTTATCAC
66 CTTTAGCGGCGCTTTTATCACAAACGCCCAGAACATGAACTTTAGCGA-GCTTTTATCAC
* * * *
52196683 AAACGCCGCTAAAGAACATGCCCTTTAGCGGCGTTTTTTTTACAAATGCTGCTATAGAACATGTC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGTGTTTTTTTCACAAAAGCTGCTATAGAACATGTC
* *
52196748 CTTTATCGGCGCTTTTATCACAAACGCCGCTGAAGAACATGACCTTTAGCG-GCGTTTTA-CAAA
66 CTTTAGCGGCGCTTTTATCACAAACGCC-C---AGAACATGAACTTTAGCGAGC-TTTTATC--A
52196811 C
124 C
** * * ** * *
52196812 AAACGTTGCTATAA-AACATGACTTTTAGCGGTGTTTTTTTCACAAACGCCACTAAAGAATA-GT
1 AAACGCCGCTA-AAGAACATGACCTTTAGCGGTGTTTTTTTCACAAAAGCTGCTATAGAACATGT
*
52196875 ACCTTTAGCGGTGCTTTTATCACAAACGCC
65 -CCTTTAGCGGCGCTTTTATCACAAACGCC
52196905 ATTAAAAGTA
Statistics
Matches: 184, Mismatches: 28, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
124 77 0.42
125 1 0.01
126 1 0.01
127 3 0.02
128 7 0.04
129 93 0.51
130 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (124 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGTGTTTTTTTCACAAAAGCTGCTATAGAACATGTC
CTTTAGCGGCGCTTTTATCACAAACGCCCAGAACATGAACTTTAGCGAGCTTTTATCAC
Found at i:52196905 original size:43 final size:43
Alignment explanation
Indices: 52196559--52196904 Score: 300
Period size: 43 Copynumber: 8.2 Consensus size: 43
52196549 TATGTGAAAA
* * *
52196559 AAACACCGCTAAAGAACATGACCTTTAGCGGTGC-TTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTA-TCAC
* * *
52196602 AAAAGCTGCTTTAA-AACATGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGC-TAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * **
52196645 AAATG-C-C---AGAACATGAACTTTAGCGATGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * * *
52196683 AAACGCCGCTAAAGAACATGCCCTTTAGCGGCGTTTTTTTTAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * * * *
52196726 AAATGCTGCTATAGAACATGTCCTTTATCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
*
52196769 AAACGCCGCTGAAGAACATGACCTTTAGCGGCG-TTTTA-CAAAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATC--AC
** * * * *
52196812 AAACGTTGCTATAA-AACATGACTTTTAGCGGTGTTTTTTTCAC
1 AAACGCCGCTA-AAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * *
52196855 AAACGCCACTAAAGAATA-GTACCTTTAGCGGTGCTTTTATCAC
1 AAACGCCGCTAAAGAACATG-ACCTTTAGCGGCGCTTTTATCAC
52196898 AAACGCC
1 AAACGCC
52196905 ATTAAAAGTA
Statistics
Matches: 242, Mismatches: 46, Indels: 30
0.76 0.14 0.09
Matches are distributed among these distances:
37 1 0.00
38 30 0.12
39 1 0.00
40 1 0.00
41 2 0.01
42 8 0.03
43 185 0.76
44 13 0.05
45 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
Found at i:52197251 original size:21 final size:21
Alignment explanation
Indices: 52197210--52197259 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
52197200 TTTTGCTCTG
52197210 CTCTGCTTCCCTCACTACTGC
1 CTCTGCTTCCCTCACTACTGC
* ** *
52197231 CTTTGCTTCCCTCGTTGCTGC
1 CTCTGCTTCCCTCACTACTGC
52197252 CTCTGCTT
1 CTCTGCTT
52197260 TAAGTTGTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.04, C:0.42, G:0.14, T:0.40
Consensus pattern (21 bp):
CTCTGCTTCCCTCACTACTGC
Found at i:52197721 original size:13 final size:14
Alignment explanation
Indices: 52197695--52197723 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
52197685 ACTAACGACG
52197695 AATTAAACCATTAT
1 AATTAAACCATTAT
52197709 AATTAAA-CATTAT
1 AATTAAACCATTAT
52197722 AA
1 AA
52197724 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:52202797 original size:43 final size:43
Alignment explanation
Indices: 52202724--52202807 Score: 134
Period size: 43 Copynumber: 1.9 Consensus size: 43
52202714 ACAAGTAAGT
52202724 TATATATTTATAAGTATAATTAAGTTATGTAAGTTATGATACAA
1 TATATATTTAT-AGTATAATTAAGTTATGTAAGTTATGATACAA
*
52202768 TATATATTTAT-GTATTATGTAAGTTATGTAAGTTATGATA
1 TATATATTTATAGTATAAT-TAAGTTATGTAAGTTATGATA
52202808 TGATAGATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
42 6 0.16
43 21 0.55
44 11 0.29
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.46
Consensus pattern (43 bp):
TATATATTTATAGTATAATTAAGTTATGTAAGTTATGATACAA
Found at i:52203004 original size:18 final size:18
Alignment explanation
Indices: 52202977--52203019 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
52202967 ATAGAAGTCA
*
52202977 TTTATACCAAAGTTATCT
1 TTTATTCCAAAGTTATCT
52202995 TTTATTCCAAAGTTATCT
1 TTTATTCCAAAGTTATCT
52203013 TTTATTC
1 TTTATTC
52203020 TTTAAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.16, G:0.05, T:0.51
Consensus pattern (18 bp):
TTTATTCCAAAGTTATCT
Found at i:52206616 original size:50 final size:48
Alignment explanation
Indices: 52206499--52206688 Score: 292
Period size: 48 Copynumber: 3.9 Consensus size: 48
52206489 TTATGTGTAT
*
52206499 ATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52206547 ATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAG
* *
52206597 ATATGTAAATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
52206645 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
52206689 GGCGATGTGC
Statistics
Matches: 132, Mismatches: 6, Indels: 8
0.90 0.04 0.05
Matches are distributed among these distances:
47 1 0.01
48 86 0.65
49 4 0.03
50 40 0.30
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:52206625 original size:98 final size:98
Alignment explanation
Indices: 52206507--52206685 Score: 315
Period size: 98 Copynumber: 1.8 Consensus size: 98
52206497 ATATATGCAT
52206507 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAAT
1 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAAT
52206572 GG-TCAATGTGAAATATATATATGAGATATGTAA
66 GGCT-AATGTGAAATATATATATGAGATATGTAA
* *
52206605 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
1 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAAT
*
52206670 GGCTAGTGTGAAATAT
66 GGCTAATGTGAAATAT
52206686 GTAGGCGATG
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
98 76 0.99
99 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (98 bp):
ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAAT
GGCTAATGTGAAATATATATATGAGATATGTAA
Found at i:52206943 original size:37 final size:37
Alignment explanation
Indices: 52206838--52206943 Score: 176
Period size: 37 Copynumber: 2.9 Consensus size: 37
52206828 AATATATTCT
*
52206838 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
*
52206875 GGCTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
* *
52206912 GGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTT
52206944 CGTCTGAGCT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
Found at i:52208728 original size:19 final size:20
Alignment explanation
Indices: 52208678--52208728 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
52208668 GTGTAGTTAT
* *
52208678 ACACGCCCCTATGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
52208698 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
52208718 ACACG-CCGTGT
1 ACACGCCCGTGT
52208729 CCTCAGCTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.14, C:0.33, G:0.33, T:0.20
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTGGG
Found at i:52219720 original size:28 final size:28
Alignment explanation
Indices: 52219651--52219751 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
52219641 GACAAGATTG
* * * *
52219651 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
52219681 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
52219709 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
52219738 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
52219752 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:52227640 original size:28 final size:28
Alignment explanation
Indices: 52227571--52227671 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
52227561 GACAAGATTG
* * * *
52227571 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
52227601 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
52227629 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
52227658 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
52227672 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:52230052 original size:40 final size:40
Alignment explanation
Indices: 52230007--52230173 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
52229997 CGGAATATAA
52230007 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
52230047 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
52230087 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
52230127 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
52230166 CCGGATAT
1 CCGGATAT
52230174 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52238040 original size:40 final size:41
Alignment explanation
Indices: 52237995--52238161 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 41
52237985 CGGAATATAA
*
52237995 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
52238035 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
52238075 CCGGATAT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
52238115 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
52238154 CCGGATAT
1 CCGGATAT
52238162 CATTCAATTT
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 17 0.16
40 89 0.83
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52238145 original size:80 final size:79
Alignment explanation
Indices: 52238011--52238161 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
52238001 ATAATCAAGT
*
52238011 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
52238076 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
52238091 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
52238154 CCGGATAT
64 CCGGATAT
52238162 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:52239002 original size:17 final size:19
Alignment explanation
Indices: 52238979--52239024 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
52238969 AAGAAGCATG
52238979 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
52238997 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
52239015 AATCATGCTC
1 AATCATGCTC
52239025 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:52241765 original size:22 final size:21
Alignment explanation
Indices: 52241735--52241781 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
52241725 TACAAATTAA
52241735 ATCTCCAAGATTACTAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
52241757 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
52241778 ATCT
1 ATCT
52241782 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:52241775 original size:16 final size:16
Alignment explanation
Indices: 52241754--52241804 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
52241744 ATTACTAGAT
52241754 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
52241770 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
52241789 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
52241805 ATATTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:52241787 original size:19 final size:21
Alignment explanation
Indices: 52241752--52241794 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
52241742 AGATTACTAG
52241752 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
52241773 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
52241792 ATC
1 ATC
52241795 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:52242478 original size:41 final size:41
Alignment explanation
Indices: 52242433--52242544 Score: 100
Period size: 46 Copynumber: 2.6 Consensus size: 41
52242423 ATACAGAGAT
*
52242433 GCCAAATCATCTTAGATTTGCTTCATCGTAAGCACATGAAA
1 GCCAAATCATCTTAGATTTGCTTCATCGTAAGCACAAGAAA
* * * *
52242474 GCCAAATCAGCTATGTATTCGATTTG-TTCCTTGTAAGCACAAGAAT
1 GCCAAATCA--TCT-TA---GATTTGCTTCATCGTAAGCACAAGAAA
* *
52242520 GCCAAACCATCTTGGATTTGCTTCA
1 GCCAAATCATCTTAGATTTGCTTCA
52242545 GTATAAACAT
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
40 6 0.11
41 12 0.22
43 3 0.05
44 4 0.07
46 24 0.44
47 6 0.11
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (41 bp):
GCCAAATCATCTTAGATTTGCTTCATCGTAAGCACAAGAAA
Found at i:52242568 original size:206 final size:206
Alignment explanation
Indices: 52242212--52243142 Score: 1513
Period size: 206 Copynumber: 4.5 Consensus size: 206
52242202 ACCTGTTTTT
* * * * *
52242212 TGACAATACAGAGATACCATATCATCTTAGATTTGCTTCATCATAAGCACGCGAAAACCAAATCA
1 TGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCA
* * * *
52242277 ACTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTC
66 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTA
* * *
52242342 TAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCAAAACTTC
131 TAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTTC
*
52242407 AATTTGTTCTC
196 GATTTGTTCTC
* *
52242418 TAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACATGAAAGCCAAATCA
1 TGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCA
* * *
52242483 GCTATGTATTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAACCATCTTGGATTTGCTTCAGTA
66 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTA
* * * *
52242548 TAAACATCTGAAGGTTAGATCTGCTATGTGTTTGCTCTCCGTCGAATATAGAGATGCCGAACTTC
131 TAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTTC
52242613 GATTTGTTCTC
196 GATTTGTTCTC
*
52242624 TGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAGGCACGTGAAAGCCAAATCA
1 TGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCA
*
52242689 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTA
66 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTA
*
52242754 TAAACATCTGAAGGTTAGATCTGCTATGTGTATGCTCTCCGTCGAATATGGAGACGCCAAACTTC
131 TAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTTC
52242819 GATTTGTTCTC
196 GATTTGTTCTC
52242830 TGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCA
1 TGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCA
* * * *
52242895 GCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTTAGTA
66 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTA
* ** *
52242960 TAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACCCCAAACTTC
131 TAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTTC
52243025 GATTTGTTCTC
196 GATTTGTTCTC
* * *
52243036 TGACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAGCGTAAAC-CGTGAAAGCCAAATCA
1 TGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCA
* *
52243100 GCTATGTCCTCGATTTGTTCCTTTTAAGCACAAGGATGCCAAA
66 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAA
52243143 TCTGCTATCT
Statistics
Matches: 677, Mismatches: 48, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
205 56 0.08
206 621 0.92
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (206 bp):
TGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCA
GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTA
TAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTTC
GATTTGTTCTC
Found at i:52243181 original size:44 final size:44
Alignment explanation
Indices: 52243091--52243583 Score: 344
Period size: 44 Copynumber: 11.2 Consensus size: 44
52243081 AACCGTGAAA
* * * * * * *
52243091 GCCAAATCAGCTATGTCCTCGATTTGTTCCTTTTAAGCACAAGGAT
1 GCCAAATCTGCTA--TCTTCGACTTGTTCCCTATAAACACAGGGAT
*
52243137 GCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGAT
1 GCCAAATCTGCTATCTTCGACTTGTTCCCTATAAACACAGGGAT
** ** ** * * *
52243181 GCCATGT-TGAAATCTTCGA-TCTGCTTTGCTTTAAGCACAGGAAT
1 GCCAAATCTGCTATCTTCGACT-TG-TTCCCTATAAACACAGGGAT
* * * *
52243225 GTCAGATCTGCTATCTTCGATTTGTTCCCCATAAACACAGGGAT
1 GCCAAATCTGCTATCTTCGACTTGTTCCCTATAAACACAGGGAT
* *
52243269 GCCAAATCTGCTATCTTCAACCTGTTCCCTATAAACACA-GGAT
1 GCCAAATCTGCTATCTTCGACTTGTTCCCTATAAACACAGGGAT
** * * * ** *
52243312 GCC--ATGCTGAAATATTCGA-TCTGCTTCGCTGTATGCACAGGAAT
1 GCCAAAT-CTGCTATCTTCGACT-TG-TTCCCTATAAACACAGGGAT
* * *
52243356 GTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGAT
1 GCCAAATCTGCTATCTTCGACTTGTTCCCTATAAACACAGGGAT
* * * *
52243400 GCCAAATCTGCTACCTTCAACTTGTTCCTTATAAACATAGGGAT
1 GCCAAATCTGCTATCTTCGACTTGTTCCCTATAAACACAGGGAT
** *
52243444 GCC--ATGCTGAAATCTTCAACTTGTTCCCTATAAACACAGGGAT
1 GCCAAAT-CTGCTATCTTCGACTTGTTCCCTATAAACACAGGGAT
** * * *
52243487 GCC-ACGCTG-TAATCTTCGA-TCTGCTTCGCTGTAAGCACA-GGAGT
1 GCCAAATCTGCT-ATCTTCGACT-TG-TTCCCTATAAACACAGGGA-T
* * *
52243531 GTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGAT
1 GCCAAATCTGCTATCTTCGACTTGTTCCCTATAAACACAGGGAT
*
52243575 ACCAAATCT
1 GCCAAATCT
52243584 TGTTTCTTTG
Statistics
Matches: 343, Mismatches: 83, Indels: 44
0.73 0.18 0.09
Matches are distributed among these distances:
41 2 0.01
42 15 0.04
43 79 0.23
44 189 0.55
45 40 0.12
46 18 0.05
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGACTTGTTCCCTATAAACACAGGGAT
Found at i:52243274 original size:132 final size:132
Alignment explanation
Indices: 52243109--52243574 Score: 586
Period size: 131 Copynumber: 3.5 Consensus size: 132
52243099 AGCTATGTCC
* * * *
52243109 TCGATTTGTTCCTTTTAAGCACAAGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACA
1 TCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACA
* * *
52243174 CAGGGATGCCATGTTGAAATCTTCGATCTGCTTTGCTTTAAGCACAGGAATGTCAGATCTGCTAT
66 CAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTAT
52243239 CT
131 CT
* *
52243241 TCGATTTGTTCCCCATAAACACAGGGATGCCAAATCTGCTATCTTCAACCTGTTCCCTATAAACA
1 TCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACA
* *
52243306 CA-GGATGCCATGCTGAAATATTCGATCTGCTTCGCTGTATGCACAGGAATGTCAGATCTGCTAT
66 CAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTAT
52243370 CT
131 CT
* *
52243372 TCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTACCTTCAACTTGTTCCTTATAAACA
1 TCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACA
* * * * * * *
52243437 TAGGGATGCCATGCTGAAATCTTC-AACTTG-TTCCCTATAAACACAGGGATGCCACG--CTG-T
66 CAGGGATGCCATGCTGAAATCTTCGATC-TGCTTCGCTGTAAGCACAGGAATGTCA-GATCTGCT
52243497 AATCT
129 -ATCT
* * * * * * * *
52243502 TCGATCTGCTTCGCTGTAAGCACA-GGAGTGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAA
1 TCGATTTG-TTCCCTATAAACACAGGGA-TGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAA
52243566 CACAGGGAT
64 CACAGGGAT
52243575 ACCAAATCTT
Statistics
Matches: 293, Mismatches: 35, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
129 1 0.00
130 17 0.06
131 191 0.65
132 84 0.29
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (132 bp):
TCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACA
CAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTAT
CT
Found at i:52243367 original size:87 final size:88
Alignment explanation
Indices: 52243260--52243574 Score: 313
Period size: 87 Copynumber: 3.6 Consensus size: 88
52243250 TCCCCATAAA
* * * *
52243260 CACAGGGATGCCAAATCTGCTATCTTCAACCTGTTCCCTATAAACACA-GGATGCCATGCTGAAA
1 CACAGGAATGTCAGATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAA
*
52243324 TATTCGATCTGCTTCGCTGTATG
66 TCTTCGATCTGCTTCGCTGTATG
* * *
52243347 CACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAAT-CTGC
1 CACAGGAATGTCAGATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCC--ATGCTGA
* * * *
52243411 TACCTTC-AACTTG-TTC-CT-TATAAA
64 AATCTTCGATC-TGCTTCGCTGTAT--G
* * * ** * *
52243435 CATAGGGATG-C-CATGCTGAAATCTTCAACTTGTTCCCTATAAACACAGGGATGCCACGCTGTA
1 CACAGGAATGTCAGAT-CTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAA
*
52243498 ATCTTCGATCTGCTTCGCTGTAAG
65 ATCTTCGATCTGCTTCGCTGTATG
* * *
52243522 CACAGGAGTGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGAT
1 CACAGGAATGTCAGATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGAT
52243575 ACCAAATCTT
Statistics
Matches: 180, Mismatches: 34, Indels: 27
0.75 0.14 0.11
Matches are distributed among these distances:
85 1 0.01
86 15 0.08
87 93 0.52
88 56 0.31
89 13 0.07
90 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (88 bp):
CACAGGAATGTCAGATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAA
TCTTCGATCTGCTTCGCTGTATG
Found at i:52243427 original size:175 final size:175
Alignment explanation
Indices: 52243216--52243583 Score: 542
Period size: 175 Copynumber: 2.1 Consensus size: 175
52243206 TTGCTTTAAG
* * * * * * *
52243216 CACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCCATAAACACAGGGATGCCAAAT-CTGC
1 CACAGGGATGCCAAATCTGCTACCTTCAACTTGTTCCCCATAAACACAGGGATGCC--ATGCTGA
* *
52243280 TATCTTCAACCTGTTCCCTATAAACACA-GGATGCCATGCTGAAATATTCGATCTGCTTCGCTGT
64 AATCTTCAACCTGTTCCCTATAAACACAGGGATGCCACGCTGAAATATTCGATCTGCTTCGCTGT
*
52243344 ATGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAA
129 AAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAA
** *
52243391 CACAGGGATGCCAAATCTGCTACCTTCAACTTGTTCCTTATAAACATAGGGATGCCATGCTGAAA
1 CACAGGGATGCCAAATCTGCTACCTTCAACTTGTTCCCCATAAACACAGGGATGCCATGCTGAAA
* * *
52243456 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCACGCTGTAATCTTCGATCTGCTTCGCTGTAA
66 TCTTCAACCTGTTCCCTATAAACACAGGGATGCCACGCTGAAATATTCGATCTGCTTCGCTGTAA
*
52243521 GCACAGGAGTGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAA
131 GCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAA
*
52243566 CACAGGGATACCAAATCT
1 CACAGGGATGCCAAATCT
52243584 TGTTTCTTTG
Statistics
Matches: 173, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
173 2 0.01
174 29 0.17
175 142 0.82
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (175 bp):
CACAGGGATGCCAAATCTGCTACCTTCAACTTGTTCCCCATAAACACAGGGATGCCATGCTGAAA
TCTTCAACCTGTTCCCTATAAACACAGGGATGCCACGCTGAAATATTCGATCTGCTTCGCTGTAA
GCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAA
Found at i:52244464 original size:9 final size:9
Alignment explanation
Indices: 52244452--52244499 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 9
52244442 CTCATTTTTC
*
52244452 TTTTTATTT
1 TTTTTCTTT
52244461 TTTTCTCTTT
1 TTTT-TCTTT
52244471 TTTTTCTTT
1 TTTTTCTTT
52244480 TTTTCCTCTTT
1 TTTT--TCTTT
52244491 TTTTT-TTT
1 TTTTTCTTT
52244499 T
1 T
52244500 GAAATAGAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
8 4 0.11
9 14 0.40
10 8 0.23
11 9 0.26
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:52244475 original size:20 final size:19
Alignment explanation
Indices: 52244437--52244499 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 19
52244427 GGCCTCTCTA
52244437 TTTTTCTCATTTTTCTTTTTATT
1 TTTTTCTC--TTTT-TTTTT-TT
52244460 TTTTTCTCTTTTTTTTCTTT
1 TTTTTCTCTTTTTTTT-TTT
*
52244480 TTTTCCTCTTTTTTTTTTT
1 TTTTTCTCTTTTTTTTTTT
52244499 T
1 T
52244500 GAAATAGAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
19 4 0.11
20 21 0.55
21 5 0.13
23 8 0.21
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTCTCTTTTTTTTTTT
Found at i:52244480 original size:19 final size:19
Alignment explanation
Indices: 52244452--52244499 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
52244442 CTCATTTTTC
*
52244452 TTTTTATTTTTTT-CTCTT
1 TTTTTTTTTTTTTCCTCTT
52244470 TTTTTTCTTTTTTTCCTCTT
1 TTTTTT-TTTTTTTCCTCTT
52244490 TTTTTTTTTT
1 TTTTTTTTTT
52244500 GAAATAGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 5 0.19
19 11 0.41
20 11 0.41
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTTTTTTTTTCCTCTT
Found at i:52251141 original size:19 final size:19
Alignment explanation
Indices: 52251106--52251203 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
52251096 AGATTACAAG
52251106 ATCATATCTTAAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
52251127 ATGATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
52251146 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
52251163 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
52251182 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
52251201 ATC
1 ATC
52251204 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.66
20 1 0.01
21 7 0.10
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:52251174 original size:36 final size:37
Alignment explanation
Indices: 52251106--52251203 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
52251096 AGATTACAAG
*
52251106 ATCATATCTTAAAGATTGCATATGATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
52251146 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
52251182 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
52251204 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:52251964 original size:206 final size:206
Alignment explanation
Indices: 52251603--52252342 Score: 1160
Period size: 206 Copynumber: 3.6 Consensus size: 206
52251593 AATCTATTAT
* * * *
52251603 CTTCGATCTGTTTTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * * * *
52251668 GCGAAAACCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * **
52251733 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTATAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
*
52251798 GAGACGCCAAA
196 GAGACGCTAAA
52251809 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
*
52251874 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
52251939 GGATTTGCTTCAGTATAAGCATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATA
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
52252004 GAGACGCTAAA
196 GAGACGCTAAA
* * *
52252015 CTTCAATTTGTTCTCTGACAATACAGAGATGCTAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * *
52252080 GTGAAAGCCAAATCAGCTATATCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * **
52252145 GGATCTGTTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
52252210 GAGACGCTAAA
196 GAGACGCTAAA
* *
52252221 CTTCGATTTGTTCTCTGGCAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAA--AC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
52252284 TGTGAAAGCCAAATCAGCTATGTCCTCGATTTGTTCTTTGTAAGCACAAGGATGCCAAA
66 -GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAA
52252343 TTTGCTATCT
Statistics
Matches: 494, Mismatches: 39, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
204 2 0.00
205 55 0.11
206 437 0.88
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
GAGACGCTAAA
Found at i:52252481 original size:132 final size:132
Alignment explanation
Indices: 52252328--52252779 Score: 588
Period size: 132 Copynumber: 3.4 Consensus size: 132
52252318 TCTTTGTAAG
* * * *
52252328 CACAAGGATGCCAAATTTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGGCATGCTAAAA
1 CACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAA
*
52252393 TCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCCATA
66 TCTTCGATCTACTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCCATA
52252458 AA
131 AA
*
52252460 CATAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAA
1 CACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAA
* * *
52252525 TATTCGATCTACTTCGCTGTATGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATA
66 TCTTCGATCTACTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCCATA
52252590 AA
131 AA
52252592 CACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAA
1 CACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAA
* ** * * * * * ** * * **
52252657 TCTTC-AACTTGTTCCCTATAAACACAGGGATG-C-CATGCTGAAATCTTCGATCTGCTTCGCTG
66 TCTTCGATCTACTTCGCTGTAAGCACAGGAATGTCAGAT-CTGCTATCTTCGATTTG-TTCCCCA
*
52252719 TAAG
129 TAAA
* * * * *
52252723 CACA-GGAGTGTCAGATCTGCTATCTTCGATTTATTCCCTATAAACACAGGGATGCCA
1 CACAGGGA-TGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCA
52252780 AATCTTGTTT
Statistics
Matches: 286, Mismatches: 31, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
129 2 0.01
130 18 0.06
131 75 0.26
132 191 0.67
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (132 bp):
CACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAA
TCTTCGATCTACTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCCATA
AA
Found at i:52252482 original size:44 final size:43
Alignment explanation
Indices: 52252309--52252780 Score: 360
Period size: 44 Copynumber: 10.8 Consensus size: 43
52252299 AGCTATGTCC
** * * * *
52252309 TCGATTTGTTCTTTGTAAGCACAAGGATGCCAAATTTGCTATCT
1 TCGATTTGTTCCCTATAAACACAGGGATGCC-AATCTGCTATCT
* * * ***
52252353 TCAACTTGTTCCCTATAAACACAGGGATGGC-ATGCTAAAATCT
1 TCGATTTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCT
* * * * * *
52252396 TCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCT
1 TCGATTTG-TTCCCTATAAACACAGGGATGCCA-ATCTGCTATCT
* *
52252441 TCGATTTGTTCCCCATAAACATAGGGATGCCAAATCTGCTATCT
1 TCGATTTGTTCCCTATAAACACAGGGATGCC-AATCTGCTATCT
* * ** *
52252485 TCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATAT
1 TCGATTTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCT
** * * ** * *
52252528 TCGATCTACTTCGCTGTATGCACAGGAATGTCAGATCTGCTATCT
1 TCGAT-TTGTTCCCTATAAACACAGGGATGCCA-ATCTGCTATCT
52252573 TCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCT
1 TCGATTTGTTCCCTATAAACACAGGGATGCC-AATCTGCTATCT
* * **
52252617 TCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCT
1 TCGATTTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCT
* * **
52252660 TCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCT
1 TCGATTTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCT
* * * * *
52252703 TCGATCTGCTTCGCTGTAAGCACA-GGAGTGTCAGATCTGCTATCT
1 TCGATTTG-TTCCCTATAAACACAGGGA-TGCCA-ATCTGCTATCT
*
52252748 TCGATTTATTCCCTATAAACACAGGGATGCCAA
1 TCGATTTGTTCCCTATAAACACAGGGATGCCAA
52252781 ATCTTGTTTC
Statistics
Matches: 334, Mismatches: 78, Indels: 33
0.75 0.18 0.07
Matches are distributed among these distances:
42 6 0.02
43 78 0.23
44 202 0.60
45 42 0.13
46 6 0.02
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
TCGATTTGTTCCCTATAAACACAGGGATGCCAATCTGCTATCT
Found at i:52252728 original size:175 final size:175
Alignment explanation
Indices: 52252392--52252784 Score: 590
Period size: 175 Copynumber: 2.2 Consensus size: 175
52252382 GCATGCTAAA
* * * * * * * * *
52252392 ATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCCAT
1 ATCTTCGATTTG-TTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCCAT
* **
52252457 AAACATAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTG
65 AAACACAGGGATGCC-AATCTGAAATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTG
*
52252522 AAATATTCGATCTACTTCGCTGTATGCACAGGAATGTCAGATCTGCT
129 AAATATTCGATCTACTTCGCTGTAAGCACAGGAATGTCAGATCTGCT
*
52252569 ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATA
1 ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCCATA
52252634 AACACAGGGATGCC-ATGCTGAAATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGA
66 AACACAGGGATGCCAAT-CTGAAATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGA
* * *
52252698 AATCTTCGATCTGCTTCGCTGTAAGCACAGGAGTGTCAGATCTGCT
130 AATATTCGATCTACTTCGCTGTAAGCACAGGAATGTCAGATCTGCT
*
52252744 ATCTTCGATTTATTCCCTATAAACACAGGGATGCCAAATCT
1 ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCT
52252785 TGTTTCTTTG
Statistics
Matches: 197, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
174 2 0.01
175 127 0.64
176 57 0.29
177 11 0.06
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (175 bp):
ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCCATA
AACACAGGGATGCCAATCTGAAATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAA
ATATTCGATCTACTTCGCTGTAAGCACAGGAATGTCAGATCTGCT
Found at i:52253650 original size:7 final size:7
Alignment explanation
Indices: 52253638--52253698 Score: 63
Period size: 7 Copynumber: 8.7 Consensus size: 7
52253628 GGCCTCTCCA
52253638 TTTTTCT
1 TTTTTCT
52253645 TTTTTCAT
1 TTTTTC-T
*
52253653 TTTTCTCA
1 TTTT-TCT
52253661 TTTTTC-
1 TTTTTCT
*
52253667 TTTTTAT
1 TTTTTCT
52253674 TTTTTCT
1 TTTTTCT
*
52253681 CTTTT-T
1 TTTTTCT
52253687 TTTTTCT
1 TTTTTCT
52253694 TTTTT
1 TTTTT
52253699 TCCTCTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
6 10 0.22
7 24 0.53
8 9 0.20
9 2 0.04
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:52253683 original size:15 final size:13
Alignment explanation
Indices: 52253638--52253699 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
52253628 GGCCTCTCCA
*
52253638 TTTTTCTTTTTTC
1 TTTTTTTTTTTTC
*
52253651 ATTTTTCTCATTTTTC
1 -TTTTT-T-TTTTTTC
*
52253667 TTTTTATTTTTTC
1 TTTTTTTTTTTTC
*
52253680 TCTTTTTTTTTTC
1 TTTTTTTTTTTTC
52253693 TTTTTTT
1 TTTTTTT
52253700 CCTCTTTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
13 23 0.59
14 5 0.13
15 5 0.13
16 6 0.15
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTTTTC
Found at i:52253698 original size:21 final size:20
Alignment explanation
Indices: 52253639--52253712 Score: 85
Period size: 22 Copynumber: 3.5 Consensus size: 20
52253629 GCCTCTCCAT
*
52253639 TTTTCTTTTTTCATTTTTCTC
1 TTTT-TTTTTTCTTTTTTCTC
*
52253660 ATTTTTCTTTTTATTTTTTCTC
1 -TTTTT-TTTTTCTTTTTTCTC
52253682 TTTTTTTTTTCTTTTTTTCCTC
1 TTTTTTTTTTC-TTTTTT-CTC
52253704 TTTTTTTTT
1 TTTTTTTTT
52253713 GAAATAGAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
20 5 0.11
21 12 0.26
22 29 0.63
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTTTTTCTTTTTTCTC
Found at i:52255559 original size:40 final size:40
Alignment explanation
Indices: 52255514--52255701 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
52255504 ATAACCACAA
* * *
52255514 GCACAATTGCCTTCGGGTCTTAACTCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
52255554 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
*
52255594 GCACAAATGCCTTCGGGTCTTAACCCGAATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
52255634 GCACAAATGCCTTCGGGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* * * *
52255674 GCATAAATGCCTTTGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
52255702 GTATCATTCA
Statistics
Matches: 132, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 130 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:52257789 original size:18 final size:18
Alignment explanation
Indices: 52257766--52257803 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
52257756 CAACAAATGC
52257766 AGGACCTCATTCATTTTG
1 AGGACCTCATTCATTTTG
52257784 AGGACCTCATTCATTTTG
1 AGGACCTCATTCATTTTG
52257802 AG
1 AG
52257804 AAATCACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (18 bp):
AGGACCTCATTCATTTTG
Found at i:52258030 original size:2 final size:2
Alignment explanation
Indices: 52258023--52258060 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
52258013 TCAATGTCAC
*
52258023 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
52258061 CAATTCACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:52259195 original size:659 final size:661
Alignment explanation
Indices: 52257889--52259229 Score: 1965
Period size: 659 Copynumber: 2.0 Consensus size: 661
52257879 TATTTCATAT
*
52257889 ATCCATAACATTCATATAATTCAAATAAACACATTCCACATTCATTTCAAGCATAAAATTAACAT
1 ATCCATAACATTCATATAATTCAAATAAACACATTCCACATTCATTTCAAGCATAAAAGTAACAT
*
52257954 TTTTTATCATTTATCATTTTTCGGGCATTACCATTGATCGGGCTTTGTCAGATACAATTTCAATG
66 TTTTTATCATTTATCATTTTTCGGCCATTACCATTGATCGGGCTTTGTCAGATACAATTTCAATG
* * *
52258019 TCACATATATATATATATATATATATATATATTATATTTATACAATTCACAACGAAAAATTTAAT
131 TCAC--------------A-ACATATATATATGATATTTATACAATTCACAACGAAAAATATAAT
* * **
52258084 TCAAACATATAAACATACACAAATTAGTTACACGAACTTATATCGACAAATGTTTGTGTATTTAA
181 TCAAACATATAAACATACACAAATTAGTTACACGAACTTACATCGACAAATGTTCGTGTACATAA
* *
52258149 AATCTACTAATCCGATATTTTTCCTCTTTTCCTCGTTCTAGCTCTGAATTTGATCTATCTGGATC
246 AATCTACTAATCCGACATTTTTCCTCTTTTCCTCGTTCTAGCTCTGAATTTGATCTATCCGGATC
* * * * *
52258214 TCTACGAGTAAATTTTACATCAATTTATCACATTTCATATTCAAGTGAACTCAATTTACATCTTA
311 TATACAAGTAAATTTAACATCAATTTATAACATTTCATATTCAAGTGAACTCAATTTACATCCTA
* * *
52258279 GGTAAAATTATAATTTTGCCCCTAACTTTTCCATAAATTCCCGTTTCATCCCTAGGCTCAGAAAA
376 GGCAAAATTATAATTTTGCCCCTAACTTTTCCATAAATTCCCATTTCATCCCTAGACTCAGAAAA
* **
52258344 TGAAATTTATGCAATTTACTCCCTATTCCAAGCCTAATCGAAATCTCACCTTAAAATTTACAGCA
441 TAAAATTTATGCAATTTACTCCCTATTCCAAGCCTAATCGAAATCTCACCTTAAAATTTACAAAA
* * * *
52258409 CATATATTCTATAAAATTCTAGATTTTTCTTCAATTTTCACAAATTTACATTTTAGTCCCTAAAT
506 CATATATTCTACAAAATTCTAGATTTTTCTTCAATTCTCACAAATTTACAATTTAATCCCTAAAT
*
52258474 CATGTTTTCATCAAAAATCACTTTGTAAAAGTTGTTTATCTATCAACAACCTTTCATTTTCTACC
571 CATGTTTTCATCAAAAATCACTTTATAAAAGTTGTTTATCTATCAACAACCTTTCATTTTCTACC
*
52258539 ATAAATTTCAAATTTTCAGCATATAC
636 ACAAATTTCAAATTTTCAGCATATAC
52258565 ATCCATAACATTCATATAATTCAAATAAACACATTCCACATTCATTTCAAGCATAAAAGTAACA-
1 ATCCATAACATTCATATAATTCAAATAAACACATTCCACATTCATTTCAAGCATAAAAGTAACAT
* *
52258629 TTTTTATCATTTATCATTTTTCGTCCATTATCATTGATCGGGCTTTGTCAGATACAATTTCAATG
66 TTTTTATCATTTATCATTTTTCGGCCATTACCATTGATCGGGCTTTGTCAGATACAATTTCAATG
* * * *
52258694 TCAC-ACATATATATATGATATTTATACAATTCACAGCGCAACATATAATTCAAACATATAATCA
131 TCACAACATATATATATGATATTTATACAATTCACAACGAAAAATATAATTCAAACATATAAACA
* * * *
52258758 TGCACAAATTAGTTATACGAATTTACCTCGACAAATGTTCGTGTACATAAAATCTACTAATCCGA
196 TACACAAATTAGTTACACGAACTTACATCGACAAATGTTCGTGTACATAAAATCTACTAATCCGA
*
52258823 CA-TTTTCCTCTTTTCCTCGTTCTAGCTCTGAATTTGGTCTATCCGGATCTATACAAGTAAATTT
261 CATTTTTCCTCTTTTCCTCGTTCTAGCTCTGAATTTGATCTATCCGGATCTATACAAGTAAATTT
* * *
52258887 AACAT-AAGTTTATAACATTTCATATTCAAGTGGACTCAATTTATATCCTAGGCAAAATTATCAT
326 AACATCAA-TTTATAACATTTCATATTCAAGTGAACTCAATTTACATCCTAGGCAAAATTATAAT
* ** *
52258951 TTTGCCCCTAACTTTTCCATAAATTTCCATTTTGTCCCTAGACTCGGAAAATAAAATTTATGCAA
390 TTTGCCCCTAACTTTTCCATAAATTCCCATTTCATCCCTAGACTCAGAAAATAAAATTTATGCAA
* *
52259016 TTTATTCCCTATTCCAAGCCTAA-CTGAAATTTCACCTTAAAATTTACAAAACATATATTCTACA
455 TTTACTCCCTATTCCAAGCCTAATC-GAAATCTCACCTTAAAATTTACAAAACATATATTCTACA
* *
52259080 AAATT-TAGAATTTTTTCTTCAATTCTCAGAAATTTACAATTTAATTCCTAAATCATGTTTTCAT
519 AAATTCTAG-A-TTTTTCTTCAATTCTCACAAATTTACAATTTAATCCCTAAATCATGTTTTCAT
* * * * *
52259144 CAAAAATCGCTTTATAAAAGTTGTTTATCTATTAAGAACCTTTCATTTTCTACCACAAATTTTAG
582 CAAAAATCACTTTATAAAAGTTGTTTATCTATCAACAACCTTTCATTTTCTACCACAAATTTCAA
*
52259209 ATTTTCAGCATATTC
647 ATTTTCAGCATATAC
52259224 ATCCAT
1 ATCCAT
52259230 GACCTAATTT
Statistics
Matches: 605, Mismatches: 56, Indels: 25
0.88 0.08 0.04
Matches are distributed among these distances:
657 6 0.01
658 233 0.39
659 237 0.39
675 66 0.11
676 63 0.10
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.38
Consensus pattern (661 bp):
ATCCATAACATTCATATAATTCAAATAAACACATTCCACATTCATTTCAAGCATAAAAGTAACAT
TTTTTATCATTTATCATTTTTCGGCCATTACCATTGATCGGGCTTTGTCAGATACAATTTCAATG
TCACAACATATATATATGATATTTATACAATTCACAACGAAAAATATAATTCAAACATATAAACA
TACACAAATTAGTTACACGAACTTACATCGACAAATGTTCGTGTACATAAAATCTACTAATCCGA
CATTTTTCCTCTTTTCCTCGTTCTAGCTCTGAATTTGATCTATCCGGATCTATACAAGTAAATTT
AACATCAATTTATAACATTTCATATTCAAGTGAACTCAATTTACATCCTAGGCAAAATTATAATT
TTGCCCCTAACTTTTCCATAAATTCCCATTTCATCCCTAGACTCAGAAAATAAAATTTATGCAAT
TTACTCCCTATTCCAAGCCTAATCGAAATCTCACCTTAAAATTTACAAAACATATATTCTACAAA
ATTCTAGATTTTTCTTCAATTCTCACAAATTTACAATTTAATCCCTAAATCATGTTTTCATCAAA
AATCACTTTATAAAAGTTGTTTATCTATCAACAACCTTTCATTTTCTACCACAAATTTCAAATTT
TCAGCATATAC
Found at i:52264154 original size:55 final size:53
Alignment explanation
Indices: 52264067--52264205 Score: 156
Period size: 55 Copynumber: 2.6 Consensus size: 53
52264057 TTAAGGGTTT
*
52264067 AAGGATACCATGTAAGACCATGTCAAGACATGAAATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGAAATTGATAAGTT-C-ATAAGGC
* * * *
52264122 AAAGG-TCCCATGTAAGACCATGCCAATG-CATGACATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAA-GACATGAAATTGATAAGTTCATAAGGC
* * *
52264175 AAGGATACTATGTAAGACCATGTCGAGACAT
1 AAGGATACCATGTAAGACCATGCCAAGACAT
52264206 AGCAATGGTA
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
52 5 0.07
53 27 0.38
54 1 0.01
55 33 0.46
56 5 0.07
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGAAATTGATAAGTTCATAAGGC
Found at i:52265019 original size:31 final size:31
Alignment explanation
Indices: 52264978--52265041 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
52264968 CCTTTTCATA
* *
52264978 TTTCATATTTCATAACATTGGGCCAAAGCCT
1 TTTCAAATTTCATAACACTGGGCCAAAGCCT
** *
52265009 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCAAAGCCT
52265040 TT
1 TT
52265042 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCAAAGCCT
Found at i:52265286 original size:24 final size:24
Alignment explanation
Indices: 52265253--52265399 Score: 217
Period size: 24 Copynumber: 6.2 Consensus size: 24
52265243 GGCCTTGCCT
*
52265253 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
52265277 CTTTTTATAACTGGGGCATAAG-C
1 CTTTTAATAACTGGGGCATAAGCC
* *
52265300 CTTTTAATAACTAGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
52265324 CTTTTGATAACTAGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
52265348 CTTTTGATAACTGGGGCATAAG-C
1 CTTTTAATAACTGGGGCATAAGCC
52265371 CTTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
52265395 CTTTT
1 CTTTT
52265400 TCACTTCCTC
Statistics
Matches: 112, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
23 42 0.38
24 70 0.62
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:52265308 original size:47 final size:48
Alignment explanation
Indices: 52265253--52265399 Score: 217
Period size: 47 Copynumber: 3.1 Consensus size: 48
52265243 GGCCTTGCCT
* *
52265253 CTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAG-C
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
* * * *
52265300 CTTTTAATAACTAGGGCGTAAGCCCTTTTGATAACTAGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
*
52265348 CTTTTGATAACTGGGGCATAAG-CCTTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
52265395 CTTTT
1 CTTTT
52265400 TCACTTCCTC
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 69 0.78
48 20 0.22
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (48 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
Found at i:52265369 original size:71 final size:71
Alignment explanation
Indices: 52265253--52265399 Score: 240
Period size: 71 Copynumber: 2.1 Consensus size: 71
52265243 GGCCTTGCCT
* * *
52265253 CTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCTTTTAATAACTAGGGCG
1 CTTTTAATAACTAGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCCTTTTAATAACTAGGGCA
52265318 TAAGCC
66 TAAGCC
* * *
52265324 CTTTTGATAACTAGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCTTTTAATAACTGGGGCA
1 CTTTTAATAACTAGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCCTTTTAATAACTAGGGCA
52265389 TAAGCC
66 TAAGCC
52265395 CTTTT
1 CTTTT
52265400 TCACTTCCTC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (71 bp):
CTTTTAATAACTAGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCCTTTTAATAACTAGGGCA
TAAGCC
Found at i:52265474 original size:20 final size:20
Alignment explanation
Indices: 52265449--52265515 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
52265439 TTATGAATAC
52265449 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
52265469 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
52265489 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
52265509 ACCATGT
1 ATCATGT
52265516 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:52265480 original size:11 final size:11
Alignment explanation
Indices: 52265449--52265504 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
52265439 TTATGAATAC
52265449 ATCATGTGCAT
1 ATCATGTGCAT
*
52265460 ATCA--TACAT
1 ATCATGTGCAT
52265469 ATCATGTGCAT
1 ATCATGTGCAT
*
52265480 ATCA--TACAT
1 ATCATGTGCAT
*
52265489 GTCATGTGCAT
1 ATCATGTGCAT
52265500 ATCAT
1 ATCAT
52265505 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:52265584 original size:25 final size:25
Alignment explanation
Indices: 52265552--52265599 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
52265542 ATACATAAAT
* *
52265552 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGTAAAACGGTCATTTTTA
52265577 CCTAGGGGTAAAACGGTCATTTT
1 CCTAGGGGTAAAACGGTCATTTT
52265600 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGTAAAACGGTCATTTTTA
Found at i:52268678 original size:40 final size:40
Alignment explanation
Indices: 52268633--52268800 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
52268623 CGGAATATAA
52268633 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
52268673 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
52268713 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * * * *
52268753 CCGAATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
*
52268793 CCGAATAT
1 CCGGATAT
52268801 CATTCAATTT
Statistics
Matches: 108, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 107 0.99
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52270719 original size:16 final size:16
Alignment explanation
Indices: 52270698--52270728 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52270688 ATAAATTTGA
52270698 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
52270714 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
52270729 AGTGAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:52280286 original size:64 final size:64
Alignment explanation
Indices: 52280205--52280453 Score: 315
Period size: 64 Copynumber: 3.9 Consensus size: 64
52280195 AGACATTATG
52280205 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
52280269 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
* * * * * * *
52280333 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGGGAT
*
52280398 AA
63 AT
** * * *
52280400 ACTG--GCTAGGTCATATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGCT
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCT
52280454 GAACTATATG
Statistics
Matches: 162, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
62 1 0.01
63 20 0.12
64 85 0.52
65 8 0.05
66 15 0.09
67 31 0.19
68 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
Found at i:52281546 original size:2 final size:2
Alignment explanation
Indices: 52281539--52281580 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
52281529 TCATGACATG
52281539 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
52281581 CACTAGTCTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:52283121 original size:21 final size:21
Alignment explanation
Indices: 52283092--52283146 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
52283082 GTATTTTAAG
52283092 TTTATGGTTTAAGGTCTGTTAT
1 TTTA-GGTTTAAGGTCTGTTAT
* ** *
52283114 TTTGGGTTTGTGGTTTGTTAT
1 TTTAGGTTTAAGGTCTGTTAT
52283135 TTTAGGTTTAAG
1 TTTAGGTTTAAG
52283147 ATTTAGGGTA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.15, C:0.02, G:0.27, T:0.56
Consensus pattern (21 bp):
TTTAGGTTTAAGGTCTGTTAT
Found at i:52286366 original size:7 final size:7
Alignment explanation
Indices: 52286356--52286380 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
52286346 GTAATATATA
52286356 TTTAGGG
1 TTTAGGG
52286363 TTTAGGG
1 TTTAGGG
52286370 TTTAGGG
1 TTTAGGG
52286377 TTTA
1 TTTA
52286381 AGGATTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:52291656 original size:2 final size:2
Alignment explanation
Indices: 52291649--52291677 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
52291639 ATTATTTGTG
52291649 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
52291678 AGTTAAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:52299937 original size:29 final size:28
Alignment explanation
Indices: 52299904--52300004 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 28
52299894 ATAGTGAATC
*
52299904 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
*
52299933 CGCACACTTAGTTCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
52299961 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
52299991 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52300005 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 4 0.06
28 22 0.35
29 17 0.27
30 19 0.31
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:52305213 original size:40 final size:40
Alignment explanation
Indices: 52305105--52305314 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
52305095 CGGGATTTAA
* * * * *
52305105 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
52305145 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
52305185 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
52305225 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
52305265 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
52305305 CCGGATATAT
1 CCGGATATAT
52305315 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:52313348 original size:40 final size:40
Alignment explanation
Indices: 52313240--52313449 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
52313230 CGGGATTTAA
* * * * *
52313240 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
52313280 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
52313320 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
52313360 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
52313400 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
52313440 CCGGATATAT
1 CCGGATATAT
52313450 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:52318671 original size:14 final size:14
Alignment explanation
Indices: 52318654--52318705 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
52318644 ACCTTTTTTT
52318654 TTCTTTCTTTCTTC
1 TTCTTTCTTTCTTC
52318668 TTC-TTC--TCTTC
1 TTCTTTCTTTCTTC
*
52318679 TTCTTTTTTTCTTC
1 TTCTTTCTTTCTTC
* *
52318693 TCCTTTCTCTCTT
1 TTCTTTCTTTCTT
52318706 TCGGTGTGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
11 8 0.26
12 2 0.06
13 3 0.10
14 18 0.58
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTCTTTCTTTCTTC
Found at i:52318690 original size:11 final size:11
Alignment explanation
Indices: 52318646--52318693 Score: 53
Period size: 11 Copynumber: 4.2 Consensus size: 11
52318636 AATACATCAC
52318646 CTTTTTTT-TT
1 CTTTTTTTCTT
*
52318656 CTTTCTTTCTT
1 CTTTTTTTCTT
52318667 CTTCTTCTCTTCTT
1 CTT-TT-T-TTCTT
52318681 CTTTTTTTCTT
1 CTTTTTTTCTT
52318692 CT
1 CT
52318694 CCTTTCTCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
10 7 0.22
11 12 0.38
12 2 0.06
13 3 0.09
14 8 0.25
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (11 bp):
CTTTTTTTCTT
Found at i:52319056 original size:27 final size:27
Alignment explanation
Indices: 52319026--52319087 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
52319016 TACATATATT
52319026 TAAATATT-TTTAATAAAA-ATAAAAAAA
1 TAAATATTATTTAA-AAAACA-AAAAAAA
*
52319053 TAAAATTTTATTTAAAAAACAAAAAAAA
1 T-AAATATTATTTAAAAAACAAAAAAAA
*
52319081 TTAATAT
1 TAAATAT
52319088 AAAAAAATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
27 5 0.17
28 18 0.62
29 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (27 bp):
TAAATATTATTTAAAAAACAAAAAAAA
Found at i:52319079 original size:22 final size:21
Alignment explanation
Indices: 52319035--52319094 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
52319025 TTAAATATTT
*
52319035 TTAATAAAAATAAAAAAATAAAA
1 TTAATATAAA-AAAAAAA-AAAA
* *
52319058 TTTTATTTAAAAAACAAAAAAAA
1 -TTAATATAAAAAA-AAAAAAAA
52319081 TTAATATAAAAAAA
1 TTAATATAAAAAAA
52319095 TGAATCGCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
21 1 0.03
22 11 0.37
23 7 0.23
24 11 0.37
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
TTAATATAAAAAAAAAAAAAA
Found at i:52321410 original size:20 final size:20
Alignment explanation
Indices: 52321372--52321425 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
52321362 AAGTTTTAAG
* *
52321372 ATAATTTTTAAAATTTAAAT
1 ATAATTTTTAAAATATAAAA
52321392 ATAATTTTATAAAA-ATAAAA
1 ATAATTTT-TAAAATATAAAA
52321412 ATAAATATTTTAAA
1 AT-AAT-TTTTAAA
52321426 TGCATTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 14 0.48
21 12 0.41
22 3 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATAATTTTTAAAATATAAAA
Found at i:52321484 original size:18 final size:18
Alignment explanation
Indices: 52321457--52321495 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
52321447 GAGATTAAGT
52321457 TTAAAAAATTAAAATATA
1 TTAAAAAATTAAAATATA
* *
52321475 TTAAACAATTTAAATATA
1 TTAAAAAATTAAAATATA
52321493 TTA
1 TTA
52321496 TGCATAGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
TTAAAAAATTAAAATATA
Found at i:52327345 original size:20 final size:20
Alignment explanation
Indices: 52327316--52327360 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
52327306 AGCACATGTA
*
52327316 TTCATAAAAT-TTCAAAATTT
1 TTCATAAAATGTT-AAAACTT
*
52327336 TTCATCAAATGTTAAAACTT
1 TTCATAAAATGTTAAAACTT
52327356 TTCAT
1 TTCAT
52327361 TTTAGTCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.44
Consensus pattern (20 bp):
TTCATAAAATGTTAAAACTT
Found at i:52329831 original size:19 final size:21
Alignment explanation
Indices: 52329809--52329847 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
52329799 CACACAAGTG
52329809 TGTGT-TC-TGGACACACGGT
1 TGTGTCTCGTGGACACACGGT
*
52329828 TGTGTCTCGTGGGCACACGG
1 TGTGTCTCGTGGACACACGG
52329848 GCTTGTCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 10 0.59
ACGTcount: A:0.13, C:0.23, G:0.36, T:0.28
Consensus pattern (21 bp):
TGTGTCTCGTGGACACACGGT
Found at i:52338024 original size:47 final size:47
Alignment explanation
Indices: 52337954--52338126 Score: 274
Period size: 47 Copynumber: 3.7 Consensus size: 47
52337944 CCCTTCGGGA
* *
52337954 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* * *
52338001 CTTATCACATATATAGACCTTCACATCCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* *
52338048 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
*
52338095 CTTATCACATATATACACTTTCACATTCATCA
1 CTTATCACATATATACACTTTCACATCCATCA
52338127 ATTTCATCAT
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 116 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:52338101 original size:22 final size:22
Alignment explanation
Indices: 52338029--52338104 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
52338019 CTTCACATCC
*
52338029 ATCACATCGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * *
52338051 ATCACATATATACACATTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
52338075 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
52338098 ATCACAT
1 ATCACAT
52338105 ATATACACTT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 19 0.47
23 4 0.10
24 5 0.12
25 12 0.30
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:52342463 original size:43 final size:43
Alignment explanation
Indices: 52342402--52342700 Score: 359
Period size: 43 Copynumber: 7.0 Consensus size: 43
52342392 TGTGATATCA
* * * *
52342402 ATATGTAATTACGTGTAAGACCACATCTAGAACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* * *
52342445 ATATGTGATTACATGTAAGACCACGTCTGGGATGTTGGCATCT
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
*
52342488 ATATGTGATTATGTGTAAGACCACGTCTGGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* * *
52342531 ATATATGATTATGTGTAAGACCACGTCTGGGACGTCGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* * * *
52342574 ATATGTGATTATGTGTAAGACCACGTCTTGGACGTCGGCATCA
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* * * *
52342617 ATATGTGATTACATATAAGACC-CTGTCTAGGACAG-TGGCATCA
1 ATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCG
* * * *
52342660 ATATGCGATTACATGTAAGACCGCGTCTGGGACATTGGCAT
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
52342701 TGTACGATAT
Statistics
Matches: 227, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
42 1 0.00
43 224 0.99
44 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (43 bp):
ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
Found at i:52348472 original size:14 final size:15
Alignment explanation
Indices: 52348437--52348482 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
52348427 GATTAGTCTC
52348437 TAATTATAATAAATA
1 TAATTATAATAAATA
*
52348452 TGA-TATAATAAATA
1 TAATTATAATAAATA
*
52348466 -AATTATAGTAAAATA
1 TAATTATAAT-AAATA
52348481 TA
1 TA
52348483 CCTGAAGATC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
13 1 0.04
14 16 0.64
15 7 0.28
16 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (15 bp):
TAATTATAATAAATA
Found at i:52351342 original size:40 final size:39
Alignment explanation
Indices: 52351192--52351344 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
52351182 AAATGTTCGA
* *
52351192 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
52351231 GTGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
52351270 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
52351309 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
52351345 GGTTACCATA
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:52351360 original size:40 final size:39
Alignment explanation
Indices: 52351193--52351375 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
52351183 AATGTTCGAG
* * *
52351193 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
52351232 TGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
52351271 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
52351310 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
52351350 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
52351376 GTTTGAACGA
Statistics
Matches: 128, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 87 0.68
40 41 0.32
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:52351411 original size:79 final size:79
Alignment explanation
Indices: 52351199--52351413 Score: 177
Period size: 78 Copynumber: 2.7 Consensus size: 79
52351189 CGAGTGATAT
** * * * * * *
52351199 CCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGACATCCGGGCT-AA-GCCCGAAGGCAATTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCC-GGATAAACTCCCGAAGGCAATTG
** *
52351262 TGCGAGTTATGATAT
65 TGCGAGTTACCATAA
** * * * * *
52351277 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
*
52351342 GCGGGTTACCATAA
66 GCGAGTTACCATAA
* **
52351356 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCCGGATAAACT-CCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGATAAACTCCCGAAGG
52351414 TATGTGATTC
Statistics
Matches: 114, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
77 3 0.03
78 40 0.35
79 40 0.35
80 30 0.26
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.22
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
GCGAGTTACCATAA
Found at i:52359259 original size:39 final size:39
Alignment explanation
Indices: 52359200--52359350 Score: 232
Period size: 39 Copynumber: 3.9 Consensus size: 39
52359190 GAATGTTCGA
* *
52359200 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
52359239 GTGACATCCGGGCTAAGCCCGAAGGCAATTG-GCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
52359277 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* * *
52359316 GTGATATCCGGGTTAAGTCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCG
52359351 GGTTACCATA
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 34 0.33
39 68 0.67
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:52359288 original size:77 final size:78
Alignment explanation
Indices: 52359201--52359381 Score: 247
Period size: 77 Copynumber: 2.3 Consensus size: 78
52359191 AATGTTCGAG
52359201 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGACATCCGGGCTAAGCCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGACATCCGGGCTAAGCCCGAAGGCA
52359266 ATTG-GCGAGTTA
66 ATTGTGCGAGTTA
* * * * *
52359278 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGACATCCGGGCTAAGCCCGAAGGCA
* *
52359343 TTTGTGCGGGTTA
66 ATTGTGCGAGTTA
** * *
52359356 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
52359382 GTTGAACGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
77 63 0.69
78 19 0.21
79 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (78 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGACATCCGGGCTAAGCCCGAAGGCA
ATTGTGCGAGTTA
Found at i:52359366 original size:39 final size:39
Alignment explanation
Indices: 52359201--52359381 Score: 229
Period size: 39 Copynumber: 4.6 Consensus size: 39
52359191 AATGTTCGAG
* * *
52359201 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
52359240 TGACATCCGGGCTAAGCCCGAAGGCAATTG-GCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
52359278 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * * *
52359317 TGATATCCGGGTTAAGTCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
** * *
52359356 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
52359382 GTTGAACGAG
Statistics
Matches: 123, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
38 34 0.28
39 81 0.66
40 8 0.07
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:52359401 original size:78 final size:77
Alignment explanation
Indices: 52359207--52359418 Score: 194
Period size: 77 Copynumber: 2.7 Consensus size: 77
52359197 CGAGTGATAT
** * * * * * *
52359207 CCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGACATCCGGGCTAAGCCCGAAGGCAATTGGC
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGTCCGAAGGCAATTGGC
** *
52359272 GAGTTATGATAT
66 GAGTTACCATAA
** * *
52359284 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCGAAGGCATTTGTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGTCCGAAGGCAATTG-G
*
52359349 CGGGTTACCATAA
65 CGAGTTACCATAA
* * * * *
52359362 CCGGGCTATGTCCCGAAGGC-GTTGAACGAGTAGCT-ATATCCGGATAAACTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGGTTAAGTCCGAAGG
52359419 TATGTGATTC
Statistics
Matches: 114, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
77 57 0.50
78 47 0.41
79 10 0.09
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (77 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGTCCGAAGGCAATTGGC
GAGTTACCATAA
Found at i:52360690 original size:33 final size:33
Alignment explanation
Indices: 52360648--52360714 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
52360638 GACAGCAGAC
52360648 GCAGTTTTCCAGCTTGCCTGGGAATGTCAAATT
1 GCAGTTTTCCAGCTTGCCTGGGAATGTCAAATT
52360681 GCAGTTTTCCAGCTTGCCTGGGAATGTCAAATT
1 GCAGTTTTCCAGCTTGCCTGGGAATGTCAAATT
52360714 G
1 G
52360715 GTCGGTGCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (33 bp):
GCAGTTTTCCAGCTTGCCTGGGAATGTCAAATT
Found at i:52365922 original size:25 final size:25
Alignment explanation
Indices: 52365888--52365938 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
52365878 TTCGGAATTC
52365888 TCCAATCCCCACATCAGCTTTTTGT
1 TCCAATCCCCACATCAGCTTTTTGT
52365913 TCCAATCCCCACATCAGCTTTTTGT
1 TCCAATCCCCACATCAGCTTTTTGT
52365938 T
1 T
52365939 TCTCCTTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.35, G:0.08, T:0.37
Consensus pattern (25 bp):
TCCAATCCCCACATCAGCTTTTTGT
Found at i:52368265 original size:40 final size:40
Alignment explanation
Indices: 52368220--52368386 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
52368210 CGGAATATAA
*
52368220 CCGGATTTAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
52368260 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
52368300 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * ** *
52368340 CCGGATATAATTTCCAGCATAGTTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
52368379 CCGGATAT
1 CCGGATAT
52368387 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52370776 original size:12 final size:12
Alignment explanation
Indices: 52370759--52370800 Score: 84
Period size: 12 Copynumber: 3.5 Consensus size: 12
52370749 CGGGTGTGTG
52370759 TCTACGTCAGAA
1 TCTACGTCAGAA
52370771 TCTACGTCAGAA
1 TCTACGTCAGAA
52370783 TCTACGTCAGAA
1 TCTACGTCAGAA
52370795 TCTACG
1 TCTACG
52370801 ATCGTGTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (12 bp):
TCTACGTCAGAA
Found at i:52383936 original size:19 final size:20
Alignment explanation
Indices: 52383912--52383949 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52383902 TAATTAGATT
52383912 TTAATTAA-GTAAATTTAGC
1 TTAATTAAGGTAAATTTAGC
*
52383931 TTAATTAAGGTTAATTTAG
1 TTAATTAAGGTAAATTTAG
52383950 TGAAAGGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAATTAAGGTAAATTTAGC
Found at i:52384144 original size:17 final size:18
Alignment explanation
Indices: 52384116--52384155 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
52384106 ACTTACTTAT
52384116 TATATAAGTAAATAATAA
1 TATATAAGTAAATAATAA
* *
52384134 TATAT-AGTAAATTATAT
1 TATATAAGTAAATAATAA
52384151 TATAT
1 TATAT
52384156 TATCTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATATAAGTAAATAATAA
Found at i:52385080 original size:20 final size:20
Alignment explanation
Indices: 52385055--52385102 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
52385045 ATTCCGACTG
*
52385055 TGTGTCGATGAGACACTATA
1 TGTGTCGAAGAGACACTATA
52385075 TGTGTCGAAGAGACACTATA
1 TGTGTCGAAGAGACACTATA
52385095 TGTGTCGA
1 TGTGTCGA
52385103 CTACTATTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (20 bp):
TGTGTCGAAGAGACACTATA
Found at i:52389293 original size:48 final size:48
Alignment explanation
Indices: 52389235--52389511 Score: 290
Period size: 48 Copynumber: 5.8 Consensus size: 48
52389225 AAGAGGGTGA
* * * *
52389235 ATTGCTGATGCCATG-CTCCAAACATGGTCTTACACTAGCTCTCGTCTC
1 ATTGCAGATGCCATGTC-CCAAACATGGTCTTACACTGGCTCTCATATC
* * * * *
52389283 ATTGCAGATGCCATGTCCCAGACATGATCTTACACTGGCTCTAATGTT
1 ATTGCAGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC
* * * * * *
52389331 GTGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATC
1 ATTGCAGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC
* * * * *
52389379 AGTACAGATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCACAAC
1 ATTGCAGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC
* * *
52389427 ATCT-CCGATGCCATGTTCCAAACATGATCTTACACTGGCTCTCATATC
1 AT-TGCAGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC
*
52389475 -GTGACAGATGCCATGTCCCAAACATGGTCTTACACTG
1 ATTG-CAGATGCCATGTCCCAAACATGGTCTTACACTG
52389512 CACACATATC
Statistics
Matches: 184, Mismatches: 41, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
46 1 0.01
48 181 0.98
49 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (48 bp):
ATTGCAGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC
Found at i:52389410 original size:96 final size:96
Alignment explanation
Indices: 52389241--52389511 Score: 334
Period size: 96 Copynumber: 2.8 Consensus size: 96
52389231 GTGAATTGCT
* * * * *
52389241 GATGCCATG-CTCCAAACATGGTCTTACACTAGCTCTCGTCTCATTGCAGATGCCATGTCCCAGA
1 GATGCCATGTC-CCAAACATGGTCTTACACTAGCTCTCATATCAGTACAGATGCCATGTCCCAAA
* *** *
52389305 CATGATCTTACACTGGCTCT-A-ATGTTGTGGCC
65 CATGGTCTTACACTGGCTCTCACAACATCT--CC
* *
52389337 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAGTACAGATGCCATGTCCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAGTACAGATGCCATGTCCCAAAC
*
52389402 ATGGTCTTACATTGGCTCTCACAACATCTCC
66 ATGGTCTTACACTGGCTCTCACAACATCTCC
* * *
52389433 GATGCCATGTTCCAAACATGATCTTACACTGGCTCTCATATC-GTGACAGATGCCATGTCCCAAA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAGT-ACAGATGCCATGTCCCAAA
52389497 CATGGTCTTACACTG
65 CATGGTCTTACACTG
52389512 CACACATATC
Statistics
Matches: 152, Mismatches: 19, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
95 2 0.01
96 145 0.95
97 2 0.01
98 3 0.02
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (96 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAGTACAGATGCCATGTCCCAAAC
ATGGTCTTACACTGGCTCTCACAACATCTCC
Found at i:52389501 original size:144 final size:143
Alignment explanation
Indices: 52389241--52389522 Score: 399
Period size: 144 Copynumber: 2.0 Consensus size: 143
52389231 GTGAATTGCT
* * *
52389241 GATGCCATGCTCCAAACATGGTCTTACACTAGCTCTCGTCTCATTGCAGATGCCATGTCCCAGAC
1 GATGCCATGCTCCAAACATGGTCTTACACTAGCTCTCGACACATTGCAGATGCCATGTCCCAAAC
* * * *
52389306 ATGATCTTACACTGGCTCTAATGTTGTGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCA
66 ATGATCTTACACTGGCTCTAATATCGTGACAGATGCCATGTCCCAAACATGGTCTTACACT-GCA
52389371 CACATATCAGTACA
130 CACATATCAGTACA
* * * *
52389385 GATGCCATG-TCCCAAACATGGTCTTACATTGGCTCTC-ACAACATCT-CCGATGCCATGTTCCA
1 GATGCCATGCT-CCAAACATGGTCTTACACTAGCTCTCGAC-ACAT-TGCAGATGCCATGTCCCA
*
52389447 AACATGATCTTACACTGGCTCTCATATCGTGACAGATGCCATGTCCCAAACATGGTCTTACACTG
63 AACATGATCTTACACTGGCTCTAATATCGTGACAGATGCCATGTCCCAAACATGGTCTTACACTG
52389512 CACACATATCA
128 CACACATATCA
52389523 CCCAAATGTC
Statistics
Matches: 123, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
143 14 0.11
144 108 0.88
145 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (143 bp):
GATGCCATGCTCCAAACATGGTCTTACACTAGCTCTCGACACATTGCAGATGCCATGTCCCAAAC
ATGATCTTACACTGGCTCTAATATCGTGACAGATGCCATGTCCCAAACATGGTCTTACACTGCAC
ACATATCAGTACA
Found at i:52393726 original size:22 final size:23
Alignment explanation
Indices: 52393683--52393726 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
52393673 TTCATCCTAA
*
52393683 AAATTAAATATTATTGTAAAAAC
1 AAATTAAATATTAATGTAAAAAC
52393706 AAATTAAA-ATTACATGTAAAA
1 AAATTAAATATTA-ATGTAAAA
52393727 GAGAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (23 bp):
AAATTAAATATTAATGTAAAAAC
Found at i:52400770 original size:40 final size:39
Alignment explanation
Indices: 52400605--52400788 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
52400595 AAATTGATTG
* * *
52400605 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
52400645 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
52400685 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
52400725 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
52400764 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
52400789 CTTGGTGTGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:52404973 original size:47 final size:49
Alignment explanation
Indices: 52404902--52405116 Score: 186
Period size: 47 Copynumber: 4.6 Consensus size: 49
52404892 GTAAGGTGCT
* *
52404902 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTAT-ATCTTAT-GTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTATCATCTCATAGCC
*
52404949 GGTGCCATGTCCCAGACATGGTCTTACACT-GAC-TATCATCTCATAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTTATCATCTCATAGCC
* *
52404997 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTTA-CGTCTCGA-GGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTATCATCTC-ATAGCC
* * * * * * *
52405043 AAT-ACATGTCCCAGACAT-ATTTTACAGTAGC--ACTCGTCTCGAT-GCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTA-TCATCTC-ATAGCC
*
52405089 GATGCCATGTCCCAGACATAGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
52405117 TTGACTCTCA
Statistics
Matches: 141, Mismatches: 15, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
44 1 0.01
46 61 0.43
47 68 0.48
48 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTTATCATCTCATAGCC
Found at i:52405051 original size:46 final size:46
Alignment explanation
Indices: 52404954--52405116 Score: 138
Period size: 46 Copynumber: 3.5 Consensus size: 46
52404944 ATGTCGGTGC
* * *
52404954 CATGTCCCAGACATGGTCTTACACT-GACTATCATCTC-ATAGCCGATG
1 CATGTCCCAGACATAGTCTTACACTAG-CTA-CGTCTCGA-AGCCGATA
* *
52405001 CATGTCCCAGACAT-GTCTTACACTAGCTTACGTCTCGAGGCCAATA
1 CATGTCCCAGACATAGTCTTACACTAGC-TACGTCTCGAAGCCGATA
* * * * *
52405047 CATGTCCCAGACATA-TTTTACAGTAGC-ACTCGTCTCGATGCTGATGC
1 CATGTCCCAGACATAGTCTTACACTAGCTA--CGTCTCGAAGCCGAT-A
52405094 CATGTCCCAGACATAGTCTTACA
1 CATGTCCCAGACATAGTCTTACA
52405117 TTGACTCTCA
Statistics
Matches: 97, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
44 1 0.01
46 57 0.59
47 33 0.34
48 6 0.06
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATAGTCTTACACTAGCTACGTCTCGAAGCCGATA
Found at i:52408101 original size:36 final size:36
Alignment explanation
Indices: 52408061--52408133 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
52408051 AGAGAATGTT
**
52408061 ATTCGAACCTATTCATTGATAAGATTTTCGGGGACG
1 ATTCGAACCTATTCACCGATAAGATTTTCGGGGACG
*
52408097 ATTCGAACCTATTCACCGGTAAGATTTTCGGGGACG
1 ATTCGAACCTATTCACCGATAAGATTTTCGGGGACG
52408133 A
1 A
52408134 AAATCCCTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (36 bp):
ATTCGAACCTATTCACCGATAAGATTTTCGGGGACG
Found at i:52409906 original size:40 final size:40
Alignment explanation
Indices: 52409823--52410030 Score: 186
Period size: 40 Copynumber: 5.2 Consensus size: 40
52409813 CGGGATTTAA
* * * * * *
52409823 CCGGATATAGTGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
52409863 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
52409903 CCGGATTTGGTAACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
52409943 CCGGATATA-TCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGT-AACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
52409983 CCGGATGTAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACGAA-TGCCTTCGGGTCTTAGC
52410023 CCGGATAT
1 CCGGATAT
52410031 CATTCCAATG
Statistics
Matches: 137, Mismatches: 28, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.02
40 133 0.97
41 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:52410011 original size:80 final size:80
Alignment explanation
Indices: 52409849--52410030 Score: 213
Period size: 80 Copynumber: 2.3 Consensus size: 80
52409839 GCTCGATTGT
* * * * * * **
52409849 CTTCGGGACCTAGCCCGGTTATAGT-GATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGG
1 CTTCGGGACTTAGCCCGGATATA-TCAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATGTAA
*
52409913 TAACTTGCACAAAGGC
65 TAACTAGCACAAAGGC
* *
52409929 CTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAAT
1 CTTCGGGACTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATGTAAT
* * **
52409994 TACTAGCATAATTGC
66 AACTAGCACAAAGGC
52410009 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
52410031 CATTCCAATG
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
79 1 0.01
80 84 0.99
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATGTAAT
AACTAGCACAAAGGC
Found at i:52416585 original size:40 final size:40
Alignment explanation
Indices: 52416477--52416686 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
52416467 CGGGATTTAA
* * * * *
52416477 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
52416517 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
52416557 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
52416597 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
52416637 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
52416677 CCGGATATAT
1 CCGGATATAT
52416687 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:52424717 original size:40 final size:40
Alignment explanation
Indices: 52424609--52424818 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
52424599 CGGGATTTAA
* * * * *
52424609 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
52424649 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
52424689 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
52424729 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
52424769 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
52424809 CCGGATATAT
1 CCGGATATAT
52424819 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:52428388 original size:40 final size:39
Alignment explanation
Indices: 52428223--52428390 Score: 133
Period size: 40 Copynumber: 4.2 Consensus size: 39
52428213 AATTGAATTG
* * *
52428223 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
52428263 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
52428303 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
52428343 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
52428382 GATATCCGG
1 -ATATCCGG
52428391 TTAAGTCCCG
Statistics
Matches: 100, Mismatches: 23, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 91 0.91
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:52432461 original size:34 final size:34
Alignment explanation
Indices: 52432397--52432494 Score: 126
Period size: 34 Copynumber: 2.9 Consensus size: 34
52432387 GCGAATACAT
* *
52432397 TCTGGGCCTAAGCCCATATT-AGTAATAGTAGCAG
1 TCTGGGCCTTAGCCCAT-TTCAGTAACAGTAGCAG
* * *
52432431 TCTGGGCCTTAGTCCATTTCAATAACAGTAGCGG
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
*
52432465 TCTGGGCTTTAGCCCATTTCAGTAACAGTA
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTA
52432495 ATCAGTACAG
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
33 2 0.04
34 53 0.96
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (34 bp):
TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
Found at i:52432920 original size:26 final size:28
Alignment explanation
Indices: 52432871--52432996 Score: 138
Period size: 27 Copynumber: 4.7 Consensus size: 28
52432861 GGTATTATGA
* *
52432871 TCATTTTATCCTACAG-GGGTATTTCAG
1 TCATTTTACCCTATAGAGGGTATTTCAG
* * *
52432898 TGATTTTA-CCTATAG-GGGAATTTCGG
1 TCATTTTACCCTATAGAGGGTATTTCAG
**
52432924 TCATTTTACCCTAT-GAGGGTATTTTGG
1 TCATTTTACCCTATAGAGGGTATTTCAG
*
52432951 TTATTTTACCCTAT-GAGGGTATTTCAG
1 TCATTTTACCCTATAGAGGGTATTTCAG
52432978 TCATTTTACCCTATA-AGGG
1 TCATTTTACCCTATAGAGGG
52432997 CAAAATAGCC
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
26 23 0.27
27 62 0.73
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (28 bp):
TCATTTTACCCTATAGAGGGTATTTCAG
Found at i:52432929 original size:53 final size:54
Alignment explanation
Indices: 52432871--52432990 Score: 138
Period size: 53 Copynumber: 2.2 Consensus size: 54
52432861 GGTATTATGA
* *
52432871 TCATTTTATCCTACAG-GGGTATTTCAGTGATTTTA-CCTAT-AGGGGAATTTCGG
1 TCATTTTACCCTA-AGAGGGTATTTCAGTGATTTTACCCTATGA-GGGAATTTCAG
* ** * *
52432924 TCATTTTACCCTATGAGGGTATTTTGGTTATTTTACCCTATGAGGGTATTTCAG
1 TCATTTTACCCTAAGAGGGTATTTCAGTGATTTTACCCTATGAGGGAATTTCAG
52432978 TCATTTTACCCTA
1 TCATTTTACCCTA
52432991 TAAGGGCAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
52 1 0.02
53 28 0.49
54 27 0.47
55 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (54 bp):
TCATTTTACCCTAAGAGGGTATTTCAGTGATTTTACCCTATGAGGGAATTTCAG
Found at i:52450454 original size:10 final size:10
Alignment explanation
Indices: 52450439--52450466 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
52450429 ATTAGGGGAA
52450439 AAAGTAAAAC
1 AAAGTAAAAC
52450449 AAAGTAAAAC
1 AAAGTAAAAC
52450459 AAAGTAAA
1 AAAGTAAA
52450467 CATGTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.71, C:0.07, G:0.11, T:0.11
Consensus pattern (10 bp):
AAAGTAAAAC
Found at i:52454487 original size:40 final size:39
Alignment explanation
Indices: 52454376--52454489 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 39
52454366 TTAATCACGT
* * *
52454376 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
52454416 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
*
52454456 GCACAATTGCCTTCGGGTCTTAACCCGGATATAA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAA
52454490 TTTCCAGCAT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.03
40 61 0.97
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:52462499 original size:40 final size:39
Alignment explanation
Indices: 52462388--52462538 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
52462378 TTAATCACGT
* * *
52462388 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
52462428 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
52462468 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
52462508 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
52462539 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:52462522 original size:80 final size:79
Alignment explanation
Indices: 52462388--52462538 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
52462378 TTAATCACGT
*
52462388 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
52462453 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
52462468 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
52462531 CCGGATAT
64 CCGGATAT
52462539 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:52468119 original size:40 final size:39
Alignment explanation
Indices: 52468008--52468158 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
52467998 TTAATCACGT
* * *
52468008 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
52468048 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
52468088 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
52468128 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
52468159 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:52468142 original size:80 final size:79
Alignment explanation
Indices: 52468008--52468158 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
52467998 TTAATCACGT
*
52468008 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
52468073 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
52468088 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
52468151 CCGGATAT
64 CCGGATAT
52468159 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:52476121 original size:40 final size:39
Alignment explanation
Indices: 52476010--52476160 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
52476000 TTAATCACGT
* * *
52476010 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
52476050 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
52476090 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
52476130 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
52476161 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Done.