Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 176 of 276
Found at i:57916230 original size:21 final size:21
Alignment explanation
Indices: 57916204--57916254 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
57916194 ACATTTTCAG
*
57916204 CAACTTCTTCTTCTTCAGCAA
1 CAACTTCTTCTTCTACAGCAA
* *
57916225 CAACTTCCTCTTCTACAGCAG
1 CAACTTCTTCTTCTACAGCAA
57916246 CAACTTCTT
1 CAACTTCTT
57916255 TCTCAACAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.35
Consensus pattern (21 bp):
CAACTTCTTCTTCTACAGCAA
Found at i:57916231 original size:18 final size:18
Alignment explanation
Indices: 57916199--57916237 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
57916189 CCTTCACATT
** *
57916199 TTCAGCAACTTCTTCTTC
1 TTCAGCAACAACTTCCTC
57916217 TTCAGCAACAACTTCCTC
1 TTCAGCAACAACTTCCTC
57916235 TTC
1 TTC
57916238 TACAGCAGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.05, T:0.38
Consensus pattern (18 bp):
TTCAGCAACAACTTCCTC
Found at i:57916283 original size:39 final size:42
Alignment explanation
Indices: 57916201--57916283 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 42
57916191 TTCACATTTT
* *
57916201 CAGCAACTTCTTCTTCTTCAGCAACAACTTCCTCTTCTACAG
1 CAGCAACTTCTTCTTCTTCAACAACAACTTCCTCTTATACAG
57916243 CAGCAACTTC-T-TTC-TCAACAACAA-TGTCCTCTTGAT-CAG
1 CAGCAACTTCTTCTTCTTCAACAACAACT-TCCTCTT-ATACAG
57916282 CA
1 CA
57916284 AAAATACCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
38 1 0.03
39 21 0.57
40 4 0.11
41 1 0.03
42 10 0.27
ACGTcount: A:0.27, C:0.34, G:0.08, T:0.31
Consensus pattern (42 bp):
CAGCAACTTCTTCTTCTTCAACAACAACTTCCTCTTATACAG
Found at i:57922188 original size:33 final size:33
Alignment explanation
Indices: 57922150--57922217 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
57922140 ACCTTAAATT
* *
57922150 CTCGAATGGAATATGAATTCCCTTGTACGAGAG
1 CTCGAATGAAAGATGAATTCCCTTGTACGAGAG
*
57922183 CTCGAATGAAAGATGAATTCCCTTGTACGATAG
1 CTCGAATGAAAGATGAATTCCCTTGTACGAGAG
57922216 CT
1 CT
57922218 TCTGTGTGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (33 bp):
CTCGAATGAAAGATGAATTCCCTTGTACGAGAG
Found at i:57926204 original size:12 final size:12
Alignment explanation
Indices: 57926187--57926211 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57926177 AGGCCTCTTG
57926187 AAAGTAATTCTA
1 AAAGTAATTCTA
57926199 AAAGTAATTCTA
1 AAAGTAATTCTA
57926211 A
1 A
57926212 GTTATGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (12 bp):
AAAGTAATTCTA
Found at i:57931763 original size:26 final size:26
Alignment explanation
Indices: 57931746--57931795 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
57931736 TAAAATCATT
57931746 AAAATTTTACTAGGGGTAAAATAGTC
1 AAAATTTTACTAGGGGTAAAATAGTC
* *
57931772 AAAATTTTATTGGGGGTAAAATAG
1 AAAATTTTACTAGGGGTAAAATAG
57931796 GGATAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (26 bp):
AAAATTTTACTAGGGGTAAAATAGTC
Found at i:57936742 original size:47 final size:46
Alignment explanation
Indices: 57936590--57936762 Score: 158
Period size: 47 Copynumber: 3.7 Consensus size: 46
57936580 TGTAACCCAC
* ** * *
57936590 CCATAAGTGAACTCGGGCTCAACTCAACGAGCTCCGG-GGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTTGGCAGTTCACAT
57936636 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCTGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT-TG--G-C-AGTTCACAT
* * *
57936686 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGG-CAGTTCACAT
* *
57936730 CCATAAGTGAACTCAGACTCAACTCAATGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
57936763 CGGATGCTCA
Statistics
Matches: 104, Mismatches: 13, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
43 3 0.03
44 6 0.06
45 2 0.02
46 35 0.34
47 48 0.46
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGCAGTTCACAT
Found at i:57938548 original size:46 final size:44
Alignment explanation
Indices: 57938371--57938548 Score: 155
Period size: 46 Copynumber: 3.9 Consensus size: 44
57938361 ATAGGTTATT
* * *
57938371 ATGAGCTAGTGTAAGACCATGTCTTGGACATGGCATCGTCATTGA-GACG
1 ATGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--T-ACGA-G
* * * *
57938420 A-GAGCTAGTGTAAGACATGTTTGGGACATGCATCAGCCT-CAAG
1 ATGAGCCAGTGTAAGACATGTCTGGGACATGCATC-GGCTACGAG
*
57938463 ATGTAAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCTACGAG
1 ATG--AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAG
*
57938509 ATGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 ATGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
57938549 ATCCTACCCA
Statistics
Matches: 112, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
43 2 0.02
44 15 0.13
45 16 0.14
46 50 0.45
47 14 0.12
48 14 0.12
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (44 bp):
ATGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAG
Found at i:57944055 original size:93 final size:93
Alignment explanation
Indices: 57943943--57944113 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
57943933 GCCCATAAGT
* *
57943943 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57944008 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
57944036 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57944101 CGAGTTCGGATGC
66 CGAGTTCGGATGC
57944114 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:57944110 original size:46 final size:46
Alignment explanation
Indices: 57943935--57944110 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
57943925 TGTAACCCGC
* * *
57943935 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
57943981 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
57944031 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
57944074 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
57944111 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:57948811 original size:46 final size:46
Alignment explanation
Indices: 57948713--57948880 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
57948703 ATTGCGAGCT
* * * *
57948713 AGTGTAAGACCATGTCTGGGATATGGCATCGGTATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGAGATGA-AGCC
57948761 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGAGATG-AAGCC
** *
57948807 AGTGTAAGA-CATGTCTGGTTCAT-CCATCGGCTACGAGATG-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAGATGAAGCC
57948851 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
57948881 AGCATTCTAC
Statistics
Matches: 105, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
44 13 0.12
45 14 0.13
46 55 0.52
47 14 0.13
48 9 0.09
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAAGCC
Found at i:57953952 original size:20 final size:19
Alignment explanation
Indices: 57953889--57953953 Score: 51
Period size: 20 Copynumber: 3.4 Consensus size: 19
57953879 AAACATTCTA
* * *
57953889 AAAAATAAATAAATATCAT
1 AAAATTAAAAAAATATAAT
*
57953908 AAAAGATAAAAAAA-ATAAT
1 AAAA-TTAAAAAAATATAAT
**
57953927 TTAATTAATAAAAATATAAT
1 AAAATTAA-AAAAATATAAT
57953947 AAAATTA
1 AAAATTA
57953954 TAGAAGGCTA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
18 3 0.08
19 15 0.42
20 18 0.50
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (19 bp):
AAAATTAAAAAAATATAAT
Found at i:57954316 original size:18 final size:18
Alignment explanation
Indices: 57954293--57954335 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
57954283 TTTTATAAAT
*
57954293 TATTTTTGAATCTTTATTC
1 TATTTTTGAAT-TTTAATC
*
57954312 T-TTTTAGAATTTTAATC
1 TATTTTTGAATTTTAATC
57954329 TATTTTT
1 TATTTTT
57954336 ATAGTTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 7 0.35
18 12 0.60
19 1 0.05
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.65
Consensus pattern (18 bp):
TATTTTTGAATTTTAATC
Found at i:57960153 original size:40 final size:39
Alignment explanation
Indices: 57960116--57960207 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
57960106 GCTACTCGTT
*
57960116 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
57960156 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
57960195 CAAATGCCTTCGG
1 CAAATGCCTTCGG
57960208 ATCTTAGTCT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:57960187 original size:39 final size:40
Alignment explanation
Indices: 57960097--57960260 Score: 167
Period size: 40 Copynumber: 4.1 Consensus size: 40
57960087 CGGAATTTAA
** *
57960097 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
57960137 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
57960176 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
57960216 CTGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
57960256 CCGGA
1 CCGGA
57960261 CATCATTCGA
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.31
40 56 0.54
41 12 0.12
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:57961497 original size:56 final size:56
Alignment explanation
Indices: 57961430--57961661 Score: 446
Period size: 56 Copynumber: 4.1 Consensus size: 56
57961420 TATTAGTTTA
57961430 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
57961486 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
57961542 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
57961598 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
57961654 TTGCCCAT
1 TTGCCCAT
57961662 CATCCCTTGT
Statistics
Matches: 173, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 173 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:57969911 original size:39 final size:39
Alignment explanation
Indices: 57969857--57970024 Score: 293
Period size: 39 Copynumber: 4.3 Consensus size: 39
57969847 TAATGGAGAA
57969857 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
57969896 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
*
57969935 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
* *
57969974 TTATATCCGGGCTAAGTCCTGAAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
*
57970012 TTACATCCGGGCT
1 TTATATCCGGGCT
57970025 TAAAGTCCCG
Statistics
Matches: 124, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
38 22 0.18
39 102 0.82
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
Found at i:57980218 original size:29 final size:29
Alignment explanation
Indices: 57980164--57980219 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
57980154 TTTTTATTTG
*
57980164 ATTTAAATGGTTTTAAGTTTATATTTTTT
1 ATTTAAATGGTTTTAAGTTTAGATTTTTT
* * *
57980193 ATTTAAATTGTTTTGAGTTTGGATTTT
1 ATTTAAATGGTTTTAAGTTTAGATTTT
57980220 GAATTTAGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (29 bp):
ATTTAAATGGTTTTAAGTTTAGATTTTTT
Found at i:57980225 original size:29 final size:28
Alignment explanation
Indices: 57980160--57980226 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
57980150 GGGTTTTTTA
*
57980160 TTTGATTTAAATGGTTTTAAGTTTATATT
1 TTTGATTTAAATGGTTTTAAGTTTAGA-T
* * * *
57980189 TTTTATTTAAATTGTTTTGAGTTTGGAT
1 TTTGATTTAAATGGTTTTAAGTTTAGAT
57980217 TTTGAATTTA
1 TTTG-ATTTA
57980227 GGATTGAGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
28 4 0.13
29 27 0.87
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (28 bp):
TTTGATTTAAATGGTTTTAAGTTTAGAT
Found at i:57988577 original size:27 final size:28
Alignment explanation
Indices: 57988313--57988579 Score: 443
Period size: 28 Copynumber: 9.7 Consensus size: 28
57988303 ATATTAAGTC
* * *
57988313 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
57988340 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
57988368 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
57988396 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
57988424 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
57988452 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
57988480 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
57988507 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
57988534 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCAAACT
57988561 CGCACACTTAGTGCTACAT
1 CGCACACTTAGTGCTACAT
57988580 TAAGTTCAAC
Statistics
Matches: 235, Mismatches: 4, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
27 97 0.41
28 138 0.59
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAGTCAAACT
Found at i:57990646 original size:13 final size:13
Alignment explanation
Indices: 57990628--57990657 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
57990618 TACGAGATGA
57990628 AATGGTAAGCTCC
1 AATGGTAAGCTCC
57990641 AATGGTAAGCTCC
1 AATGGTAAGCTCC
57990654 AATG
1 AATG
57990658 AGCTAACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (13 bp):
AATGGTAAGCTCC
Found at i:57992772 original size:52 final size:52
Alignment explanation
Indices: 57992710--57992811 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 52
57992700 ATGTATGCGG
* *
57992710 CATCCAAGCTCATTGAGTTGGT-TCGAGTTCATAATAGATGCGATATATGTGA
1 CATCCAAGCTCATTGAGTTGGTCT-GAGTTCAAAATAGATGCGATACATGTGA
* * *
57992762 CATCCGAGCTCGTTGAGTTGGTCTGAGTTCAAAATGGATGCGATACATGT
1 CATCCAAGCTCATTGAGTTGGTCTGAGTTCAAAATAGATGCGATACATGT
57992812 AATTGGGTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 43 0.98
53 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (52 bp):
CATCCAAGCTCATTGAGTTGGTCTGAGTTCAAAATAGATGCGATACATGTGA
Found at i:57993436 original size:319 final size:319
Alignment explanation
Indices: 57992857--57993494 Score: 1249
Period size: 319 Copynumber: 2.0 Consensus size: 319
57992847 AGTGGCTAGG
*
57992857 TAATCCTTGAATGTGTCGGATACCTAATAGCTTGTGTGAGCAGCCCATGTAGTTACACCTTGACC
1 TAATCCTTGAATGTGTCGGATACCTAACAGCTTGTGTGAGCAGCCCATGTAGTTACACCTTGACC
57992922 GATAGCTTATATGAGCAACCTCGTGAGTAGCTTCATTGCGAGCGTTACATGTTATGAGGGAGCTC
66 GATAGCTTATATGAGCAACCTCGTGAGTAGCTTCATTGCGAGCGTTACATGTTATGAGGGAGCTC
57992987 TGGCTACATATGTATATGTGGCACTTATGTGCAAGTTTTACGCATATCCAATAGTATTCTGAGTG
131 TGGCTACATATGTATATGTGGCACTTATGTGCAAGTTTTACGCATATCCAATAGTATTCTGAGTG
57993052 TTCAACGGGTAATGCAATAGATGTGATGAAAGTCCTAAGGAGGGTATGTTAAAGAGGTATGGTTA
196 TTCAACGGGTAATGCAATAGATGTGATGAAAGTCCTAAGGAGGGTATGTTAAAGAGGTATGGTTA
57993117 TATGATATACTACGATGAGTACAAGTATGTATGCTAACCCCATGAATAATGTAACACCC
261 TATGATATACTACGATGAGTACAAGTATGTATGCTAACCCCATGAATAATGTAACACCC
57993176 TAATCCTTGAATGTGTCGGATACCTAACAGCTTGTGTGAGCAGCCCATGTAGTTACACCTTGACC
1 TAATCCTTGAATGTGTCGGATACCTAACAGCTTGTGTGAGCAGCCCATGTAGTTACACCTTGACC
*
57993241 GATAGCTTATATGAGCAACCTCGTGAGTAGCTTCATTGCGAGCGTTACATGTTATGAGGTAGCTC
66 GATAGCTTATATGAGCAACCTCGTGAGTAGCTTCATTGCGAGCGTTACATGTTATGAGGGAGCTC
57993306 TGGCTACATATGTATATGTGGCACTTATGTGCAAGTTTTACGCATATCCAATAGTATTCTGAGTG
131 TGGCTACATATGTATATGTGGCACTTATGTGCAAGTTTTACGCATATCCAATAGTATTCTGAGTG
57993371 TTCAACGGGTAATGCAATAGATGTGATGAAAGTCCTAAGGAGGGTATGTTAAAGAGGTATGGTTA
196 TTCAACGGGTAATGCAATAGATGTGATGAAAGTCCTAAGGAGGGTATGTTAAAGAGGTATGGTTA
*
57993436 TATGATATACTACGATGAGTACAGGTATGTATGCTAACCCCATGAATAATGTAACACCC
261 TATGATATACTACGATGAGTACAAGTATGTATGCTAACCCCATGAATAATGTAACACCC
57993495 CTCATCCGTA
Statistics
Matches: 316, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
319 316 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (319 bp):
TAATCCTTGAATGTGTCGGATACCTAACAGCTTGTGTGAGCAGCCCATGTAGTTACACCTTGACC
GATAGCTTATATGAGCAACCTCGTGAGTAGCTTCATTGCGAGCGTTACATGTTATGAGGGAGCTC
TGGCTACATATGTATATGTGGCACTTATGTGCAAGTTTTACGCATATCCAATAGTATTCTGAGTG
TTCAACGGGTAATGCAATAGATGTGATGAAAGTCCTAAGGAGGGTATGTTAAAGAGGTATGGTTA
TATGATATACTACGATGAGTACAAGTATGTATGCTAACCCCATGAATAATGTAACACCC
Found at i:57997160 original size:27 final size:27
Alignment explanation
Indices: 57997123--57997176 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
57997113 TTGATCTGAA
*
57997123 GCTGCTTTTAAACTATCTCGAATCGTT
1 GCTGCTTTTAAACTATCTCAAATCGTT
57997150 GCTGCTTTTAAACTATCTCAAATCGTT
1 GCTGCTTTTAAACTATCTCAAATCGTT
57997177 TTTACTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (27 bp):
GCTGCTTTTAAACTATCTCAAATCGTT
Found at i:57997184 original size:27 final size:27
Alignment explanation
Indices: 57997127--57997185 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
57997117 TCTGAAGCTG
* *
57997127 CTTTTAAACTATCTCGAATCGTTGCTG
1 CTTTTAAACTATCTCAAATCGTTGCTA
**
57997154 CTTTTAAACTATCTCAAATCGTTTTTA
1 CTTTTAAACTATCTCAAATCGTTGCTA
57997181 CTTTT
1 CTTTT
57997186 TCTTCAGTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.08, T:0.47
Consensus pattern (27 bp):
CTTTTAAACTATCTCAAATCGTTGCTA
Found at i:58005154 original size:42 final size:43
Alignment explanation
Indices: 58005086--58005169 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 43
58005076 TTAGTACCGC
*
58005086 ATTTCACCCGCAAACGGATGGTCAATTAGAGGGAGTTATTCAG
1 ATTTCACCCGCAAACGGATGGTCAATTAGAGCGAGTTATTCAG
*
58005129 ATTT-ACCTGCAAACGGATGGTCAATTAGAGCGAGTTATTCA
1 ATTTCACCCGCAAACGGATGGTCAATTAGAGCGAGTTATTCA
58005170 AATACTTGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 35 0.90
43 4 0.10
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (43 bp):
ATTTCACCCGCAAACGGATGGTCAATTAGAGCGAGTTATTCAG
Found at i:58007156 original size:40 final size:40
Alignment explanation
Indices: 58007062--58007156 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
58007052 CAACAAATCT
*
58007062 ACTATATTTGGCACTTAGTGTGCGGTTGGAGATAGCTTCG
1 ACTATATATGGCACTTAGTGTGCGGTTGGAGATAGCTTCG
* ** *
58007102 GCTATATACAGCACTTAGTGTGTGAGTTGGA-ATAGCTTCG
1 ACTATATATGGCACTTAGTGTGCG-GTTGGAGATAGCTTCG
* *
58007142 ACTTTATGTGGCACT
1 ACTATATATGGCACT
58007157 AAATATGCGA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
40 38 0.86
41 6 0.14
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (40 bp):
ACTATATATGGCACTTAGTGTGCGGTTGGAGATAGCTTCG
Found at i:58019616 original size:139 final size:139
Alignment explanation
Indices: 58019462--58019739 Score: 556
Period size: 139 Copynumber: 2.0 Consensus size: 139
58019452 AGTTCCCCGG
58019462 AAACGGCGCAAAAAAACTTGATCGCGTGATTTCGTGATAGGTTTTAAATATTTATAATTACTCGC
1 AAACGGCGCAAAAAAACTTGATCGCGTGATTTCGTGATAGGTTTTAAATATTTATAATTACTCGC
58019527 TCTTGAAGTAACTATTATCGCAATGTAGGCAAGTGTACCTATCGAACAGTAGTATAGTTTTAGCA
66 TCTTGAAGTAACTATTATCGCAATGTAGGCAAGTGTACCTATCGAACAGTAGTATAGTTTTAGCA
58019592 GGACCGGAT
131 GGACCGGAT
58019601 AAACGGCGCAAAAAAACTTGATCGCGTGATTTCGTGATAGGTTTTAAATATTTATAATTACTCGC
1 AAACGGCGCAAAAAAACTTGATCGCGTGATTTCGTGATAGGTTTTAAATATTTATAATTACTCGC
58019666 TCTTGAAGTAACTATTATCGCAATGTAGGCAAGTGTACCTATCGAACAGTAGTATAGTTTTAGCA
66 TCTTGAAGTAACTATTATCGCAATGTAGGCAAGTGTACCTATCGAACAGTAGTATAGTTTTAGCA
58019731 GGACCGGAT
131 GGACCGGAT
58019740 TGTCGAACCC
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 139 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (139 bp):
AAACGGCGCAAAAAAACTTGATCGCGTGATTTCGTGATAGGTTTTAAATATTTATAATTACTCGC
TCTTGAAGTAACTATTATCGCAATGTAGGCAAGTGTACCTATCGAACAGTAGTATAGTTTTAGCA
GGACCGGAT
Found at i:58043369 original size:50 final size:49
Alignment explanation
Indices: 58043243--58043441 Score: 211
Period size: 50 Copynumber: 4.0 Consensus size: 49
58043233 TATGTAGCTA
* * * *
58043243 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATATCC-GATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CCAGAT-AGTT
* * * *
58043293 CGATCACATGTGTAGTACTCAGTGCAGGCTACTACGTGTATCAGATAGTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAGTT
* * * *
58043343 AGGTCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAGTT
** * *
58043393 GGTCGTATGTGTAGTACTAAGTACAGGCTACTATGCGTACCAGATAGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAGTT
58043442 TGGCTACATA
Statistics
Matches: 124, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 41 0.33
50 47 0.38
51 36 0.29
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAGTT
Found at i:58043438 original size:99 final size:101
Alignment explanation
Indices: 58043254--58043441 Score: 247
Period size: 99 Copynumber: 1.9 Consensus size: 101
58043244 GTCGCATGTG
* * *
58043254 TAGTACTAAGTGCAGGCTACTATGCATATCCGATAACTTCGATCACATGTGTAGTACTCAGTGCA
1 TAGTACTAAGTGCAGGCTACTACGCATATCCGATAACTTCGATCACATGTGTAGTACTAAGTACA
* *
58043319 GGCTACTACGTGTATCAGATAGTTAGGTCACGTGTA
66 GGCTACTACGCGTACCAGATAGTTAGGTCACGTGTA
** * **
58043355 TAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-TT-GGTCGTATGTGTAGTACTAAGTAC
1 TAGTACTAAGTGCAGGCTACTACGCATATCC-GATAACTTCGATCACATGTGTAGTACTAAGTAC
*
58043417 AGGCTACTATGCGTACCAGATAGTT
65 AGGCTACTACGCGTACCAGATAGTT
58043442 TGGCTACATA
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
99 41 0.55
100 4 0.05
101 30 0.40
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (101 bp):
TAGTACTAAGTGCAGGCTACTACGCATATCCGATAACTTCGATCACATGTGTAGTACTAAGTACA
GGCTACTACGCGTACCAGATAGTTAGGTCACGTGTA
Found at i:58064810 original size:31 final size:31
Alignment explanation
Indices: 58064772--58064834 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
58064762 AACTAAGAAC
*
58064772 GCACAGAGAATGGAATTGGGGAATTGCTTTT
1 GCACAGAGAATGGAATTAGGGAATTGCTTTT
58064803 GCACAGAGAATGGAATTAGGGAATTGCTTTT
1 GCACAGAGAATGGAATTAGGGAATTGCTTTT
58064834 G
1 G
58064835 GAAAAAATGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.30, C:0.10, G:0.32, T:0.29
Consensus pattern (31 bp):
GCACAGAGAATGGAATTAGGGAATTGCTTTT
Found at i:58071812 original size:28 final size:27
Alignment explanation
Indices: 58071746--58071856 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
58071736 GGAGGAAGCG
* *
58071746 TTCTGGTGGCTCTGCCAGAAATACCTG-
1 TTCTGGTGGCTCTGCCA-CAATATCTGT
* *
58071773 ATCTGGTGGCTCTACCACAAATATCTGT
1 TTCTGGTGGCTCTGCCAC-AATATCTGT
58071801 TTCTGGTGGCTCTGCCACAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTGT
* *
58071828 ATT-TGGTGACTCTGTCACAATATCTGT
1 -TTCTGGTGGCTCTGCCACAATATCTGT
58071855 TT
1 TT
58071857 TGGCAGCCAT
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 2 0.03
27 53 0.73
28 18 0.25
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACAATATCTGT
Found at i:58071835 original size:55 final size:54
Alignment explanation
Indices: 58071746--58071856 Score: 143
Period size: 55 Copynumber: 2.0 Consensus size: 54
58071736 GGAGGAAGCG
*
58071746 TTCTGGTGGCTCTGCCAGAAATACCTGATCTGGTGGCTCTACCACAAATATCTGT
1 TTCTGGTGGCTCTGCCAGAAATACCTGATCTGGTGACTCTACCAC-AATATCTGT
* * * **
58071801 TTCTGGTGGCTCTGCCA-CAATATCTGTATTTGGTGACTCTGTCACAATATCTGT
1 TTCTGGTGGCTCTGCCAGAAATACCTG-ATCTGGTGACTCTACCACAATATCTGT
58071855 TT
1 TT
58071857 TGGCAGCCAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
54 18 0.37
55 31 0.63
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (54 bp):
TTCTGGTGGCTCTGCCAGAAATACCTGATCTGGTGACTCTACCACAATATCTGT
Found at i:58079636 original size:55 final size:54
Alignment explanation
Indices: 58079550--58079656 Score: 144
Period size: 55 Copynumber: 2.0 Consensus size: 54
58079540 GGAGGAAGCG
*
58079550 TTCTGGTGGCTCTGCCAAAAATATCTAATCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCAAAAATATCTAATCTGGTGACTCTGCCAC-AATATCTGT
* * * *
58079605 TTCTGGTGGCTCTGCC-ACAATATCTGTATCTGGTGACTTTGTCACAATATCT
1 TTCTGGTGGCTCTGCCAAAAATATCT-AATCTGGTGACTCTGCCACAATATCT
58079657 ATTCTGGCAG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 15 0.33
55 31 0.67
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (54 bp):
TTCTGGTGGCTCTGCCAAAAATATCTAATCTGGTGACTCTGCCACAATATCTGT
Found at i:58079650 original size:27 final size:27
Alignment explanation
Indices: 58079551--58079656 Score: 133
Period size: 27 Copynumber: 3.9 Consensus size: 27
58079541 GAGGAAGCGT
* *
58079551 TCTGGTGGCTCTGCCAAAAATATCT-AA
1 TCTGGTGGCTCTGCC-ACAATATCTGTA
*
58079578 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
58079606 TCTGGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* * *
58079633 TCTGGTGACTTTGTCACAATATCT
1 TCTGGTGGCTCTGCCACAATATCT
58079657 ATTCTGGCAG
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 1 0.01
27 52 0.74
28 17 0.24
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:58093945 original size:50 final size:49
Alignment explanation
Indices: 58093824--58094008 Score: 208
Period size: 50 Copynumber: 3.7 Consensus size: 49
58093814 TGAGGTCGCA
* ** ** *
58093824 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAA-TT-GGTCACG
* **
58093875 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATT-GGTCACG
* * *
58093925 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCACG
* * *
58093974 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
58094009 GATAGCTTTG
Statistics
Matches: 115, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
49 37 0.32
50 46 0.40
51 32 0.28
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCACG
Found at i:58104629 original size:23 final size:23
Alignment explanation
Indices: 58104590--58104651 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 23
58104580 CTTATATTAA
* *
58104590 TAATTAATTAACCTTAATTAACT
1 TAATTAATTAACATTAAATAACT
58104613 TAATTAATT-ACAATTAAATAACTT
1 TAATTAATTAAC-ATTAAATAAC-T
58104637 TAATCATAATTAACA
1 TAAT--TAATTAACA
58104652 AAATTGGTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 2 0.06
23 17 0.53
24 5 0.16
26 6 0.19
27 2 0.06
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.40
Consensus pattern (23 bp):
TAATTAATTAACATTAAATAACT
Found at i:58109720 original size:25 final size:25
Alignment explanation
Indices: 58109681--58109737 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
58109671 GTAAGGAGGG
58109681 GATAA-GGGAGAAGATTTAGGAGCT
1 GATAAGGGGAGAAGATTTAGGAGCT
*
58109705 GATAAGGGGAGAAGATTTAGGAGTT
1 GATAAGGGGAGAAGATTTAGGAGCT
58109730 GATCAAGG
1 GAT-AAGG
58109738 AGCAAGAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 5 0.17
25 21 0.70
26 4 0.13
ACGTcount: A:0.37, C:0.04, G:0.39, T:0.21
Consensus pattern (25 bp):
GATAAGGGGAGAAGATTTAGGAGCT
Found at i:58111175 original size:27 final size:27
Alignment explanation
Indices: 58111135--58111245 Score: 143
Period size: 27 Copynumber: 4.1 Consensus size: 27
58111125 AGGAAGCGTC
* *
58111135 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
58111162 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* * *
58111189 TTGGTGGCTTTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* *
58111216 CTGGTGACTCTGTCACA-TTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
58111242 CTGG
1 CTGG
58111246 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 13 0.18
27 60 0.82
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.40
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGTT
Found at i:58111219 original size:54 final size:53
Alignment explanation
Indices: 58111136--58111241 Score: 158
Period size: 54 Copynumber: 2.0 Consensus size: 53
58111126 GGAAGCGTCC
* *
58111136 TGGTGGCTATGCCACATTTATCTGATCTGGTGGCTCTGCCACATATATCTGTTT
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTTT
* * *
58111190 TGGTGGCTTTGCCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTGTT
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
58111242 CTGGCAGCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 8 0.17
54 39 0.83
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.41
Consensus pattern (53 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTTT
Found at i:58114238 original size:68 final size:63
Alignment explanation
Indices: 58114121--58114373 Score: 201
Period size: 68 Copynumber: 3.9 Consensus size: 63
58114111 ATACTGATGG
* ** * * *
58114121 TATGCAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGTGTACAAGAGAGCTACAAGACA
1 TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTGTACAAGAGAGCTAC-AG--A
58114185 TTA
62 -TA
*
58114188 TGATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGCTACGGGAT
1 T-ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGT-GTACAAGAGAGCTAC-AGAT
58114252 A
63 A
* * * * * *
58114253 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAG-ACAAGAGAGCTACTAG
1 TATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGT-GTACAAGAGAGCTAC-AG
58114317 ATA
61 ATA
* * *
58114320 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGAGC
1 TA-TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTGTACAAGAGAGC
58114374 GCGAACTATA
Statistics
Matches: 153, Mismatches: 25, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 25 0.16
65 3 0.02
66 22 0.14
67 32 0.21
68 50 0.33
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (63 bp):
TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTGTACAAGAGAGCTACAGATA
Found at i:58114277 original size:64 final size:64
Alignment explanation
Indices: 58114190--58114373 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
58114180 AGACATTATG
* *
58114190 ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
58114254 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACTAGAT
1 ATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
58114319 AA
63 AA
* *
58114321 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
58114374 GCGAACTATA
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 21 0.21
67 30 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:58121002 original size:27 final size:26
Alignment explanation
Indices: 58120967--58121078 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
58120957 TGCATGGCTG
* *
58120967 CCAGAACAGATAATATGACAGAGTCA
1 CCAGAACAGATAATATGGCAGAGCCA
* *
58120993 CCAGATACAGATAATCATGGTAGAACCA
1 CCAGA-ACAGATAAT-ATGGCAGAGCCA
*
58121021 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATATGGCAGAGCCA
* * *
58121048 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TATGGCAGAGCCA
58121075 CCAG
1 CCAG
58121079 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.71
28 15 0.21
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATATGGCAGAGCCA
Found at i:58122513 original size:24 final size:24
Alignment explanation
Indices: 58122486--58122532 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
58122476 CTAGATTTCC
**
58122486 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
58122510 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
58122533 CTCCTTACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:58127069 original size:24 final size:24
Alignment explanation
Indices: 58127042--58127088 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
58127032 CTAGATTTCC
**
58127042 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
58127066 TCCCTTATCAACTCCTTAATCCT
1 TCCCTTATCAACTCCTAAATCCT
58127089 CTCCTTACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.21, C:0.38, G:0.02, T:0.38
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:58131082 original size:40 final size:40
Alignment explanation
Indices: 58130993--58131256 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
58130983 TTGAATGATG
* *
58130993 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
58131032 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
58131072 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58131111 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58131151 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
58131191 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
58131232 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
58131257 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:58131274 original size:120 final size:118
Alignment explanation
Indices: 58130993--58131289 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
58130983 TTGAATGATG
* *
58130993 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
58131053 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
58131111 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
58131176 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
58131232 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
58131290 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:58143633 original size:30 final size:30
Alignment explanation
Indices: 58143597--58143658 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
58143587 AATCGAAAGT
*
58143597 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCAATTTAAACTAGC
58143627 TTTGGCACTAAGTGTGCAATTTAAACTAGC
1 TTTGGCACTAAGTGTGCAATTTAAACTAGC
58143657 TT
1 TT
58143659 CGGCTACTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.35
Consensus pattern (30 bp):
TTTGGCACTAAGTGTGCAATTTAAACTAGC
Found at i:58147938 original size:42 final size:42
Alignment explanation
Indices: 58147879--58148040 Score: 166
Period size: 42 Copynumber: 3.8 Consensus size: 42
58147869 GGGATTACAA
* * *
58147879 AGACTATGTACAAGACCATATCTGGGATATGGCATCTATATG
1 AGACTACGTATAAGACCATATCTGGGATATGGCATCGATATG
*
58147921 AGACTACGTATAAGACCATATCTGGGATATGGCATCGAGATG
1 AGACTACGTATAAGACCATATCTGGGATATGGCATCGATATG
* * * * * *
58147963 AAACTTCGTGTAAGACCATAGT-TGGGCTATTGGCATGGATACG
1 AGACTACGTATAAGACCATA-TCTGGGATA-TGGCATCGATATG
* * *
58148006 AGA-TCCCTTGTAAGACCATATCTGGGATATGGCAT
1 AGACT-ACGTATAAGACCATATCTGGGATATGGCAT
58148041 TGGTATGGTA
Statistics
Matches: 101, Mismatches: 15, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
42 69 0.68
43 32 0.32
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (42 bp):
AGACTACGTATAAGACCATATCTGGGATATGGCATCGATATG
Found at i:58150226 original size:48 final size:48
Alignment explanation
Indices: 58150155--58150533 Score: 256
Period size: 48 Copynumber: 7.9 Consensus size: 48
58150145 ATTTGGGTGA
* *
58150155 TATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGTATCGGCCACAT
1 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT
* * * *
58150203 TATGTGTGCTAGGGTAAGACCATGTTTGGGACATGGCGTCGGCCACGA-
1 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-AT
* * * * * * *
58150251 TATGAGAGCCAGTTTAAGACAATGTATAGGACATGGCATCGG-CA-TT
1 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT
* * *
58150297 GATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCACAT
1 --TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT
* * * *** * * *
58150347 TACGAGAGCCAAAATAAGATCATGTCTGGGACATCGTATCGG---CAT
1 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT
* * *
58150392 TGAGACGAGAGCTAGTGTAGGACCATGTCTGGGACATGGCATCGG---CAT
1 T---ATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT
* * * **
58150440 TGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGA-
1 T---ATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCC-ACAT
* * * * *
58150491 CATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGGATCGGC
1 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
58150534 AATTCACCCT
Statistics
Matches: 262, Mismatches: 56, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
45 4 0.02
47 2 0.01
48 251 0.96
49 3 0.01
50 1 0.00
52 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (48 bp):
TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT
Found at i:58150427 original size:144 final size:144
Alignment explanation
Indices: 58150152--58150482 Score: 394
Period size: 144 Copynumber: 2.3 Consensus size: 144
58150142 GACATTTGGG
* * * * * ***
58150152 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGTATCGGCCACATTATGTGTGCTAGGG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTACGAGAGCCAAAA
* * * * * *
58150217 TAAGACCATGTTTGGGACATGGCGTCGGCCACGATATGAGAGCCAGTTTAAGACAATGTATAGGA
66 TAAGACCATGTCTGGGACATCGCATCGGCCACGAGACGAGAGCCAGTGTAAGACAATGTATAGGA
58150282 CATGGCATCGGCAT
131 CATGGCATCGGCAT
* *
58150296 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCACATTACGAGAGCCAAAA
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTACGAGAGCCAAAA
* * * * * * * *
58150361 TAAGATCATGTCTGGGACATCGTATCGG-CATTGAGACGAGAGCTAGTGTAGGACCATGTCTGGG
66 TAAGACCATGTCTGGGACATCGCATCGGCCA-CGAGACGAGAGCCAGTGTAAGACAATGTATAGG
58150425 ACATGGCATCGGCAT
130 ACATGGCATCGGCAT
* * * *
58150440 TGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATC
58150483 AGCCTTGACA
Statistics
Matches: 156, Mismatches: 30, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
143 2 0.01
144 154 0.99
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (144 bp):
TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTACGAGAGCCAAAA
TAAGACCATGTCTGGGACATCGCATCGGCCACGAGACGAGAGCCAGTGTAAGACAATGTATAGGA
CATGGCATCGGCAT
Found at i:58150509 original size:144 final size:140
Alignment explanation
Indices: 58150162--58150534 Score: 368
Period size: 144 Copynumber: 2.6 Consensus size: 140
58150152 TGATATGTGC
* * * *
58150162 GCTAGTGTAAGACCATGTCTGGGACATGGTATCGGCCACATTATGTGTGCTAGGGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC---ATGTGAGCCAGAGTAAGACCATG
* * * *
58150227 TTTGGGACATGGCGTCGGCCACGATATGAGAGCCAGTTTAAGACAATGTATAGGACATGGCATCG
63 TTTGGGACATGGCATCGG-CACGAGACGAGAGCCAGTGTAAGACAATGTATAGGACATGGCATCG
* * * *
58150292 GCATTGATATGTGC
127 GCATTGAGACGAGA
* * * * * *
58150306 GCTAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCACATTACGAGAGCCAAAATAAGATCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACA-T--GTGAGCCAGAGTAAGACCATG
* * * * * * * * *
58150371 TCTGGGACATCGTATCGGCATTGAGACGAGAGCTAGTGTAGGACCATGTCTGGGACATGGCATCG
63 TTTGGGACATGGCATCGGCA-CGAGACGAGAGCCAGTGTAAGACAATGTATAGGACATGGCATCG
58150436 GCATTGAGACGAGA
127 GCATTGAGACGAGA
* *
58150450 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGACATGTGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCC---ACATGTGAGCCAGAGTAAGACCATG
* *
58150515 TTTGGAACATGGGATCGGCA
63 TTTGGGACATGGCATCGGCA
58150535 ATTCACCCTC
Statistics
Matches: 183, Mismatches: 39, Indels: 14
0.78 0.17 0.06
Matches are distributed among these distances:
141 1 0.01
142 1 0.01
143 2 0.01
144 175 0.96
146 1 0.01
147 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (140 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATGTGAGCCAGAGTAAGACCATGTTT
GGGACATGGCATCGGCACGAGACGAGAGCCAGTGTAAGACAATGTATAGGACATGGCATCGGCAT
TGAGACGAGA
Found at i:58150534 original size:96 final size:96
Alignment explanation
Indices: 58150165--58150526 Score: 349
Period size: 96 Copynumber: 3.8 Consensus size: 96
58150155 TATGTGCGCT
* * * *
58150165 AGTGTAAGACCATGTCTGGGACATGGTATCGGCCA--CATTATGTGTGCTAGGGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGA-TATGTGAGCTAGTGTAAGACCATGT
* * *
58150228 TTGGGACATGGCGTCGGCCA-CGATATGAGAGCC
64 CTGGGACATGGCGTCGGCCATTGA-ACGAGAGCC
* * * * *
58150261 AGTTTAAGACAATGTATAGGACATGGCATCGGCATTGATATGTGCGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGAGCTAGTGTAAGACCATGTCT
*
58150326 GGGACATGGCGTTGGCCACATT--ACGAGAGCC
66 GGGACATGGCGTCGG-C-CATTGAACGAGAGCC
*** * * * * * * *
58150357 AAAATAAGATCATGTCTGGGACATCGTATCGGCATTGAGACGAGAGCTAGTGTAGGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGAGCTAGTGTAAGACCATGTCT
* *
58150422 GGGACATGGCATCGG-CATTGAGACGAGAGCT
66 GGGACATGGCGTCGGCCATTGA-ACGAGAGCC
* * * * *
58150453 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGACATGTGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGAGCTAGTGTAAGACCATGTCT
*
58150518 GGAACATGG
66 GGGACATGG
58150527 GATCGGCAAT
Statistics
Matches: 214, Mismatches: 44, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
93 4 0.02
95 2 0.01
96 204 0.95
97 2 0.01
98 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGAGCTAGTGTAAGACCATGTCT
GGGACATGGCGTCGGCCATTGAACGAGAGCC
Found at i:58154183 original size:33 final size:33
Alignment explanation
Indices: 58154141--58154205 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
58154131 GTTTTCTAAT
* *
58154141 ATAGACTTGAGATCTGGTTATTACAAGCTAAGG
1 ATAGACTTGAGATCCGATTATTACAAGCTAAGG
*
58154174 ATAGACTTGAGATCCGATTATTACCAGCTAAG
1 ATAGACTTGAGATCCGATTATTACAAGCTAAG
58154206 AGTTAAGGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (33 bp):
ATAGACTTGAGATCCGATTATTACAAGCTAAGG
Found at i:58162663 original size:13 final size:13
Alignment explanation
Indices: 58162630--58162764 Score: 135
Period size: 13 Copynumber: 10.6 Consensus size: 13
58162620 TTTGTAGGCA
58162630 AGTGGAGTGG-TT
1 AGTGGAGTGGTTT
58162642 -G-GG-GTGGTTT
1 AGTGGAGTGGTTT
58162652 AGTGGAGTGGTTT
1 AGTGGAGTGGTTT
58162665 AGTAGG-GTGG-TT
1 AGT-GGAGTGGTTT
58162677 -G-GG-GTGGTTT
1 AGTGGAGTGGTTT
58162687 AGTGGAGTGGTTT
1 AGTGGAGTGGTTT
*
58162700 AGTGTAGTGGTTT
1 AGTGGAGTGGTTT
58162713 AGTGGAGTGGTTAGAGT
1 AGTGGAGTGGTT----T
*
58162730 GGTTGGAGTGGTTT
1 AG-TGGAGTGGTTT
58162744 AGTGGAGTGGTTT
1 AGTGGAGTGGTTT
58162757 AGTGGAGT
1 AGTGGAGT
58162765 AAAGATATTT
Statistics
Matches: 105, Mismatches: 4, Indels: 27
0.77 0.03 0.20
Matches are distributed among these distances:
9 10 0.10
10 6 0.06
11 4 0.04
12 6 0.06
13 63 0.60
14 4 0.04
17 2 0.02
18 10 0.10
ACGTcount: A:0.14, C:0.00, G:0.49, T:0.37
Consensus pattern (13 bp):
AGTGGAGTGGTTT
Found at i:58162682 original size:35 final size:35
Alignment explanation
Indices: 58162636--58162702 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
58162626 GGCAAGTGGA
58162636 GTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGTAGG
1 GTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGTAGG
58162671 GTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGT
1 GTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGT
58162703 GTAGTGGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.10, C:0.00, G:0.51, T:0.39
Consensus pattern (35 bp):
GTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGTAGG
Found at i:58162710 original size:35 final size:34
Alignment explanation
Indices: 58162634--58162711 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 34
58162624 TAGGCAAGTG
58162634 GAGTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGT
1 GAGTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGT
*
58162668 AGGGTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGT
1 -GAGTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGT
58162703 GTAGTGGTT
1 G-AGTGGTT
58162712 TAGTGGAGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
34 1 0.03
35 39 0.98
ACGTcount: A:0.12, C:0.00, G:0.50, T:0.38
Consensus pattern (34 bp):
GAGTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGT
Found at i:58162733 original size:57 final size:60
Alignment explanation
Indices: 58162645--58162760 Score: 193
Period size: 57 Copynumber: 2.0 Consensus size: 60
58162635 AGTGGTTGGG
*
58162645 GTGGTTTAGTGGAGTGGTTTAGTAGGGTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGTGTA
1 GTGGTTTAGTGGAGTGGTTTAGTA-GGTGGTTGGAGTGGTTTAGTGGAGTGGTTTAGTGTA
58162706 GTGGTTTAGTGGAGTGG-TTAG-A-GTGGTTGGAGTGGTTTAGTGGAGTGGTTTAGTG
1 GTGGTTTAGTGGAGTGGTTTAGTAGGTGGTTGGAGTGGTTTAGTGGAGTGGTTTAGTG
58162761 GAGTAAAGAT
Statistics
Matches: 54, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
57 32 0.59
59 1 0.02
60 4 0.07
61 17 0.31
ACGTcount: A:0.14, C:0.00, G:0.47, T:0.39
Consensus pattern (60 bp):
GTGGTTTAGTGGAGTGGTTTAGTAGGTGGTTGGAGTGGTTTAGTGGAGTGGTTTAGTGTA
Found at i:58163314 original size:132 final size:132
Alignment explanation
Indices: 58163084--58163530 Score: 777
Period size: 132 Copynumber: 3.4 Consensus size: 132
58163074 CTTCAACTTG
* ***
58163084 TTCCCTATAAACACAGGGATGCCAAATCTGCTACCTTCAACTTGTTCCCTATAAGCACAGGGATG
1 TTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATG
* * *
58163149 CCATGCTGAAATCTTCGATCTGCTTCACCGTAAGCACAGGAATGTTAGATCTGCTATCTTCGATA
66 CCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATC
*
58163214 TG
131 TA
58163216 TTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATG
1 TTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATG
58163281 CCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATC
66 CCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATC
58163346 TA
131 TA
* * *
58163348 TTCCCTTTAAGCACAGGGATGCCAAATATGCTGTTTTCAACTTGTTCCCTATAGGCACAGGGATG
1 TTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATG
*
58163413 CCATGTTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATC
66 CCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATC
58163478 TA
131 TA
*
58163480 TTCCCTATAAGCACGGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTA
1 TTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTA
58163531 CAGAGTCTAC
Statistics
Matches: 300, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 300 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (132 bp):
TTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATG
CCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATC
TA
Found at i:58163530 original size:44 final size:44
Alignment explanation
Indices: 58163022--58163511 Score: 408
Period size: 44 Copynumber: 11.2 Consensus size: 44
58163012 TGAGTTCTTG
* * *
58163022 ATCTGCT-TCTTCGATCTGTTCCCCATAAACCCAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * * *
58163065 ATCTACTGTCTTC-AACTTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
* *
58163109 ATCTGCTACCTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * ** *
58163151 ATGCTGAAATCTTCGATCTGCTTCACC-GTAAGCACAGGAATGTTAG
1 AT-CTGCTATCTTCGATCTG-TTC-CCTATAAGCACAGGGATGCCAA
*
58163197 ATCTGCTATCTTCGATATGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * *
58163241 ATCTGCTGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * * *
58163283 ATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
* *
58163329 ATCTGCTATCTTCGATCTATTCCCTTTAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * * * * *
58163373 ATATGCTGTTTTC-AACTTGTTCCCTATAGGCACAGGGATGCCAT
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
* ** * * * * *
58163417 GT-TGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAG
1 ATCTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
* *
58163461 ATCTGCTATCTTCGATCTATTCCCTATAAGCACGGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
58163505 ATCTGCT
1 ATCTGCT
58163512 GTTTTCAACT
Statistics
Matches: 353, Mismatches: 75, Indels: 37
0.76 0.16 0.08
Matches are distributed among these distances:
42 4 0.01
43 40 0.11
44 262 0.74
45 43 0.12
46 4 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
Found at i:58163747 original size:186 final size:186
Alignment explanation
Indices: 58163433--58163803 Score: 724
Period size: 186 Copynumber: 2.0 Consensus size: 186
58163423 ATCTTCGATC
58163433 TGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTATTCCCTATAAGCACGGGG
1 TGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTATTCCCTATAAGCACGGGG
58163498 ATGCCAAATCTGCTGTTTTCAACTTGTTCCCTACAGAGTCTACCTTAAAGGCAGATGCTGACAGC
66 ATGCCAAATCTGCTGTTTTCAACTTGTTCCCTACAGAGTCTACCTTAAAGGCAGATGCTGACAGC
*
58163563 AGCAGTGATGTAGATTTGGAAAATCACTAAAACTAGTAGGAAGGGAATTAAATAGT
131 AGCAGTGATGTAGATTTGGAAAATCACTAAAAATAGTAGGAAGGGAATTAAATAGT
58163619 TGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTATTCCCTATAAGCACGGGG
1 TGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTATTCCCTATAAGCACGGGG
58163684 ATGCCAAATCTGCTGTTTTCAACTTGTTCCCTACAGAGTCTACCTTAAAGGCAGATGCTGACAGC
66 ATGCCAAATCTGCTGTTTTCAACTTGTTCCCTACAGAGTCTACCTTAAAGGCAGATGCTGACAGC
*
58163749 AGCAGTGATGTAGATTTGGAAAATCACTAAAAATAGTAGGAAGGTAATTAAATAG
131 AGCAGTGATGTAGATTTGGAAAATCACTAAAAATAGTAGGAAGGGAATTAAATAG
58163804 ATGAAATTGC
Statistics
Matches: 183, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
186 183 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (186 bp):
TGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTATTCCCTATAAGCACGGGG
ATGCCAAATCTGCTGTTTTCAACTTGTTCCCTACAGAGTCTACCTTAAAGGCAGATGCTGACAGC
AGCAGTGATGTAGATTTGGAAAATCACTAAAAATAGTAGGAAGGGAATTAAATAGT
Found at i:58164048 original size:132 final size:132
Alignment explanation
Indices: 58163807--58164573 Score: 1392
Period size: 132 Copynumber: 5.8 Consensus size: 132
58163797 TAAATAGATG
*
58163807 AAAT-TGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATATTCGATCTGC
1 AAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATATTCGATCTAC
*
58163871 TTCACTGTAAGCACAGGAATGTCAGATCTGCAATCTTTGATCTGTTCCCTATAAGCACTGGGATG
66 TTCACTGTAAGCACAGGAATGTCAGATCTGCAATCTTCGATCTGTTCCCTATAAGCACTGGGATG
58163936 CC
131 CC
58163938 AAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATATTCGATCTAC
1 AAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATATTCGATCTAC
* *
58164003 TTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATG
66 TTCACTGTAAGCACAGGAATGTCAGATCTGCAATCTTCGATCTGTTCCCTATAAGCACTGGGATG
58164068 CC
131 CC
58164070 AAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATATTCGATCTAC
1 AAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATATTCGATCTAC
* *
58164135 TTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATG
66 TTCACTGTAAGCACAGGAATGTCAGATCTGCAATCTTCGATCTGTTCCCTATAAGCACTGGGATG
58164200 CC
131 CC
58164202 AAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATATTCGATCTAC
1 AAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATATTCGATCTAC
*
58164267 TTCACTGTAAGCACAGGAATGTCAGATCTGCAATCTTTGATCTGTTCCCTATAAGCACTGGGATG
66 TTCACTGTAAGCACAGGAATGTCAGATCTGCAATCTTCGATCTGTTCCCTATAAGCACTGGGATG
58164332 CC
131 CC
* * *
58164334 AAATCTGCTGTTTTCAACTAGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGC
1 AAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATATTCGATCTAC
*
58164399 TTCACTGTAAGCACAGGAATGTCAGATCTGCAATCTTTGATCTGTTCCCTATAAGCACTGGGATG
66 TTCACTGTAAGCACAGGAATGTCAGATCTGCAATCTTCGATCTGTTCCCTATAAGCACTGGGATG
58164464 CC
131 CC
* * *
58164466 AAATCTGCTGTTTTCAACTAGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGC
1 AAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATATTCGATCTAC
*
58164531 TTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCT
66 TTCACTGTAAGCACAGGAATGTCAGATCTGCAATCTTCGATCT
58164574 ATAGGAATGC
Statistics
Matches: 623, Mismatches: 12, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
131 4 0.01
132 619 0.99
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
AAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATATTCGATCTAC
TTCACTGTAAGCACAGGAATGTCAGATCTGCAATCTTCGATCTGTTCCCTATAAGCACTGGGATG
CC
Found at i:58164543 original size:396 final size:395
Alignment explanation
Indices: 58163082--58164573 Score: 1605
Period size: 396 Copynumber: 3.7 Consensus size: 395
58163072 GTCTTCAACT
* * *** *
58163082 TGTTCCCTATAAACACAGGGATGCCAAATCTGCTACCTTCAACTTGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACTGGGATGCCAAATCTGCTGTTTTCAACTAGTTCCCTATAAGCACAGGGA
* * * * *
58163147 TGCCATGCTGAAATCTTCGATCTGCTTCACCGTAAGCACAGGAATGTTAGATCTGCTATCTTCGA
66 TGCCATGCTGAAATATTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCAATCTTCGA
* *
58163212 TATGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGG
131 TCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTAGTTCCCTATAAGCACAGG
* *
58163277 GATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTC
196 GATGCCATGCTGAAATATTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTC
* * *
58163342 GATCTATTCCCTTTAAGCACAGGGATGCCAAATATGCTGTTTTCAACTTGTTCCCTATAGGCACA
261 GATCTGTTCCCTATAAGCACAGGGATGCCAAAT-TGCTGTTTTCAACTTGTTCCCTATAAGCACA
* * * *
58163407 GGGATGCCATGTTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCT
325 GGGATGCCATGCTGAAATATTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCAATCT
*
58163472 TCGATC
390 TTGATC
* * * *
58163478 TATTCCCTATAAGCACGGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTACAGAGTCTACCT
1 TGTTCCCTATAAGCACTGGGATGCCAAATCTGCTGTTTTCAACTAGTTCCCTATA-AG-C-A-C-
* * * * * ** * * *
58163543 TAAAGGCAGATGCTGACA-GCAGCAGTGATGTAGATTTGGAAAATCACT-AAAACTAGTAGGAA-
61 ---AGG--GATGC---CATGCTGAAAT-AT-TCGATCT---ACTTCACTGTAAGC-A-CAGGAAT
** * * * * * * * * *
58163605 GGGA-AT-T--AA--ATAG-T-TGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
111 GTCAGATCTGCAATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTC-A
* * *** * * ** * **
58163662 TCTA-TTCCCTATAAGCACGGGGATGCCAAAT-CTGCTGTTTTC-AACTTGTTCCCTACAGAGTC
174 ACTAGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATATTCGATCTACTTCACTGTA-AG-C
* * * * * * *
58163724 TACCTTAAAGGCAGATGCTGACAGCAGCAG-TGAT-GTAGATTTGGAAAATCACTAAAAATAGTA
235 -A-C----AGG-A-ATG-T--CAG-ATCTGCT-ATCTTCGATCT-G---TTCCCT----ATA--A
* * **
58163787 GGA-AGGTAATTAAATAGATGAAATTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
277 GCACAGG------GAT-G-CCAAATTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
*
58163851 TGCTGAAATATTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCAATCTTTGATC
334 TGCTGAAATATTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCAATCTTTGATC
*
58163913 TGTTCCCTATAAGCACTGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACTGGGATGCCAAATCTGCTGTTTTCAACTAGTTCCCTATAAGCACAGGGA
*
58163978 TGCCATGCTGAAATATTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
66 TGCCATGCTGAAATATTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCAATCTTCGA
*
58164043 TCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGG
131 TCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTAGTTCCCTATAAGCACAGG
58164108 GATGCCATGCTGAAATATTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTC
196 GATGCCATGCTGAAATATTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTC
58164173 GATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACA
261 GATCTGTTCCCTATAAGCACAGGGATGCCAAAT-TGCTGTTTTCAACTTGTTCCCTATAAGCACA
58164238 GGGATGCCATGCTGAAATATTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCAATCT
325 GGGATGCCATGCTGAAATATTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCAATCT
58164303 TTGATC
390 TTGATC
58164309 TGTTCCCTATAAGCACTGGGATGCCAAATCTGCTGTTTTCAACTAGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACTGGGATGCCAAATCTGCTGTTTTCAACTAGTTCCCTATAAGCACAGGGA
* * *
58164374 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCAATCTTTGA
66 TGCCATGCTGAAATATTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCAATCTTCGA
*
58164439 TCTGTTCCCTATAAGCACTGGGATGCCAAATCTGCTGTTTTCAACTAGTTCCCTATAAGCACAGG
131 TCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTAGTTCCCTATAAGCACAGG
* *
58164504 GATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTC
196 GATGCCATGCTGAAATATTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTC
58164569 GATCT
261 GATCT
58164574 ATAGGAATGC
Statistics
Matches: 899, Mismatches: 122, Indels: 150
0.77 0.10 0.13
Matches are distributed among these distances:
395 4 0.00
396 406 0.45
397 4 0.00
398 1 0.00
399 1 0.00
400 1 0.00
402 3 0.00
403 3 0.00
404 6 0.01
405 2 0.00
406 68 0.08
407 14 0.02
408 12 0.01
409 5 0.01
410 6 0.01
411 7 0.01
412 14 0.02
413 7 0.01
414 9 0.01
415 4 0.00
416 4 0.00
417 9 0.01
418 9 0.01
419 14 0.02
420 6 0.01
421 6 0.01
422 6 0.01
423 12 0.01
424 14 0.02
425 68 0.08
426 2 0.00
427 5 0.01
428 3 0.00
429 3 0.00
431 1 0.00
432 1 0.00
433 1 0.00
434 4 0.00
435 150 0.17
436 4 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (395 bp):
TGTTCCCTATAAGCACTGGGATGCCAAATCTGCTGTTTTCAACTAGTTCCCTATAAGCACAGGGA
TGCCATGCTGAAATATTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCAATCTTCGA
TCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTAGTTCCCTATAAGCACAGG
GATGCCATGCTGAAATATTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTC
GATCTGTTCCCTATAAGCACAGGGATGCCAAATTGCTGTTTTCAACTTGTTCCCTATAAGCACAG
GGATGCCATGCTGAAATATTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCAATCTT
TGATC
Found at i:58164580 original size:31 final size:31
Alignment explanation
Indices: 58164545--58164604 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
58164535 CTGTAAGCAC
* *
58164545 AGGAATGTCAGATCTGCTATCTTCGATCTAT
1 AGGAATGCCAGATCTACTATCTTCGATCTAT
58164576 AGGAATGCCAGATCTACTATCTTCGATCT
1 AGGAATGCCAGATCTACTATCTTCGATCT
58164605 GTTCCCTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (31 bp):
AGGAATGCCAGATCTACTATCTTCGATCTAT
Found at i:58164629 original size:44 final size:44
Alignment explanation
Indices: 58164580--58164913 Score: 277
Period size: 44 Copynumber: 7.6 Consensus size: 44
58164570 ATCTATAGGA
* *
58164580 ATGCCAGATCTACTATCTTCGATCTGTTCCCTATAAGTACAGGG
1 ATGCCAAATCTACTATCTTCGATCTGTTCCCTATAAGCACAGGG
* * * *
58164624 ATGCCAAATCTGCTGTTTTC-AACTAGTTCCCTATAAGCACAGGG
1 ATGCCAAATCTACTATCTTCGATCT-GTTCCCTATAAGCACAGGG
** * * * *
58164668 ATGCC--ATGCTAAAATCTTCGATCTGCTTCACTGTAAGCACAAGA
1 ATGCCAAAT-CTACTATCTTCGATCTG-TTCCCTATAAGCACAGGG
* * *
58164712 ATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGG
1 ATGCCAAATCTACTATCTTCGATCTGTTCCCTATAAGCACAGGG
* * * *
58164756 ATGCCAAATCTGCTGTTTTC-AACTTGTTCCCTATAAGCACAGGG
1 ATGCCAAATCTACTATCTTCGATC-TGTTCCCTATAAGCACAGGG
* * * * *
58164800 ATGCC--ATGCTGA-AATCTTTGATCTGCTTCACTGTAAGCACAGGA
1 ATGCCAAAT-CT-ACTATCTTCGATCTG-TTCCCTATAAGCACAGGG
* * * *
58164844 ATGTCAGATCTATTATCTTCGATCTGTTCCCTATAAACACAGGG
1 ATGCCAAATCTACTATCTTCGATCTGTTCCCTATAAGCACAGGG
* * *
58164888 ATGCCAAATCTGCAATCTTCAATCTG
1 ATGCCAAATCTACTATCTTCGATCTG
58164914 CTCTCCGCCG
Statistics
Matches: 225, Mismatches: 51, Indels: 28
0.74 0.17 0.09
Matches are distributed among these distances:
42 4 0.02
43 19 0.08
44 171 0.76
45 27 0.12
46 4 0.02
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (44 bp):
ATGCCAAATCTACTATCTTCGATCTGTTCCCTATAAGCACAGGG
Found at i:58164662 original size:163 final size:163
Alignment explanation
Indices: 58164413--58164736 Score: 576
Period size: 163 Copynumber: 2.0 Consensus size: 163
58164403 CTGTAAGCAC
* * * *
58164413 AGGAATGTCAGATCTGCAATCTTTGATCTGTTCCCTATAAGCACTGGGATGCCAAATCTGCTGTT
1 AGGAATGCCAGATCTACAATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTT
*
58164478 TTCAACTAGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGC
66 TTCAACTAGTTCCCTATAAGCACAGGGATGCCATGCTAAAATCTTCGATCTGCTTCACTGTAAGC
*
58164543 ACAGGAATGTCAGATCTGCTATCTTCGATCTAT
131 ACAAGAATGTCAGATCTGCTATCTTCGATCTAT
* *
58164576 AGGAATGCCAGATCTACTATCTTCGATCTGTTCCCTATAAGTACAGGGATGCCAAATCTGCTGTT
1 AGGAATGCCAGATCTACAATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTT
58164641 TTCAACTAGTTCCCTATAAGCACAGGGATGCCATGCTAAAATCTTCGATCTGCTTCACTGTAAGC
66 TTCAACTAGTTCCCTATAAGCACAGGGATGCCATGCTAAAATCTTCGATCTGCTTCACTGTAAGC
58164706 ACAAGAATGTCAGATCTGCTATCTTCGATCT
131 ACAAGAATGTCAGATCTGCTATCTTCGATCT
58164737 GTTCCCTATA
Statistics
Matches: 153, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
163 153 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (163 bp):
AGGAATGCCAGATCTACAATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTT
TTCAACTAGTTCCCTATAAGCACAGGGATGCCATGCTAAAATCTTCGATCTGCTTCACTGTAAGC
ACAAGAATGTCAGATCTGCTATCTTCGATCTAT
Found at i:58164843 original size:295 final size:295
Alignment explanation
Indices: 58164281--58164868 Score: 1041
Period size: 295 Copynumber: 2.0 Consensus size: 295
58164271 CTGTAAGCAC
* * * *
58164281 AGGAATGTCAGATCTGCAATCTTTGATCTGTTCCCTATAAGCACTGGGATGCCAAATCTGCTGTT
1 AGGAATGCCAGATCTACAATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTT
*
58164346 TTCAACTAGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGC
66 TTCAACTAGTTCCCTATAAGCACAGGGATGCCATGCTAAAATCTTCGATCTGCTTCACTGTAAGC
* * *
58164411 ACAGGAATGTCAGATCTGCAATCTTTGATCTGTTCCCTATAAGCACTGGGATGCCAAATCTGCTG
131 ACAAGAATGTCAGATCTGCAATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTG
58164476 TTTTCAACTAGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAA
196 TTTTCAACTAGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAA
*
58164541 GCACAGGAATGTCAGATCTGCTATCTTCGATCTAT
261 GCACAGGAATGTCAGATCTACTATCTTCGATCTAT
* *
58164576 AGGAATGCCAGATCTACTATCTTCGATCTGTTCCCTATAAGTACAGGGATGCCAAATCTGCTGTT
1 AGGAATGCCAGATCTACAATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTT
58164641 TTCAACTAGTTCCCTATAAGCACAGGGATGCCATGCTAAAATCTTCGATCTGCTTCACTGTAAGC
66 TTCAACTAGTTCCCTATAAGCACAGGGATGCCATGCTAAAATCTTCGATCTGCTTCACTGTAAGC
*
58164706 ACAAGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTG
131 ACAAGAATGTCAGATCTGCAATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTG
* *
58164771 TTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAA
196 TTTTCAACTAGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAA
*
58164836 GCACAGGAATGTCAGATCTATTATCTTCGATCT
261 GCACAGGAATGTCAGATCTACTATCTTCGATCT
58164869 GTTCCCTATA
Statistics
Matches: 278, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
295 278 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (295 bp):
AGGAATGCCAGATCTACAATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTT
TTCAACTAGTTCCCTATAAGCACAGGGATGCCATGCTAAAATCTTCGATCTGCTTCACTGTAAGC
ACAAGAATGTCAGATCTGCAATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTG
TTTTCAACTAGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAA
GCACAGGAATGTCAGATCTACTATCTTCGATCTAT
Found at i:58164909 original size:132 final size:132
Alignment explanation
Indices: 58164576--58164900 Score: 569
Period size: 132 Copynumber: 2.5 Consensus size: 132
58164566 TTCGATCTAT
* *
58164576 AGGAATGCCAGATCTACTATCTTCGATCTGTTCCCTATAAGTACAGGGATGCCAAATCTGCTGTT
1 AGGAATGTCAGATCTACTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTT
58164641 TTCAACTAGTTCCCTATAAGCACAGGGATGCCATGCTAAAATCTTCGATCTGCTTCACTGTAAGC
66 TTCAACTAGTTCCCTATAAGCACAGGGATGCCATGCTAAAATCTTCGATCTGCTTCACTGTAAGC
58164706 AC
131 AC
* *
58164708 AAGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTT
1 AGGAATGTCAGATCTACTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTT
* * *
58164773 TTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGC
66 TTCAACTAGTTCCCTATAAGCACAGGGATGCCATGCTAAAATCTTCGATCTGCTTCACTGTAAGC
58164838 AC
131 AC
* *
58164840 AGGAATGTCAGATCTATTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGC
1 AGGAATGTCAGATCTACTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGC
58164901 AATCTTCAAT
Statistics
Matches: 182, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 182 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (132 bp):
AGGAATGTCAGATCTACTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTT
TTCAACTAGTTCCCTATAAGCACAGGGATGCCATGCTAAAATCTTCGATCTGCTTCACTGTAAGC
AC
Found at i:58165308 original size:204 final size:205
Alignment explanation
Indices: 58164925--58165402 Score: 742
Period size: 204 Copynumber: 2.3 Consensus size: 205
58164915 TCTCCGCCGC
* * * * *
58164925 TACAGAGACGCCAAATTATATTGGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
1 TACAGAGATGCCAAATCATCTTAGATTTACTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
* * * *
58164990 TATTCGATTTGCTCCTTATAAGCACAAGGATGGCAAACCATCTTGGATCTGCTTCAGTATAAACA
66 TCTTCAATTTGCTCCTTATAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACA
* *
58165055 TTTGAAGGTTGGATCTGCTATGTGTCTACCCTCCATCGAAGTGGAGATGCTAGACTTCAATTTGT
131 TCTGAAGGTTGGATCTGCTATGTGTCTACCCTCCATCGAAGTGGAGATGCTAAACTTCAATTTGT
*
58165120 TCTCTGACAA
196 TCTCTAACAA
* * *
58165130 TACATAGATGCCAAATCATCTTAGA-TTACTTTAACGTAAGCACGTGAAAGCCAAATCAGCTATG
1 TACAGAGATGCCAAATCATCTTAGATTTACTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
* *
58165194 TCTTCAATTTGCTCCTTGTAAGCACAAGGATGCCAAACTATCTTGGATCTACTTCAGTATAAACA
66 TCTTCAATTTGCTCCTTATAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACA
* * *
58165259 TCTGAAGGTTGGATCTGCTATGTGTCTGCCTTCCGTCGAAGTGGAGATGCTAAACTTCAATTTGT
131 TCTGAAGGTTGGATCTGCTATGTGTCTACCCTCCATCGAAGTGGAGATGCTAAACTTCAATTTGT
58165324 TCTCTAACAA
196 TCTCTAACAA
* * *
58165334 TACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCTAAATCAACTATG
1 TACAGAGATGCCAAATCATCTTAGATTTACTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
58165399 TCTT
66 TCTT
58165403 TGATCTGCTC
Statistics
Matches: 246, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
204 188 0.76
205 58 0.24
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (205 bp):
TACAGAGATGCCAAATCATCTTAGATTTACTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
TCTTCAATTTGCTCCTTATAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACA
TCTGAAGGTTGGATCTGCTATGTGTCTACCCTCCATCGAAGTGGAGATGCTAAACTTCAATTTGT
TCTCTAACAA
Found at i:58165675 original size:61 final size:65
Alignment explanation
Indices: 58165560--58165681 Score: 198
Period size: 61 Copynumber: 1.9 Consensus size: 65
58165550 TGTATCCGTG
58165560 TTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGC
1 TTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGC
* *
58165625 TTTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAATCAAATGCTCCTAACTAGATGTG
1 TTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
58165682 TTATTGTAGA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
61 31 0.56
62 1 0.02
63 1 0.02
64 1 0.02
65 21 0.38
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (65 bp):
TTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGC
Found at i:58170078 original size:19 final size:20
Alignment explanation
Indices: 58170054--58170100 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
58170044 AGTGAAAGTT
58170054 TAATGCAAATGT-TGCAATG
1 TAATGCAAATGTATGCAATG
*
58170073 TAATGCAAATGTATGGAATG
1 TAATGCAAATGTATGCAATG
58170093 -AATGCAAA
1 TAATGCAAA
58170101 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGTATGCAATG
Found at i:58172575 original size:8 final size:8
Alignment explanation
Indices: 58172553--58172638 Score: 52
Period size: 8 Copynumber: 10.1 Consensus size: 8
58172543 GAGGGCATAT
*
58172553 ATAATATA
1 ATAATAAA
58172561 ATAATAAA
1 ATAATAAA
58172569 ATAATAATA
1 ATAATAA-A
58172578 TATACATGAGAA
1 -ATA-AT-A-AA
58172590 ATAAT--A
1 ATAATAAA
58172596 ATAATATAA
1 ATAATA-AA
58172605 ATAATAGTAA
1 ATAATA--AA
58172615 A-AATAAA
1 ATAATAAA
*
58172622 AAAATAAA
1 ATAATAAA
*
58172630 AAAATAAA
1 ATAATAAA
58172638 A
1 A
58172639 CAAAGCTCTC
Statistics
Matches: 67, Mismatches: 1, Indels: 20
0.76 0.01 0.23
Matches are distributed among these distances:
6 6 0.09
7 3 0.04
8 29 0.43
9 12 0.18
10 9 0.13
11 5 0.07
12 2 0.03
13 1 0.01
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (8 bp):
ATAATAAA
Found at i:58172578 original size:24 final size:23
Alignment explanation
Indices: 58172551--58172638 Score: 65
Period size: 24 Copynumber: 3.8 Consensus size: 23
58172541 GAGAGGGCAT
58172551 ATATAATATAATAATAAAATAATA
1 ATATAA-ATAATAATAAAATAATA
* * *
58172575 ATATATACATGAGAA-ATAATAATA
1 ATATA-A-ATAATAATAAAATAATA
* *
58172599 ATATAAATAATAGTAAAAATAAAA
1 ATATAAATAATAAT-AAAATAATA
*
58172623 AAATAAA-AA-AATAAAA
1 ATATAAATAATAATAAAA
58172639 CAAAGCTCTC
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
21 4 0.08
22 6 0.12
23 3 0.06
24 31 0.62
25 6 0.12
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.26
Consensus pattern (23 bp):
ATATAAATAATAATAAAATAATA
Found at i:58173048 original size:22 final size:22
Alignment explanation
Indices: 58173020--58173069 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
58173010 TGTAGGCAAA
*
58173020 TGGAGTGGTTGGGGTGGTTTAG
1 TGGAGTGGTTGGAGTGGTTTAG
58173042 TGGAGTGGTTGGAGTGGTTTAG
1 TGGAGTGGTTGGAGTGGTTTAG
58173064 TGGAGT
1 TGGAGT
58173070 AAAGATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.12, C:0.00, G:0.52, T:0.36
Consensus pattern (22 bp):
TGGAGTGGTTGGAGTGGTTTAG
Found at i:58174114 original size:33 final size:33
Alignment explanation
Indices: 58174067--58174135 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
58174057 ATTCGGCTGC
*
58174067 GGGGCTAATTCAACCTCTTTATTAGCTTGCTCT
1 GGGGATAATTCAACCTCTTTATTAGCTTGCTCT
*
58174100 GGGGATAATTCAACCTCTTTATTAGCTTGGTCT
1 GGGGATAATTCAACCTCTTTATTAGCTTGCTCT
58174133 GGG
1 GGG
58174136 CAGTCTCTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (33 bp):
GGGGATAATTCAACCTCTTTATTAGCTTGCTCT
Found at i:58179408 original size:43 final size:43
Alignment explanation
Indices: 58179347--58179432 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
58179337 TGAGTAAGTT
58179347 CTAGCTATGAAAATGATTTTGGGATGATATTGTAATCGTTGAC
1 CTAGCTATGAAAATGATTTTGGGATGATATTGTAATCGTTGAC
58179390 CTAGCTATGAAAATGATTTTGGGATGATATTGTAATCGTTGAC
1 CTAGCTATGAAAATGATTTTGGGATGATATTGTAATCGTTGAC
58179433 TTATACTTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.37
Consensus pattern (43 bp):
CTAGCTATGAAAATGATTTTGGGATGATATTGTAATCGTTGAC
Found at i:58187031 original size:42 final size:42
Alignment explanation
Indices: 58186941--58187052 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 42
58186931 TAGGGATTAC
* * * * *
58186941 TAAGACTATGTATAAAACCATGTCTAGGATATGAAATCTATA
1 TAAGACTATGTGTAAGACCATATCTGGGATATGAAATCGATA
* * **
58186983 TGAGACTATGTGTACGACCATATCTGGGATATGGGATCGATA
1 TAAGACTATGTGTAAGACCATATCTGGGATATGAAATCGATA
*
58187025 TAAGACT-TCGTGTAAGACCATAGCTGGG
1 TAAGACTAT-GTGTAAGACCATATCTGGG
58187053 CAATTGGCAT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 1 0.02
42 56 0.98
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (42 bp):
TAAGACTATGTGTAAGACCATATCTGGGATATGAAATCGATA
Found at i:58187302 original size:15 final size:16
Alignment explanation
Indices: 58187276--58187305 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
58187266 GTGAACCCTC
58187276 GGTAAGGTTATGATTG
1 GGTAAGGTTATGATTG
58187292 GGTAA-GTTATGATT
1 GGTAAGGTTATGATT
58187306 ATAAGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (16 bp):
GGTAAGGTTATGATTG
Found at i:58191808 original size:28 final size:28
Alignment explanation
Indices: 58191753--58191812 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 28
58191743 ACCACGTCAT
*
58191753 CTAAGTGAAATAAGTCCATGGCTATGTG
1 CTAAGTGAAATAAGTCCATGGATATGTG
58191781 CTAAGTGAAATAAGTCCATGGA-ATTGTG
1 CTAAGTGAAATAAGTCCATGGATA-TGTG
58191809 CTAA
1 CTAA
58191813 CTGATAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 1 0.03
28 29 0.97
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.28
Consensus pattern (28 bp):
CTAAGTGAAATAAGTCCATGGATATGTG
Found at i:58191901 original size:51 final size:50
Alignment explanation
Indices: 58191840--58191987 Score: 208
Period size: 51 Copynumber: 2.9 Consensus size: 50
58191830 TGAATCTTAG
* *
58191840 GAATAAAATAGCTTTGGACACAAGTGTGATACTATGTGAAGGCTACTTTGT
1 GAATAAAATAGCTTTGGACACAA-TGTGGTACTATGTGAAGGCCACTTTGT
* * *
58191891 GAATATAATAGCTTTGGACATAACTGTGGTACTATGTGAAGGCCATTTTGT
1 GAATAAAATAGCTTTGGACACAA-TGTGGTACTATGTGAAGGCCACTTTGT
58191942 GAATAAAATAGCTTTGG-CTACAATGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAT-GTGGTACTATGTGAAGGCCAC
58191988 CGTGTATCCG
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
50 2 0.02
51 84 0.98
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (50 bp):
GAATAAAATAGCTTTGGACACAATGTGGTACTATGTGAAGGCCACTTTGT
Found at i:58196323 original size:26 final size:26
Alignment explanation
Indices: 58196294--58196343 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
58196284 ATGATAGTAT
*
58196294 GGCCTAATGGGCGATGTGATGAATAA
1 GGCCTAATGGCCGATGTGATGAATAA
*
58196320 GGCCTAGTGGCCGATGTGATGAAT
1 GGCCTAATGGCCGATGTGATGAAT
58196344 GTGAAAGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.26, C:0.14, G:0.36, T:0.24
Consensus pattern (26 bp):
GGCCTAATGGCCGATGTGATGAATAA
Found at i:58196380 original size:47 final size:47
Alignment explanation
Indices: 58196316--58196790 Score: 815
Period size: 47 Copynumber: 10.1 Consensus size: 47
58196306 GATGTGATGA
*
58196316 ATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
1 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
*
58196363 ATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
1 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
58196410 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
1 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
*
58196457 ATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTG
1 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
*
58196504 ATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
1 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
*
58196551 ATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATGTG
1 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
58196598 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
1 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
*
58196645 ATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTG
1 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
*
58196692 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATCTGTG
1 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
* * * * * * * *
58196739 ACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTG
1 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
58196786 ATAAG
1 ATAAG
58196791 TCCCGAAGGG
Statistics
Matches: 407, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 407 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
Found at i:58196978 original size:37 final size:37
Alignment explanation
Indices: 58196909--58196987 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
58196899 CCGAGCTCTA
* * * *
58196909 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTCTGGAGATTATGTCCGGGT
*
58196946 AAGACCCGATAACTTCGTCTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTCTGGAGATTATGTCCGGGT
58196983 AAGAC
1 AAGAC
58196988 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTCTGGAGATTATGTCCGGGT
Found at i:58201927 original size:48 final size:48
Alignment explanation
Indices: 58201875--58202004 Score: 149
Period size: 48 Copynumber: 2.7 Consensus size: 48
58201865 TGTGAGAGCC
* * *
58201875 AGTGTAAGACGATGTCTAGGACATGGCATCAGCATTGATATGT-A-TACT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCATCGACATGTGAGT--T
* *
58201923 AGTGTAAGACCATGTCTGGGACATGGCATC-GTCCTCGACATGTGAGTT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAG-CATCGACATGTGAGTT
* *
58201971 AGTGTAAGACCATGTCTTGGACGTGGCATCAGCA
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCA
58202005 AATTAGCCTC
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
47 1 0.01
48 66 0.94
49 2 0.03
50 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCAGCATCGACATGTGAGTT
Found at i:58209113 original size:40 final size:40
Alignment explanation
Indices: 58209069--58209330 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
58209059 GCTCCTCGTT
* *
58209069 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
58209109 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
58209149 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
58209188 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
58209227 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
58209266 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
58209307 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58209331 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:58221698 original size:50 final size:49
Alignment explanation
Indices: 58221636--58221734 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 49
58221626 ATACTCCTCA
58221636 TTCCTGCCTCAATCTCATCAAAATAAGGTTTTAATCGGGTGTTGTTTAC
1 TTCCTGCCTCAATCTCATCAAAATAAGGTTTTAATCGGGTGTTGTTTAC
*
58221685 NTTCCTGCTTCAATCTCATCAAAATAAGGTTTTAATCGGGTGTTGTTTAC
1 -TTCCTGCCTCAATCTCATCAAAATAAGGTTTTAATCGGGTGTTGTTTAC
58221735 CTTGAAAGTG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.39
Consensus pattern (49 bp):
TTCCTGCCTCAATCTCATCAAAATAAGGTTTTAATCGGGTGTTGTTTAC
Found at i:58225939 original size:28 final size:28
Alignment explanation
Indices: 58225899--58225962 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
58225889 ACCATGGCAT
58225899 CTAAGTGAAATAAGTCCATGGCAATGTG
1 CTAAGTGAAATAAGTCCATGGCAATGTG
*
58225927 CTAAGTGAAATAAGTCCATGGCATTGTG
1 CTAAGTGAAATAAGTCCATGGCAATGTG
58225955 CTAAGTGA
1 CTAAGTGA
58225963 GAAATTTCCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (28 bp):
CTAAGTGAAATAAGTCCATGGCAATGTG
Found at i:58226041 original size:51 final size:51
Alignment explanation
Indices: 58225986--58226287 Score: 507
Period size: 51 Copynumber: 5.9 Consensus size: 51
58225976 TGAACCTTAG
*
58225986 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTTT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
58226037 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTTT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
58226088 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGCCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
58226139 GAATATAATAGCTTTTGACACAAGTGTGGTACTATATGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
58226190 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
58226241 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCACT
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCACT
58226288 ATGTATGTGT
Statistics
Matches: 240, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
50 1 0.00
51 239 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:58227009 original size:15 final size:17
Alignment explanation
Indices: 58226975--58227011 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
58226965 ATACATATAC
58226975 ACATTCATAATCAGAAT
1 ACATTCATAATCAGAAT
58226992 ACATTCAT-ATCA-AAT
1 ACATTCATAATCAGAAT
58227007 ACATT
1 ACATT
58227012 GTCCCTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 8 0.40
16 4 0.20
17 8 0.40
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (17 bp):
ACATTCATAATCAGAAT
Found at i:58228407 original size:43 final size:43
Alignment explanation
Indices: 58228291--58228435 Score: 145
Period size: 43 Copynumber: 3.4 Consensus size: 43
58228281 TATCGCATAT
* * * * * *
58228291 ATGGTCTTACATGTTATCAC-ATATCGATGCCACTGTCCTAGAC
1 ATGGTCTTACACGTAATCTCAATA-CAATGCCAATGTCCCAGAC
* *
58228334 AGGGTCTTACACG-AA-CTCGATTA-ATGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTC-AATACA--ATGCCAATGTCCCAGAC
58228377 ATGGTCTTACACGTAATCTCAATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTCAATACAATGCCAATGTCCCAGAC
*
58228420 ATGGTCTTACATGTAA
1 ATGGTCTTACACGTAA
58228436 CCACATCTCG
Statistics
Matches: 84, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 72 0.86
44 5 0.06
45 4 0.05
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCAATACAATGCCAATGTCCCAGAC
Found at i:58249211 original size:13 final size:13
Alignment explanation
Indices: 58249193--58249217 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58249183 ACAAATGATA
58249193 AAATTTTCACACG
1 AAATTTTCACACG
58249206 AAATTTTCACAC
1 AAATTTTCACAC
58249218 ATATCACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:58254047 original size:42 final size:43
Alignment explanation
Indices: 58253946--58254056 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
58253936 AACAAGTACA
* * *
58253946 ATGCCGACGTCCCAGACATGGTCTTACATATAATTCAATATCG
1 ATGCCGATGTCCCAGACATGGTCTTACAGATAATTAAATATCG
** *
58253989 ATGCCTCTGTCCCAGACAGGGTCTTACACGA-AA-TAAGATAT-G
1 ATGCCGATGTCCCAGACATGGTCTTACA-GATAATTAA-ATATCG
58254031 ATGCCGATGTCCCAGACATGGTCTTA
1 ATGCCGATGTCCCAGACATGGTCTTA
58254057 TACAAAAATC
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 26 0.46
43 30 0.53
44 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (43 bp):
ATGCCGATGTCCCAGACATGGTCTTACAGATAATTAAATATCG
Found at i:58254089 original size:85 final size:85
Alignment explanation
Indices: 58253946--58254104 Score: 216
Period size: 85 Copynumber: 1.9 Consensus size: 85
58253936 AACAAGTACA
* * **
58253946 ATGCCGACGTCCCAGACATGGTCTTACATATAATTCAATATCGATGCCTCTGTCCCAGACAGGGT
1 ATGCCGACGTCCCAGACATGGTCTTACATAAAATTCAATATCGAGGCCTCTGTCCCAGACACAGT
58254011 CTTACACGAAATAAGATATG
66 CTTACACGAAATAAGATATG
* *
58254031 ATGCCGATGTCCCAGACATGGTCTTATACA-AAAATCTC-A-ATCGAGGCCTGTGTCCCAGACAC
1 ATGCCGACGTCCCAGACATGGTC-T-TACATAAAAT-TCAATATCGAGGCCTCTGTCCCAGACAC
58254093 AGTCTTACACGA
63 AGTCTTACACGA
58254105 TGTCTCAGAC
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
85 53 0.82
86 6 0.09
87 6 0.09
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (85 bp):
ATGCCGACGTCCCAGACATGGTCTTACATAAAATTCAATATCGAGGCCTCTGTCCCAGACACAGT
CTTACACGAAATAAGATATG
Found at i:58257182 original size:28 final size:27
Alignment explanation
Indices: 58257118--58257326 Score: 310
Period size: 28 Copynumber: 7.6 Consensus size: 27
58257108 ATATTAAGTC
* *
58257118 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
58257145 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
58257173 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
58257201 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAA-CT
*
58257229 CGCACACCTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
58257257 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
58257285 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
58257312 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58257327 GCACAATTTA
Statistics
Matches: 170, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
27 42 0.25
28 125 0.74
29 3 0.02
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:58257345 original size:56 final size:56
Alignment explanation
Indices: 58257118--58257351 Score: 301
Period size: 56 Copynumber: 4.2 Consensus size: 56
58257108 ATATTAAGTC
* * * *
58257118 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACACAATCAAACT
* * *
58257173 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACACAATCAAACT
* * *
58257229 CGCACACCTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACACAATCAAACT
* * * * *
58257285 CGCACACTTAGTGCTACATAGTC-AATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACACAA-TCAAACT
*
58257341 CGCACTCTTAG
1 CGCACACTTAG
58257352 CGCCAATCTC
Statistics
Matches: 159, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
55 41 0.26
56 118 0.74
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (56 bp):
CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACACAATCAAACT
Found at i:58257351 original size:84 final size:83
Alignment explanation
Indices: 58257118--58257326 Score: 355
Period size: 84 Copynumber: 2.5 Consensus size: 83
58257108 ATATTAAGTC
* * *
58257118 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
58257183 GTGCTACATAGTCAAACT
66 GTGCTACATAGTCAAACT
*
58257201 CGCACACTTAGTGCTACATAATCAAGCTCGCACACCTAGTGCTACATAATCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAATCAA-CTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
58257266 AGTGCTACATAGTCAAACT
65 AGTGCTACATAGTCAAACT
* *
58257285 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCT
58257327 GCACAATTTA
Statistics
Matches: 118, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
83 38 0.32
84 80 0.68
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (83 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAAACT
Found at i:58266233 original size:47 final size:47
Alignment explanation
Indices: 58265193--58266191 Score: 1908
Period size: 47 Copynumber: 21.3 Consensus size: 47
58265183 ATTCAGCCAA
* * *
58265193 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
58265240 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
58265287 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
58265334 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
58265381 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
58265428 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
58265475 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
58265522 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
58265569 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
58265616 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
58265663 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
58265710 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
58265757 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
58265804 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
58265851 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
58265898 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
58265945 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
58265992 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
58266039 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* * * *
58266086 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTTATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* * *
58266133 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAACGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
58266180 GAAAGTGTATAT
1 GAAAGTGTATAT
58266192 ATGGGACAGG
Statistics
Matches: 942, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 942 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
Found at i:58266423 original size:37 final size:37
Alignment explanation
Indices: 58266371--58266445 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
58266361 GCTCTAAAGG
* *
58266371 CCCGATGACTACGTGTGG-GAATTTTGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAG-ATTATGTCCGGGTAAGA
*
58266408 CCCGATAACTTCGTGTGGAGATTATGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
58266445 C
1 C
58266446 TTCGTAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 33 0.97
38 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.27
Consensus pattern (37 bp):
CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
Found at i:58270003 original size:38 final size:38
Alignment explanation
Indices: 58269908--58270012 Score: 138
Period size: 38 Copynumber: 2.8 Consensus size: 38
58269898 TTAAAGACCT
** * *
58269908 GCAGGCTTCGTGCTGGTAAAATATCTGGGTTAAATCCC
1 GCAGGCTTCGTGCTGGTATTATATCCGGGATAAATCCC
*
58269946 GCAGGCTTCGTGCTAGTATTATATCCGGGATAAATCCC
1 GCAGGCTTCGTGCTGGTATTATATCCGGGATAAATCCC
* * *
58269984 GCAGGCCTAGTGCTGGTATTATATTCGGG
1 GCAGGCTTCGTGCTGGTATTATATCCGGG
58270013 CCTTCGTGCC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (38 bp):
GCAGGCTTCGTGCTGGTATTATATCCGGGATAAATCCC
Found at i:58270066 original size:43 final size:43
Alignment explanation
Indices: 58269984--58270159 Score: 257
Period size: 43 Copynumber: 4.1 Consensus size: 43
58269974 GATAAATCCC
* * *
58269984 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
58270025 GCAGGCTTCGTGCTGGTGATGTGTATTTGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
58270068 GCAGGCTTCATGCCGGTGATGTGTATTCGAGCCTTCGTGCCTA
1 GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
58270111 GCAGGCTTTGTGCTGATGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTA
58270154 GCAGGC
1 GCAGGC
58270160 GCAATGCACG
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
41 15 0.12
42 2 0.02
43 103 0.86
ACGTcount: A:0.12, C:0.23, G:0.32, T:0.32
Consensus pattern (43 bp):
GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:58284689 original size:46 final size:46
Alignment explanation
Indices: 58284618--58284836 Score: 165
Period size: 46 Copynumber: 4.7 Consensus size: 46
58284608 TATGTGTGCC
*
58284618 AGTGTAAGACATGTCTGGGATATGCATCAGCCACAACATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAACATGAGAGCT
* * ** * *
58284664 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATTTTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-A-ACATGAGAGCT
* * ** * *
58284711 AGTGTAAGACATGTTTGGGACATGCATTAG-CATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA-CAACATGAGAGCT
* * * * * * *
58284757 AGTGTAAGACATATCTAGGACATGCATCGGCCTC-GCGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAC-AT-GA-GAGCT
*
58284805 AGTGTAAGACCTGTCTGGGACATGGCATCAGC
1 AGTGTAAGACATGTCTGGGACAT-GCATCAGC
58284837 TTGTTGTGTG
Statistics
Matches: 130, Mismatches: 34, Indels: 15
0.73 0.19 0.08
Matches are distributed among these distances:
45 2 0.02
46 61 0.47
47 33 0.25
48 27 0.21
49 7 0.05
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAACATGAGAGCT
Found at i:58284778 original size:93 final size:94
Alignment explanation
Indices: 58284615--58284836 Score: 286
Period size: 93 Copynumber: 2.4 Consensus size: 94
58284605 TGATATGTGT
* * *
58284615 GCCAGTGTAAGACATGTCTGGGATATGCATCAGCCACAACATGAGAGCTAGTGTAAGACATGTCT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAACACGAGAGCTAGTGTAAGACATATCT
* **
58284680 GGGACATGCATCGGCCTCGAGAT-TTTAA
66 AGGACATGCATCGGCCTCGAGATATACAA
* * ** *
58284708 GCCAGTGTAAGACATGTTTGGGACATGCATTAG-CATTGAGACGAGAGCTAGTGTAAGACATATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCA-CAACACGAGAGCTAGTGTAAGACATATC
*
58284772 TAGGACATGCATCGGCCTCGCGATATACAA
65 TAGGACATGCATCGGCCTCGAGATATACAA
* *
58284802 GCTAGTGTAAGACCTGTCTGGGACATGGCATCAGC
1 GCCAGTGTAAGACATGTCTGGGACAT-GCATCAGC
58284837 TTGTTGTGTG
Statistics
Matches: 109, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
92 2 0.02
93 75 0.69
94 26 0.24
95 6 0.06
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (94 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAACACGAGAGCTAGTGTAAGACATATCT
AGGACATGCATCGGCCTCGAGATATACAA
Found at i:58295238 original size:114 final size:114
Alignment explanation
Indices: 58295038--58295379 Score: 684
Period size: 114 Copynumber: 3.0 Consensus size: 114
58295028 CATATCATCA
58295038 AACGAGATATTTCTATTAAATCTCATTACTACTTGTTTGCGACATTCAAATATACATCCCACGAT
1 AACGAGATATTTCTATTAAATCTCATTACTACTTGTTTGCGACATTCAAATATACATCCCACGAT
58295103 TGTTGTCAAAATTTTCCCATCGAAATAAACTCATATGAAAAACTGATTC
66 TGTTGTCAAAATTTTCCCATCGAAATAAACTCATATGAAAAACTGATTC
58295152 AACGAGATATTTCTATTAAATCTCATTACTACTTGTTTGCGACATTCAAATATACATCCCACGAT
1 AACGAGATATTTCTATTAAATCTCATTACTACTTGTTTGCGACATTCAAATATACATCCCACGAT
58295217 TGTTGTCAAAATTTTCCCATCGAAATAAACTCATATGAAAAACTGATTC
66 TGTTGTCAAAATTTTCCCATCGAAATAAACTCATATGAAAAACTGATTC
58295266 AACGAGATATTTCTATTAAATCTCATTACTACTTGTTTGCGACATTCAAATATACATCCCACGAT
1 AACGAGATATTTCTATTAAATCTCATTACTACTTGTTTGCGACATTCAAATATACATCCCACGAT
58295331 TGTTGTCAAAATTTTCCCATCGAAATAAACTCATATGAAAAACTGATTC
66 TGTTGTCAAAATTTTCCCATCGAAATAAACTCATATGAAAAACTGATTC
58295380 TCCATATTCA
Statistics
Matches: 228, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 228 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (114 bp):
AACGAGATATTTCTATTAAATCTCATTACTACTTGTTTGCGACATTCAAATATACATCCCACGAT
TGTTGTCAAAATTTTCCCATCGAAATAAACTCATATGAAAAACTGATTC
Found at i:58295770 original size:27 final size:27
Alignment explanation
Indices: 58295734--58295833 Score: 110
Period size: 27 Copynumber: 3.7 Consensus size: 27
58295724 ACTATTCTCG
* * *
58295734 CCTCTAAGATAGGCACAACTAGTCGTA
1 CCTCTCAGATAGGCTCAACTAGTCGCA
*
58295761 CCTGTCAGATAGGCTCAACTAGTCGCA
1 CCTCTCAGATAGGCTCAACTAGTCGCA
* * *
58295788 CTTCTGAAATAGGCTCAACTAGTCGCA
1 CCTCTCAGATAGGCTCAACTAGTCGCA
* * *
58295815 CTTATCAGATGGGCTCAAC
1 CCTCTCAGATAGGCTCAAC
58295834 CTGTATACTA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (27 bp):
CCTCTCAGATAGGCTCAACTAGTCGCA
Found at i:58299864 original size:46 final size:46
Alignment explanation
Indices: 58299797--58299934 Score: 276
Period size: 46 Copynumber: 3.0 Consensus size: 46
58299787 TTAAGCAAAC
58299797 ATCTTCCACTTGTGGTAATTATAGTTATACATATTCTAGTCATCAT
1 ATCTTCCACTTGTGGTAATTATAGTTATACATATTCTAGTCATCAT
58299843 ATCTTCCACTTGTGGTAATTATAGTTATACATATTCTAGTCATCAT
1 ATCTTCCACTTGTGGTAATTATAGTTATACATATTCTAGTCATCAT
58299889 ATCTTCCACTTGTGGTAATTATAGTTATACATATTCTAGTCATCAT
1 ATCTTCCACTTGTGGTAATTATAGTTATACATATTCTAGTCATCAT
58299935 TAAAACATGT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 92 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.43
Consensus pattern (46 bp):
ATCTTCCACTTGTGGTAATTATAGTTATACATATTCTAGTCATCAT
Found at i:58300288 original size:19 final size:19
Alignment explanation
Indices: 58300239--58300299 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 19
58300229 TTTCTTAACA
* *
58300239 AAAAATCAAAGTAATTTTT
1 AAAATTCAAAATAATTTTT
* *
58300258 AAATTTTGAAAATAATTTTT
1 AAA-ATTCAAAATAATTTTT
*
58300278 AAAATTCAAAAT-ATTTAT
1 AAAATTCAAAATAATTTTT
58300296 AAAA
1 AAAA
58300300 ATTTTAAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
18 9 0.26
19 10 0.29
20 15 0.44
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:58300334 original size:25 final size:26
Alignment explanation
Indices: 58300291--58300339 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
58300281 ATTCAAAATA
* *
58300291 TTTATAAAAATTTTAAAATTTTTATT
1 TTTAAAAAAATTATAAAATTTTTATT
58300317 TTTAAAAAAATTAT-AAATTTTTA
1 TTTAAAAAAATTATAAAATTTTTA
58300340 AAAAATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TTTAAAAAAATTATAAAATTTTTATT
Found at i:58301774 original size:14 final size:14
Alignment explanation
Indices: 58301755--58301785 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
58301745 AATTAACCGA
58301755 ATATACATAAATTC
1 ATATACATAAATTC
*
58301769 ATATACATATATTC
1 ATATACATAAATTC
58301783 ATA
1 ATA
58301786 GATCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATACATAAATTC
Found at i:58304142 original size:41 final size:42
Alignment explanation
Indices: 58304097--58304265 Score: 145
Period size: 41 Copynumber: 4.1 Consensus size: 42
58304087 GCACAAACAT
* *
58304097 CCTTCGGAATC-AAGCCCGATTCTTAGCACTGGCTCAAAAGC
1 CCTTCGGAATCTAAGCCCGATTATGAGCACTGGCTCAAAAGC
* * * *
58304138 CCTTC-GAGA-CTAAGCTCGGATTA-GACCACTGGCTCGAAGGC
1 CCTTCGGA-ATCTAAGC-CCGATTATGAGCACTGGCTCAAAAGC
* * *
58304179 CCTTCGGAA-CTAAGTCCGGTTATGA-CACTGGCTCTAAAGC
1 CCTTCGGAATCTAAGCCCGATTATGAGCACTGGCTCAAAAGC
* ** * *
58304219 CCTTC-GAAACTAAGTTCGGTTATTAGCACTGGCTCAAAAGC
1 CCTTCGGAATCTAAGCCCGATTATGAGCACTGGCTCAAAAGC
58304260 CCTTCG
1 CCTTCG
58304266 AGACCAAGCT
Statistics
Matches: 106, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
39 3 0.03
40 40 0.38
41 56 0.53
42 7 0.07
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (42 bp):
CCTTCGGAATCTAAGCCCGATTATGAGCACTGGCTCAAAAGC
Found at i:58304266 original size:41 final size:41
Alignment explanation
Indices: 58304119--58304266 Score: 185
Period size: 41 Copynumber: 3.6 Consensus size: 41
58304109 AGCCCGATTC
* *
58304119 TTAGCACTGGCTCAAAAGCCCTTCGAGACTAAGCTCGG--A
1 TTAGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
* * * *
58304158 TTAGACCACTGGCTCGAAGGCCCTTCGGAACTAAGTCCGGTTA
1 TTAG--CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
* *
58304201 TGA-CACTGGCTCTAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTAGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
58304241 TTAGCACTGGCTCAAAAGCCCTTCGA
1 TTAGCACTGGCTCAAAAGCCCTTCGA
58304267 GACCAAGCTC
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 4 0.04
40 35 0.38
41 49 0.54
43 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
TTAGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
Found at i:58320234 original size:29 final size:29
Alignment explanation
Indices: 58320200--58320283 Score: 89
Period size: 30 Copynumber: 2.9 Consensus size: 29
58320190 TATATTCACA
58320200 TGGCCCATTAGGCCCAAATCACATTTATAG
1 TGGCCCATTAGGCCCAAATCACATTTA-AG
* * *
58320230 -GGCCCCTTTAGGCCCAAATCATATTTACG
1 TGG-CCCATTAGGCCCAAATCACATTTAAG
** *
58320259 TGGCTTATTAAGCCCAAATCACATT
1 TGGCCCATTAGGCCCAAATCACATT
58320284 ATATTCATGC
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
29 20 0.45
30 24 0.55
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTAAG
Found at i:58322964 original size:28 final size:27
Alignment explanation
Indices: 58322909--58322965 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
58322899 GCATATGATA
* * * *
58322909 CTGATTCTGTATTGGGCTTAGGCTCAC
1 CTGATTCTGTAATGGGCTAAAGCCCAC
58322936 CTGATTCTGTTAATGGGCTAAAGCCCAC
1 CTGATTCTG-TAATGGGCTAAAGCCCAC
58322964 CT
1 CT
58322966 AATACTATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGATTCTGTAATGGGCTAAAGCCCAC
Found at i:58329807 original size:28 final size:27
Alignment explanation
Indices: 58329760--58329816 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
58329750 CAGACATAGT
* *
58329760 ATTAGGTGGGCTTTAACCCATTAACAGA
1 ATTAGGTGGGCTCTAACCCAAT-ACAGA
58329788 ATTAGGTGGGC-CTAAGCCCAATACAGA
1 ATTAGGTGGGCTCTAA-CCCAATACAGA
58329815 AT
1 AT
58329817 CAGTATCAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (27 bp):
ATTAGGTGGGCTCTAACCCAATACAGA
Found at i:58334763 original size:46 final size:46
Alignment explanation
Indices: 58334696--58334870 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
58334686 TGTAACCCGC
*
58334696 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
58334742 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * * * *
58334792 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
* *
58334835 TCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
58334871 ATGCCCAATT
Statistics
Matches: 108, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 1 0.01
46 62 0.57
47 26 0.24
48 1 0.01
49 1 0.01
50 6 0.06
51 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:58334818 original size:93 final size:93
Alignment explanation
Indices: 58334704--58334875 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
58334694 GCCCATAAGT
* * *
58334704 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
58334769 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
58334797 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATTCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
58334862 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
58334876 CAATTATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:58334890 original size:46 final size:47
Alignment explanation
Indices: 58334747--58334890 Score: 138
Period size: 46 Copynumber: 3.1 Consensus size: 47
58334737 CACATCCATA
* * *
58334747 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATT-CATC-CT
* * * * *
58334796 --CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGC-ATTCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCAATTCATCCT
58334840 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATT-ATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTCATCCT
58334886 AGTGA
1 AGTGA
58334891 CATGTCACTT
Statistics
Matches: 75, Mismatches: 13, Indels: 17
0.71 0.12 0.16
Matches are distributed among these distances:
44 6 0.08
45 4 0.05
46 31 0.41
47 28 0.37
48 3 0.04
49 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (47 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTCATCCT
Found at i:58337587 original size:51 final size:51
Alignment explanation
Indices: 58337510--58337612 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
58337500 TAAAACTCCT
* * *
58337510 ACACGACTCTAGCACCAAAATCAAACACTCTATTGTGCATACCGGGACTCG
1 ACACGACTCTAGCAACAAAATAAAACACTCTATTGTGCATACCAGGACTCG
58337561 ACACGACTCTAGCAACAAAATAAAACACTCTATTGTGCATACCAGGACTCG
1 ACACGACTCTAGCAACAAAATAAAACACTCTATTGTGCATACCAGGACTCG
58337612 A
1 A
58337613 ACTTCAGACC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.37, C:0.29, G:0.15, T:0.19
Consensus pattern (51 bp):
ACACGACTCTAGCAACAAAATAAAACACTCTATTGTGCATACCAGGACTCG
Found at i:58346964 original size:30 final size:30
Alignment explanation
Indices: 58346930--58346990 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
58346920 TCCTTAACTC
58346930 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
58346960 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
58346990 A
1 A
58346991 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:58349055 original size:33 final size:33
Alignment explanation
Indices: 58349010--58349167 Score: 129
Period size: 33 Copynumber: 4.7 Consensus size: 33
58349000 ACATTCGTAG
* *
58349010 TGCCATAACCCAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTATCATCAGAA
* *
58349043 TGCCATAGCCCAGCTATGGTCTTA-CATATAAACA
1 TGCCATAGCCCAGCTATGGTCTTATCAT-CAGA-A
* * * * ** * *
58349077 CTGCCATGGTCCAACCATGGTCTTATGTTCATAG
1 -TGCCATAGCCCAGCTATGGTCTTATCATCAGAA
* * * *
58349111 TTCCATAACCCAGTTATGGTCTTGTCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTATCATCAGAA
*
58349144 TGCCATAGCCTAGCTATGGTCTTA
1 TGCCATAGCCCAGCTATGGTCTTA
58349168 CATATAAACA
Statistics
Matches: 91, Mismatches: 30, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
32 3 0.03
33 64 0.70
34 1 0.01
35 22 0.24
36 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (33 bp):
TGCCATAGCCCAGCTATGGTCTTATCATCAGAA
Found at i:58349187 original size:101 final size:101
Alignment explanation
Indices: 58348998--58349338 Score: 497
Period size: 101 Copynumber: 3.4 Consensus size: 101
58348988 AATTCATTTT
* *
58348998 TTACATTCGTAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
58349063 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
* * * *
58349099 TTATGTTCATAGTTCCATAACCCAGTTATGGTCTTGTCATCAGAATGCCATAGCCTAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
* *
58349164 CTTACATATAAACATTACCATGGTCCAACCATGGT-
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
* * * * * *
58349199 TCTACGTTTATAGTGCAATAACCCAGTTATGGTCTTTTCATTAAAATGCCACAGCCCAGCTATGG
1 T-TACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGG
*
58349264 TATTACATATAAACACTGCCATGGTCCAACCATGGTC
65 TCTTACATATAAACACTGCCATGGTCCAACCATGGTC
* *
58349301 TTACATTCATAGTGCCAGAACCCA-TATATGGTCTTATC
1 TTACGTTCATAGTGCCATAACCCAGT-TATGGTCTTATC
58349339 CGTCAACTTA
Statistics
Matches: 212, Mismatches: 25, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
100 2 0.01
101 209 0.99
102 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
CTTACATATAAACACTGCCATGGTCCAACCATGGTC
Done.