Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 239 of 318
Found at i:75094969 original size:80 final size:79
Alignment explanation
Indices: 75094819--75094985 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
75094809 CGGAATATAA
* *
75094819 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
75094884 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
75094899 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
75094961 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
75094978 CCGGATAT
1 CCGGATAT
75094986 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:75095834 original size:17 final size:19
Alignment explanation
Indices: 75095811--75095856 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
75095801 AAGAAGCATG
75095811 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
75095829 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
75095847 AATCATGCTC
1 AATCATGCTC
75095857 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:75100795 original size:46 final size:46
Alignment explanation
Indices: 75100604--75100811 Score: 190
Period size: 46 Copynumber: 4.5 Consensus size: 46
75100594 GTGTGTGAGA
* * * *
75100604 TAGTGTAAGACATGTCTGGGACATGCATTAGCCA-CATTATGAGAGC
1 TAGTGTAAGACATGTCTGGGACATGCATTGGCTATGA-GATGAGAGC
* * * *
75100650 CAGTGTAAGACCATGTCTGGGACATGGTATCGGC-ATCGAGATGAGGGC
1 TAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCTAT-GAGATGAGAGC
* * *
75100698 TAGTCTAAGACATGTCTGGGACATGCATAGGCCT-TGAGACGTA-AGC
1 TAGTGTAAGACATGTCTGGGACATGCATTGG-CTATGAGATG-AGAGC
* * * *
75100744 CAGTGTAAGATATGTCTGGGACATGCATTGGCTATGAGATGATAGT
1 TAGTGTAAGACATGTCTGGGACATGCATTGGCTATGAGATGAGAGC
75100790 TAGTGTAAGACCATGTCTGGGA
1 TAGTGTAAGA-CATGTCTGGGA
75100812 TCGACTTGAG
Statistics
Matches: 131, Mismatches: 21, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
45 3 0.02
46 65 0.50
47 42 0.32
48 20 0.15
49 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.25
Consensus pattern (46 bp):
TAGTGTAAGACATGTCTGGGACATGCATTGGCTATGAGATGAGAGC
Found at i:75115099 original size:31 final size:31
Alignment explanation
Indices: 75115064--75115131 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
75115054 CCTTTTTAAC
*
75115064 TTAAAATCATATAGTTTCGATAAAATTATTG
1 TTAAAATCATACAGTTTCGATAAAATTATTG
75115095 TTAAAATCATACAGTTTCGATAAAATTATTG
1 TTAAAATCATACAGTTTCGATAAAATTATTG
*
75115126 TCAAAA
1 TTAAAA
75115132 AATAATTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (31 bp):
TTAAAATCATACAGTTTCGATAAAATTATTG
Found at i:75115916 original size:8 final size:8
Alignment explanation
Indices: 75115883--75115954 Score: 67
Period size: 8 Copynumber: 9.0 Consensus size: 8
75115873 ATAAGATATT
75115883 TAATATATA
1 TAATATA-A
*
75115892 TAATATAT
1 TAATATAA
*
75115900 TATTATAA
1 TAATATAA
*
75115908 TAATTTAA
1 TAATATAA
75115916 TAATATAA
1 TAATATAA
*
75115924 TAAGAT-A
1 TAATATAA
75115931 TAATATAA
1 TAATATAA
*
75115939 TAAGTAAAA
1 TAA-TATAA
75115948 TAA-ATAA
1 TAATATAA
75115955 AAGAAAATAA
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
7 9 0.18
8 28 0.55
9 14 0.27
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (8 bp):
TAATATAA
Found at i:75115950 original size:12 final size:15
Alignment explanation
Indices: 75115873--75115954 Score: 60
Period size: 16 Copynumber: 5.3 Consensus size: 15
75115863 TATTTTAAGT
75115873 ATAAGATATTTAATATA
1 ATAAGATA--TAATATA
* *
75115890 TATAATATATTATTATA
1 -ATAAGATA-TAATATA
**
75115907 ATAATTTAATAATATA
1 ATAAGAT-ATAATATA
75115923 ATAAGATATAATATA
1 ATAAGATATAATATA
*
75115938 ATAAG-TAAAATA-A
1 ATAAGATATAATATA
75115951 ATAA
1 ATAA
75115955 AAGAAAATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
13 5 0.09
14 6 0.11
15 13 0.23
16 17 0.30
17 8 0.14
18 7 0.12
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (15 bp):
ATAAGATATAATATA
Found at i:75116367 original size:21 final size:22
Alignment explanation
Indices: 75116322--75116372 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
75116312 CGGGATGATG
* *
75116322 ACACGGGCGTGTCATATCAGAC
1 ACACGGGCGTGTCACATAAGAC
*
75116344 ACA-GGGCGTGTCACATAAGCC
1 ACACGGGCGTGTCACATAAGAC
75116365 ACACGGGC
1 ACACGGGC
75116373 TTGTGGTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.14
Consensus pattern (22 bp):
ACACGGGCGTGTCACATAAGAC
Found at i:75120855 original size:15 final size:15
Alignment explanation
Indices: 75120825--75120868 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
75120815 AGAACAGAGC
*
75120825 AAGAAACGAAATAGGA
1 AAGAAA-GAAAAAGGA
75120841 AAGAAAGAAAAAGGA
1 AAGAAAGAAAAAGGA
75120856 AAGAAA-AAAAAGG
1 AAGAAAGAAAAAGG
75120869 GGAAATTAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 7 0.26
15 14 0.52
16 6 0.22
ACGTcount: A:0.70, C:0.02, G:0.25, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAAAGGA
Found at i:75121170 original size:20 final size:20
Alignment explanation
Indices: 75121122--75121162 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
75121112 TCCATCGGTT
*
75121122 GATGACACAGGCATGTCATA
1 GATGACACAGGCATGACATA
*
75121142 GATGACACAGGCGTGACATA
1 GATGACACAGGCATGACATA
75121162 G
1 G
75121163 TAGACACACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.20, G:0.29, T:0.17
Consensus pattern (20 bp):
GATGACACAGGCATGACATA
Found at i:75125642 original size:40 final size:41
Alignment explanation
Indices: 75125598--75125705 Score: 123
Period size: 40 Copynumber: 2.7 Consensus size: 41
75125588 TAATAGCTCA
* * *
75125598 CACAAATGCCTTCGGGACTTAACCCGGATTTGGGAAC-TCG
1 CACAAATGCCTTCGGGACTTAGCCCGGATATGGGAACTTAG
* **
75125638 CACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAG
1 CACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGAACTTAG
*
75125679 CAC-AAGGCCTTCGGGACTTAGCCCGGA
1 CACAAATGCCTTCGGGACTTAGCCCGGA
75125706 CATCATTCGA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
39 3 0.05
40 46 0.81
41 8 0.14
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (41 bp):
CACAAATGCCTTCGGGACTTAGCCCGGATATGGGAACTTAG
Found at i:75133705 original size:40 final size:40
Alignment explanation
Indices: 75133605--75133708 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 40
75133595 AATAGCTCGT
* * *
75133605 ACAAATGCCTTCGGGACTTAACCCGGATTTGGGAACTCGC
1 ACAAATGCCTTCGGGACTTAGCCCGGATATGGGAACTAGC
* **
75133645 ACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGC
1 ACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGAAC-TAGC
75133686 ACAAA-GCCTTCGGGACTTAGCCC
1 ACAAATGCCTTCGGGACTTAGCCC
75133709 AGACATCATT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 3 0.06
40 40 0.74
41 11 0.20
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
ACAAATGCCTTCGGGACTTAGCCCGGATATGGGAACTAGC
Found at i:75140277 original size:24 final size:24
Alignment explanation
Indices: 75140244--75140326 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 24
75140234 TTGGAGGCCT
*
75140244 AGCCTCTTTTAGT-AACTGGGGCAA
1 AGCC-CTTTTTGTAAACTGGGGCAA
*
75140268 AGCCTTTTTTGATAAACTGGGGCAA
1 AGCCCTTTTTG-TAAACTGGGGCAA
* *
75140293 AGCCCTTTTCGGTAAACTGGAGCAA
1 AGCCCTTTT-TGTAAACTGGGGCAA
75140318 AGCCCTTTT
1 AGCCCTTTT
75140327 GCACTTACTC
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.10
24 5 0.10
25 40 0.78
26 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTTGTAAACTGGGGCAA
Found at i:75140290 original size:25 final size:25
Alignment explanation
Indices: 75140257--75140326 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
75140247 CTCTTTTAGT
* *
75140257 AACTGGGGCAAAGCCTTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
75140282 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
75140307 AACTGGAGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
75140327 GCACTTACTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:75140385 original size:10 final size:10
Alignment explanation
Indices: 75140372--75140411 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
75140362 CATATATGAA
75140372 CATATCATGG
1 CATATCATGG
* *
75140382 CATACCAGGTG
1 CATATCATG-G
75140393 CATATCATGG
1 CATATCATGG
75140403 CATATCATG
1 CATATCATG
75140412 TACAAAACAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (10 bp):
CATATCATGG
Found at i:75142934 original size:43 final size:42
Alignment explanation
Indices: 75142882--75143016 Score: 207
Period size: 43 Copynumber: 3.1 Consensus size: 42
75142872 CTGGCATTAC
75142882 GCCTGCTAGGCACGAAGGCCTGAATACACATCAGTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCTGAATACACATCA-TGGCACGAA
* *
75142925 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACAAA
1 GCCTGCTAGGCACGAAGGCCTGAATACACATCAT-GGCACGAA
* *
75142968 GCCTGCTAGGCATGAAGGCCTGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCTGAATACACATCA-TGGCACGAA
75143011 GCCTGC
1 GCCTGC
75143017 GGGATTTAAC
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
42 1 0.01
43 83 0.99
ACGTcount: A:0.30, C:0.31, G:0.26, T:0.13
Consensus pattern (42 bp):
GCCTGCTAGGCACGAAGGCCTGAATACACATCATGGCACGAA
Found at i:75143059 original size:38 final size:38
Alignment explanation
Indices: 75143004--75143187 Score: 332
Period size: 38 Copynumber: 4.8 Consensus size: 38
75142994 CACATCACCG
75143004 GCACGAAGCCTGCGGGATTTAACCCGGATATATTACCA
1 GCACGAAGCCTGCGGGATTTAACCCGGATATATTACCA
*
75143042 GCACGAAGCCTGTGGGATTTAACCCGGATATATTACCA
1 GCACGAAGCCTGCGGGATTTAACCCGGATATATTACCA
*
75143080 GCACGAAGCCTGCGGGATTTAACCCAGATATATTACCA
1 GCACGAAGCCTGCGGGATTTAACCCGGATATATTACCA
*
75143118 GCACGAAGCCTGCGGGATTTAACCTGGATATATTACCA
1 GCACGAAGCCTGCGGGATTTAACCCGGATATATTACCA
*
75143156 GCACGAAGCTTGCGGGATTTAACCCGGATATA
1 GCACGAAGCCTGCGGGATTTAACCCGGATATA
75143188 ATTCTAGCAT
Statistics
Matches: 139, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 139 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.22
Consensus pattern (38 bp):
GCACGAAGCCTGCGGGATTTAACCCGGATATATTACCA
Found at i:75148391 original size:40 final size:40
Alignment explanation
Indices: 75148313--75148577 Score: 326
Period size: 40 Copynumber: 6.5 Consensus size: 40
75148303 ACCCAAGTAT
* *
75148313 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
* **
75148352 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
*
75148392 CTTCGGGACTTAGCCCGAATATAGTC-ACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
75148432 CTTCGGGACTTAG-CCGG-TATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATGC
75148473 CTTCGGGACTTAGCCCAGG-TATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCC-GGATATAGCAACTA---GCACAAATGC
* *
75148516 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
*
75148556 CTTCGGGACTTAGCCTGGATAT
1 CTTCGGGACTTAGCCCGGATAT
75148578 CATCCGAATA
Statistics
Matches: 204, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
37 1 0.00
38 9 0.04
39 14 0.07
40 101 0.50
41 24 0.12
42 4 0.02
43 51 0.25
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:75148550 original size:124 final size:119
Alignment explanation
Indices: 75148313--75148577 Score: 365
Period size: 124 Copynumber: 2.2 Consensus size: 119
75148303 ACCCAAGTAT
* *
75148313 CTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC
1 CTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
** *
75148378 ACTAGCATGAATGCCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATGC
66 ACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTAGCACAAATGC
75148432 CTTCGGGACTTAGCCGG-TATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCAGG-TAT
1 CTTCGGGACTTAGCCGGATATAGC-A--ACTCGCACAAATGCCTTCGGGACTTAGCCC-GGATAT
* *
75148495 AG-CAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
62 AGTC-ACTA---GCACAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTAGCACAAATGC
75148556 CTTCGGGACTTAGCCTGGATAT
1 CTTCGGGACTTAGCC-GGATAT
75148578 CATCCGAATA
Statistics
Matches: 129, Mismatches: 7, Indels: 13
0.87 0.05 0.09
Matches are distributed among these distances:
118 6 0.05
119 17 0.13
120 1 0.01
121 38 0.29
122 2 0.02
124 60 0.47
125 2 0.02
126 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (119 bp):
CTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
ACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTAGCACAAATGC
Found at i:75154900 original size:39 final size:39
Alignment explanation
Indices: 75154846--75155008 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
75154836 TGTGAATGAA
75154846 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
75154885 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
75154924 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * **
75154963 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCGTT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
75155003 TGTGCG
1 TGTGCG
75155009 GGTTACCATA
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 99 0.86
40 16 0.14
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:75159961 original size:39 final size:39
Alignment explanation
Indices: 75159871--75160091 Score: 277
Period size: 39 Copynumber: 5.5 Consensus size: 39
75159861 ACCCAAGTAT
* *
75159871 CTTCGGGATTTAGCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCGGATATAGTC-ACTAGCACAAATGC
* **
75159910 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAG-CCGGATATAGTCACTAGCACAAATGC
75159950 CTTC-GGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAG-CCGGATATAGTCACTAGCACAAATGC
*
75159989 CTTCGGGACTTAGCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCGGATATAGTC-ACTA---GCACAAATGC
* *
75160031 CTTCGGGACTTAGCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCGGATATAGTCACTAGCACAAATGC
75160070 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAG-CCGGATAT
75160092 CATCCGAATA
Statistics
Matches: 161, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 1 0.01
39 83 0.52
40 41 0.25
41 1 0.01
42 35 0.22
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (39 bp):
CTTCGGGACTTAGCCGGATATAGTCACTAGCACAAATGC
Found at i:75160064 original size:81 final size:78
Alignment explanation
Indices: 75159871--75160091 Score: 284
Period size: 81 Copynumber: 2.8 Consensus size: 78
75159861 ACCCAAGTAT
* * * *
75159871 CTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC
1 CTTCGGGACTTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAG-CCGGATATAGTC
**
75159936 ACTAGCATGAATGC
65 ACTAGCACAAATGC
* *
75159950 CTTC-GGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCGGGTATAG-C
1 CTTCGGGACTTAG-CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCGGATATAGTC
75160013 AACTACTCGCACAAATGC
65 -ACTA---GCACAAATGC
*
75160031 CTTCGGGACTTAGCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAG-CCGGATAT
75160092 CATCCGAATA
Statistics
Matches: 124, Mismatches: 11, Indels: 11
0.85 0.08 0.08
Matches are distributed among these distances:
77 1 0.01
78 20 0.16
79 39 0.31
81 49 0.40
82 15 0.12
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (78 bp):
CTTCGGGACTTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCGGATATAGTCA
CTAGCACAAATGC
Found at i:75167724 original size:16 final size:15
Alignment explanation
Indices: 75167684--75167725 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
75167674 AGATGATAAT
75167684 TATTAATATATAATTA
1 TATTAAT-TATAATTA
75167700 TATCT-ATTATAATGTA
1 TAT-TAATTATAAT-TA
75167716 TATTAATTAT
1 TATTAATTAT
75167726 TATCAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:75169314 original size:15 final size:15
Alignment explanation
Indices: 75169252--75169337 Score: 72
Period size: 15 Copynumber: 5.7 Consensus size: 15
75169242 TTTCATTGTA
75169252 TATTATATA-TA-TT
1 TATTATATATTATTT
75169265 TATTATATATT-TTT
1 TATTATATATTATTT
* *
75169279 CTCTATATTATCTTCATTT
1 -TAT-TA-TATATT-ATTT
75169298 TATTATATATTATTT
1 TATTATATATTATTT
*
75169313 TATTATTTATTA-TT
1 TATTATATATTATTT
75169327 TATTAGTATAT
1 TATTA-TATAT
75169338 ATATAATTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
13 9 0.15
14 10 0.17
15 21 0.36
16 7 0.12
17 7 0.12
18 2 0.03
19 3 0.05
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (15 bp):
TATTATATATTATTT
Found at i:75169329 original size:19 final size:19
Alignment explanation
Indices: 75169261--75169330 Score: 51
Period size: 19 Copynumber: 3.8 Consensus size: 19
75169251 ATATTATATA
*
75169261 TATTTATTATATATTTT-T
1 TATTTATTATTTATTTTAT
* *
75169279 CTCTATATTATCTTCATTTTAT
1 -TATTTATTAT-TT-ATTTTAT
75169301 TA--TA-TA-TTATTTTAT
1 TATTTATTATTTATTTTAT
75169316 TATTTATTATTTATT
1 TATTTATTATTTATT
75169331 AGTATATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
15 9 0.22
16 2 0.05
17 2 0.05
18 4 0.10
19 15 0.38
20 1 0.03
21 6 0.15
22 1 0.03
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTTATTATTTATTTTAT
Found at i:75169563 original size:16 final size:17
Alignment explanation
Indices: 75169542--75169573 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
75169532 TTATACATTG
75169542 TTTT-AAATATTTTATT
1 TTTTAAAATATTTTATT
75169558 TTTTAAAATATTTTAT
1 TTTTAAAATATTTTAT
75169574 CTATTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTAAAATATTTTATT
Found at i:75169600 original size:20 final size:21
Alignment explanation
Indices: 75169554--75169593 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
75169544 TTAAATATTT
*
75169554 TATTTTTTAAAATATTTTATC
1 TATTTTTTAAAATATTGTATC
75169575 TATTTTTTAAAAT-TTGTAT
1 TATTTTTTAAAATATTGTAT
75169594 TTGTTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (21 bp):
TATTTTTTAAAATATTGTATC
Found at i:75171105 original size:8 final size:8
Alignment explanation
Indices: 75171094--75171137 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
75171084 TATTTAATCA
75171094 TTTAATTT
1 TTTAATTT
75171102 TTTAATTT
1 TTTAATTT
75171110 TTTAATTT
1 TTTAATTT
* *
75171118 ATTAAATT
1 TTTAATTT
* *
75171126 ATTAATAT
1 TTTAATTT
75171134 TTTA
1 TTTA
75171138 TATTAATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
TTTAATTT
Found at i:75171155 original size:25 final size:24
Alignment explanation
Indices: 75171086--75171155 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
75171076 TTAAATTTTA
* * * *
75171086 TTTAATCATTTAATTTTTTAATTT
1 TTTAATTAATTAAATTTTTAATAT
* *
75171110 TTTAATTTATTAAATTATTAATAT
1 TTTAATTAATTAAATTTTTAATAT
75171134 TTTATATTAATTAAATTTTTAA
1 TTTA-ATTAATTAAATTTTTAA
75171156 GAAAATATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
24 22 0.59
25 15 0.41
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTAATTAATTAAATTTTTAATAT
Found at i:75179744 original size:29 final size:29
Alignment explanation
Indices: 75179711--75179784 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
75179701 GTGACGAGAT
75179711 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
75179740 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
75179769 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
75179785 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:75179800 original size:29 final size:29
Alignment explanation
Indices: 75179768--75179843 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
75179758 CTGGAAATAT
* *
75179768 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
75179797 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
75179826 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
75179844 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:75179811 original size:58 final size:58
Alignment explanation
Indices: 75179711--75179843 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
75179701 GTGACGAGAT
* * * * * *
75179711 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
75179769 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
75179827 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
75179844 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:75187620 original size:29 final size:29
Alignment explanation
Indices: 75187587--75187660 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
75187577 GTGACGAGAT
75187587 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
75187616 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
75187645 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
75187661 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:75187676 original size:29 final size:29
Alignment explanation
Indices: 75187644--75187719 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
75187634 CTGGAAATAT
* *
75187644 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
75187673 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
75187702 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
75187720 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:75187687 original size:58 final size:58
Alignment explanation
Indices: 75187587--75187719 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
75187577 GTGACGAGAT
* * * * * *
75187587 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
75187645 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
75187703 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
75187720 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:75193884 original size:24 final size:24
Alignment explanation
Indices: 75193852--75194008 Score: 273
Period size: 24 Copynumber: 6.6 Consensus size: 24
75193842 AATCTCAAAT
75193852 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
75193876 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
75193900 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
*
75193924 GCACTATGTGTGCGATTTAGTATG
1 GCACTATGTGTGCGATTTACTATG
*
75193948 GCACTATGTGTGCGATTTA--ATA
1 GCACTATGTGTGCGATTTACTATG
75193970 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
75193994 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
75194009 ACATAATAAG
Statistics
Matches: 126, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.17
24 105 0.83
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:75193904 original size:48 final size:48
Alignment explanation
Indices: 75193852--75194030 Score: 283
Period size: 48 Copynumber: 3.8 Consensus size: 48
75193842 AATCTCAAAT
*
75193852 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATG
*
75193900 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTAGTATG
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATG
75193948 GCACTATGTGTGCGATTTA--ATAGCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATG
** *
75193994 GCACTATGTGTGCGAACATAATA-AGCACTATGTGTGC
1 GCACTATGTGTGCG-ATTTACTATAGCACTATGTGTGC
75194031 AACGTTTGGT
Statistics
Matches: 123, Mismatches: 5, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
46 40 0.33
47 3 0.02
48 79 0.64
49 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATG
Found at i:75194003 original size:94 final size:95
Alignment explanation
Indices: 75193852--75194030 Score: 290
Period size: 94 Copynumber: 1.9 Consensus size: 95
75193842 AATCTCAAAT
* *
75193852 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-AT
1 GCACTATGTGTGCGATTTAC-ATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAAC
* *
75193916 TTACTATAGCACTATGTGTGCGATTTAGTATG
65 ATAATA-AGCACTATGTGTGCGATTTAGTATG
75193948 GCACTATGTGTGCGATTTA-ATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACA
1 GCACTATGTGTGCGATTTACATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACA
75194012 TAATAAGCACTATGTGTGC
66 TAATAAGCACTATGTGTGC
75194031 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
94 54 0.69
95 5 0.06
96 19 0.24
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (95 bp):
GCACTATGTGTGCGATTTACATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACA
TAATAAGCACTATGTGTGCGATTTAGTATG
Found at i:75194021 original size:24 final size:24
Alignment explanation
Indices: 75193852--75194030 Score: 229
Period size: 24 Copynumber: 7.5 Consensus size: 24
75193842 AATCTCAAAT
* *
75193852 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTAATATA
* *
75193876 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTAATATA
*
75193900 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTAATATA
* *
75193924 GCACTATGTGTGCGATTTAGTATG
1 GCACTATGTGTGCGATTTAATATA
75193948 GCACTATGTGTGCGATTT-A-ATA
1 GCACTATGTGTGCGATTTAATATA
* *
75193970 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTAATATA
**
75193994 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTAATATA
75194018 GCACTATGTGTGC
1 GCACTATGTGTGC
75194031 AACGTTTGGT
Statistics
Matches: 141, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
22 20 0.14
24 116 0.82
25 5 0.04
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTAATATA
Found at i:75201521 original size:23 final size:23
Alignment explanation
Indices: 75201465--75201528 Score: 119
Period size: 24 Copynumber: 2.7 Consensus size: 23
75201455 GGAATCTCAA
75201465 ATGCACTATGTGTGCGATTTACT
1 ATGCACTATGTGTGCGATTTACT
75201488 ATGGCACTATGTGTGCGATTTACT
1 AT-GCACTATGTGTGCGATTTACT
75201512 ATGCACTATGTGTGCGA
1 ATGCACTATGTGTGCGA
75201529 ACATAATAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
23 17 0.43
24 23 0.57
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (23 bp):
ATGCACTATGTGTGCGATTTACT
Found at i:75201546 original size:24 final size:23
Alignment explanation
Indices: 75201467--75201550 Score: 78
Period size: 24 Copynumber: 3.6 Consensus size: 23
75201457 AATCTCAAAT
** * *
75201467 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGACATAATA-A
** * *
75201491 GCACTATGTGTGCGATTTACTAT
1 GCACTATGTGTGCGACATAATAA
75201514 GCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCG-ACATAATAA
75201538 GCACTATGTGTGC
1 GCACTATGTGTGC
75201551 AACGTTTGGT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
23 14 0.26
24 40 0.74
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (23 bp):
GCACTATGTGTGCGACATAATAA
Found at i:75203267 original size:40 final size:40
Alignment explanation
Indices: 75203223--75203406 Score: 126
Period size: 40 Copynumber: 4.7 Consensus size: 40
75203213 GTTCAAAACA
* * ***
75203223 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* * *
75203263 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* * * * *
75203303 CCTTCGGG-CNATTAGCCCGGATATCATAGCTCGC-CAATTG
1 CCTTCGGGAC-A-TAACCCGGATATCACAACCCGCACAAATG
* * ** *
75203343 CCTTCGGG-CTTAGCCC-GATATCACAATTCGCCACAATTG
1 CCTTCGGGACATAACCCGGATATCACAACCCG-CACAAATG
* *
75203382 CCTTCGGG-CTTAGCCCGGATATCAC
1 CCTTCGGGACATAACCCGGATATCAC
75203407 TCGAACATTC
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
37 11 0.09
38 7 0.06
39 23 0.19
40 63 0.51
41 19 0.15
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
Found at i:75203390 original size:39 final size:39
Alignment explanation
Indices: 75203253--75203406 Score: 213
Period size: 40 Copynumber: 3.9 Consensus size: 39
75203243 TATGGTAACC
* *
75203253 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
75203293 CGCACAATTGCCTTCGGGCNATTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGC--TTAGCCCGGATATCACAACT
*
75203334 CGC-CAATTGCCTTCGGGCTTAGCCC-GATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
75203371 CGCCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CG-CACAATTGCCTTCGGGCTTAGCCCGGATATCAC
75203407 TCGAACATTC
Statistics
Matches: 102, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
37 11 0.11
38 8 0.08
39 23 0.23
40 40 0.39
41 20 0.20
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:75203390 original size:79 final size:78
Alignment explanation
Indices: 75203261--75203405 Score: 231
Period size: 79 Copynumber: 1.8 Consensus size: 78
75203251 CCCGCACAAA
75203261 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCNATTAGCCCGGATA
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGC--TTAGCCCGGATA
75203326 TCATAGCTCGCCAAT
64 TCATAGCTCGCCAAT
* *
75203341 TGCCTTCGGG-CTTAGCCC-GATATCACAATTCGCCACAATTGCCTTCGGGCTTAGCCCGGATAT
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCG-CACAATTGCCTTCGGGCTTAGCCCGGATAT
75203404 CA
65 CA
75203406 CTCGAACATT
Statistics
Matches: 62, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
77 15 0.24
78 13 0.21
79 24 0.39
80 10 0.16
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (78 bp):
TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
ATAGCTCGCCAAT
Found at i:75211284 original size:40 final size:39
Alignment explanation
Indices: 75211240--75211421 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
75211230 GTTCAAAACA
* * ** * *
75211240 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
75211280 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
75211320 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
75211359 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
75211398 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
75211422 CTCGAACATT
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:75211351 original size:39 final size:39
Alignment explanation
Indices: 75211270--75211422 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
75211260 TATGGTAACC
* *
75211270 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
75211310 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
75211349 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
75211388 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
75211423 TCGAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:75213195 original size:40 final size:40
Alignment explanation
Indices: 75213140--75213269 Score: 224
Period size: 40 Copynumber: 3.2 Consensus size: 40
75213130 GGCTGTCACA
75213140 GCATTTGTGCGAGTTGCTATATCCGGGTTAAGACCCGAAG
1 GCATTTGTGCGAGTTGCTATATCCGGGTTAAGACCCGAAG
* *
75213180 GCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGCTATATCCGGGTTAAGACCCGAAG
*
75213220 GCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAG
1 GCATTTGTGCGAGTTGCTATATCCGGGTTAAGACCCGAAG
*
75213260 GCAATTGTGC
1 GCATTTGTGC
75213270 TTGTGGTTAT
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 84 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (40 bp):
GCATTTGTGCGAGTTGCTATATCCGGGTTAAGACCCGAAG
Found at i:75213237 original size:80 final size:79
Alignment explanation
Indices: 75213140--75213289 Score: 246
Period size: 80 Copynumber: 1.9 Consensus size: 79
75213130 GGCTGTCACA
* * *
75213140 GCATTTGTGCGAGTTGCTATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
1 GCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTGGTTATATCC-
75213205 GGCTAAGACCCGAAG
65 GGCTAAGACCCGAAG
**
75213220 GCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCG
1 GCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTGGTTATATCCG
75213285 GCTAA
66 GCTAA
75213290 ATTCCGAAGA
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
79 6 0.09
80 59 0.91
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (79 bp):
GCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTGGTTATATCCG
GCTAAGACCCGAAG
Found at i:75214894 original size:43 final size:44
Alignment explanation
Indices: 75214792--75214930 Score: 130
Period size: 43 Copynumber: 3.2 Consensus size: 44
75214782 GTCCAAGGCG
* *
75214792 TGGTCTTACATGT-AATCAAATATCGATGCCACTGTCCGGGACA
1 TGGTCTTACATGTAAATCAAAGATCGATGCCACTGTCCGAGACA
*
75214835 -GAGTCTTACATG-AAATCAAAGAT-GATGTCGA-TGTCCGAGACA
1 TG-GTCTTACATGTAAATCAAAGATCGATG-CCACTGTCCGAGACA
* * * *
75214877 TGGTCTTACACGTAAATCATAAG-TCGATGCCAAC-ATCCCAGACG
1 TGGTCTTACATGTAAATCA-AAGATCGATGCC-ACTGTCCGAGACA
75214921 TGGTCTTACA
1 TGGTCTTACA
75214931 CGAAAACACA
Statistics
Matches: 79, Mismatches: 8, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
42 24 0.30
43 30 0.38
44 25 0.32
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (44 bp):
TGGTCTTACATGTAAATCAAAGATCGATGCCACTGTCCGAGACA
Found at i:75225578 original size:40 final size:39
Alignment explanation
Indices: 75225523--75225728 Score: 263
Period size: 40 Copynumber: 5.2 Consensus size: 39
75225513 TGAATGATAC
* *
75225523 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTG-TTATAT
75225563 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
* * *
75225603 CCGGGTTAAGA-CCGAATGCATTTGTGCGAGTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGTTATAT
* * *
75225641 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
* * *
75225681 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGT-GTTATAT
75225721 CC-GGCTAA
1 CCGGGCTAA
75225729 ATTCTGAAGA
Statistics
Matches: 146, Mismatches: 16, Indels: 9
0.85 0.09 0.05
Matches are distributed among these distances:
38 18 0.12
39 41 0.28
40 85 0.58
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGTTATAT
Found at i:75225645 original size:78 final size:79
Alignment explanation
Indices: 75225519--75225728 Score: 298
Period size: 78 Copynumber: 2.7 Consensus size: 79
75225509 CATTTGAATG
* * *
75225519 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTG-TTATATCCGGGCTAAGACCCGAAGGCA
* *
75225584 TTTGTGCTAGTTGTT
65 TTTGTGCGAGTTGCT
* * *
75225599 ATATCCGGGTTAAGA-CCGAATGCATTTGTGCGAGTGTTATATCCGGGCTAAGACCCGAAGGCAT
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGTTATATCCGGGCTAAGACCCGAAGGCAT
75225663 TTGTGCGAGTTGCT
66 TTGTGCGAGTTGCT
* *
75225677 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGT-GTTATATCCGGGCTAA
75225729 ATTCTGAAGA
Statistics
Matches: 115, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
78 54 0.47
79 40 0.35
80 21 0.18
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (79 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGTTATATCCGGGCTAAGACCCGAAGGCAT
TTGTGCGAGTTGCT
Found at i:75233672 original size:40 final size:40
Alignment explanation
Indices: 75233486--75233682 Score: 243
Period size: 40 Copynumber: 5.0 Consensus size: 40
75233476 CGGGCTACAC
* * *
75233486 CCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGA
1 CCCGAAGGCATTTGTGCGAGTGGTTATATCCGGGCTAAGA
* * *
75233526 CCCGAAGGCATTTGTACGAGTTGTTATATCCGGGTTAAGA
1 CCCGAAGGCATTTGTGCGAGTGGTTATATCCGGGCTAAGA
* *
75233566 CCCGAAGGCATTTGTGCAAGTGGTTATATCTGGGCTAAGA
1 CCCGAAGGCATTTGTGCGAGTGGTTATATCCGGGCTAAGA
* * * *
75233606 CCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGA
1 CCCGAAGGCATTTGTGCGAGTGGTTATATCCGGGCTAAGA
* ** *
75233646 CCCGAAGGCAATTGTGCTTGTGGCTATATCC-GGCTAA
1 CCCGAAGGCATTTGTGCGAGTGGTTATATCCGGGCTAA
75233683 ATTCCGAAGA
Statistics
Matches: 134, Mismatches: 23, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
39 5 0.04
40 129 0.96
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CCCGAAGGCATTTGTGCGAGTGGTTATATCCGGGCTAAGA
Found at i:75233674 original size:80 final size:80
Alignment explanation
Indices: 75233486--75233682 Score: 297
Period size: 80 Copynumber: 2.5 Consensus size: 80
75233476 CGGGCTACAC
* * *
75233486 CCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTGTACGAGTTGTT
1 CCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTTGTACGAGTTGCT
*
75233551 ATATCCGGGTTAAGA
66 ATACCCGGGTTAAGA
* * *
75233566 CCCGAAGGCATTTGTGCAAGTGGTTATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 CCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTTGTACGAGTTGCT
75233631 ATACCCGGGTTAAGA
66 ATACCCGGGTTAAGA
* * *
75233646 CCCGAAGGCAATTGTGCTTGTGGCTATATCC-GGCTAA
1 CCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAA
75233683 ATTCCGAAGA
Statistics
Matches: 105, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 6 0.06
80 99 0.94
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
CCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTTGTACGAGTTGCT
ATACCCGGGTTAAGA
Found at i:75235681 original size:27 final size:28
Alignment explanation
Indices: 75235624--75235693 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
75235614 AAACTTGTAC
*
75235624 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
75235652 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
75235679 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
75235694 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:75235704 original size:27 final size:27
Alignment explanation
Indices: 75235624--75235705 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
75235614 AAACTTGTAC
* * *
75235624 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
75235652 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
75235679 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
75235706 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:75241416 original size:29 final size:29
Alignment explanation
Indices: 75241357--75241460 Score: 86
Period size: 29 Copynumber: 3.6 Consensus size: 29
75241347 GTGACGAGAT
* **
75241357 TGGCACTAAGTGTGC-ATGCTGGAAATATA
1 TGGCACTAAGTGTGCGA-GCTCGAAACGTA
**
75241386 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGAGCTCGAAACGTA
** * * *
75241415 TGGCACTGTGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAA-CGTA
75241444 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
75241461 AATCGAGTAT
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
28 2 0.03
29 56 0.95
30 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTCGAAACGTA
Found at i:75245768 original size:27 final size:28
Alignment explanation
Indices: 75245711--75245780 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
75245701 AAACTTGTAC
*
75245711 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
75245739 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
75245766 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
75245781 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:75245791 original size:27 final size:27
Alignment explanation
Indices: 75245711--75245792 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
75245701 AAACTTGTAC
* * *
75245711 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
75245739 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
75245766 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
75245793 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:75255208 original size:23 final size:24
Alignment explanation
Indices: 75255172--75255317 Score: 128
Period size: 23 Copynumber: 6.3 Consensus size: 24
75255162 TACCGATATA
* *
75255172 TCAGCTCGTAAGAGCTTACT-TTT
1 TCAGCTCATTAGAGCTTACTGTTT
*
75255195 TCAGCTCATTAGAGCCTACTGTTT
1 TCAGCTCATTAGAGCTTACTGTTT
*
75255219 T-AGCTCATTGGAGCTTACTGTTT
1 TCAGCTCATTAGAGCTTACTGTTT
*
75255242 T-AGCTCATTGGAGCTTACTG--T
1 TCAGCTCATTAGAGCTTACTGTTT
***
75255263 TCAGCTCGA-TAGAGCTTA-TCAAT
1 TCAGCTC-ATTAGAGCTTACTGTTT
* *
75255286 TCAGCTCACTAGAGCTTA-TGTTCA
1 TCAGCTCATTAGAGCTTACTGTT-T
75255310 TCAGCTCA
1 TCAGCTCA
75255318 GGAGGAGCTT
Statistics
Matches: 105, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
21 3 0.03
22 14 0.13
23 76 0.72
24 12 0.11
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (24 bp):
TCAGCTCATTAGAGCTTACTGTTT
Found at i:75260477 original size:20 final size:19
Alignment explanation
Indices: 75260448--75260534 Score: 68
Period size: 20 Copynumber: 4.4 Consensus size: 19
75260438 ATTTTAAAAT
*
75260448 CAAGTGAAAATGATTTTAA
1 CAAGTCAAAATGATTTTAA
* *
75260467 CCAAGTCAAAATGATCTCAA
1 -CAAGTCAAAATGATTTTAA
* * *
75260487 TTAAGTTAAAATCATTTTAA
1 -CAAGTCAAAATGATTTTAA
75260507 CACA-TCAAAATGATTTTCAAA
1 CA-AGTCAAAATGATTTT--AA
75260528 CAAGTCA
1 CAAGTCA
75260535 GAATTGCTCC
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
19 12 0.24
20 32 0.63
21 7 0.14
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.30
Consensus pattern (19 bp):
CAAGTCAAAATGATTTTAA
Found at i:75268887 original size:29 final size:29
Alignment explanation
Indices: 75268854--75268927 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
75268844 CCTTCGAGCT
75268854 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
75268883 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
75268912 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
75268928 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:75268888 original size:58 final size:58
Alignment explanation
Indices: 75268795--75268927 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
75268785 ATACTCGATT
* * * * *
75268795 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
75268853 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
75268911 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
75268928 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:75276768 original size:29 final size:29
Alignment explanation
Indices: 75276735--75276808 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
75276725 CCTTCGAGCT
75276735 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
75276764 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
75276793 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
75276809 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:75276769 original size:58 final size:58
Alignment explanation
Indices: 75276676--75276808 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
75276666 ATACTCGATT
* * * * *
75276676 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
75276734 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
75276792 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
75276809 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:75282427 original size:71 final size:71
Alignment explanation
Indices: 75282341--75282504 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
75282331 CGATTTGTCT
*
75282341 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTATCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
75282406 CTTTCA
66 CTTTCA
75282412 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
75282477 CTTTCA
66 CTTTCA
75282483 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
75282505 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:75282542 original size:71 final size:71
Alignment explanation
Indices: 75282341--75282538 Score: 255
Period size: 71 Copynumber: 2.8 Consensus size: 71
75282331 CGATTTGTCT
* * *
75282341 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTA-TCTACATTTA
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGTCTACATTTA
75282405 TCTTTCA
65 TCTTTCA
* * *
75282412 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAG-CTACATTTA
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGTCTACATTTA
75282476 TCTTTCA
65 TCTTTCA
* *
75282483 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAG-CTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGTCTAC
75282539 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 95 0.79
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGTCTACATTTAT
CTTTCA
Found at i:75291285 original size:40 final size:39
Alignment explanation
Indices: 75291238--75291408 Score: 189
Period size: 39 Copynumber: 4.4 Consensus size: 39
75291228 CTTCGGGACA
* ** * *
75291238 TAGCCCGGTTATGGTAACCCGCACAAATGCCTTCGGGACT
1 TAGCCCGGATATCATAACTCGCACAAATGCCTCCGGG-CT
* * *
75291278 TAACCCGGATATCACAACTCGCACAATTGCCTCCGGGCT
1 TAGCCCGGATATCATAACTCGCACAAATGCCTCCGGGCT
*
75291317 TAGCCCGGATATCATAACTCGCACAATTGCCTCCGGGCT
1 TAGCCCGGATATCATAACTCGCACAAATGCCTCCGGGCT
* * * * * * *
75291356 TAGCCCTGATGTCACAATTTGCACAATTGCCTTCGGGCT
1 TAGCCCGGATATCATAACTCGCACAAATGCCTCCGGGCT
75291395 TAGCCCGGATATCA
1 TAGCCCGGATATCA
75291409 CTCGAACATT
Statistics
Matches: 113, Mismatches: 18, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
39 84 0.74
40 29 0.26
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
TAGCCCGGATATCATAACTCGCACAAATGCCTCCGGGCT
Found at i:75291336 original size:39 final size:39
Alignment explanation
Indices: 75291257--75291409 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
75291247 TATGGTAACC
* * *
75291257 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTCCGGG-CTTAGCCCGGATATCACAACT
*
75291297 CGCACAATTGCCTCCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTCCGGGCTTAGCCCGGATATCACAACT
* * *
75291336 CGCACAATTGCCTCCGGGCTTAGCCCTGATGTCACAATT
1 CGCACAATTGCCTCCGGGCTTAGCCCGGATATCACAACT
* *
75291375 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTCCGGGCTTAGCCCGGATATCAC
75291410 TCGAACATTT
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 85 0.84
40 16 0.16
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTCCGGGCTTAGCCCGGATATCACAACT
Found at i:75291393 original size:78 final size:79
Alignment explanation
Indices: 75291226--75291408 Score: 233
Period size: 78 Copynumber: 2.3 Consensus size: 79
75291216 TCATTCAAAC
* * ** *
75291226 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAATGCCTCCGGGACTTAACCCGGATATC
75291291 ACAACTCGCACAATT
65 ACAACTCGCACAATT
* * * * * *
75291306 GCCTCCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTCCGGG-CTTAGCCCTGATGTCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAATGCCTCCGGGACTTAACCCGGATATCA
* *
75291370 CAATTTGCACAATT
66 CAACTCGCACAATT
75291384 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
75291409 CTCGAACATT
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
78 49 0.55
79 32 0.36
80 8 0.09
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.23
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAATGCCTCCGGGACTTAACCCGGATATCA
CAACTCGCACAATT
Found at i:75293605 original size:40 final size:40
Alignment explanation
Indices: 75293536--75293800 Score: 365
Period size: 40 Copynumber: 6.7 Consensus size: 40
75293526 GGATATAACC
* * * * *
75293536 ACTCGCAC-AAGGCCATCGGGTCTTAGCCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* *
75293575 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG-ATATACTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
75293615 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
75293655 ACTCGCACAAATGGCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
**
75293695 ACTAACACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
75293735 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
75293775 ACTAGCACAAATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
75293801 ACCCCGTTAG
Statistics
Matches: 205, Mismatches: 19, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
39 7 0.03
40 196 0.96
41 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:75299115 original size:28 final size:28
Alignment explanation
Indices: 75299050--75299148 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
75299040 CATGAGATTG
* * *
75299050 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
75299079 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
75299107 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
75299135 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
75299149 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:75307122 original size:28 final size:28
Alignment explanation
Indices: 75307057--75307155 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
75307047 CATGAGATTG
* * *
75307057 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
75307086 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
75307114 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
75307142 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
75307156 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:75309653 original size:17 final size:17
Alignment explanation
Indices: 75309628--75309668 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
75309618 GATGGGCCGT
*
75309628 GTGGACCTAATAGGCTC
1 GTGGGCCTAATAGGCTC
*
75309645 GTGGGCCTAATGGGCTC
1 GTGGGCCTAATAGGCTC
75309662 GTGGGCC
1 GTGGGCC
75309669 ACATACAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.24, G:0.39, T:0.22
Consensus pattern (17 bp):
GTGGGCCTAATAGGCTC
Found at i:75310131 original size:28 final size:27
Alignment explanation
Indices: 75310099--75310173 Score: 73
Period size: 28 Copynumber: 2.8 Consensus size: 27
75310089 TTGGAGAAAG
*
75310099 TACTG-TATTAGTTGCTTTGCCACGTAAT
1 TACTGCTATTAGTAGCTTTGCCACGT--T
* * *
75310127 TACTGCT-CTGGTGGCTTTGCCACGTT
1 TACTGCTATTAGTAGCTTTGCCACGTT
*
75310153 TACTGTTATTAGTAGCTTTGC
1 TACTGCTATTAGTAGCTTTGC
75310174 AGCGTTACTG
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
26 7 0.18
27 10 0.26
28 20 0.53
29 1 0.03
ACGTcount: A:0.16, C:0.20, G:0.21, T:0.43
Consensus pattern (27 bp):
TACTGCTATTAGTAGCTTTGCCACGTT
Found at i:75310342 original size:27 final size:28
Alignment explanation
Indices: 75310311--75310375 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
75310301 TATTTCACTG
* *
75310311 AACTAATACTGTATTGGGCTTAGGC-CA
1 AACTAATACTGTATAGGGCTAAGGCTCA
* *
75310338 CACTATTACTGTATAGGGCTAAGGCTCA
1 AACTAATACTGTATAGGGCTAAGGCTCA
75310366 AACT-ATACTG
1 AACTAATACTG
75310376 ATACCGAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 26 0.84
28 5 0.16
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (28 bp):
AACTAATACTGTATAGGGCTAAGGCTCA
Found at i:75313944 original size:34 final size:35
Alignment explanation
Indices: 75313900--75313982 Score: 114
Period size: 34 Copynumber: 2.4 Consensus size: 35
75313890 CTATACTAAT
* * *
75313900 ATGGGTTAAGGCCCAGACTGCTTTTATTACTG-AA
1 ATGGGCTAAGGCCCAGACTGCTATTACTACTGAAA
*
75313934 ATGGGCTAAGGCCCAGACTGCTATTGCTACTGAAA
1 ATGGGCTAAGGCCCAGACTGCTATTACTACTGAAA
*
75313969 AGGGGCTAAGGCCC
1 ATGGGCTAAGGCCC
75313983 TAACTAAAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 28 0.65
35 15 0.35
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.24
Consensus pattern (35 bp):
ATGGGCTAAGGCCCAGACTGCTATTACTACTGAAA
Found at i:75320462 original size:37 final size:37
Alignment explanation
Indices: 75320401--75320509 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
75320391 AGCTCAGACG
* *
75320401 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
75320438 AAATCTCCACACGTAGTCACCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
75320475 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
75320510 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:75320724 original size:47 final size:47
Alignment explanation
Indices: 75320672--75321045 Score: 532
Period size: 47 Copynumber: 8.0 Consensus size: 47
75320662 TTTCACACTA
* * * * *
75320672 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
75320719 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
75320766 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * * *
75320813 GCCATTCGGCATCATCACATATATGCATGTTCATATTCAACACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
75320860 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * * * * *
75320907 TCCATTCAGCCTTATCTCATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
75320954 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* ***
75321001 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACAT
75321046 AAAATCCTAA
Statistics
Matches: 288, Mismatches: 39, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 288 1.00
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
Found at i:75334036 original size:2 final size:2
Alignment explanation
Indices: 75334029--75334057 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
75334019 TCCAAACATT
75334029 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
75334058 TCAGTCAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:75336166 original size:43 final size:43
Alignment explanation
Indices: 75336100--75336184 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
75336090 AAATCATACA
* *
75336100 ATGCCAATGTCCTAGACGTGGTCTTACAT-GTAACCACATATTG
1 ATGCCAATGTCCCAGACGTGGTCTTAC-TCGTAAACACATATTG
*
75336143 ATGCCACTGTCCCAGACAG-GGTCTTACTCGTAAACACATATT
1 ATGCCAATGTCCCAGAC-GTGGTCTTACTCGTAAACACATATT
75336185 CGGAATCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 35 0.95
44 1 0.03
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACTCGTAAACACATATTG
Found at i:75343081 original size:39 final size:39
Alignment explanation
Indices: 75343027--75343178 Score: 232
Period size: 39 Copynumber: 3.9 Consensus size: 39
75343017 AATGTTCGAG
75343027 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
75343066 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * * *
75343105 TGATACCCGGGCTAAGCCCGAAGGTAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
75343144 TGATATCCGGGTTAAGTCCCGAAGACATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
75343179 GGTTACCATA
Statistics
Matches: 103, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 88 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:75350443 original size:40 final size:39
Alignment explanation
Indices: 75350262--75350413 Score: 232
Period size: 39 Copynumber: 3.9 Consensus size: 39
75350252 AATGTTCGAG
*
75350262 TGATATCTGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
75350301 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCTAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
75350340 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
75350379 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
75350414 GGTTACCATA
Statistics
Matches: 103, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 86 0.83
40 17 0.17
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:75352572 original size:22 final size:23
Alignment explanation
Indices: 75352546--75352590 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
75352536 ACCTGATTAG
75352546 AATACGACACAT-AAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
75352568 AATACGACACATAAAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
75352591 TCAGTAAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (23 bp):
AATACGACACATAAAGTGCCTGA
Found at i:75352810 original size:23 final size:23
Alignment explanation
Indices: 75352784--75352851 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 23
75352774 TGTCCAACCA
75352784 AAACACACCAGTATAATCCTCCC
1 AAACACACCAGTATAATCCTCCC
75352807 AAACACACCAGTATCATATAATCCTCCC
1 AAACACACCAG-----TATAATCCTCCC
*
75352835 AAACACACCAGAATAAT
1 AAACACACCAGTATAAT
75352852 ATAATCCATC
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
23 16 0.41
28 23 0.59
ACGTcount: A:0.44, C:0.34, G:0.04, T:0.18
Consensus pattern (23 bp):
AAACACACCAGTATAATCCTCCC
Found at i:75352877 original size:29 final size:28
Alignment explanation
Indices: 75352795--75352878 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
75352785 AACACACCAG
* *
75352795 TATAATCCTCCCAAACACACCAGTATCA
1 TATAATCCTCCCAAACACACCAGAATAA
75352823 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCCAAACACACCAGAATAA
* *
75352851 TATAATCCATCCAAAACACACTAGAATA
1 TATAATCC-TCCCAAACACACCAGAATA
75352879 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 34 0.67
29 17 0.33
ACGTcount: A:0.45, C:0.31, G:0.04, T:0.20
Consensus pattern (28 bp):
TATAATCCTCCCAAACACACCAGAATAA
Found at i:75359248 original size:81 final size:79
Alignment explanation
Indices: 75359148--75359295 Score: 192
Period size: 79 Copynumber: 1.8 Consensus size: 79
75359138 GATATTCGGG
* * * *
75359148 CTTTGAGCCTAGCAAGCCTTGTGCTG-GTGAATTATATCTGGCTTAGGCCTAGCAGGC-TTATTG
1 CTTTGAGCCTAGCAAGCCTTGTGCCGTGTG-A-GAT-TCAGGCATAGGCCTAGCAGGCTTTA-TG
75359211 CCGGTGTATAATATCAGA
62 CCGGTGTATAATATCAGA
* *
75359229 CTTTGAGTCTAGCAGGCCTTGTGCCGTGTGAGATTCAGGCATAGGCCTAGCAGGCTTTATGCCGG
1 CTTTGAGCCTAGCAAGCCTTGTGCCGTGTGAGATTCAGGCATAGGCCTAGCAGGCTTTATGCCGG
75359294 TG
66 TG
75359296 AATTATTATA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
79 27 0.46
80 5 0.08
81 24 0.41
82 3 0.05
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (79 bp):
CTTTGAGCCTAGCAAGCCTTGTGCCGTGTGAGATTCAGGCATAGGCCTAGCAGGCTTTATGCCGG
TGTATAATATCAGA
Found at i:75359254 original size:41 final size:41
Alignment explanation
Indices: 75359148--75359259 Score: 111
Period size: 40 Copynumber: 2.7 Consensus size: 41
75359138 GATATTCGGG
* * * * *
75359148 CTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTATATCTGG
1 CTTTGAGCCTAGCAGGCCTTGTGCCGGTGAATAATATCAGA
* * *
75359189 CTTAG-GCCTAGCAGG-CTTATTGCCGGTGTATAATATCAGA
1 CTTTGAGCCTAGCAGGCCTT-GTGCCGGTGAATAATATCAGA
*
75359229 CTTTGAGTCTAGCAGGCCTTGTGCCGTGTGA
1 CTTTGAGCCTAGCAGGCCTTGTGCCG-GTGA
75359260 GATTCAGGCA
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
39 3 0.05
40 28 0.51
41 18 0.33
42 6 0.11
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.32
Consensus pattern (41 bp):
CTTTGAGCCTAGCAGGCCTTGTGCCGGTGAATAATATCAGA
Found at i:75359318 original size:24 final size:24
Alignment explanation
Indices: 75359284--75359339 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
75359274 CCTAGCAGGC
75359284 TTTATGCCGGTGAATTATTATAAG
1 TTTATGCCGGTGAATTATTATAAG
*
75359308 TTTATGTCGGTGAATTATTATAAG
1 TTTATGCCGGTGAATTATTATAAG
75359332 TTTATGCC
1 TTTATGCC
75359340 TAAAAGAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.45
Consensus pattern (24 bp):
TTTATGCCGGTGAATTATTATAAG
Found at i:75366044 original size:39 final size:39
Alignment explanation
Indices: 75365932--75366047 Score: 117
Period size: 40 Copynumber: 2.9 Consensus size: 39
75365922 CTGGTGAATT
* *
75365932 AAATCAGGCTTATGCCTAGCAGGCTTATTGCCGGTGTATA
1 AAATCAGGCTTAGGCCTAGCAGGCTTA-TGCCGGTGTAGA
* * * *
75365972 AAATCAGACTTTGAGTCTAGCAGGCCTTGTGCCGGTGT-GA
1 AAATCAGGCTTAG-GCCTAGCAGG-CTTATGCCGGTGTAGA
* *
75366012 GATTCAGGCTTAGGCCTAGCAGGCTTTATGCCGGTG
1 AAATCAGGCTTAGGCCTAGCAGGC-TTATGCCGGTG
75366048 AATTATGATA
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
38 1 0.02
39 19 0.31
40 20 0.33
41 18 0.30
42 3 0.05
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (39 bp):
AAATCAGGCTTAGGCCTAGCAGGCTTATGCCGGTGTAGA
Found at i:75371531 original size:10 final size:10
Alignment explanation
Indices: 75371516--75371544 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
75371506 CTATTTGACG
75371516 AATTTGATAC
1 AATTTGATAC
75371526 AATTTGATAC
1 AATTTGATAC
75371536 AATTTGATA
1 AATTTGATA
75371545 ATTGCAAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (10 bp):
AATTTGATAC
Found at i:75376353 original size:8 final size:8
Alignment explanation
Indices: 75376337--75376368 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
75376327 ATGGGCTGAA
75376337 AACGGGCC
1 AACGGGCC
*
75376345 AATGGGCC
1 AACGGGCC
75376353 AACGGGCC
1 AACGGGCC
75376361 AACGGGCC
1 AACGGGCC
75376369 CACTTTGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.25, C:0.34, G:0.38, T:0.03
Consensus pattern (8 bp):
AACGGGCC
Found at i:75376662 original size:27 final size:26
Alignment explanation
Indices: 75376622--75376673 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
75376612 CTCGTTGCAA
*
75376622 TCTGGTGGCCTCGTCACAAATATCTGT
1 TCTGGTGACCTCGTCAC-AATATCTGT
*
75376649 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGTCACAATATCTG
75376674 GCAGCCTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGTCACAATATCTGT
Found at i:75376778 original size:27 final size:26
Alignment explanation
Indices: 75376726--75376785 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
75376716 ATATATATAT
*
75376726 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
75376752 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
75376779 ATATCTG
1 ATATCTG
75376786 ACAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:75377707 original size:2 final size:2
Alignment explanation
Indices: 75377702--75377732 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
75377692 TGATTCACAC
75377702 AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
75377733 CTCATTCTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:75381186 original size:40 final size:39
Alignment explanation
Indices: 75381142--75381323 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
75381132 GTTCAAAACA
* * ** * *
75381142 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
75381182 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
75381222 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
75381261 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
75381300 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
75381324 CTCGAACATT
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:75381253 original size:39 final size:39
Alignment explanation
Indices: 75381172--75381324 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
75381162 TATGGTAACC
* *
75381172 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
75381212 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
75381251 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
75381290 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
75381325 TCGAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:75388609 original size:16 final size:16
Alignment explanation
Indices: 75388585--75388623 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
75388575 CCCCAAGGCG
*
75388585 AAAAACTCGGGCGAGC
1 AAAACCTCGGGCGAGC
75388601 AAAACCTCGGGCGAGC
1 AAAACCTCGGGCGAGC
75388617 AAAACCT
1 AAAACCT
75388624 ATCCACCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.28, G:0.26, T:0.08
Consensus pattern (16 bp):
AAAACCTCGGGCGAGC
Found at i:75392114 original size:40 final size:41
Alignment explanation
Indices: 75392069--75392235 Score: 164
Period size: 40 Copynumber: 4.2 Consensus size: 41
75392059 CGGAATATAA
*
75392069 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
75392109 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
75392149 CCGGATGT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
75392189 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
75392228 CCGGATAT
1 CCGGATAT
75392236 CGTTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 17 0.16
40 87 0.83
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:75395294 original size:19 final size:19
Alignment explanation
Indices: 75395266--75395302 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
75395256 TGAGAGAAAC
75395266 AAAAACAAAGAAAGAAAAA
1 AAAAACAAAGAAAGAAAAA
* *
75395285 AAAAAGAAAGGAAGAAAA
1 AAAAACAAAGAAAGAAAA
75395303 GTGTTCATCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAAACAAAGAAAGAAAAA
Found at i:75395624 original size:40 final size:40
Alignment explanation
Indices: 75395565--75395671 Score: 115
Period size: 40 Copynumber: 2.7 Consensus size: 40
75395555 CAATTGAATG
* * * * *
75395565 ATATCCGGGCTATGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
75395605 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
75395645 ACATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
75395672 CGTGCAAGTC
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:75395691 original size:40 final size:39
Alignment explanation
Indices: 75395606--75395732 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
75395596 CTGGAAATTA
* * *
75395606 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGTTC
75395644 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
* * *
75395686 TATCCGGGCTAAGACCCGAGGGCATTCGTGCATGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
75395726 TATCCGG
1 TATCCGG
75395733 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 70 0.91
41 1 0.01
42 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTC
Found at i:75402363 original size:19 final size:19
Alignment explanation
Indices: 75402335--75402371 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
75402325 TGAGAGAAAC
75402335 AAAAACAAAGAAAGAAAAA
1 AAAAACAAAGAAAGAAAAA
* *
75402354 AAAAAGAAAGGAAGAAAA
1 AAAAACAAAGAAAGAAAA
75402372 GTGTTCATCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAAACAAAGAAAGAAAAA
Found at i:75402693 original size:40 final size:40
Alignment explanation
Indices: 75402634--75402740 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
75402624 CAATTGAATG
* * * *
75402634 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
75402674 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
75402714 ACATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
75402741 CGTGCAAGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:75402760 original size:40 final size:39
Alignment explanation
Indices: 75402675--75402801 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
75402665 CTGGAAATTA
* * *
75402675 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGTTC
75402713 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
* * *
75402755 TATCCGGGCTAAGACCCGAGGGCATTCGTGCATGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
75402795 TATCCGG
1 TATCCGG
75402802 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 70 0.91
41 1 0.01
42 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTC
Found at i:75406212 original size:21 final size:21
Alignment explanation
Indices: 75406188--75406228 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
75406178 TTCATCAATC
*
75406188 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
75406209 TACAGGTTGAGGAATCGGGG
1 TACACCTTGAGGAATCGGGG
75406229 AGGTGGGGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.17, G:0.41, T:0.20
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:75411939 original size:28 final size:29
Alignment explanation
Indices: 75411899--75411970 Score: 103
Period size: 28 Copynumber: 2.5 Consensus size: 29
75411889 AAAATTGTAC
* *
75411899 AGCACTAAGTGTGCGAGTTCG-AT-TATGT
1 AGCACTAAGTGTGCGAGTT-GAATACATAT
75411927 AGCACTAAGTGTGCGAGTTGAATACATAT
1 AGCACTAAGTGTGCGAGTTGAATACATAT
75411956 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
75411971 GATTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 1 0.03
28 21 0.52
29 18 0.45
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGTTGAATACATAT
Found at i:75417309 original size:18 final size:18
Alignment explanation
Indices: 75417295--75417365 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
75417285 AAATTGACCG
*
75417295 CTACTGAATAATTGACAA
1 CTACTGAATAATTGACTA
* *
75417313 TTACTGAATCAA-TGACTG
1 CTACTGAAT-AATTGACTA
* *
75417331 TTACTGAATAACTGACTA
1 CTACTGAATAATTGACTA
*
75417349 CTACTAAATAATTGACT
1 CTACTGAATAATTGACT
75417366 GATATTGAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
17 2 0.05
18 40 0.91
19 2 0.05
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.32
Consensus pattern (18 bp):
CTACTGAATAATTGACTA
Found at i:75417336 original size:36 final size:36
Alignment explanation
Indices: 75417279--75417377 Score: 103
Period size: 36 Copynumber: 2.8 Consensus size: 36
75417269 TAAAGAAAGG
* * * *
75417279 TACTAAA-AATTGACCGCTACTGAATAATTGACAAT
1 TACTAAATAATTGACTGATACTGAATAACTGACAAC
* * *
75417314 TACTGAATCAA-TGACTGTTACTGAATAACTGACTAC
1 TACTAAAT-AATTGACTGATACTGAATAACTGACAAC
*
75417350 TACTAAATAATTGACTGATATTGAATAA
1 TACTAAATAATTGACTGATACTGAATAA
75417378 ACGACCGTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
35 8 0.15
36 42 0.81
37 2 0.04
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.31
Consensus pattern (36 bp):
TACTAAATAATTGACTGATACTGAATAACTGACAAC
Found at i:75417376 original size:18 final size:19
Alignment explanation
Indices: 75417286--75417377 Score: 70
Period size: 18 Copynumber: 5.1 Consensus size: 19
75417276 AGGTACTAAA
*
75417286 AATTGACCG-CTACTGAAT
1 AATTGACTGACTACTGAAT
* *
75417304 AATTGAC-AATTACTGAAT
1 AATTGACTGACTACTGAAT
*
75417322 CAA-TGACTG-TTACTGAAT
1 -AATTGACTGACTACTGAAT
* *
75417340 AACTGACT-ACTACTAAAT
1 AATTGACTGACTACTGAAT
*
75417358 AATTGACTGA-TATTGAAT
1 AATTGACTGACTACTGAAT
75417376 AA
1 AA
75417378 ACGACCGTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
17 2 0.03
18 55 0.92
19 3 0.05
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (19 bp):
AATTGACTGACTACTGAAT
Found at i:75419914 original size:18 final size:18
Alignment explanation
Indices: 75419877--75419915 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
75419867 TAAATGATGA
75419877 ATTTGAAGTATTAGTTGTT
1 ATTTGAAGTATTA-TTGTT
75419896 ATTTGTAAGTATT-TTGTT
1 ATTTG-AAGTATTATTGTT
75419914 AT
1 AT
75419916 GTAATTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 5 0.26
20 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (18 bp):
ATTTGAAGTATTATTGTT
Found at i:75423181 original size:47 final size:47
Alignment explanation
Indices: 75423127--75423458 Score: 495
Period size: 47 Copynumber: 7.1 Consensus size: 47
75423117 TTAGGATTTT
** * *
75423127 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
75423174 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
75423221 ATGTGATGAATGTGAACATGCATATAGGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
75423268 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
75423315 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* **
75423362 ATGTGATGAATGTGCACATGCATATATGTGATAAGGAAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
75423409 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
75423456 ATG
1 ATG
75423459 CGAAATGTGT
Statistics
Matches: 262, Mismatches: 22, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
47 260 0.99
48 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:75423274 original size:22 final size:22
Alignment explanation
Indices: 75423248--75423368 Score: 63
Period size: 22 Copynumber: 5.2 Consensus size: 22
75423238 ATGCATATAG
75423248 GTGATAAGGCCGAATGGCCAAT
1 GTGATAAGGCCGAATGGCCAAT
* *
75423270 GTGATGAATG-TGAACAT-G-CATAT
1 GTGAT-AAGGCCG-A-ATGGCCA-AT
75423293 GTGTGATAAGGCCGAATGGCCAAT
1 --GTGATAAGGCCGAATGGCCAAT
* * *
75423317 GTGATGAATG-TGAACAT-GCATATAT
1 GTGAT-AAGGCCG-A-ATGGC-CA-AT
75423342 GTGATAAGGCCGAATGGCCAAT
1 GTGATAAGGCCGAATGGCCAAT
75423364 GTGAT
1 GTGAT
75423369 GAATGTGCAC
Statistics
Matches: 73, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 21 0.29
23 18 0.25
24 18 0.25
25 16 0.22
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
GTGATAAGGCCGAATGGCCAAT
Found at i:75423488 original size:46 final size:46
Alignment explanation
Indices: 75423432--75423568 Score: 220
Period size: 46 Copynumber: 3.0 Consensus size: 46
75423422 GGAAGTGTAT
75423432 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
75423478 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
75423524 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
75423569 TGCATATATA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:75437578 original size:18 final size:19
Alignment explanation
Indices: 75437541--75437580 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
75437531 TAAAATGCCC
75437541 TAAATATGAATATTTGGGT
1 TAAATATGAATATTTGGGT
75437560 TAAAT-TGAATGATTT-GGT
1 TAAATATGAAT-ATTTGGGT
75437578 TAA
1 TAA
75437581 TAAAAGAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (19 bp):
TAAATATGAATATTTGGGT
Found at i:75441484 original size:40 final size:40
Alignment explanation
Indices: 75441439--75441605 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
75441429 CGGAATATAA
75441439 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
75441479 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
75441519 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
75441559 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
75441598 CCGGATAT
1 CCGGATAT
75441606 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:75450961 original size:18 final size:18
Alignment explanation
Indices: 75450938--75450974 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
75450928 TAACACCTTG
* *
75450938 ATTTTCGGGATTTTGGTA
1 ATTTTCGAGAATTTGGTA
75450956 ATTTTCGAGAATTTGGTA
1 ATTTTCGAGAATTTGGTA
75450974 A
1 A
75450975 AATTTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.46
Consensus pattern (18 bp):
ATTTTCGAGAATTTGGTA
Found at i:75452868 original size:10 final size:10
Alignment explanation
Indices: 75452849--75452909 Score: 68
Period size: 10 Copynumber: 5.9 Consensus size: 10
75452839 ATTTTGGTAT
75452849 ACATGATATG
1 ACATGATATG
*
75452859 ACATGTTATG
1 ACATGATATG
75452869 ACATGATATG
1 ACATGATATG
75452879 CACATGATATG
1 -ACATGATATG
** *
75452890 TTATGAGATG
1 ACATGATATG
75452900 CACATGATAT
1 -ACATGATAT
75452910 ACTCATTATA
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
10 25 0.61
11 16 0.39
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (10 bp):
ACATGATATG
Found at i:75452889 original size:21 final size:21
Alignment explanation
Indices: 75452849--75452909 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
75452839 ATTTTGGTAT
*
75452849 ACATGATATG-ACATGTTATG
1 ACATGATATGCACATGATATG
75452869 ACATGATATGCACATGATATG
1 ACATGATATGCACATGATATG
** *
75452890 TTATGAGATGCACATGATAT
1 ACATGATATGCACATGATAT
75452910 ACTCATTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 10 0.28
21 26 0.72
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (21 bp):
ACATGATATGCACATGATATG
Found at i:75453539 original size:22 final size:23
Alignment explanation
Indices: 75453494--75453539 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
75453484 TGGGAATATT
*
75453494 TTTTTCTTCTTAATAACTCTAAA
1 TTTTTCTTCTTAATAACTCAAAA
* *
75453517 TTTTTC-TGTTAATAATTCAAAA
1 TTTTTCTTCTTAATAACTCAAAA
75453539 T
1 T
75453540 GGGCTAGACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.33, C:0.13, G:0.02, T:0.52
Consensus pattern (23 bp):
TTTTTCTTCTTAATAACTCAAAA
Found at i:75471082 original size:30 final size:29
Alignment explanation
Indices: 75470988--75471089 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
75470978 TATAGTGAAT
* * *
75470988 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
75471017 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
75471045 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
75471075 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
75471090 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:75474070 original size:18 final size:20
Alignment explanation
Indices: 75474032--75474072 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
75474022 CCCGTTTAAC
75474032 AAAACTTGAACATTCTTCGA
1 AAAACTTGAACATTCTTCGA
*
75474052 AAAACTTG-CCATT-TTCGA
1 AAAACTTGAACATTCTTCGA
75474070 AAA
1 AAA
75474073 TACCATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 4 0.20
20 8 0.40
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (20 bp):
AAAACTTGAACATTCTTCGA
Done.