Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 144 of 333
Found at i:47190171 original size:17 final size:19
Alignment explanation
Indices: 47190144--47190182 Score: 64
Period size: 17 Copynumber: 2.2 Consensus size: 19
47190134 TTTTTTATAA
47190144 TTTCAAAAAAAAATT-ATT
1 TTTCAAAAAAAAATTGATT
47190162 TTTC-AAAAAAAATTGATT
1 TTTCAAAAAAAAATTGATT
47190180 TTT
1 TTT
47190183 TTTTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (19 bp):
TTTCAAAAAAAAATTGATT
Found at i:47200593 original size:38 final size:38
Alignment explanation
Indices: 47200514--47200651 Score: 170
Period size: 38 Copynumber: 3.6 Consensus size: 38
47200504 AAACCCAAAC
* * * *
47200514 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGAT
* *
47200554 ATAATACTAGCA-GTAGGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACG-AAGCCTGCGGGATTTAACCCGGAT
47200592 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* *
47200630 ATATTACCACCACGAAGCCTGC
1 ATAATACCAGCACGAAGCCTGC
47200652 TAACCCGGAT
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
38 61 0.71
39 5 0.06
40 20 0.23
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.20
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:47200661 original size:32 final size:33
Alignment explanation
Indices: 47200582--47200666 Score: 100
Period size: 38 Copynumber: 2.5 Consensus size: 33
47200572 CTGCGGGATT
*
47200582 TAACCCGGATATAATACCAGCACGAAGCCTGCGGG
1 TAACCCGGATATAATACCACCACGAAGCCTGC--G
*
47200617 ATTTAACCCGGATATATTACCACCACGAAGCCTGC-
1 ---TAACCCGGATATAATACCACCACGAAGCCTGCG
47200652 TAACCCGGATATAAT
1 TAACCCGGATATAAT
47200667 TCCAGCATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
32 14 0.32
38 30 0.68
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (33 bp):
TAACCCGGATATAATACCACCACGAAGCCTGCG
Found at i:47204017 original size:9 final size:9
Alignment explanation
Indices: 47204003--47204078 Score: 107
Period size: 9 Copynumber: 8.4 Consensus size: 9
47203993 ATAAGTATAA
47204003 AATTAACCG
1 AATTAACCG
*
47204012 AATTAATCG
1 AATTAACCG
47204021 AATTAACCG
1 AATTAACCG
*
47204030 AATTACCCG
1 AATTAACCG
* *
47204039 AATTACCCA
1 AATTAACCG
47204048 AATTAACCG
1 AATTAACCG
47204057 AATTAACCG
1 AATTAACCG
*
47204066 AATCAACCG
1 AATTAACCG
47204075 AATT
1 AATT
47204079 TTTTGTATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.43, C:0.24, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:47205097 original size:40 final size:40
Alignment explanation
Indices: 47205050--47205371 Score: 346
Period size: 40 Copynumber: 8.1 Consensus size: 40
47205040 ACACACTAGG
* * *
47205050 CAGAAGCTCATAAGAGCTAATCCAGCCAAAACACACCAAA
1 CAGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAA
* * * *
47205090 CAAAAGCTCATAAGAGTTTATCCAACCGAAAA-ACGCAAAA
1 CAGAAGCTCATAAGAGCTGATCCAACC-AAAACACGCCAAA
* *
47205130 CAGAAGCTCATAAGAGCCGATCCAA-TAGAAACACGCCAAA
1 CAGAAGCTCATAAGAGCTGATCCAACCA-AAACACGCCAAA
* * * *
47205170 CAGAAGCTCATAAGAGCCGATCCAATCGAAACATGCCAAA
1 CAGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAA
* * * * * *
47205210 AAGAAGCTCATAAGAGCTGATCCAGCCGAAACTCACTAAA
1 CAGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAA
* * *
47205250 CAGAAGCTCATAAGAGTTGATCCAACCGAAACACGCTAAA
1 CAGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAA
*
47205290 CAGAAGCTCATAAGAGCTTG-TCTAA-CAGAAACACGCCAAA
1 CAGAAGCTCATAAGAGC-TGATCCAACCA-AAACACGCCAAA
* * *
47205330 CAGAAGCTCATAAGAGTTGATCCAACCGAAACATGCCAAA
1 CAGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAA
47205370 CA
1 CA
47205372 AAGAGTATAA
Statistics
Matches: 238, Mismatches: 36, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
38 1 0.00
39 6 0.03
40 224 0.94
41 7 0.03
ACGTcount: A:0.44, C:0.26, G:0.16, T:0.13
Consensus pattern (40 bp):
CAGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAA
Found at i:47205153 original size:80 final size:80
Alignment explanation
Indices: 47205050--47205371 Score: 407
Period size: 80 Copynumber: 4.0 Consensus size: 80
47205040 ACACACTAGG
* * * *
47205050 CAGAAGCTCATAAGAGCTAATCCAGCCA-AAACACACCAAACAAAAGCTCATAAGAGTTTATCCA
1 CAGAAGCTCATAAGAGCTGATCCA-ACAGAAACACACCAAACAGAAGCTCATAAGAGTTGATCCA
*
47205114 ACCGAAAAACGCAAAA
65 ACCGAAACACGCAAAA
* * * **
47205130 CAGAAGCTCATAAGAGCCGATCCAATAGAAACACGCCAAACAGAAGCTCATAAGAGCCGATCCAA
1 CAGAAGCTCATAAGAGCTGATCCAACAGAAACACACCAAACAGAAGCTCATAAGAGTTGATCCAA
* *
47205195 TCGAAACATGCCAAAA
66 CCGAAACACG-CAAAA
* * * *
47205211 -AGAAGCTCATAAGAGCTGATCCAGCCGAAACTCACTAAACAGAAGCTCATAAGAGTTGATCCAA
1 CAGAAGCTCATAAGAGCTGATCCAACAGAAACACACCAAACAGAAGCTCATAAGAGTTGATCCAA
*
47205275 CCGAAACACGCTAAA
66 CCGAAACACGCAAAA
* *
47205290 CAGAAGCTCATAAGAGCTTG-TCTAACAGAAACACGCCAAACAGAAGCTCATAAGAGTTGATCCA
1 CAGAAGCTCATAAGAGC-TGATCCAACAGAAACACACCAAACAGAAGCTCATAAGAGTTGATCCA
* *
47205354 ACCGAAACATGCCAAA
65 ACCGAAACACGCAAAA
47205370 CA
1 CA
47205372 AAGAGTATAA
Statistics
Matches: 206, Mismatches: 32, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
79 5 0.02
80 194 0.94
81 7 0.03
ACGTcount: A:0.44, C:0.26, G:0.16, T:0.13
Consensus pattern (80 bp):
CAGAAGCTCATAAGAGCTGATCCAACAGAAACACACCAAACAGAAGCTCATAAGAGTTGATCCAA
CCGAAACACGCAAAA
Found at i:47205252 original size:120 final size:119
Alignment explanation
Indices: 47205050--47205362 Score: 387
Period size: 120 Copynumber: 2.6 Consensus size: 119
47205040 ACACACTAGG
* * * * *
47205050 CAGAAGCTCATAAGAGCTAATCCAGCCAAAACACACCAAACAA-AAGCTCATAAGAGTTTATCCA
1 CAGAAGCTCATAAGAGCTGATCCA-ACGAAACACGCCAAA-AAGAAGCTCATAAGAGTTGATCCA
* * *
47205114 ACCGAAAAACGCAAAACAGAAGCTCATAAGAGCCGATCCAATAGAAACACGCCAAA
64 ACCGAAACACACAAAACAGAAGCTCATAAGAGCCGATCCAACAGAAACACGCCAAA
* * * *
47205170 CAGAAGCTCATAAGAGCCGATCCAATCGAAACATGCCAAAAAGAAGCTCATAAGAGCTGATCCAG
1 CAGAAGCTCATAAGAGCTGATCCAA-CGAAACACGCCAAAAAGAAGCTCATAAGAGTTGATCCAA
* * ** * *
47205235 CCGAAACTCACTAAACAGAAGCTCATAAGAGTTGATCCAACCGAAACACGCTAAA
65 CCGAAACACACAAAACAGAAGCTCATAAGAGCCGATCCAACAGAAACACGCCAAA
* *
47205290 CAGAAGCTCATAAGAGCTTG-TCTAACAGAAACACGCCAAACAGAAGCTCATAAGAGTTGATCCA
1 CAGAAGCTCATAAGAGC-TGATCCAAC-GAAACACGCCAAAAAGAAGCTCATAAGAGTTGATCCA
47205354 ACCGAAACA
64 ACCGAAACA
47205363 TGCCAAACAA
Statistics
Matches: 164, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
119 3 0.02
120 160 0.98
121 1 0.01
ACGTcount: A:0.44, C:0.26, G:0.16, T:0.13
Consensus pattern (119 bp):
CAGAAGCTCATAAGAGCTGATCCAACGAAACACGCCAAAAAGAAGCTCATAAGAGTTGATCCAAC
CGAAACACACAAAACAGAAGCTCATAAGAGCCGATCCAACAGAAACACGCCAAA
Found at i:47220497 original size:19 final size:19
Alignment explanation
Indices: 47220473--47220511 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
47220463 AGCTTAGAGG
47220473 ACCACAGTTGGATAAGGGA
1 ACCACAGTTGGATAAGGGA
47220492 ACCACAGTTGGATAAGGGA
1 ACCACAGTTGGATAAGGGA
47220511 A
1 A
47220512 AGGAAAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.15, G:0.31, T:0.15
Consensus pattern (19 bp):
ACCACAGTTGGATAAGGGA
Found at i:47220896 original size:79 final size:79
Alignment explanation
Indices: 47220807--47220977 Score: 204
Period size: 79 Copynumber: 2.2 Consensus size: 79
47220797 ATATCCGGAC
* * * **
47220807 TAAGATCCGAAGGCATTTGTGTGAGTTACTA-ATTCCAGGCTAAG-CCCGAAGGCATTGGTGCGA
1 TAAGTTCCGAAGGCATTTGTGCGAGTTACTATA-ACCAGGCTAAGTCCCGAAGGCATTGGAACGA
47220870 GTTA-CTAAATCCGGGT
65 G-TAGCTAAATCC-GGT
* * *
47220886 TAAGTTCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTTCCGAAGGCATTTGTGCGAGTTACTATAACCAGGCTAAGTCCCGAAGGCATTGGAACGAG
*
47220951 TAGCTATATCCGGT
66 TAGCTAAATCCGGT
*
47220965 TAAATTCCGAAGG
1 TAAGTTCCGAAGG
47220978 TACGTGATTC
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 54 0.68
80 25 0.32
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (79 bp):
TAAGTTCCGAAGGCATTTGTGCGAGTTACTATAACCAGGCTAAGTCCCGAAGGCATTGGAACGAG
TAGCTAAATCCGGT
Found at i:47220951 original size:40 final size:40
Alignment explanation
Indices: 47220760--47220944 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
47220750 TCGAATGATG
* * * *
47220760 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
47220800 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
47220840 TCCAGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
47220879 TCCGGGTTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
47220920 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
47220945 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47231227 original size:22 final size:22
Alignment explanation
Indices: 47231201--47231257 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
47231191 GAATTATTAG
47231201 GTTTAATTCGGTAAGTCTTATT
1 GTTTAATTCGGTAAGTCTTATT
*
47231223 GTTTAATTCTGTAAGTCTTATT
1 GTTTAATTCGGTAAGTCTTATT
*
47231245 GTTTAATTTGGTA
1 GTTTAATTCGGTA
47231258 GACTTTGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.23, C:0.07, G:0.18, T:0.53
Consensus pattern (22 bp):
GTTTAATTCGGTAAGTCTTATT
Found at i:47232967 original size:32 final size:33
Alignment explanation
Indices: 47232926--47232987 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
47232916 TTAATTATGC
* *
47232926 TAATGTTGTTAATAAAAATGACT-TGAATGATT
1 TAATATTGTTAATAAAAATGAATATGAATGATT
47232958 TAATATTGTTAATAAAAATGAATATGAATG
1 TAATATTGTTAATAAAAATGAATATGAATG
47232988 TGTAGAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 21 0.78
33 6 0.22
ACGTcount: A:0.45, C:0.02, G:0.15, T:0.39
Consensus pattern (33 bp):
TAATATTGTTAATAAAAATGAATATGAATGATT
Found at i:47234400 original size:12 final size:12
Alignment explanation
Indices: 47234383--47234412 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
47234373 GCAAATGAAT
*
47234383 CATTTTCGTTTC
1 CATTTTCATTTC
47234395 CATTTTCATTTC
1 CATTTTCATTTC
47234407 CATTTT
1 CATTTT
47234413 TGGAAACCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.60
Consensus pattern (12 bp):
CATTTTCATTTC
Found at i:47238080 original size:46 final size:46
Alignment explanation
Indices: 47238013--47238190 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
47238003 TGTAACCCGC
* *
47238013 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGTGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCACAT
* **
47238059 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-CCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTC-ACAT
* *** * ** *
47238105 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTCACAT
*
47238152 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
47238191 CCCAAATATC
Statistics
Matches: 107, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
45 1 0.01
46 72 0.67
47 33 0.31
48 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCACAT
Found at i:47238134 original size:93 final size:93
Alignment explanation
Indices: 47238021--47238192 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
47238011 GCCCATAAGT
***
47238021 GAACTCAGACTCAACTCAACGAGCTCGGGTGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
47238086 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
47238114 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
47238179 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
47238193 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:47242135 original size:42 final size:43
Alignment explanation
Indices: 47242066--47242178 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 43
47242056 TGTGTTATCA
47242066 TGTAAGACCATGTCTAGGACGTTGGCATC-ATATTTGATTTCG
1 TGTAAGACCATGTCTAGGACGTTGGCATCGATATTTGATTTCG
* * * * *
47242108 TGTATGACCCTGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTAGGAC-GTTGGCATCGATATTTGATTTCG
*
47242151 TGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCATGTCTAGGACGTTGGCAT
47242179 TGTATGAGCT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 25 0.42
43 34 0.58
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACGTTGGCATCGATATTTGATTTCG
Found at i:47242977 original size:24 final size:23
Alignment explanation
Indices: 47242933--47242977 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
47242923 TTATGGAATG
*
47242933 ACATGAATTGGTATGTGTTATGA
1 ACATGAATTGGTATGTATTATGA
47242956 ACATGAGATTGGT-TGATATTAT
1 ACATGA-ATTGGTATG-TATTAT
47242978 CATAGTAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.31, C:0.04, G:0.24, T:0.40
Consensus pattern (23 bp):
ACATGAATTGGTATGTATTATGA
Found at i:47246855 original size:25 final size:25
Alignment explanation
Indices: 47246826--47246876 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
47246816 AAAGTAATTG
47246826 TGTTTTAAATGCTTTATTATTACAT
1 TGTTTTAAATGCTTTATTATTACAT
47246851 TGTTTTAAATGCTTTATTATTACAT
1 TGTTTTAAATGCTTTATTATTACAT
47246876 T
1 T
47246877 CTTGATGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (25 bp):
TGTTTTAAATGCTTTATTATTACAT
Found at i:47248113 original size:15 final size:16
Alignment explanation
Indices: 47248095--47248132 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
47248085 TCAGCAGTGT
*
47248095 GTGACAT-ACGGCCAG
1 GTGACATAACAGCCAG
47248110 GTGACATACACAGCCAG
1 GTGACATA-ACAGCCAG
47248127 GTGACA
1 GTGACA
47248133 CGGCCGTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
17 13 0.65
ACGTcount: A:0.32, C:0.26, G:0.29, T:0.13
Consensus pattern (16 bp):
GTGACATAACAGCCAG
Found at i:47250229 original size:27 final size:26
Alignment explanation
Indices: 47250199--47250375 Score: 158
Period size: 27 Copynumber: 6.5 Consensus size: 26
47250189 AAATTGTACA
* *
47250199 GCACTAAGGGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
47250226 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
47250253 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
47250280 GCACTAAGTGTGCGAGTTTGACTATGTG
1 GCACTAAGTGTGCGA--TTGACTATGTG
* * *
47250308 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
47250335 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
47250362 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
47250376 GGCTCAATAA
Statistics
Matches: 129, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 101 0.78
28 27 0.21
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:47250313 original size:82 final size:81
Alignment explanation
Indices: 47250199--47250354 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
47250189 AAATTGTACA
* *
47250199 GCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGGGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
47250263 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * ** *
47250280 GCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGGGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
47250345 TGCGAGTTGA
65 TGCGAATTGA
47250355 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.77
83 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:47250366 original size:82 final size:81
Alignment explanation
Indices: 47250195--47250375 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
47250185 GATTAAATTG
* * *
47250195 TACAGCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
47250260 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
47250276 TGCGGCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
47250340 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
47250358 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
47250376 GGCTCAATAA
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:47262785 original size:14 final size:14
Alignment explanation
Indices: 47262766--47262792 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47262756 GATTTTGAAT
47262766 AATGTAAGTAATGG
1 AATGTAAGTAATGG
47262780 AATGTAAGTAATG
1 AATGTAAGTAATG
47262793 TTATGCATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (14 bp):
AATGTAAGTAATGG
Found at i:47264278 original size:38 final size:38
Alignment explanation
Indices: 47264236--47264372 Score: 197
Period size: 38 Copynumber: 3.6 Consensus size: 38
47264226 AAAGGTCGGC
*
47264236 CAGGCTAT-ATGCTGGAATTATATCCGGGTTAAATCCCG
1 CAGGCT-TCATGCTGGTATTATATCCGGGTTAAATCCCG
*
47264274 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
1 CAGGCTTCATGCTGGTATTATATCCGGGTTAAATCCCG
* *
47264312 CAGGCTTCGTGCTGGTATTATATCCTGGTTAAATCCCG
1 CAGGCTTCATGCTGGTATTATATCCGGGTTAAATCCCG
*
47264350 CAAGCTT-AGTGCTGGTATTATAT
1 CAGGCTTCA-TGCTGGTATTATAT
47264373 TCGAGCTTAA
Statistics
Matches: 92, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
37 1 0.01
38 91 0.99
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (38 bp):
CAGGCTTCATGCTGGTATTATATCCGGGTTAAATCCCG
Found at i:47266815 original size:41 final size:40
Alignment explanation
Indices: 47266697--47266845 Score: 181
Period size: 41 Copynumber: 3.7 Consensus size: 40
47266687 CGCTGACTCA
* * *
47266697 AAAAGCCCTTCAAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGG-TTATGACACTGGCTC
* * * * * * *
47266738 GAAGGCCCTTCGAAACTAGGTTTGGTTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGTTATGACACTGGCTC
*
47266778 AAAAGCCCTTCGAGACCAAGCTCGGATTTTGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGG-TTATGACACTGGCTC
47266819 AAAAGCCCTTCGAGACCAAGCTCGGTT
1 AAAAGCCCTTCGAGACCAAGCTCGGTT
47266846 TTAAACCCCA
Statistics
Matches: 89, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
40 33 0.37
41 56 0.63
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
AAAAGCCCTTCGAGACCAAGCTCGGTTATGACACTGGCTC
Found at i:47271576 original size:27 final size:27
Alignment explanation
Indices: 47271545--47271722 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
47271535 TAAATTGTAC
47271545 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
47271572 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47271598 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
47271626 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
47271654 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47271681 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
47271708 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47271723 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:47271659 original size:82 final size:81
Alignment explanation
Indices: 47271546--47271701 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
47271536 AAATTGTACA
* *
47271546 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
47271610 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
47271627 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
47271692 TGCGAGTTGA
65 TGCGAATTGA
47271702 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:47271713 original size:82 final size:81
Alignment explanation
Indices: 47271542--47271722 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
47271532 GATTAAATTG
* *
47271542 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
47271607 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
47271623 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
47271687 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
47271705 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
47271723 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:47277626 original size:41 final size:41
Alignment explanation
Indices: 47277573--47277760 Score: 281
Period size: 41 Copynumber: 4.6 Consensus size: 41
47277563 CGCTGACTCA
*
47277573 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGC-C
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * *
47277613 TGAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 -AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
*
47277654 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
47277695 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
47277736 AAAAGCCCTTCGAGACCAAGCTCGG
1 AAAAGCCCTTCGAGACCAAGCTCGG
47277761 TTTTAAACCC
Statistics
Matches: 130, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
40 30 0.23
41 100 0.77
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:47277672 original size:81 final size:82
Alignment explanation
Indices: 47277573--47277760 Score: 281
Period size: 81 Copynumber: 2.3 Consensus size: 82
47277563 CGCTGACTCA
* * * * * *
47277573 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGC-CTGAAGGCCCTTCGAAACTAGGTTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC-AAAAGCCCTTCGAAACCAAGCTC
47277637 GG-TTATGACACTGGCTC
65 GGATTATGACACTGGCTC
* *
47277654 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCG
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCG
47277719 GATTATGACACTGGCTC
66 GATTATGACACTGGCTC
47277736 AAAAGCCCTTCGAGACCAAGCTCGG
1 AAAAGCCCTTCGAGACCAAGCTCGG
47277761 TTTTAAACCC
Statistics
Matches: 96, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
81 56 0.58
82 40 0.42
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (82 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCG
GATTATGACACTGGCTC
Found at i:47279637 original size:28 final size:29
Alignment explanation
Indices: 47279595--47279680 Score: 115
Period size: 27 Copynumber: 3.1 Consensus size: 29
47279585 TACCTATATA
*
47279595 TATATGGCCCATTAGGCCC-ATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
47279623 TATATGGCCCGTTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
47279652 CATATGG--CAATAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
47279679 TA
1 TA
47279681 CAGTCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
27 19 0.37
28 18 0.35
29 14 0.27
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:47281176 original size:16 final size:16
Alignment explanation
Indices: 47281155--47281186 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
47281145 AAATTTGAGA
47281155 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
47281171 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
47281187 GCGTTACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.31, T:0.50
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:47288607 original size:84 final size:83
Alignment explanation
Indices: 47288397--47289111 Score: 500
Period size: 84 Copynumber: 8.3 Consensus size: 83
47288387 GATTAAATCC
* * * * * *
47288397 GAAACAAAATTATATCAAAATAAAATC-TATTAAACGACAGGAATAAATCGCGAAACAGA-ATTA
1 GAAACAAAATAAAATC-AAATAAAATCTTGTTAAACAACGGGAATAAATC-CGAAACAGATTTTA
* **
47288460 TTTGA-TTACATTCTTGTTTG
64 TTTAATTTA-ATTCTAATTTG
* * * * * *
47288480 GAAACAAAACAATAT-AAAAAAAATCTGGTTAAACAACAGGAATAAATCTCGAAACTGATTTTAT
1 GAAACAAAATAAAATCAAATAAAATCTTGTTAAACAACGGGAATAAATC-CGAAACAGATTTTAT
*
47288544 TTAATTTAATTCTAATTTA
65 TTAATTTAATTCTAATTTG
** * *
47288563 GAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATATATCTTGAAACAGATTTTAT
1 GAAACAAAATAAAATCAAATAAAATCTTGTTAAACAACGGGAATAAATC-CGAAACAGATTTTAT
47288628 TTAATTTAATTCTAATTTG
65 TTAATTTAATTCTAATTTG
* * *
47288647 GAAACAAAATAAAATCAAATAAAATCTTGTTAAACGATGGGAATAAATCCTGGAACAGATTTTAT
1 GAAACAAAATAAAATCAAATAAAATCTTGTTAAACAACGGGAATAAATCC-GAAACAGATTTTAT
*
47288712 TTAATTTTAATTTCTCATTATTG
65 TTAA-TTTAA-TTCT-AAT-TTG
* * *
47288735 GAAACAAAATAAAATAAAATAAAATCTTGTTAAACAGCGGGAATAAATCCCGGAACAGATTTTAT
1 GAAACAAAATAAAATCAAATAAAATCTTGTTAAACAACGGGAATAAAT-CCGAAACAGATTTTAT
**
47288800 TTAATTTTAATTTCTCGTTTTTG
65 TTAA-TTTAA-TTCT--AATTTG
* *
47288823 GAAACAAAATCAAAAT-ATAAT-AAATC-TGTTGAACAGA-GGGAATAAATCCAGAAATAGATTT
1 GAAACAAAAT-AAAATCA-AATAAAATCTTGTTAAACA-ACGGGAATAAATCC-GAAACAGATTT
*
47288884 TATTTTAATTTTAATACTCGT-TTTTG
62 TA-TTTAA-TTTAAT--TC-TAATTTG
* ** * * * * * *
47288910 GAAATAAAATCAAAATTGGAATAAAGTC-CGTTGAACAACAGAAATAAGTCCCGAAACAGATTTT
1 GAAACAAAAT-AAAA-TCAAATAAAATCTTGTTAAACAACGGGAATAAAT-CCGAAACAGATTTT
* * *
47288974 ATTTTTATTTTAATACTCATTTTTG
63 A--TTTAATTTAATTCT-A-ATTTG
* ** * * ** *
47288999 GAAATAAAATTAAAATTGGAATAAAATC-TATTGAACGGCGGGAATAAATCCTAAAACAGATTTT
1 GAAACAAAA-TAAAA-TCAAATAAAATCTTGTTAAACAACGGGAATAAATCC-GAAACAGATTTT
**
47289063 ATTTAACTTTAATTTCCCATTTG
63 ATTTAA-TTTAA-TTCTAATTTG
* **
47289086 GAAATAATAA-AAAATGGAATAAAATC
1 GAAACAA-AATAAAATCAAATAAAATC
47289112 CGTTGAACGG
Statistics
Matches: 535, Mismatches: 64, Indels: 64
0.81 0.10 0.10
Matches are distributed among these distances:
81 9 0.02
82 27 0.05
83 41 0.08
84 125 0.23
85 17 0.03
86 11 0.02
87 67 0.13
88 120 0.22
89 109 0.20
90 9 0.02
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.33
Consensus pattern (83 bp):
GAAACAAAATAAAATCAAATAAAATCTTGTTAAACAACGGGAATAAATCCGAAACAGATTTTATT
TAATTTAATTCTAATTTG
Found at i:47288766 original size:88 final size:87
Alignment explanation
Indices: 47288397--47289161 Score: 592
Period size: 88 Copynumber: 8.9 Consensus size: 87
47288387 GATTAAATCC
* * * * *
47288397 GAAACAAAATTATATCAAAATAAAATC-TATTAAACGACAGGAATAAATCGC-GAAACAGA-ATT
1 GAAACAAAATAAAAT-AAAATAAAATCTTGTTAAACGACGGGAATAAATC-CTGAAACAGATTTT
* *
47288459 ATTTGA--TTACATTCT--TGTTTG
64 ATTTAATTTTA-ATTCTCATTTTTG
* * * * * *
47288480 GAAACAAAACAATATAAAA-AAAATCTGGTTAAACAACAGGAATAAAT-CTCGAAACTGATTTTA
1 GAAACAAAATAAAATAAAATAAAATCTTGTTAAACGACGGGAATAAATCCT-GAAACAGATTTTA
* *
47288543 TTTAA-TTTAATTCT-A-ATTTA
65 TTTAATTTTAATTCTCATTTTTG
* * * *
47288563 GAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATATATCTTGAAACAGATTTTAT
1 GAAACAAAATAAAATAAAATAAAATCTTGTTAAACGACGGGAATAAATCCTGAAACAGATTTTAT
*
47288628 TTAA-TTTAATTCT-A-ATTTG
66 TTAATTTTAATTCTCATTTTTG
* * *
47288647 GAAACAAAATAAAATCAAATAAAATCTTGTTAAACGATGGGAATAAATCCTGGAACAGATTTTAT
1 GAAACAAAATAAAATAAAATAAAATCTTGTTAAACGACGGGAATAAATCCTGAAACAGATTTTAT
*
47288712 TTAATTTTAATTTCTCATTATTG
66 TTAATTTTAA-TTCTCATTTTTG
* *
47288735 GAAACAAAATAAAATAAAATAAAATCTTGTTAAAC-AGCGGGAATAAATCCCGGAACAGATTTTA
1 GAAACAAAATAAAATAAAATAAAATCTTGTTAAACGA-CGGGAATAAATCCTGAAACAGATTTTA
*
47288799 TTTAATTTTAATTTCTCGTTTTTG
65 TTTAATTTTAA-TTCTCATTTTTG
* * * *
47288823 GAAACAAAATCAAAATATAAT-AAATC-TGTTGAACAGA-GGGAATAAATCCAGAAATAGATTTT
1 GAAACAAAAT-AAAATAAAATAAAATCTTGTTAAAC-GACGGGAATAAATCCTGAAACAGATTTT
* *
47288885 ATTTTAATTTTAATACTCGTTTTTG
64 A-TTTAATTTTAATTCTCATTTTTG
* ** * * * * * * * *
47288910 GAAATAAAATCAAAATTGGAATAAAGTC-CGTTGAACAACAGAAATAAGTCCCGAAACAGATTTT
1 GAAACAAAAT-AAAA-TAAAATAAAATCTTGTTAAACGACGGGAATAAATCCTGAAACAGATTTT
* *
47288974 ATTTTTATTTTAATACTCATTTTTG
64 A-TTTAATTTTAATTCTCATTTTTG
* ** * * * *
47288999 GAAATAAAATTAAAATTGGAATAAAATC-TATTGAACGGCGGGAATAAATCCTAAAACAGATTTT
1 GAAACAAAA-TAAAA-TAAAATAAAATCTTGTTAAACGACGGGAATAAATCCTGAAACAGATTTT
* *
47289063 ATTTAACTTTAATTTCCCA--TTTG
64 ATTTAATTTTAA-TTCTCATTTTTG
* ** * * * ** **
47289086 GAAATAATAA-AAAATGGAATAAAATC-CGTTGAACGGA-GGAAATAAATCCCAAAATGGATTTT
1 GAAACAA-AATAAAATAAAATAAAATCTTGTTAAAC-GACGGGAATAAATCCTGAAACAGATTTT
*
47289148 ATTTACTTTTAATT
64 ATTTAATTTTAATT
47289162 TGGAAAAAAA
Statistics
Matches: 583, Mismatches: 75, Indels: 47
0.83 0.11 0.07
Matches are distributed among these distances:
80 1 0.00
81 6 0.01
82 29 0.05
83 44 0.08
84 123 0.21
85 55 0.09
86 9 0.02
87 68 0.12
88 126 0.22
89 121 0.21
90 1 0.00
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (87 bp):
GAAACAAAATAAAATAAAATAAAATCTTGTTAAACGACGGGAATAAATCCTGAAACAGATTTTAT
TTAATTTTAATTCTCATTTTTG
Found at i:47289205 original size:73 final size:73
Alignment explanation
Indices: 47289094--47289233 Score: 176
Period size: 73 Copynumber: 1.9 Consensus size: 73
47289084 TGGAAATAAT
* * * **
47289094 AAAAAATGGAATAAAATCCGTTGAACGGAGGAAATAAAT-CCCAAAATGGATTTTATTTACTTTT
1 AAAAAATCGAATAAAATCCGTTAAAAGGAGGAAATAAATCCCCAAAA-AAATTTTATTTACTTTT
47289158 AATTTGGAA
65 AATTTGGAA
** *
47289167 AAAAAATCGAATAAAATTTGTTAAAAGGCAGG-AATAAATCCCCAAAAAAATTTTATTTAGTTTT
1 AAAAAATCGAATAAAATCCGTTAAAAGG-AGGAAATAAATCCCCAAAAAAATTTTATTTACTTTT
47289231 AAT
65 AAT
47289234 ATTCGTTTGG
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
73 47 0.82
74 10 0.18
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (73 bp):
AAAAAATCGAATAAAATCCGTTAAAAGGAGGAAATAAATCCCCAAAAAAATTTTATTTACTTTTA
ATTTGGAA
Found at i:47289939 original size:20 final size:20
Alignment explanation
Indices: 47289914--47289960 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
47289904 GGGGCAATTG
*
47289914 AATCAATTTGGTTAAAATCA
1 AATCAATTTGATTAAAATCA
* *
47289934 AATCAAATTGATTAGAATCA
1 AATCAATTTGATTAAAATCA
47289954 AAT-AATT
1 AATCAATT
47289961 CAAGATATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.34
Consensus pattern (20 bp):
AATCAATTTGATTAAAATCA
Found at i:47293458 original size:24 final size:24
Alignment explanation
Indices: 47293430--47293476 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
47293420 CAGATTGTGA
47293430 TATTTATAATAATAAACTCTTTAT
1 TATTTATAATAATAAACTCTTTAT
47293454 TATTTATAATAATAAACTCTTTA
1 TATTTATAATAATAAACTCTTTA
47293477 CCACTCGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (24 bp):
TATTTATAATAATAAACTCTTTAT
Found at i:47293877 original size:33 final size:33
Alignment explanation
Indices: 47293840--47293905 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
47293830 CGTAGGTTGG
47293840 AGATAGTTACAGAAGTTCTTCGTTGAGCCCAGT
1 AGATAGTTACAGAAGTTCTTCGTTGAGCCCAGT
47293873 AGATAGTTACAGAAGTTCTTCGTTGAGCCCAGT
1 AGATAGTTACAGAAGTTCTTCGTTGAGCCCAGT
47293906 CACATCACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (33 bp):
AGATAGTTACAGAAGTTCTTCGTTGAGCCCAGT
Found at i:47294544 original size:3 final size:3
Alignment explanation
Indices: 47294532--47294585 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
47294522 GTTTGAAAAA
* *
47294532 AAG AAA AAG AAG AAG AAG AAG -AG AAG TAGG AAG -AG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG -AAG AAG AAG AAG AAG AAG
*
47294576 AAG GAG AAG A
1 AAG AAG AAG A
47294586 GGGAAAATGG
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 4 0.10
3 36 0.86
4 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:47295986 original size:18 final size:18
Alignment explanation
Indices: 47295963--47296003 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
47295953 TACTTTTCTC
47295963 TTTCTA-TCACAATTCCAA
1 TTTCTATTCACAATT-CAA
*
47295981 TTTCTATTCATAATTCAA
1 TTTCTATTCACAATTCAA
47295999 TTTCT
1 TTTCT
47296004 TTTTTTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCTATTCACAATTCAA
Found at i:47296182 original size:39 final size:38
Alignment explanation
Indices: 47296113--47296206 Score: 91
Period size: 39 Copynumber: 2.4 Consensus size: 38
47296103 ACCAATATGG
*
47296113 CACCCAGTGCCTCATCGGATAATTCAAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAAGTCAAAGTAA-AGTTGA
* * * *
47296152 CACCCAGTGTCTCATCGGCCT-AGTCGAAGTAAAGTTGG
1 CACCCAGTGCCTCATCGG-ATAAGTCAAAGTAAAGTTGA
* * *
47296190 TACCTAGTACCTCATCG
1 CACCCAGTGCCTCATCG
47296207 AATCTATCCG
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
38 18 0.40
39 26 0.58
40 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGATAAGTCAAAGTAAAGTTGA
Found at i:47297263 original size:25 final size:25
Alignment explanation
Indices: 47297208--47297253 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
47297198 ACTTTCTTTC
47297208 TTTC-TTT-TTTTACTTCTTTTACG
1 TTTCATTTGTTTTACTTCTTTTACG
*
47297231 TTTCATTTGTTTTATTTCTTTTA
1 TTTCATTTGTTTTACTTCTTTTA
47297254 TGTTATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 3 0.15
25 13 0.65
ACGTcount: A:0.11, C:0.13, G:0.04, T:0.72
Consensus pattern (25 bp):
TTTCATTTGTTTTACTTCTTTTACG
Found at i:47298792 original size:42 final size:43
Alignment explanation
Indices: 47298673--47298810 Score: 224
Period size: 43 Copynumber: 3.2 Consensus size: 43
47298663 AAAAAAAAAC
*
47298673 TCATTGCATGCATATTAAAAAATAGTGAACAACTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
*
47298716 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAATAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
* *
47298759 TCATTGCATACATATTAAAAAA-AGTCAATAACTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
*
47298801 TCACTGCATG
1 TCATTGCATG
47298811 TGATCAGCAA
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 26 0.30
43 62 0.70
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (43 bp):
TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
Found at i:47300475 original size:15 final size:15
Alignment explanation
Indices: 47300455--47300497 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
47300445 GCATCACTAC
*
47300455 CACTACCAGACACTT
1 CACTACCAGACACAT
*
47300470 CACTACCAGATACAT
1 CACTACCAGACACAT
47300485 CACTACCAGACAC
1 CACTACCAGACAC
47300498 GTTTTCTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.37, C:0.40, G:0.07, T:0.16
Consensus pattern (15 bp):
CACTACCAGACACAT
Found at i:47300853 original size:62 final size:62
Alignment explanation
Indices: 47300782--47300952 Score: 306
Period size: 62 Copynumber: 2.8 Consensus size: 62
47300772 TAGGAGCTTG
*
47300782 GATACAAACAATGACAGATATACACAATAAACATCAATTTAATAATGTATAATTTAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATGTATAATTTAATGGCA
* *
47300844 GATACAAACAATGGTAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATGTATAATTTAATGGCA
*
47300906 GATACAAACAATGGCAGATATACACAATAAACATCAATTTGATAATG
1 GATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATG
47300953 ACATTCATAC
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 103 1.00
ACGTcount: A:0.49, C:0.13, G:0.12, T:0.27
Consensus pattern (62 bp):
GATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATGTATAATTTAATGGCA
Found at i:47300991 original size:26 final size:26
Alignment explanation
Indices: 47300914--47300991 Score: 60
Period size: 24 Copynumber: 3.2 Consensus size: 26
47300904 CAGATACAAA
47300914 CAATGGCAGATATACACAATAAACAT
1 CAATGGCAGATATACACAATAAACAT
** * *
47300940 CAAT--TTGATA-ATGAC-AT--TCAT
1 CAATGGCAGATATA-CACAATAAACAT
47300961 ACAATGGCAGATATACACAATAAACAT
1 -CAATGGCAGATATACACAATAAACAT
47300988 CAAT
1 CAAT
47300992 TTGATAATGA
Statistics
Matches: 36, Mismatches: 8, Indels: 16
0.60 0.13 0.27
Matches are distributed among these distances:
21 3 0.08
22 4 0.11
23 3 0.08
24 12 0.33
25 3 0.08
26 8 0.22
27 3 0.08
ACGTcount: A:0.47, C:0.18, G:0.10, T:0.24
Consensus pattern (26 bp):
CAATGGCAGATATACACAATAAACAT
Found at i:47301029 original size:48 final size:48
Alignment explanation
Indices: 47300913--47301021 Score: 218
Period size: 48 Copynumber: 2.3 Consensus size: 48
47300903 GCAGATACAA
47300913 ACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCAT
1 ACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCAT
47300961 ACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCAT
1 ACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCAT
47301009 ACAATGGCAGATA
1 ACAATGGCAGATA
47301022 CAAACAATGG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 61 1.00
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.26
Consensus pattern (48 bp):
ACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCAT
Found at i:47301029 original size:64 final size:64
Alignment explanation
Indices: 47300961--47301157 Score: 322
Period size: 64 Copynumber: 3.1 Consensus size: 64
47300951 TGACATTCAT
* * *
47300961 ACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACAATGGCAGATACAA
1 ACAATGGCAGATATACACAATAAAAATCAGTTTGATAATGGCATTCATACAATGGCAGATACAA
* * **
47301025 ACAATGGCAGATATATACAATAAAAATTAGTTTGATAATGGCATTCATACAATGATAGATACAA
1 ACAATGGCAGATATACACAATAAAAATCAGTTTGATAATGGCATTCATACAATGGCAGATACAA
*
47301089 ACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGCATTCATACAATGGCAGATACAA
1 ACAATGGCAGATATACACAATAAAAATCAGTTTGATAATGGCATTCATACAATGGCAGATACAA
47301153 ACAAT
1 ACAAT
47301158 AAACATCAAA
Statistics
Matches: 121, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 121 1.00
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (64 bp):
ACAATGGCAGATATACACAATAAAAATCAGTTTGATAATGGCATTCATACAATGGCAGATACAA
Found at i:47301044 original size:16 final size:16
Alignment explanation
Indices: 47301006--47301045 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
47300996 TAATGACATT
47301006 CATACAATGGCAGATA
1 CATACAATGGCAGATA
*
47301022 CAAACAATGGCAGATA
1 CATACAATGGCAGATA
*
47301038 TATACAAT
1 CATACAAT
47301046 AAAAATTAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.20
Consensus pattern (16 bp):
CATACAATGGCAGATA
Found at i:47301093 original size:112 final size:110
Alignment explanation
Indices: 47300851--47301085 Score: 335
Period size: 112 Copynumber: 2.1 Consensus size: 110
47300841 GCAGATACAA
* * **
47300851 ACAATGGTAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCAGATACAAACA
1 ACAATGGTAGATATACACAATAAACATCAATTTAATAATGCATAATACAATGGCAGATACAAACA
*
47300916 ATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCAT
66 ATGGCAGATATACACAATAAAAATCAATTTGATAATGACATTCAT
* * *
47300961 ACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACAATGGCAGATACAAA
1 ACAATGGTAGATATACACAATAAACATCAATTTAATAATG-CA-TAATACAATGGCAGATACAAA
* * * *
47301026 CAATGGCAGATATATACAATAAAAATTAGTTTGATAATGGCATTCAT
64 CAATGGCAGATATACACAATAAAAATCAATTTGATAATGACATTCAT
*
47301073 ACAATGATAGATA
1 ACAATGGTAGATA
47301086 CAAACAATGG
Statistics
Matches: 109, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
110 37 0.34
111 1 0.01
112 71 0.65
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (110 bp):
ACAATGGTAGATATACACAATAAACATCAATTTAATAATGCATAATACAATGGCAGATACAAACA
ATGGCAGATATACACAATAAAAATCAATTTGATAATGACATTCAT
Found at i:47301302 original size:6 final size:6
Alignment explanation
Indices: 47301293--47301318 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
47301283 AAATAACCCT
47301293 AAATCA AAATCA AAATCA AAATCA AA
1 AAATCA AAATCA AAATCA AAATCA AA
47301319 TTCTAATCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATCA
Found at i:47301368 original size:18 final size:18
Alignment explanation
Indices: 47301327--47301368 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
47301317 AATTCTAATC
* *
47301327 CTAAATTGAGATCGAAAT
1 CTAAATTGAAATCAAAAT
47301345 -TGAAATTGAAATCAAAAT
1 CT-AAATTGAAATCAAAAT
47301363 CTAAAT
1 CTAAAT
47301369 CAGAATCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
17 1 0.05
18 18 0.90
19 1 0.05
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.29
Consensus pattern (18 bp):
CTAAATTGAAATCAAAAT
Found at i:47301410 original size:6 final size:6
Alignment explanation
Indices: 47301396--47301440 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
47301386 TCAAAATTGT
* *
47301396 AATCAA AATCGA AAT-AGA AATCAA AATCAA AATCAA AATCGA AAT
1 AATCAA AATCAA AATCA-A AATCAA AATCAA AATCAA AATCAA AAT
47301441 TAAATTTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
6 33 0.97
7 1 0.03
ACGTcount: A:0.62, C:0.13, G:0.07, T:0.18
Consensus pattern (6 bp):
AATCAA
Found at i:47301440 original size:18 final size:18
Alignment explanation
Indices: 47301386--47301428 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
47301376 AGTGAGTGTT
* *
47301386 TCAAAATTGTAATCAAAA
1 TCAAAATAGAAATCAAAA
*
47301404 TCGAAATAGAAATCAAAA
1 TCAAAATAGAAATCAAAA
47301422 TCAAAAT
1 TCAAAAT
47301429 CAAAATCGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.58, C:0.12, G:0.07, T:0.23
Consensus pattern (18 bp):
TCAAAATAGAAATCAAAA
Found at i:47301977 original size:31 final size:29
Alignment explanation
Indices: 47301938--47302010 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 29
47301928 GATAATTGTT
*
47301938 AGTTAGTGACTGTTTTGTCACTTTTTTATA
1 AGTTAGTGACTGTTTTGTCACTTTTTGA-A
** *
47301968 ACGTTAGTGACCATTTTGTTACTTTTTGAA
1 A-GTTAGTGACTGTTTTGTCACTTTTTGAA
47301998 AGTTAAGTGACTG
1 AGTT-AGTGACTG
47302011 AAATAAAACC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 3 0.09
30 9 0.26
31 23 0.66
ACGTcount: A:0.23, C:0.11, G:0.19, T:0.47
Consensus pattern (29 bp):
AGTTAGTGACTGTTTTGTCACTTTTTGAA
Found at i:47305856 original size:22 final size:22
Alignment explanation
Indices: 47305831--47305873 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
47305821 GAAAGTAAGG
47305831 AAATAAATA-AAAGAAAAAAATT
1 AAATAAA-ACAAAGAAAAAAATT
*
47305853 AAATAAAACAAATAAAAAAAT
1 AAATAAAACAAAGAAAAAAAT
47305874 GGTAGTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.16
Consensus pattern (22 bp):
AAATAAAACAAAGAAAAAAATT
Found at i:47305998 original size:3 final size:3
Alignment explanation
Indices: 47305990--47306016 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
47305980 GTAAAAAATG
47305990 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
47306017 CAAATAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:47307789 original size:44 final size:44
Alignment explanation
Indices: 47307739--47308259 Score: 252
Period size: 44 Copynumber: 11.8 Consensus size: 44
47307729 AGGAATTGGT
* *
47307739 GCTTCGATCCACTCCAATGTAATTTCAAGGAGA-AGAGATTTGTA
1 GCTTCGATCTACTCCACTGTAATTTCAAGGAGATA-AGATTTGTA
* *
47307783 GCTTCGATCTACTCCGCTAG-AACTTT-AAGGAGATAAGAATTGGTA
1 GCTTCGATCTACTCCACT-GTAA-TTTCAAGGAGATAAG-ATTTGTA
** * * * * * * * *
47307828 ATTTCAACCTGCTCCACTATAACTTCAGGGAGATAAGGTTTGTT
1 GCTTCGATCTACTCCACTGTAATTTCAAGGAGATAAGATTTGTA
** * ** * * *
47307872 TATTCGACCCGCTCCAATGTAATTTCAGGGAGAAAAGATTTGTA
1 GCTTCGATCTACTCCACTGTAATTTCAAGGAGATAAGATTTGTA
* * ** *
47307916 GCTTCGATCTACTCCACTGGAACTTCCAA-GAGATAAGGCTGGTA
1 GCTTCGATCTACTCCACTGTAA-TTTCAAGGAGATAAGATTTGTA
* * * * * *
47307960 GCTTCAATCTGCTCCAATGTAATTTTAGGGA-AAATAGATTTGTA
1 GCTTCGATCTACTCCACTGTAATTTCAAGGAGATA-AGATTTGTA
* * * * * *
47308004 GCTTCGATCTACTCCCCTGGAACTTCAAGGAGACAAAAATTGGTA
1 GCTTCGATCTACTCCACTGTAATTTCAAGGAGA-TAAGATTTGTA
** * * * *
47308049 ATTTC-AACTTACTCCACTATAACTTCAGGGAGATAA-AGTTTGT-
1 GCTTCGATC-TACTCCACTGTAATTTCAAGGAGATAAGA-TTTGTA
* * *** * *
47308092 GTATTCGACCCGTTCCAATGTAATTTCAGGGAGA-AGAGATTTGTA
1 G-CTTCGATCTACTCCACTGTAATTTCAAGGAGATA-AGATTTGTA
* * * ** * *
47308137 GCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGGCTGGTG
1 GCTTCGATCTACTCCACTGTAATTTCAAGGAGATAAGATTTGTA
* * * * *
47308181 GTTTCAATCTACTCTAATGTAATTTCAGGGAGA-AGAGATTTGTA
1 GCTTCGATCTACTCCACTGTAATTTCAAGGAGATA-AGATTTGTA
* * * *
47308225 ACTTCAATCTACTCCGCTGGAATTTCAAGGAGATA
1 GCTTCGATCTACTCCACTGTAATTTCAAGGAGATA
47308260 TGGCTTAGTA
Statistics
Matches: 345, Mismatches: 111, Indels: 41
0.69 0.22 0.08
Matches are distributed among these distances:
43 8 0.02
44 259 0.75
45 76 0.22
46 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (44 bp):
GCTTCGATCTACTCCACTGTAATTTCAAGGAGATAAGATTTGTA
Found at i:47308062 original size:133 final size:133
Alignment explanation
Indices: 47307925--47308169 Score: 325
Period size: 133 Copynumber: 1.8 Consensus size: 133
47307915 AGCTTCGATC
* * * *
47307925 TACTCCACTGGAACTTCCA-AGAGAT-AAGGCTG-GTAGCTTCAATCTGCTCCAATGTAATTTTA
1 TACTCCACTAGAACTT-CAGAGAGATAAAGGCTGTGTA--TTCAACCCGCTCCAATGTAATTTCA
*
47307987 GGGAAAATAGATTTGTAGCTTCGATCTACTCCCCTGGAACTTCAAGGAGACAAAAATTGGTAATT
63 GGGAAAAGAGATTTGTAGCTTCGATCTACTCCCCTGGAACTTCAAGGAGACAAAAATTGGTAATT
47308052 TCAACT
128 TCAACT
* * ** * *
47308058 TACTCCACTATAACTTCAGGGAGATAAAGTTTGTGTATTCGACCCGTTCCAATGTAATTTCAGGG
1 TACTCCACTAGAACTTCAGAGAGATAAAGGCTGTGTATTCAACCCGCTCCAATGTAATTTCAGGG
* *
47308123 AGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGA
66 AAAAGAGATTTGTAGCTTCGATCTACTCCCCTGGAACTTCAAGGAGA
47308170 TAAGGCTGGT
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
132 2 0.02
133 86 0.90
134 5 0.05
135 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (133 bp):
TACTCCACTAGAACTTCAGAGAGATAAAGGCTGTGTATTCAACCCGCTCCAATGTAATTTCAGGG
AAAAGAGATTTGTAGCTTCGATCTACTCCCCTGGAACTTCAAGGAGACAAAAATTGGTAATTTCA
ACT
Found at i:47308273 original size:221 final size:221
Alignment explanation
Indices: 47307735--47308311 Score: 818
Period size: 221 Copynumber: 2.6 Consensus size: 221
47307725 GTATAGGAAT
* * *
47307735 TGGT-GCTTCGATCCACTCCAATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCG
1 TGGTAGCTTCAATCTACTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCG
* *
47307799 CTAGAACTTT-AAGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTATAACTTCAGGGAGATA
66 CTGGAA-TTTCAAGGAGATAAGAATTGGTAATTTCAACTTGCTCCACTATAACTTCAGGGAGATA
*
47307863 AGGTTTGTTTATTCGACCCGCTCCAATGTAATTTCAGGGAGAAAAGATTTGTAGCTTCGATCTAC
130 AGGTTTGTGTATTCGACCCGCTCCAATGTAATTTCAGGGAGAAAAGATTTGTAGCTTCGATCTAC
47307928 TCCACTGGAACTTCCAAGAGATAAGGC
195 TCCACTGGAACTTCCAAGAGATAAGGC
* * * * *
47307955 TGGTAGCTTCAATCTGCTCCAATGTAATTTTAGGGAAAATAGATTTGTAGCTTCGATCTACTCCC
1 TGGTAGCTTCAATCTACTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCG
* * * *
47308020 CTGGAACTTCAAGGAGACAAAAATTGGTAATTTCAACTTACTCCACTATAACTTCAGGGAGATAA
66 CTGGAATTTCAAGGAGATAAGAATTGGTAATTTCAACTTGCTCCACTATAACTTCAGGGAGATAA
* * *
47308085 AGTTTGTGTATTCGACCCGTTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACT
131 GGTTTGTGTATTCGACCCGCTCCAATGTAATTTCAGGGAGAAAAGATTTGTAGCTTCGATCTACT
*
47308150 CCGCTGGAACTT-CAAGGAGATAAGGC
196 CCACTGGAACTTCCAA-GAGATAAGGC
* * * * *
47308176 TGGTGGTTTCAATCTACTCTAATGTAATTTCAGGGAGAAGAGATTTGTAACTTCAATCTACTCCG
1 TGGTAGCTTCAATCTACTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCG
* ** * * * * * *
47308241 CTGGAATTTCAAGGAGATATGGCTTAGTAATTTTAACTTGTTTCACTGTAACTTCAGGAAGATAA
66 CTGGAATTTCAAGGAGATAAGAATTGGTAATTTCAACTTGCTCCACTATAACTTCAGGGAGATAA
47308306 GGTTTG
131 GGTTTG
47308312 CTATCTTCAG
Statistics
Matches: 311, Mismatches: 43, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
220 9 0.03
221 302 0.97
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.31
Consensus pattern (221 bp):
TGGTAGCTTCAATCTACTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCG
CTGGAATTTCAAGGAGATAAGAATTGGTAATTTCAACTTGCTCCACTATAACTTCAGGGAGATAA
GGTTTGTGTATTCGACCCGCTCCAATGTAATTTCAGGGAGAAAAGATTTGTAGCTTCGATCTACT
CCACTGGAACTTCCAAGAGATAAGGC
Found at i:47308341 original size:45 final size:44
Alignment explanation
Indices: 47308284--47308627 Score: 119
Period size: 44 Copynumber: 7.5 Consensus size: 44
47308274 TAACTTGTTT
* * *
47308284 CACTGTAACTTCAGGAAGATAAGGTTTGCT-ATCTTCAGTCTACTC
1 CACTGCAACTTCAGGAAGATAAGG-CTGCTGAT-TTCAATCTACTC
* * * * *
47308329 CGCTGCAACTTCAGGGAGATAAGGCTGGTGGTTTCAATCTGCTC
1 CACTGCAACTTCAGGAAGATAAGGCTGCTGATTTCAATCTACTC
* * * * **
47308373 CACTGCAACTTCAAGAAGATAAGATCCGCCATAACTTTTAACTTTAATCTGTTC
1 CACTGCAACTTCAGGAAGATAAG-GCTG-C-TGA--TTT--C---AATCTACTC
* * * ** * *
47308427 TACTACAACATCAGGGAA-ATAAGATTCGCTG-TCTTCAATCTGCTA
1 CACTGCAACTTCA-GGAAGATAAGGCT-GCTGAT-TTCAATCTACTC
* *
47308472 CGCTGCAACTTCAGGGAGATAAGGCTAGC-G-TCTTCAATCTACTC
1 CACTGCAACTTCAGGAAGATAAGGCT-GCTGAT-TTCAATCTACTC
* * * * ** *
47308516 CACTGCGACGTCAGGAAGATAA-GATCCACCATCTTCGATCTACTC
1 CACTGCAACTTCAGGAAGATAAGGCTGC-TGAT-TTCAATCTACTC
* * * * *
47308561 CACTGCAACTTCAATG-AGATAAGATCT-ATGACTTCAATCTGCTC
1 CACTGCAACTTC-AGGAAGATAAG-GCTGCTGATTTCAATCTACTC
*
47308605 CACTGCTACTTCAGGAAGATAAG
1 CACTGCAACTTCAGGAAGATAAG
47308628 ATTTGTAGAT
Statistics
Matches: 219, Mismatches: 58, Indels: 45
0.68 0.18 0.14
Matches are distributed among these distances:
42 1 0.00
43 4 0.02
44 95 0.43
45 78 0.36
46 2 0.01
47 2 0.01
48 1 0.00
49 4 0.02
50 2 0.01
51 1 0.00
52 1 0.00
53 1 0.00
54 24 0.11
55 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
CACTGCAACTTCAGGAAGATAAGGCTGCTGATTTCAATCTACTC
Found at i:47308530 original size:44 final size:44
Alignment explanation
Indices: 47308457--47308629 Score: 170
Period size: 44 Copynumber: 3.9 Consensus size: 44
47308447 AAGATTCGCT
* * * * *
47308457 GTCTTCAATCTGCTACGCTGCAACTTCAGGGAGATAAG-GCTAGC
1 GTCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATCTA-C
* * *
47308501 GTCTTCAATCTACTCCACTGCGACGTCAGGAAGATAAGATCCACC
1 GTCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATCTA-C
* * * *
47308546 ATCTTCGATCTACTCCACTGCAACTTCAATG-AGATAAGATCTAT
1 GTCTTCAATCTACTCCACTGCAACTTC-AGGAAGATAAGATCTAC
* * *
47308590 GACTTCAATCTGCTCCACTGCTACTTCAGGAAGATAAGAT
1 GTCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGAT
47308630 TTGTAGATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
43 2 0.02
44 63 0.61
45 37 0.36
46 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (44 bp):
GTCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATCTAC
Found at i:47314429 original size:4 final size:4
Alignment explanation
Indices: 47314420--47314448 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
47314410 AAGAAAAACA
47314420 ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
47314449 TAAATAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:47318942 original size:14 final size:16
Alignment explanation
Indices: 47318887--47318959 Score: 60
Period size: 18 Copynumber: 4.2 Consensus size: 16
47318877 AATTTTATAA
47318887 AAAAATATAAAAATTATT
1 AAAAATAT-AAAA-TATT
*
47318905 AAAAATCATAAAAAATT
1 AAAAAT-ATAAAATATT
47318922 CATAAAATATAAAATA-T
1 -A-AAAATATAAAATATT
47318939 -AAAATATTAAAAATATT
1 AAAAATA-T-AAAATATT
47318956 AAAA
1 AAAA
47318960 TTGACATACA
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
14 6 0.13
15 1 0.02
16 6 0.13
17 5 0.11
18 21 0.46
19 7 0.15
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATATAAAATATT
Found at i:47319015 original size:9 final size:9
Alignment explanation
Indices: 47318842--47319148 Score: 79
Period size: 10 Copynumber: 33.0 Consensus size: 9
47318832 TTTTTTAATT
47318842 TTAT-AAAA
1 TTATAAAAA
47318850 TTAATAAAACA
1 TT-ATAAAA-A
*
47318861 TGTTTAAAACA
1 T-TATAAAA-A
*
47318872 TT-TAAAATT
1 TTATAAAA-A
47318881 TTATAAAAAA
1 TTAT-AAAAA
*
47318891 ATATAAAAA
1 TTATAAAAA
47318900 TTATTAAAAA
1 TTA-TAAAAA
*
47318910 TCATAAAAAA
1 TTAT-AAAAA
47318920 TTCAT-AAAA
1 TT-ATAAAAA
47318929 -TAT-AAAA
1 TTATAAAAA
47318936 -TAT-AAAA
1 TTATAAAAA
47318943 -TATTAAAAA
1 TTA-TAAAAA
*
47318952 -TATTAAAA
1 TTATAAAAA
* * *
47318960 TTGACATACAT
1 TT-ATA-AAAA
*
47318971 TTATAGAAA
1 TTATAAAAA
*
47318980 TGATAAAAAA
1 TTAT-AAAAA
47318990 TTATAAAAA
1 TTATAAAAA
*
47318999 CTTTTAAAAA
1 -TTATAAAAA
47319009 TTATAAAAA
1 TTATAAAAA
*
47319018 -AACTAATAAA
1 TTA-TAA-AAA
*
47319028 TTTTAATAAA
1 TTATAA-AAA
*
47319038 TTAT--TAA
1 TTATAAAAA
* *
47319045 GTAT-ATAA
1 TTATAAAAA
47319053 TTAATAAAATA
1 TT-ATAAAA-A
* *
47319064 TATTTAAAATT
1 T-TATAAAA-A
47319075 TTATAAAAA
1 TTATAAAAA
*
47319084 CTTGTAAAAA
1 -TTATAAAAA
47319094 TTCATAAAAA
1 TT-ATAAAAA
47319104 CTTATAAATAA
1 -TTATAAA-AA
47319115 -TATAAAAA
1 TTATAAAAA
*
47319123 TTCTAATAAA
1 TTATAA-AAA
47319133 -T-TAAAAA
1 TTATAAAAA
*
47319140 TTTTAAAAA
1 TTATAAAAA
47319149 AAATTTAAAA
Statistics
Matches: 230, Mismatches: 37, Indels: 63
0.70 0.11 0.19
Matches are distributed among these distances:
7 23 0.10
8 20 0.09
9 69 0.30
10 83 0.36
11 33 0.14
12 2 0.01
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:47319776 original size:9 final size:9
Alignment explanation
Indices: 47319764--47320017 Score: 130
Period size: 9 Copynumber: 27.7 Consensus size: 9
47319754 TTATGATTTT
47319764 TTTTTATAA
1 TTTTTATAA
*
47319773 TTTTTACAA
1 TTTTTATAA
47319782 TTTTATATCAA
1 TTTT-TAT-AA
*
47319793 TTTTAAT-A
1 TTTTTATAA
* *
47319801 TTTTAATTAT
1 TTTTTA-TAA
*
47319811 TTTTTATGA
1 TTTTTATAA
*
47319820 TTTTTA-AG
1 TTTTTATAA
*
47319828 TTTTTAAGAA
1 TTTTT-ATAA
*
47319838 TTTTAATAA
1 TTTTTATAA
47319847 TTTTTTATAAA
1 -TTTTTAT-AA
* *
47319858 ATTTTAAATA
1 TTTTTATA-A
47319868 TGTTTTATTAA
1 T-TTTTA-TAA
*
47319879 -TTTTATAT
1 TTTTTATAA
47319887 TTTTTATAA
1 TTTTTATAA
47319896 TTTTTATAA
1 TTTTTATAA
*
47319905 TTTTTA-GA
1 TTTTTATAA
*
47319913 -TTTTATTAG
1 TTTTTA-TAA
*
47319922 TTTTT-TATG
1 TTTTTATA-A
47319931 TTTTTATAA
1 TTTTTATAA
* *
47319940 TATTTATAG
1 TTTTTATAA
*
47319949 TTTTTATTA
1 TTTTTATAA
*
47319958 -TTTTATTA
1 TTTTTATAA
47319966 TTTTTATAA
1 TTTTTATAA
47319975 TTTTATATCAA
1 TTTT-TAT-AA
*
47319986 TTTTAAT-A
1 TTTTTATAA
*
47319994 -TTTTAAATA
1 TTTTTATA-A
*
47320003 TTTTTAAAA
1 TTTTTATAA
47320012 TTTTTA
1 TTTTTA
47320018 AAATACTTTG
Statistics
Matches: 190, Mismatches: 32, Indels: 46
0.71 0.12 0.17
Matches are distributed among these distances:
7 9 0.05
8 26 0.14
9 90 0.47
10 44 0.23
11 20 0.11
12 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:47319875 original size:58 final size:58
Alignment explanation
Indices: 47319800--47319909 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 58
47319790 CAATTTTAAT
* * *
47319800 ATTTTAATTATTTTTTATGATTTTTA-AGTTTTTAAGAATTTTAATAATTTTTTATAAA
1 ATTTTAAATATGTTTTATGAATTTTATA-TTTTTAAGAATTTTAATAATTTTTTATAAA
* * * *
47319858 ATTTTAAATATGTTTTATTAATTTTATATTTTTTATAATTTTTATAATTTTT
1 ATTTTAAATATGTTTTATGAATTTTATATTTTTAAGAATTTTAATAATTTTT
47319910 AGATTTTATT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
58 43 0.98
59 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (58 bp):
ATTTTAAATATGTTTTATGAATTTTATATTTTTAAGAATTTTAATAATTTTTTATAAA
Found at i:47320019 original size:19 final size:18
Alignment explanation
Indices: 47319964--47320015 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
47319954 ATTATTTTAT
* *
47319964 TATTTTTATAATTTTATA
1 TATTTTTAAAATTTTAAA
* *
47319982 TCAATTTTAATATTTTAAA
1 T-ATTTTTAAAATTTTAAA
47320001 TATTTTTAAAATTTT
1 TATTTTTAAAATTTT
47320016 TAAAATACTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTTTAAAATTTTAAA
Found at i:47322134 original size:40 final size:40
Alignment explanation
Indices: 47322064--47322197 Score: 169
Period size: 40 Copynumber: 3.4 Consensus size: 40
47322054 CCGTTATTTG
* *
47322064 TGGCACTTAGTGTGCGATACGATATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
* *
47322104 TGGCACTTAGTGTACGATTCGACATTGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
* * * * * *
47322144 TGGAACTTAGTGTGCAATTTGAGATAGCTTCAGCTATGTA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
*
47322184 CGGCACTTAGTGTG
1 TGGCACTTAGTGTG
47322198 TGAGATATTG
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
Found at i:47327002 original size:20 final size:20
Alignment explanation
Indices: 47326974--47327012 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
47326964 ACTTCAAAGG
*
47326974 ATAATCGAGTGAACAATATC
1 ATAACCGAGTGAACAATATC
47326994 ATAACCGAGTGAACAATAT
1 ATAACCGAGTGAACAATAT
47327013 TATTAATCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (20 bp):
ATAACCGAGTGAACAATATC
Found at i:47327114 original size:23 final size:22
Alignment explanation
Indices: 47327074--47327182 Score: 130
Period size: 23 Copynumber: 4.8 Consensus size: 22
47327064 AAGCTCCTTC
47327074 GAGCTGAACAGTAAGCTCTATT
1 GAGCTGAACAGTAAGCTCTATT
*
47327096 GAGCTGAAACGGTAAGCTCTATT
1 GAGCTG-AACAGTAAGCTCTATT
* *
47327119 GAGCTGAACAGTAAGCTCCAAT
1 GAGCTGAACAGTAAGCTCTATT
*
47327141 GAGCTGAAACAGTAAGCTCT-TAC
1 GAGCTG-AACAGTAAGCTCTAT-T
*
47327164 AAGCTGAATCAGTAAGCTC
1 GAGCTGAA-CAGTAAGCTC
47327183 ATACGAGTTG
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
22 27 0.36
23 48 0.64
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (22 bp):
GAGCTGAACAGTAAGCTCTATT
Found at i:47327124 original size:45 final size:44
Alignment explanation
Indices: 47327060--47327182 Score: 165
Period size: 45 Copynumber: 2.7 Consensus size: 44
47327050 GAGTCATGGT
* *
47327060 CGGTAAGCTCCTTCGAGCTGAACAGTAAGCTCTATTGAGCTGAAA
1 CGGTAAGCT-CTTCGAGCTGAACAGTAAGCTCCAATGAGCTGAAA
*
47327105 CGGTAAGCTCTATTGAGCTGAACAGTAAGCTCCAATGAGCTGAAA
1 CGGTAAGCTCT-TCGAGCTGAACAGTAAGCTCCAATGAGCTGAAA
* *
47327150 CAGTAAGCTCTTACAAGCTGAATCAGTAAGCTC
1 CGGTAAGCTCTT-CGAGCTGAA-CAGTAAGCTC
47327183 ATACGAGTTG
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 3 0.04
45 56 0.81
46 10 0.14
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (44 bp):
CGGTAAGCTCTTCGAGCTGAACAGTAAGCTCCAATGAGCTGAAA
Found at i:47329059 original size:20 final size:20
Alignment explanation
Indices: 47329018--47329059 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
47329008 ACCTCCTACA
* *
47329018 AGCTCATTTAGCTCGTTCCT
1 AGCTCATTGAGCTCATTCCT
*
47329038 AGCTCATTGAGCTCATTTCT
1 AGCTCATTGAGCTCATTCCT
47329058 AG
1 AG
47329060 TCGTTTAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCATTGAGCTCATTCCT
Found at i:47329292 original size:20 final size:21
Alignment explanation
Indices: 47329269--47329310 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
47329259 AAATTTTTCT
47329269 TAGCT-GAATTTAAGTTGTCC
1 TAGCTCGAATTTAAGTTGTCC
47329289 TAGCTGCCGAATTTAAGTTGTC
1 TAGCT--CGAATTTAAGTTGTC
47329311 TTTAAGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
23 14 0.74
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (21 bp):
TAGCTCGAATTTAAGTTGTCC
Found at i:47331267 original size:35 final size:35
Alignment explanation
Indices: 47331228--47331341 Score: 106
Period size: 35 Copynumber: 3.3 Consensus size: 35
47331218 GTCATCCTCA
*
47331228 TATTTATGGTTGGGTCGCCACACCCATAGTCCTTG
1 TATTTTTGGTTGGGTCGCCACACCCATAGTCCTTG
* ** * ** *
47331263 TATTTTTGG-TCGACCGCAACAATCATCA-TTCTTG
1 TATTTTTGGTTGGGTCGCCACACCCAT-AGTCCTTG
* *
47331297 TATTTTTGATTGGGTTGCCACACCCATAGTCCTTG
1 TATTTTTGGTTGGGTCGCCACACCCATAGTCCTTG
*
47331332 TGTTTTTGGT
1 TATTTTTGGT
47331342 CGACCGCAAC
Statistics
Matches: 57, Mismatches: 19, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
34 25 0.44
35 32 0.56
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (35 bp):
TATTTTTGGTTGGGTCGCCACACCCATAGTCCTTG
Found at i:47331297 original size:34 final size:34
Alignment explanation
Indices: 47331259--47331373 Score: 115
Period size: 34 Copynumber: 3.4 Consensus size: 34
47331249 ACCCATAGTC
47331259 CTTGTATTTTTGGTCGACCGCAACAATCATCATT
1 CTTGTATTTTTGGTCGACCGCAACAATCATCATT
* * *** * ** *
47331293 CTTGTATTTTTGATTGGGTTGCCACACCCAT-AGTC
1 CTTGTATTTTTG-GTCGACCGCAACAATCATCA-TT
*
47331328 CTTGTGTTTTTGGTCGACCGCAACAATCATCATT
1 CTTGTATTTTTGGTCGACCGCAACAATCATCATT
47331362 CTTGTATTTTTG
1 CTTGTATTTTTG
47331374 ATTGGGTTGC
Statistics
Matches: 58, Mismatches: 20, Indels: 6
0.69 0.24 0.07
Matches are distributed among these distances:
34 35 0.60
35 23 0.40
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (34 bp):
CTTGTATTTTTGGTCGACCGCAACAATCATCATT
Found at i:47331405 original size:69 final size:69
Alignment explanation
Indices: 47331228--47331390 Score: 281
Period size: 69 Copynumber: 2.4 Consensus size: 69
47331218 GTCATCCTCA
* * * *
47331228 TATTTATGGTTGGGTCGCCACACCCATAGTCCTTGTATTTTTGGTCGACCGCAACAATCATCATT
1 TATTTTTGATTGGGTTGCCACACCCATAGTCCTTGTGTTTTTGGTCGACCGCAACAATCATCATT
47331293 CTTG
66 CTTG
47331297 TATTTTTGATTGGGTTGCCACACCCATAGTCCTTGTGTTTTTGGTCGACCGCAACAATCATCATT
1 TATTTTTGATTGGGTTGCCACACCCATAGTCCTTGTGTTTTTGGTCGACCGCAACAATCATCATT
47331362 CTTG
66 CTTG
*
47331366 TATTTTTGATTGGGTTGCTACACCC
1 TATTTTTGATTGGGTTGCCACACCC
47331391 GTCATCTTCG
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 89 1.00
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (69 bp):
TATTTTTGATTGGGTTGCCACACCCATAGTCCTTGTGTTTTTGGTCGACCGCAACAATCATCATT
CTTG
Found at i:47331606 original size:26 final size:27
Alignment explanation
Indices: 47331576--47331629 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
47331566 CAAATTCATT
* *
47331576 GCAAGTT-GTGTTTGATAGTTGGTTTG
1 GCAAGTTGGGGTTCGATAGTTGGTTTG
*
47331602 GCAAGTTGGGGTTCGCTAGTTGGTTTG
1 GCAAGTTGGGGTTCGATAGTTGGTTTG
47331629 G
1 G
47331630 AAAACTAGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.13, C:0.07, G:0.39, T:0.41
Consensus pattern (27 bp):
GCAAGTTGGGGTTCGATAGTTGGTTTG
Found at i:47331640 original size:27 final size:27
Alignment explanation
Indices: 47331591--47331642 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
47331581 TTGTGTTTGA
* ** *
47331591 TAGTTGGTTTGGCAAGTTGGGGTTCGC
1 TAGTTGGTTTGGAAAACTAGGGTTCGC
47331618 TAGTTGGTTTGGAAAACTAGGGTTC
1 TAGTTGGTTTGGAAAACTAGGGTTC
47331643 TCCAGTCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.17, C:0.10, G:0.37, T:0.37
Consensus pattern (27 bp):
TAGTTGGTTTGGAAAACTAGGGTTCGC
Found at i:47337978 original size:12 final size:12
Alignment explanation
Indices: 47337961--47337985 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47337951 GCATCACATT
47337961 TTCAGAAAAATC
1 TTCAGAAAAATC
47337973 TTCAGAAAAATC
1 TTCAGAAAAATC
47337985 T
1 T
47337986 GATATCTCTT
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:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (12 bp):
TTCAGAAAAATC
Found at i:47340374 original size:57 final size:57
Alignment explanation
Indices: 47340235--47340396 Score: 137
Period size: 57 Copynumber: 2.8 Consensus size: 57
47340225 ATATATACAA
* * * * * * *
47340235 CAGGATTACCAGTCTAGGCTAAATCCTATCTCCAATATATATATACTC-AATAAAGCTTAGT
1 CAGGATGACCAGTCCAGGCTAAATCCAATCT---ATA-ACATATGCTCTAA-AGAGCTTAAT
** * *
47340296 CAGGATGACCAGTCCAGGCTAAATCCTTTTTATGACATATGCTCTAAAGAGCTTAAT
1 CAGGATGACCAGTCCAGGCTAAATCCAATCTATAACATATGCTCTAAAGAGCTTAAT
* * * *
47340353 CTGGATTACCCGTCCGGGCTAAATCCAATCTATAACATATGCTC
1 CAGGATGACCAGTCCAGGCTAAATCCAATCTATAACATATGCTC
47340397 GAGAGGACTT
Statistics
Matches: 83, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
57 52 0.63
58 4 0.05
61 27 0.33
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (57 bp):
CAGGATGACCAGTCCAGGCTAAATCCAATCTATAACATATGCTCTAAAGAGCTTAAT
Found at i:47349165 original size:34 final size:34
Alignment explanation
Indices: 47349127--47349192 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
47349117 CAAAAAAGCC
* *
47349127 CTAAACCCTACTTTAAATAAACAAAACACTAACA
1 CTAAACCATAATTTAAATAAACAAAACACTAACA
* *
47349161 CTAAACCATAATTTAAATAAACTAAACCCTAA
1 CTAAACCATAATTTAAATAAACAAAACACTAA
47349193 GACTTAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.23
Consensus pattern (34 bp):
CTAAACCATAATTTAAATAAACAAAACACTAACA
Found at i:47353160 original size:26 final size:27
Alignment explanation
Indices: 47353131--47353190 Score: 106
Period size: 26 Copynumber: 2.3 Consensus size: 27
47353121 CTATATATAG
47353131 ATGCCGAAA-GTGAGGTTGCCAGGCTA
1 ATGCCGAAATGTGAGGTTGCCAGGCTA
47353157 ATGCC-AAATGTGAGGTTGCCAGGCTA
1 ATGCCGAAATGTGAGGTTGCCAGGCTA
47353183 ATGCCGAA
1 ATGCCGAA
47353191 TTCTCCCTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
25 3 0.09
26 27 0.84
27 2 0.06
ACGTcount: A:0.28, C:0.20, G:0.32, T:0.20
Consensus pattern (27 bp):
ATGCCGAAATGTGAGGTTGCCAGGCTA
Found at i:47354246 original size:29 final size:29
Alignment explanation
Indices: 47354193--47354284 Score: 118
Period size: 29 Copynumber: 3.2 Consensus size: 29
47354183 GAAAGCATGT
*
47354193 ATATGAATGTA-ATTTGGGTCTAATGGGCC
1 ATATGAATG-AGATTTGGGCCTAATGGGCC
47354222 ATACT-AAT-ATGATTTGGGCCTAATGGGCC
1 ATA-TGAATGA-GATTTGGGCCTAATGGGCC
*
47354251 ATATGAATGAGATTTGGGCCTAGTGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
47354280 ATATG
1 ATATG
47354285 CATTATGTAG
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
27 1 0.02
28 1 0.02
29 52 0.93
30 2 0.04
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCCTAATGGGCC
Found at i:47360131 original size:23 final size:23
Alignment explanation
Indices: 47360105--47360150 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
47360095 GGGAAAATTT
47360105 ATGGATCTTAATTTAGAGTTCTG
1 ATGGATCTTAATTTAGAGTTCTG
*
47360128 ATGGATCTTAATTTGGAGTTCTG
1 ATGGATCTTAATTTAGAGTTCTG
47360151 TAGCTCAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.43
Consensus pattern (23 bp):
ATGGATCTTAATTTAGAGTTCTG
Found at i:47360712 original size:50 final size:51
Alignment explanation
Indices: 47360634--47360763 Score: 192
Period size: 50 Copynumber: 2.6 Consensus size: 51
47360624 GGACCATGGC
47360634 AACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGT
1 AACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-T
* *
47360685 GA-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAAT
1 AACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT
* * *
47360735 AACAAGTGAAAAGTGGTAGCTTCTGCTAC
1 AACAAGTGATAAGTGATAGCTTCGGCTAC
47360764 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
AACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT
Found at i:47360777 original size:31 final size:31
Alignment explanation
Indices: 47360739--47360825 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
47360729 ACAAATAACA
*
47360739 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
47360770 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
47360801 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
47360826 AAGTGACAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:47360954 original size:46 final size:46
Alignment explanation
Indices: 47360852--47360971 Score: 154
Period size: 46 Copynumber: 2.6 Consensus size: 46
47360842 GTGATTTCCA
*
47360852 TATAAGACCATATCTGGGATATGGCATCAGTGTGAATATGCTACTG
1 TATAAGACCATATCTGGGATATGGCATCAGTGAGAATATGCTACTG
* *
47360898 TATAATACCATATCTGGGATATGGCATCAGTGAG-ATATG-TGATTCG
1 TATAAGACCATATCTGGGATATGGCATCAGTGAGAATATGCT-ACT-G
* * *
47360944 TGTAAGACCATAGCTGGGCTATGGCATC
1 TATAAGACCATATCTGGGATATGGCATC
47360972 GATATATGAA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
44 1 0.02
45 7 0.11
46 57 0.88
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (46 bp):
TATAAGACCATATCTGGGATATGGCATCAGTGAGAATATGCTACTG
Found at i:47361006 original size:42 final size:42
Alignment explanation
Indices: 47360943--47361040 Score: 153
Period size: 42 Copynumber: 2.3 Consensus size: 42
47360933 TATGTGATTC
* *
47360943 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTAGGCTATGGCATC-ATTATATGAAGAT
*
47360985 GTGTAAGACCATAGCTAGGCTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTAGGCTATGGCATCATTATATGAAGAT
47361027 GTGTAAGACCATAG
1 GTGTAAGACCATAG
47361041 TTGAACTATG
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
41 1 0.02
42 51 0.98
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTAGGCTATGGCATCATTATATGAAGAT
Found at i:47361050 original size:42 final size:42
Alignment explanation
Indices: 47360943--47361054 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 42
47360933 TATGTGATTC
* *
47360943 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGAGCTATGGCATCGATATATGAAGAT
*
47360985 GTGTAAGACCATAGCT-AGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGA-GCTATGGCATCGA-TATATGAAGAT
* *
47361027 GTGTAAGACCATAGTTGAACTATGGCAT
1 GTGTAAGACCATAGCTGAGCTATGGCAT
47361055 TGAGAAAATG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
41 1 0.02
42 60 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGAGCTATGGCATCGATATATGAAGAT
Found at i:47361077 original size:42 final size:42
Alignment explanation
Indices: 47361031--47361116 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
47361021 GAAGATGTGT
47361031 AAGACCATAGTTGAACTATGGCATTGAGAAAATGAAGTACTC
1 AAGACCATAGTTGAACTATGGCATTGAGAAAATGAAGTACTC
47361073 AAGACCATAGTTGAACTATGGCATTGAGAAAATGAAGTACTC
1 AAGACCATAGTTGAACTATGGCATTGAGAAAATGAAGTACTC
47361115 AA
1 AA
47361117 TTTCGTAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (42 bp):
AAGACCATAGTTGAACTATGGCATTGAGAAAATGAAGTACTC
Found at i:47370184 original size:30 final size:30
Alignment explanation
Indices: 47370148--47370209 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
47370138 ACTTATTTTA
*
47370148 TTATTAATTTTGTTATTATTTTAAATGCAT
1 TTATTAATTTTGTTATTATTTTAAAGGCAT
* *
47370178 TTATTAATTTTTTTATTATTTTAGAGGCAT
1 TTATTAATTTTGTTATTATTTTAAAGGCAT
47370208 TT
1 TT
47370210 GCTTGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.61
Consensus pattern (30 bp):
TTATTAATTTTGTTATTATTTTAAAGGCAT
Found at i:47370350 original size:11 final size:12
Alignment explanation
Indices: 47370334--47370366 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
47370324 TATATATTTT
47370334 AAAATAATA-TA
1 AAAATAATATTA
47370345 AAAATAATATTA
1 AAAATAATATTA
47370357 AAAATTAATA
1 AAAA-TAATA
47370367 CGGGCAGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 6 0.30
13 5 0.25
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAATAATATTA
Found at i:47372050 original size:20 final size:22
Alignment explanation
Indices: 47372011--47372050 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
47372001 TATCATGGTC
*
47372011 TAAGCTTAATATCTATCAATGT
1 TAAGCCTAATATCTATCAATGT
47372033 TAAGCCTAAT-TC-ATCAAT
1 TAAGCCTAATATCTATCAAT
47372051 TTCTTTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 2 0.12
22 9 0.53
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (22 bp):
TAAGCCTAATATCTATCAATGT
Found at i:47384730 original size:26 final size:27
Alignment explanation
Indices: 47384701--47384753 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
47384691 GAACTATTGC
47384701 AATATAACA-CATTAAGCGTTGGATCA
1 AATATAACAGCATTAAGCGTTGGATCA
*
47384727 AATATAACATGCATTAAGTGTTGGATC
1 AATATAACA-GCATTAAGCGTTGGATC
47384754 TCCCACTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 9 0.38
28 15 0.62
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (27 bp):
AATATAACAGCATTAAGCGTTGGATCA
Found at i:47386007 original size:12 final size:14
Alignment explanation
Indices: 47385990--47386021 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
47385980 GTTGATGTAG
47385990 AATTAAAAT-ATT-
1 AATTAAAATAATTA
47386002 AATTAAAATAATTA
1 AATTAAAATAATTA
47386016 AATTAA
1 AATTAA
47386022 TTAACCTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.50
13 3 0.17
14 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTAAAATAATTA
Found at i:47393592 original size:21 final size:21
Alignment explanation
Indices: 47393568--47393620 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
47393558 TATTATTTTC
*
47393568 TGAACTAGAGGCTATTCCTAT
1 TGAACTAGAGGCCATTCCTAT
*
47393589 TGAACTAGAGGCCGTTCCTAT
1 TGAACTAGAGGCCATTCCTAT
47393610 TGAACTAGAGG
1 TGAACTAGAGG
47393621 GGAGTGGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (21 bp):
TGAACTAGAGGCCATTCCTAT
Found at i:47400149 original size:13 final size:13
Alignment explanation
Indices: 47400131--47400156 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47400121 CGAGAAATTA
47400131 AGCACACGGGCGT
1 AGCACACGGGCGT
47400144 AGCACACGGGCGT
1 AGCACACGGGCGT
47400157 GTGTGTAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.38, T:0.08
Consensus pattern (13 bp):
AGCACACGGGCGT
Found at i:47402545 original size:19 final size:19
Alignment explanation
Indices: 47402498--47402577 Score: 128
Period size: 19 Copynumber: 4.3 Consensus size: 19
47402488 CATATCATAT
*
47402498 CATATCATATCTAAAATTG
1 CATATCATATCTAAGATTG
47402517 --TATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
*
47402534 CATATCACATCTAAGATTG
1 CATATCATATCTAAGATTG
47402553 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
47402572 CATATC
1 CATATC
47402578 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
17 16 0.29
19 40 0.71
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:47403141 original size:87 final size:86
Alignment explanation
Indices: 47403050--47403322 Score: 204
Period size: 87 Copynumber: 3.1 Consensus size: 86
47403040 AGAAAGCCAA
47403050 ATCTGCTATGTCTTCGATTTTCTCCTTGTGAACACAA-ATGTGCCAAATCATCTTGGATCTGCTT
1 ATCTGCTATGTCTTCGATTTTCTCCTTGTGAACACAAGA--TGCCAAATCATCTTGGATCTGCTT
47403114 CAGTGAAATCATCTAAAGGTTAG
64 CAGTGAAATCATCTAAAGGTTAG
* * ** ** * *
47403137 ATCTGCCATGT-ATC--TGCTCTCC--GTCGAA-ATGGAGATGCTAGATCTGTTATCTTGGATCT
1 ATCTGCTATGTCTTCGATTTTCTCCTTGT-GAACA-CAAGATGCCAAATC----ATCTTGGATCT
** * * *
47403196 GCTTTGGTGTGAGAA-CATCCGAAA-GTCAA
60 GC-TT-CAGTGA-AATCAT-CTAAAGGTTAG
* * *
47403225 ATCTGCTATGTCTTCGATTTGCTCATTGTGAACACAAGGAAGCCAAATCATCTTGGATCTGCTTC
1 ATCTGCTATGTCTTCGATTTTCTCCTTGTGAACACAA-GATGCCAAATCATCTTGGATCTGCTTC
* *
47403290 AGTAAAATCATCTGAAGGTTAG
65 AGTGAAATCATCTAAAGGTTAG
47403312 ATCTGCTATGT
1 ATCTGCTATGT
47403323 ATCTGCTCTC
Statistics
Matches: 135, Mismatches: 31, Indels: 40
0.66 0.15 0.19
Matches are distributed among these distances:
82 10 0.07
83 4 0.03
84 7 0.05
86 20 0.15
87 32 0.24
88 22 0.16
89 21 0.16
91 4 0.03
92 4 0.03
93 11 0.08
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (86 bp):
ATCTGCTATGTCTTCGATTTTCTCCTTGTGAACACAAGATGCCAAATCATCTTGGATCTGCTTCA
GTGAAATCATCTAAAGGTTAG
Found at i:47403198 original size:86 final size:86
Alignment explanation
Indices: 47403099--47403379 Score: 249
Period size: 86 Copynumber: 3.2 Consensus size: 86
47403089 GTGCCAAATC
*
47403099 ATCTTGGATCTGCTTCAGTGAAATCATCTAAAGGTTAGATCTGCCATGTATCTGCTCTCCGTCGA
1 ATCTTGGATCTGCTTCAGTGAAATCATCTAAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGA
*
47403164 AATGGAGATGCTAGATCTGTT
66 AATGGAGATGCCAGATCTGTT
** * * * *
47403185 ATCTTGGATCTGCTTTGGTGTGAGAA-CATCCGAAA-GTCAAATCTGCTATGTCTTCGATTTGCT
1 ATCTTGGATCTGC-TT-CAGTGA-AATCAT-CTAAAGGTTAGATCTGCTATG---T--ATCTGCT
* * *
47403248 CAT-TGT-GAACACAAGGA-A-GCCAAATC----
57 C-TCCGTCG-A-A-ATGGAGATGCCAGATCTGTT
* * *
47403274 ATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCAA
1 ATCTTGGATCTGCTTCAGTGAAATCATCTAAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGA
47403339 AATGGAGATGCCAGATCTGTT
66 AATGGAGATGCCAGATCTGTT
47403360 ATCTTGGATCTGCTTCAGTG
1 ATCTTGGATCTGCTTCAGTG
47403380 TAAACACGTG
Statistics
Matches: 148, Mismatches: 24, Indels: 46
0.68 0.11 0.21
Matches are distributed among these distances:
80 4 0.03
81 3 0.02
82 17 0.11
84 1 0.01
86 37 0.25
87 21 0.14
88 21 0.14
89 19 0.13
91 1 0.01
92 1 0.01
93 16 0.11
94 3 0.02
95 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (86 bp):
ATCTTGGATCTGCTTCAGTGAAATCATCTAAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGA
AATGGAGATGCCAGATCTGTT
Found at i:47403344 original size:175 final size:175
Alignment explanation
Indices: 47403041--47403374 Score: 562
Period size: 175 Copynumber: 1.9 Consensus size: 175
47403031 GTAAACACGA
* * * *
47403041 GAAAGCCAAATCTGCTATGTCTTCGATTTTCTCCTTGTGAACACAAATGTGCCAAATCATCTTGG
1 GAAAGCCAAATCTGCTATGTCTTCGATTTGCTCATTGTGAACACAAAGGAGCCAAATCATCTTGG
* *
47403106 ATCTGCTTCAGTGAAATCATCTAAAGGTTAGATCTGCCATGTATCTGCTCTCCGTCGAAATGGAG
66 ATCTGCTTCAGTAAAATCATCTAAAGGTTAGATCTGCCATGTATCTGCTCTCCGTCAAAATGGAG
*
47403171 ATGCTAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
*
47403216 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCATTGTGAACAC-AAGGAAGCCAAATCATCTTG
1 GAAAGCCAAATCTGCTATGTCTTCGATTTGCTCATTGTGAACACAAAGG-AGCCAAATCATCTTG
* *
47403280 GATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCAAAATGGA
65 GATCTGCTTCAGTAAAATCATCTAAAGGTTAGATCTGCCATGTATCTGCTCTCCGTCAAAATGGA
47403345 GATGCCAGATCTGTTATCTTGGATCTGCTT
130 GATGCCAGATCTGTTATCTTGGATCTGCTT
47403375 CAGTGTAAAC
Statistics
Matches: 148, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
174 3 0.02
175 145 0.98
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (175 bp):
GAAAGCCAAATCTGCTATGTCTTCGATTTGCTCATTGTGAACACAAAGGAGCCAAATCATCTTGG
ATCTGCTTCAGTAAAATCATCTAAAGGTTAGATCTGCCATGTATCTGCTCTCCGTCAAAATGGAG
ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
Found at i:47403514 original size:84 final size:86
Alignment explanation
Indices: 47403418--47403974 Score: 364
Period size: 84 Copynumber: 6.8 Consensus size: 86
47403408 CTTTGGTCTA
* *
47403418 TTACCCTACTGCTTAAGGG-TTAAGGTGCATCATCTTCGATCTGCTCTGCTACTGCTTA-GG-GA
1 TTACCCTACTGCTTAGGGGATTAAGGCG-ATCATCTTCGATCTGCTCTGCTACTGCTTAGGGAGA
47403480 TAAGATCTACAAATTTAACCTG
65 TAAGATCTACAAATTTAACCTG
* **
47403502 TTACCCTACTGCTTAGGGGATTAAGGCGGGT-A--TTCGATCTGCTCCACTACTGCTTAGGGAGA
1 TTACCCTACTGCTTAGGGGATTAAGGC-GATCATCTTCGATCTGCTCTGCTACTGCTTAGGGAGA
*
47403564 TAAGATCTGCAAATTTAACCTG
65 TAAGATCTACAAATTTAACCTG
* * * * ***
47403586 TTATCCTACTGCTTAGGGGATTAAGGCGAGTCGTCATCGATCTGCTCTGTTACTGCTTATTTA-A
1 TTACCCTACTGCTTAGGGGATTAAGGCGA-TCATCTTCGATCTGCTCTGCTACTGCTTAGGGAGA
*** **
47403650 CCTG-T-TAC---CCT-A-CTG
65 TAAGATCTACAAATTTAACCTG
**** * * * * * *
47403665 CTTAGGGGA-T--TAAGGCGAGTCA-TC-ATCGATC-TG---CT--TC-GCTACTGCTTAGGGAG
1 -TTACCCTACTGCTTAGGGGATTAAGGCGATC-ATCTTCGATCTGCTCTGCTACTGCTTAGGGAG
* *
47403718 ATAAGATCT-----GTGAACCTG
64 ATAAGATCTACAAATTTAACCTG
** * * *
47403736 TTACCCTACTATTTAGGGGATTAAGGGGA--GTCTTCGATCTGCTCCAG-TACTGCTTAGGGAGA
1 TTACCCTACTGCTTAGGGGATTAAGGCGATCATCTTCGATCTGCT-CTGCTACTGCTTAGGGAG-
*
47403798 ATAAGATCTGCAAATTTAACCTG
64 ATAAGATCTACAAATTTAACCTG
* * * *
47403821 TTAACCTACTGCTTAGGGGATTAAAGCGGGTC-T-TT-GATCTGCTCTACTACTGCTTAGGGAGA
1 TTACCCTACTGCTTAGGGGATTAAGGC-GATCATCTTCGATCTGCTCTGCTACTGCTTAGGGAGA
47403883 TAAGATCTACAAATTTAACCTG
65 TAAGATCTACAAATTTAACCTG
* ** **
47403905 TTACCCTACTGCTCAGGGGATTAAGGCG--GGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAT
1 TTACCCTACTGCTTAGGGGATTAAGGCGATCATCTTCGATCTGCTCTGCTACTGCTTAGGGAGAT
47403968 AAGATCT
66 AAGATCT
47403975 GCGAACCTGT
Statistics
Matches: 361, Mismatches: 71, Indels: 82
0.70 0.14 0.16
Matches are distributed among these distances:
68 11 0.03
69 4 0.01
70 6 0.02
71 7 0.02
72 2 0.01
73 9 0.02
74 3 0.01
75 4 0.01
76 3 0.01
77 8 0.02
78 1 0.00
79 19 0.05
80 15 0.04
81 1 0.00
82 23 0.06
83 6 0.02
84 152 0.42
85 59 0.16
86 6 0.02
87 22 0.06
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.31
Consensus pattern (86 bp):
TTACCCTACTGCTTAGGGGATTAAGGCGATCATCTTCGATCTGCTCTGCTACTGCTTAGGGAGAT
AAGATCTACAAATTTAACCTG
Found at i:47403516 original size:41 final size:42
Alignment explanation
Indices: 47403466--47403606 Score: 137
Period size: 41 Copynumber: 3.4 Consensus size: 42
47403456 ATCTGCTCTG
*
47403466 CTACTGCTTA-GGGATAAGATCTACAAATTTAACCTGTTACC
1 CTACTGCTTAGGGGATAAGATCTGCAAATTTAACCTGTTACC
* *** ** * *
47403507 CTACTGCTTAGGGGATTAAG-GC-GGGTATTCGATCTGCT-CC
1 CTACTGCTTAGGGGA-TAAGATCTGCAAATTTAACCTGTTACC
*
47403547 ACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTATC
1 -CTACTGCTTAGGG-GATAAGATCTGCAAATTTAACCTGTTACC
47403591 CTACTGCTTAGGGGAT
1 CTACTGCTTAGGGGAT
47403607 TAAGGCGAGT
Statistics
Matches: 75, Mismatches: 18, Indels: 13
0.71 0.17 0.12
Matches are distributed among these distances:
40 2 0.03
41 35 0.47
42 11 0.15
43 26 0.35
44 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (42 bp):
CTACTGCTTAGGGGATAAGATCTGCAAATTTAACCTGTTACC
Found at i:47403685 original size:68 final size:68
Alignment explanation
Indices: 47403576--47403712 Score: 231
Period size: 68 Copynumber: 2.0 Consensus size: 68
47403566 AGATCTGCAA
* * *
47403576 ATTTAACCTGTTATCCTACTGCTTAGGGGATTAAGGCGAGTCGTCATCGATCTGC-TCTGTTACT
1 ATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCATCGATCTGCTTC-GCTACT
47403640 GCTT
65 GCTT
47403644 ATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCATCGATCTGCTTCGCTACTG
1 ATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCATCGATCTGCTTCGCTACTG
47403709 CTT
66 CTT
47403712 A
1 A
47403713 GGGAGATAAG
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
68 63 0.97
69 2 0.03
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.35
Consensus pattern (68 bp):
ATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCATCGATCTGCTTCGCTACTG
CTT
Found at i:47403842 original size:85 final size:83
Alignment explanation
Indices: 47403644--47403976 Score: 442
Period size: 84 Copynumber: 4.0 Consensus size: 83
47403634 GTTACTGCTT
* * *
47403644 ATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCATCGATCTGCTTCGCTACTG
1 ATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGG-GGGTC-T--TCGATCTGCTCCACTACTG
47403709 CTTAGGGAGATAAGATCTG---
62 CTTAGGGAGATAAGATCTGCAA
* ** *
47403728 --TGAACCTGTTACCCTACTATTTAGGGGATTAAGGGGAGTCTTCGATCTGCTCCAGTACTGCTT
1 ATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGGG-GTCTTCGATCTGCTCCACTACTGCTT
47403791 AGGGAGAATAAGATCTGCAA
65 AGGGAG-ATAAGATCTGCAA
* * * *
47403811 ATTTAACCTGTTAACCTACTGCTTAGGGGATTAAAGCGGGTCTTTGATCTGCTCTACTACTGCTT
1 ATTTAACCTGTTACCCTACTGCTTAGGGGATT-AAGGGGGTCTTCGATCTGCTCCACTACTGCTT
*
47403876 AGGGAGATAAGATCTACAA
65 AGGGAGATAAGATCTGCAA
*
47403895 ATTTAACCTGTTACCCTACTGCTCAGGGGATTAAGGCGGGTCTTCGATCTGCTCCACTACTGCTT
1 ATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGG-GGGTCTTCGATCTGCTCCACTACTGCTT
47403960 AGGGAGATAAGATCTGC
65 AGGGAGATAAGATCTGC
47403977 GAACCTGTTA
Statistics
Matches: 218, Mismatches: 22, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
79 25 0.11
80 10 0.05
81 2 0.01
82 34 0.16
83 3 0.01
84 84 0.39
85 55 0.25
86 5 0.02
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (83 bp):
ATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGGGGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTGCAA
Found at i:47405327 original size:43 final size:42
Alignment explanation
Indices: 47405280--47405378 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 42
47405270 TCCCAGATGT
47405280 GGTCTTACATGTAATCAAATATCAATGCC-ACTATCCCAGACAG
1 GGTCTTACATGTAATCAAATAT-AATGCCGA-TATCCCAGACAG
* * * * *
47405323 GGTCTTACATGAAATCAAATATGATTCCGATGTCCCAGACAT
1 GGTCTTACATGTAATCAAATATAATGCCGATATCCCAGACAG
*
47405365 GGTCTTACACGTAA
1 GGTCTTACATGTAA
47405379 ATCATAAGTC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 26 0.54
43 22 0.46
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.27
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATATAATGCCGATATCCCAGACAG
Found at i:47405381 original size:43 final size:42
Alignment explanation
Indices: 47405269--47405418 Score: 126
Period size: 43 Copynumber: 3.5 Consensus size: 42
47405259 CAATGCCAAC
** * *
47405269 GTCCCAGATGTGGTCTTACATGT-AATCAAATATCAATGCCACT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATAT-GATGCCA-T
* * * *
47405312 ATCCCAGACAGGGTCTTACATG-AAATCAAATATGATTCCGAT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATATGATGCC-AT
* *
47405354 GTCCCAGACATGGTCTTACACGTAAATCATAAGT-CGATGCCAAC
1 GTCCCAGACATGGTCTTACACGTAAATCA-AA-TATGATGCC-AT
*
47405398 GTCCCAGACGTGGTCTTACAC
1 GTCCCAGACATGGTCTTACAC
47405419 AAAAACACAT
Statistics
Matches: 88, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 24 0.27
43 35 0.40
44 28 0.32
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGTAAATCAAATATGATGCCAT
Found at i:47408255 original size:49 final size:48
Alignment explanation
Indices: 47408164--47408257 Score: 127
Period size: 48 Copynumber: 1.9 Consensus size: 48
47408154 ACGGGTAGTT
*
47408164 CACATGCCCATATCTATTTAACAGATTGAAACATGGCCTAAGCCATAC
1 CACATGCCCATATCTATTTAACAGATTGAAACACGGCCTAAGCCATAC
* * *
47408212 CACATGGCCATGTCTATTTAGCAGACTCT-AAACACGGCCTAAGCCA
1 CACATGCCCATATCTATTTAACAGA-T-TGAAACACGGCCTAAGCCA
47408258 CCTCACACGG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
48 22 0.55
49 17 0.43
50 1 0.03
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (48 bp):
CACATGCCCATATCTATTTAACAGATTGAAACACGGCCTAAGCCATAC
Found at i:47410343 original size:46 final size:46
Alignment explanation
Indices: 47410289--47410417 Score: 165
Period size: 46 Copynumber: 2.8 Consensus size: 46
47410279 ATGGTTGAGC
*
47410289 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ATG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA--GATGCAACAGG
* * *
47410336 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGATGCAAC-AGG
47410381 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAG
47410418 GGGCGGGTTA
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
43 6 0.08
45 4 0.06
46 29 0.41
47 29 0.41
48 3 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGATGCAACAGG
Found at i:47417735 original size:46 final size:46
Alignment explanation
Indices: 47417685--47417857 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
47417675 TGGTTGAGCA
*
47417685 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
47417731 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
47417778 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
47417824 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
47417858 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:47417841 original size:93 final size:93
Alignment explanation
Indices: 47417682--47417852 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
47417672 GGATGGTTGA
* *
47417682 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
47417747 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
47417775 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
47417840 TGAGTTCGAGTTC
66 TGAGTCCGAGTTC
47417853 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:47425549 original size:7 final size:6
Alignment explanation
Indices: 47425530--47425559 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
47425520 TAAACTCATA
*
47425530 TTATTT TTATTT TTACTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT
47425560 ATTTTTGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:47428336 original size:24 final size:24
Alignment explanation
Indices: 47428300--47428461 Score: 123
Period size: 24 Copynumber: 6.8 Consensus size: 24
47428290 GGGTCAACAT
* *
47428300 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
*
47428324 TGGCACTATGTGTGCGAAATTGAA
1 TGGCACTATGTGTGCGAATTTGAA
47428348 TGGCACTATGTGTGCTG-ATTTGAA
1 TGGCACTATGTGTGC-GAATTTGAA
* * ** * * *
47428372 TGTCAATACATGAGTGAATCTTTAA
1 TGGCACTATGTGTGCGAAT-TTGAA
* * *
47428397 -GGCACTATGTGTGCG-GTGTAGCA
1 TGGCACTATGTGTGCGAAT-TTGAA
* **
47428420 TGGCACTATGTGTGCGAACTTGTT
1 TGGCACTATGTGTGCGAATTTGAA
*
47428444 TAGCACTATGTGTGCGAA
1 TGGCACTATGTGTGCGAA
47428462 ATCGGTTGAT
Statistics
Matches: 105, Mismatches: 28, Indels: 10
0.73 0.20 0.07
Matches are distributed among these distances:
23 4 0.04
24 96 0.91
25 5 0.05
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:47428371 original size:48 final size:47
Alignment explanation
Indices: 47428300--47428460 Score: 144
Period size: 48 Copynumber: 3.4 Consensus size: 47
47428290 GGGTCAACAT
* *
47428300 TGGCACTAAGTGTGCGGATTTGAATGGCACTATGTGTGCGAAATTGAA
1 TGGCACTATGTGTGC-GATTTGAATGGCACTATGTGTGCGAACTTGAA
* * ** * * *
47428348 TGGCACTATGTGTGCTGATTTGAATGTCAATACATGAGTGAATCTTTAA
1 TGGCACTATGTGTGC-GATTTGAATGGCACTATGTGTGCGAA-CTTGAA
* * * **
47428397 -GGCACTATGTGTGCGGTGTAGCATGGCACTATGTGTGCGAACTTGTT
1 TGGCACTATGTGTGCGAT-TTGAATGGCACTATGTGTGCGAACTTGAA
*
47428444 TAGCACTATGTGTGCGA
1 TGGCACTATGTGTGCGA
47428461 AATCGGTTGA
Statistics
Matches: 86, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
47 5 0.06
48 77 0.90
49 4 0.05
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.32
Consensus pattern (47 bp):
TGGCACTATGTGTGCGATTTGAATGGCACTATGTGTGCGAACTTGAA
Found at i:47428820 original size:45 final size:45
Alignment explanation
Indices: 47428756--47428848 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
47428746 TATTATATTG
47428756 CTTATGACTTACTGAGTTGAATATTCATTTGGTGTGTTTTCTTGT
1 CTTATGACTTACTGAGTTGAATATTCATTTGGTGTGTTTTCTTGT
47428801 CTTATGACTTACTGAGTTGAATATTCATTTGGTGTGTTTTCTTGT
1 CTTATGACTTACTGAGTTGAATATTCATTTGGTGTGTTTTCTTGT
47428846 CTT
1 CTT
47428849 CTACTTAGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.17, C:0.12, G:0.19, T:0.52
Consensus pattern (45 bp):
CTTATGACTTACTGAGTTGAATATTCATTTGGTGTGTTTTCTTGT
Found at i:47430145 original size:27 final size:27
Alignment explanation
Indices: 47430107--47430163 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
47430097 TGAGGGGAGA
47430107 AACCTATGTTTTCGTGATAAAATGCTC
1 AACCTATGTTTTCGTGATAAAATGCTC
47430134 AACCTATGTTTTCGTGATAAAATGCTC
1 AACCTATGTTTTCGTGATAAAATGCTC
47430161 AAC
1 AAC
47430164 TTGGAATGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (27 bp):
AACCTATGTTTTCGTGATAAAATGCTC
Found at i:47435176 original size:46 final size:46
Alignment explanation
Indices: 47435127--47435305 Score: 270
Period size: 46 Copynumber: 3.9 Consensus size: 46
47435117 TTCTGAAATG
*
47435127 AAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACATGATATG-
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GA
*
47435173 AAATGTGTAAGACCATGATTGAAAGATACCATGGCAACATGATAGA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
*
47435219 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
* * * * *
47435265 AAACGAGTAAGACCATAGTTGAAAGATACTATGGCATCATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
47435306 TCGAAGATAA
Statistics
Matches: 123, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 122 0.99
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.22
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
Found at i:47440183 original size:25 final size:26
Alignment explanation
Indices: 47440134--47440193 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
47440124 GATGATGACG
47440134 AAAACAATAATAATAGCAATAGTA-T
1 AAAACAATAATAATAGCAATAGTATT
*
47440159 AAAACAATAATAATA-CATATGGTATT
1 AAAACAATAATAATAGCA-ATAGTATT
*
47440185 AAAATAATA
1 AAAACAATA
47440194 GAAACAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 2 0.06
25 20 0.65
26 9 0.29
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (26 bp):
AAAACAATAATAATAGCAATAGTATT
Found at i:47440209 original size:9 final size:9
Alignment explanation
Indices: 47440195--47440220 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
47440185 AAAATAATAG
47440195 AAACAAAAC
1 AAACAAAAC
47440204 AAACAAAAC
1 AAACAAAAC
47440213 AAACAAAA
1 AAACAAAA
47440221 AAATATGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (9 bp):
AAACAAAAC
Done.