Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 65 of 259
Found at i:20812706 original size:94 final size:93
Alignment explanation
Indices: 20812483--20812697 Score: 270
Period size: 94 Copynumber: 2.3 Consensus size: 93
20812473 AAGCTGACAC
* * **
20812483 CATGTCCCAGATAGGTCTTACACTAGCTTGTATATCGCAAGGCCAATGCATGTCCCAAACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCAAGGCCAATGCATGTCCCAAACATGTC
*
20812548 TTACACTAGCTCTCGTCTCAATGCCGATG
66 TTACACTAGCTCTCATCT-AATGCCGATG
* * * * * * *
20812577 CATGTCCCAAACATGTATTACACTGGCTTAAATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCAAGGCCAATGCATGTCCCAAACATGTC
* *
20812642 TTACACTGGCTCTCATACT-ATGGCTGATG
66 TTACACTAGCTCTCAT-CTAAT-GCCGATG
20812671 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
20812698 ACACATATCA
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
93 2 0.02
94 98 0.96
95 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCAAGGCCAATGCATGTCCCAAACATGTC
TTACACTAGCTCTCATCTAATGCCGATG
Found at i:20815060 original size:39 final size:39
Alignment explanation
Indices: 20815016--20815142 Score: 175
Period size: 39 Copynumber: 3.3 Consensus size: 39
20815006 TCTTTAACCC
* ** * *
20815016 GGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGTCC
1 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCT
* * *
20815055 AGATATATTTCTAGCATATAGCCTGCGGATCTCATGTCT
1 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCT
20815094 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCT
1 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCT
20815133 GGATAT-TTTC
1 GGATATATTTC
20815143 AATCTCATAC
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
38 4 0.05
39 73 0.95
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.32
Consensus pattern (39 bp):
GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCT
Found at i:20823061 original size:39 final size:39
Alignment explanation
Indices: 20823018--20823146 Score: 188
Period size: 39 Copynumber: 3.3 Consensus size: 39
20823008 GGTCTTTAAC
* ** *
20823018 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
* *
20823057 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
*
20823096 CTGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
20823135 CCGGATAT-TTTC
1 CCGGATATATTTC
20823147 AATCTCATAC
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
38 4 0.05
39 76 0.95
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:20832548 original size:24 final size:24
Alignment explanation
Indices: 20832520--20832657 Score: 119
Period size: 24 Copynumber: 5.9 Consensus size: 24
20832510 AAGCTCCTCC
20832520 TGAGCTGATAAACAGT-AGCTCTAT
1 TGAGCTGAT-AACAGTAAGCTCTAT
* *
20832544 TGAGCTGGTAATAGTAAGCTCTAT
1 TGAGCTGATAACAGTAAGCTCTAT
*
20832568 TGAGCTGGTAACAGTAAGCTCTAT
1 TGAGCTGATAACAGTAAGCTCTAT
*
20832592 TAAGCTG--AACAGTAAGCTCT-T
1 TGAGCTGATAACAGTAAGCTCTAT
* * *
20832613 TCAAGCT-A-AATCAGTAAGCTCCAA
1 T-GAGCTGATAA-CAGTAAGCTCTAT
* *
20832637 TGAGTTGA-AATAGTAAGCTCT
1 TGAGCTGATAACAGTAAGCTCT
20832658 TACGAGCTGT
Statistics
Matches: 98, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
21 2 0.02
22 20 0.20
23 27 0.28
24 49 0.50
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (24 bp):
TGAGCTGATAACAGTAAGCTCTAT
Found at i:20840675 original size:16 final size:17
Alignment explanation
Indices: 20840643--20840676 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
20840633 GGGGATGACG
20840643 TTTGTTTGGTGTTTATT
1 TTTGTTTGGTGTTTATT
*
20840660 TTTGTTT-GTTTTTATT
1 TTTGTTTGGTGTTTATT
20840676 T
1 T
20840677 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.06, C:0.00, G:0.18, T:0.76
Consensus pattern (17 bp):
TTTGTTTGGTGTTTATT
Found at i:20848070 original size:21 final size:20
Alignment explanation
Indices: 20848046--20848085 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
20848036 ATGCTCAAGT
20848046 TCCACACGGGCGTGTTGCCCA
1 TCCACACGGGCGTG-TGCCCA
20848067 TCCACACGGGCGTGTGCCC
1 TCCACACGGGCGTGTGCCC
20848086 TGTCTCAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.12, C:0.40, G:0.30, T:0.17
Consensus pattern (20 bp):
TCCACACGGGCGTGTGCCCA
Found at i:20850768 original size:64 final size:64
Alignment explanation
Indices: 20850619--20850858 Score: 180
Period size: 68 Copynumber: 3.7 Consensus size: 64
20850609 TACAGATAGT
* ** * * * * *
20850619 ATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACAGCATGT-GTACAAGAGAGCTACAAGACAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGCTAC--GAGA-
*
20850683 TATG
62 TA-A
* * *
20850687 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
20850751 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGCAGTCAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
20850816 AA
63 AA
* * *
20850818 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGT
20850859 GTGCAAGAGA
Statistics
Matches: 137, Mismatches: 30, Indels: 15
0.75 0.16 0.08
Matches are distributed among these distances:
63 8 0.06
64 25 0.18
65 2 0.01
66 23 0.17
67 31 0.23
68 47 0.34
69 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:20853041 original size:41 final size:41
Alignment explanation
Indices: 20852988--20853263 Score: 148
Period size: 40 Copynumber: 6.9 Consensus size: 41
20852978 AGTGCCAAAG
*
20852988 CATAGCTGAAGCTAT-TATAATCTCGCACACTAAGTACCTTT
1 CATAGCTGAAGCTATCT-CAATCTCGCACACTAAGTACCTTT
*
20853029 CATAGC-GAAAGCTATCTCAATCTCGCACACTAAGTACCATAT
1 CATAGCTG-AAGCTATCTCAATCTCGCACACTAAGTACC-TTT
* * * *
20853071 -ATAG-TCGAAGCTAT-TCTGAT-TCACACAGTAAGTA-GTTT
1 CATAGCT-GAAGCTATCTC-AATCTCGCACACTAAGTACCTTT
* * *
20853109 ATATAGCTGAAGCTATCTCAAT-ACGCACACTAAGT-GCTTT
1 -CATAGCTGAAGCTATCTCAATCTCGCACACTAAGTACCTTT
* * * * **
20853149 ATATAGCCGAAGCTATCTCGAT-ACGCACACTAAGT-GGTTT
1 -CATAGCTGAAGCTATCTCAATCTCGCACACTAAGTACCTTT
* * * * **
20853189 ATATAGCTGAAGTTATCTCGAT-ACGCACACTAAGT-GGTTT
1 -CATAGCTGAAGCTATCTCAATCTCGCACACTAAGTACCTTT
* * * *
20853229 ATATAGCTGAAGTTATCTCGAT-ACGCACACTAAGT
1 -CATAGCTGAAGCTATCTCAATCTCGCACACTAAGT
20853264 TCCAAACATA
Statistics
Matches: 207, Mismatches: 17, Indels: 23
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.01
40 152 0.73
41 49 0.24
42 4 0.02
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (41 bp):
CATAGCTGAAGCTATCTCAATCTCGCACACTAAGTACCTTT
Found at i:20853112 original size:40 final size:40
Alignment explanation
Indices: 20853068--20853263 Score: 279
Period size: 40 Copynumber: 4.9 Consensus size: 40
20853058 CTAAGTACCA
* * * *
20853068 TATATAG-TCGAAGCTAT-TCTGATTCACACAGTAAGTAGTT
1 TATATAGCT-GAAGCTATCTC-GATACGCACACTAAGTGGTT
* *
20853108 TATATAGCTGAAGCTATCTCAATACGCACACTAAGTGCTT
1 TATATAGCTGAAGCTATCTCGATACGCACACTAAGTGGTT
*
20853148 TATATAGCCGAAGCTATCTCGATACGCACACTAAGTGGTT
1 TATATAGCTGAAGCTATCTCGATACGCACACTAAGTGGTT
*
20853188 TATATAGCTGAAGTTATCTCGATACGCACACTAAGTGGTT
1 TATATAGCTGAAGCTATCTCGATACGCACACTAAGTGGTT
*
20853228 TATATAGCTGAAGTTATCTCGATACGCACACTAAGT
1 TATATAGCTGAAGCTATCTCGATACGCACACTAAGT
20853264 TCCAAACATA
Statistics
Matches: 143, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
40 140 0.98
41 3 0.02
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (40 bp):
TATATAGCTGAAGCTATCTCGATACGCACACTAAGTGGTT
Found at i:20853160 original size:80 final size:80
Alignment explanation
Indices: 20853037--20853263 Score: 294
Period size: 80 Copynumber: 2.8 Consensus size: 80
20853027 TTCATAGCGA
* * ** * * *
20853037 AAGCTATCTCAATCTCGCACACTAAGTACCATATATAGTCGAAGCTAT-TCTGATTCACACAGTA
1 AAGCTATCTCAAT-ACGCACACTAAGTGCTTTATATAGCCGAAGCTATCTC-GATACACACACTA
20853101 AGTAGTTTATATAGCTG
64 AGTAGTTTATATAGCTG
*
20853118 AAGCTATCTCAATACGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGATACGCACACTAAG
1 AAGCTATCTCAATACGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGATACACACACTAAG
*
20853183 TGGTTTATATAGCTG
66 TAGTTTATATAGCTG
* * * * * *
20853198 AAGTTATCTCGATACGCACACTAAGTGGTTTATATAGCTGAAGTTATCTCGATACGCACACTAAG
1 AAGCTATCTCAATACGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGATACACACACTAAG
20853263 T
66 T
20853264 TCCAAACATA
Statistics
Matches: 131, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
80 116 0.89
81 15 0.11
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (80 bp):
AAGCTATCTCAATACGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGATACACACACTAAG
TAGTTTATATAGCTG
Found at i:20855707 original size:16 final size:16
Alignment explanation
Indices: 20855682--20855722 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
20855672 GGTCGAAAAT
20855682 TTTTAATTTTTATGGAA
1 TTTT-ATTTTTATGGAA
*
20855699 -TTTATTTTTATGTAA
1 TTTTATTTTTATGGAA
20855714 TTTTATTTT
1 TTTTATTTT
20855723 ATTTTTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.68
Consensus pattern (16 bp):
TTTTATTTTTATGGAA
Found at i:20859332 original size:17 final size:17
Alignment explanation
Indices: 20859310--20859360 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
20859300 TTTGAATTCC
20859310 ATAGCTATTTAATCCTT
1 ATAGCTATTTAATCCTT
* *
20859327 ATAGCTA-CT-AGCC--
1 ATAGCTATTTAATCCTT
20859340 ATAGCTATTTAATCCTT
1 ATAGCTATTTAATCCTT
20859357 ATAG
1 ATAG
20859361 GTACTAGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
13 7 0.27
14 1 0.04
15 6 0.23
16 1 0.04
17 11 0.42
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (17 bp):
ATAGCTATTTAATCCTT
Found at i:20859344 original size:30 final size:30
Alignment explanation
Indices: 20859308--20859367 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
20859298 GTTTTGAATT
20859308 CCATAGCTATTTAATCCTTATAGCTACTAG
1 CCATAGCTATTTAATCCTTATAGCTACTAG
*
20859338 CCATAGCTATTTAATCCTTATAGGTACTAG
1 CCATAGCTATTTAATCCTTATAGCTACTAG
20859368 AATTCAACCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.37
Consensus pattern (30 bp):
CCATAGCTATTTAATCCTTATAGCTACTAG
Found at i:20863322 original size:93 final size:93
Alignment explanation
Indices: 20863163--20863334 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
20863153 GCCCATAAGT
* * *
20863163 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
20863228 CGAGTTCGGATGCCTAGTTACATCTAAC
66 CGAGTTCGGATGCCTAGTTACATCTAAC
* * *
20863256 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCTATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
20863321 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
20863335 CAAATATCAC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTAAC
Found at i:20863330 original size:46 final size:45
Alignment explanation
Indices: 20863156--20863330 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 45
20863146 GTAACCCGCC
* * * *
20863156 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
20863201 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 -CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
20863251 C-TAA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
20863294 CTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 C-ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
20863331 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 7 0.06
44 1 0.01
45 3 0.03
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (45 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:20863349 original size:46 final size:46
Alignment explanation
Indices: 20863206--20863349 Score: 141
Period size: 46 Copynumber: 3.1 Consensus size: 46
20863196 CGCATCCATG
* **
20863206 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCA-C
** *** **
20863252 TAACGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCTAT-A-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATATCAC
20863299 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCAC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCAC
20863345 AGTGA
1 AGTGA
20863350 CATGTCACTC
Statistics
Matches: 77, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
44 7 0.09
45 1 0.01
46 34 0.44
47 29 0.38
49 6 0.08
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCAC
Found at i:20868171 original size:32 final size:32
Alignment explanation
Indices: 20868126--20868192 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
20868116 AAACAGACAA
*
20868126 TAAACACATAGAGTAAGCTACAAAGAGCTTAG
1 TAAACACACAGAGTAAGCTACAAAGAGCTTAG
*
20868158 TAAACACACAGAGTAAGCTACAAATAGCTTAG
1 TAAACACACAGAGTAAGCTACAAAGAGCTTAG
20868190 TAA
1 TAA
20868193 GCCAAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.19
Consensus pattern (32 bp):
TAAACACACAGAGTAAGCTACAAAGAGCTTAG
Found at i:20871178 original size:48 final size:46
Alignment explanation
Indices: 20871082--20871299 Score: 230
Period size: 47 Copynumber: 4.7 Consensus size: 46
20871072 GATTTCTTGT
* **
20871082 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CATAGAGATGA
*
20871128 GTGCCAGTGTAAGACCATGTCTGGGACACGGCATCGGCATAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACA-TGCATCGGCATAGAGATGA
* *
20871176 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGA-GATGA
* * * * *
20871223 -TAGCTAGTGTAAGACGTGTCTAGGACATGCATCGAC-TA-AGA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAGATG-A
* *
20871267 GTGCTAGTGTAAGACATGTCCGGGACATGCATC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC
20871300 AGTACGTATA
Statistics
Matches: 149, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
43 1 0.01
44 30 0.20
45 2 0.01
46 27 0.18
47 64 0.43
48 25 0.17
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAGATGA
Found at i:20871243 original size:94 final size:91
Alignment explanation
Indices: 20871082--20871299 Score: 262
Period size: 94 Copynumber: 2.4 Consensus size: 91
20871072 GATTTCTTGT
**
20871082 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGTGCCAGTGTAAGACCATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAGTGTAAGACCATG
* *
20871147 TCTGGGACACGGCATCGGC-ATAGAGATGA
66 TCTAGGACA-GGCATCGACTA-AGAG-T-A
* * *
20871176 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGA-TAGCTAGTGTAAGA-CG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ACGATGAGT-GCCAGTGTAAGACCA
* *
20871239 TGTCTAGGACATGCATCGACTAAGAGTT
64 TGTCTAGGACAGGCATCGACTAAGAGTA
* *
20871267 GTGCTAGTGTAAGACATGTCCGGGACATGCATC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC
20871300 AGTACGTATA
Statistics
Matches: 110, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
91 31 0.28
92 1 0.01
93 11 0.10
94 51 0.46
95 16 0.15
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAGTGTAAGACCATG
TCTAGGACAGGCATCGACTAAGAGTA
Found at i:20872254 original size:20 final size:20
Alignment explanation
Indices: 20872224--20872273 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
20872214 GGGATAAGGG
20872224 CACGGGCGTGTCCCAAGCCA
1 CACGGGCGTGTCCCAAGCCA
* *
20872244 TACGGGTGTGTCCCAAGCCA
1 CACGGGCGTGTCCCAAGCCA
*
20872264 CACGGACGTG
1 CACGGGCGTG
20872274 CGTGACCACA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.34, G:0.32, T:0.14
Consensus pattern (20 bp):
CACGGGCGTGTCCCAAGCCA
Found at i:20875765 original size:46 final size:46
Alignment explanation
Indices: 20875715--20875887 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
20875705 TGGTTGAGCA
*
20875715 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
20875761 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* **
20875806 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
20875854 CCCGAGCTCTTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
20875888 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.57
47 28 0.27
48 3 0.03
50 3 0.03
51 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:20875871 original size:93 final size:93
Alignment explanation
Indices: 20875712--20875882 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
20875702 GGATGGTTGA
* *
20875712 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
20875777 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * * *
20875805 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGCCCGAGCTCTTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
20875870 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
20875883 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:20877796 original size:19 final size:19
Alignment explanation
Indices: 20877772--20877811 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
20877762 TGTGCCATCA
20877772 TAAATTCAT-TGGCATAACT
1 TAAATTCATAT-GCATAACT
*
20877791 TAAATTTATATGCATAACT
1 TAAATTCATATGCATAACT
20877810 TA
1 TA
20877812 CACATTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (19 bp):
TAAATTCATATGCATAACT
Found at i:20885468 original size:19 final size:19
Alignment explanation
Indices: 20885444--20885483 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
20885434 TGTGCCATCA
20885444 TAAATTCATAGGCATAACT
1 TAAATTCATAGGCATAACT
* *
20885463 TAAATTTATATGCATAACT
1 TAAATTCATAGGCATAACT
20885482 TA
1 TA
20885484 CACATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.38
Consensus pattern (19 bp):
TAAATTCATAGGCATAACT
Found at i:20888677 original size:14 final size:13
Alignment explanation
Indices: 20888650--20888692 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 13
20888640 TAGCCGTGTG
20888650 TTCTTCTTTGCTTT
1 TTCTTCTTT-CTTT
20888664 TTCTCTCTTTCTTT
1 TTCT-TCTTTCTTT
20888678 TTCTTTCTTTTCTTT
1 TTC-TTC-TTTCTTT
20888693 GATAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.74
Consensus pattern (13 bp):
TTCTTCTTTCTTT
Found at i:20891275 original size:26 final size:26
Alignment explanation
Indices: 20891241--20891321 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
20891231 ACTCATGGTT
* * *
20891241 CTCTGACCAACTTAAACTCAAGGGCC
1 CTCTAACCAACTCAAACTCAAGGGAC
20891267 CTCTAACCAACTCAAACTCAAGGGAC
1 CTCTAACCAACTCAAACTCAAGGGAC
* *
20891293 CTCCAACCAACTCAAACTCAAGGGTC
1 CTCTAACCAACTCAAACTCAAGGGAC
20891319 CTC
1 CTC
20891322 AGACCCATTC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.33, C:0.37, G:0.12, T:0.17
Consensus pattern (26 bp):
CTCTAACCAACTCAAACTCAAGGGAC
Found at i:20892384 original size:33 final size:32
Alignment explanation
Indices: 20892340--20892403 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
20892330 AAAACATTGT
* *
20892340 GGGCCTGAGCCCATTCCAGTAAT-AGTATCAGTG
1 GGGCCTAAGCCCATTACAG-AATCAGTA-CAGTG
20892373 GGGCCTAAGCCCATTACAGAATCAGTACAGT
1 GGGCCTAAGCCCATTACAGAATCAGTACAGT
20892404 ATGCAATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 7 0.25
33 21 0.75
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (32 bp):
GGGCCTAAGCCCATTACAGAATCAGTACAGTG
Found at i:20899757 original size:2 final size:2
Alignment explanation
Indices: 20899750--20899774 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20899740 GGAGAACAAG
20899750 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
20899775 GGAAGAGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:20900261 original size:59 final size:59
Alignment explanation
Indices: 20900179--20900308 Score: 215
Period size: 59 Copynumber: 2.2 Consensus size: 59
20900169 TATAAATTTA
* * * *
20900179 GCCACTAATATTTGTATATTTTGTTAAAATAGTGTTAATTGTATTTTTTAATTTTTTTT
1 GCCATTAATTTTTGTATATTTTGTTAAAATAGTGTTAATTGTATTTTTAAATTTTTGTT
*
20900238 GCCATTAATTTTTGTATGTTTTGTTAAAATAGTGTTAATTGTATTTTTAAATTTTTGTT
1 GCCATTAATTTTTGTATATTTTGTTAAAATAGTGTTAATTGTATTTTTAAATTTTTGTT
20900297 GCCATTAATTTT
1 GCCATTAATTTT
20900309 GTTTCTTTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 66 1.00
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.57
Consensus pattern (59 bp):
GCCATTAATTTTTGTATATTTTGTTAAAATAGTGTTAATTGTATTTTTAAATTTTTGTT
Found at i:20901439 original size:16 final size:16
Alignment explanation
Indices: 20901420--20901450 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20901410 CTTCTTCACT
20901420 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
20901436 TACTTACTTACTTAA
1 TACTCACTTACTTAA
20901451 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:20901456 original size:20 final size:20
Alignment explanation
Indices: 20901417--20901456 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
20901407 AAACTTCTTC
* *
20901417 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
20901437 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
20901457 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:20901825 original size:55 final size:54
Alignment explanation
Indices: 20901687--20901833 Score: 152
Period size: 53 Copynumber: 2.7 Consensus size: 54
20901677 GGTCTCCTTT
* * * * * * *
20901687 TGAAACTTACCATTGTCATGTCTCGACATGGTCTTACATGGTATCATTGCCTTA
1 TGAAACTTACCAATGCCATGTCTTGACATGGTCTTACATAGAACCATTGCATTA
* * * * * *
20901741 TG-AACTCACCAATACCATGCCTTGGCATGGTCTTCCATAGAACCTTTGCATTA
1 TGAAACTTACCAATGCCATGTCTTGACATGGTCTTACATAGAACCATTGCATTA
*
20901794 TAGAAACTTATCAATGCCATGTCTTGACATGGTCTTACAT
1 T-GAAACTTACCAATGCCATGTCTTGACATGGTCTTACAT
20901834 GATATCCTTA
Statistics
Matches: 72, Mismatches: 19, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
53 39 0.54
54 3 0.04
55 30 0.42
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (54 bp):
TGAAACTTACCAATGCCATGTCTTGACATGGTCTTACATAGAACCATTGCATTA
Found at i:20901834 original size:108 final size:110
Alignment explanation
Indices: 20901688--20901884 Score: 274
Period size: 108 Copynumber: 1.8 Consensus size: 110
20901678 GTCTCCTTTT
* * * *
20901688 GAAACTTACCATTGTCATGTCTCGACATGGTCTTACATGGTATCATTGCCTTATG-AA-CTCACC
1 GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCATTACCTTA-GAAACCTCACC
20901751 AA-TACCATGCCTTGGCATGGTCTTCCATAGAACCTTTGCATTATA
65 AATTACCATGCCTTGGCATGGTCTTCCATAGAACCTTTGCATTATA
* * * * *
20901796 GAAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTTAGAAACCTTACTA
1 GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCATTACCTTAGAAACCTCACCA
*
20901861 ATTTCCATGCCTTGGCATGGTCTT
66 ATTACCATGCCTTGGCATGGTCTT
20901885 ACATGGTATC
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.63
109 6 0.08
110 21 0.28
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (110 bp):
GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCATTACCTTAGAAACCTCACCA
ATTACCATGCCTTGGCATGGTCTTCCATAGAACCTTTGCATTATA
Found at i:20905031 original size:17 final size:18
Alignment explanation
Indices: 20904994--20905029 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
20904984 GTAAGTGTAC
*
20904994 ATTGTCATTGCATTTTTTT
1 ATTGTCATTACA-TTTTTT
20905013 ATTGTCATTACATTTTT
1 ATTGTCATTACATTTTT
20905030 ATGTTAGTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.19, C:0.11, G:0.08, T:0.61
Consensus pattern (18 bp):
ATTGTCATTACATTTTTT
Found at i:20912039 original size:40 final size:41
Alignment explanation
Indices: 20911904--20912089 Score: 234
Period size: 41 Copynumber: 4.6 Consensus size: 41
20911894 TACTCGAATG
* *
20911904 ATATTCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
*
20911945 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
20911986 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCGACT
* * * * *
20912026 AAATTCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
20912066 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
20912090 CTTGTGCGAG
Statistics
Matches: 129, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 59 0.46
41 68 0.53
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
Found at i:20920112 original size:40 final size:40
Alignment explanation
Indices: 20919977--20920162 Score: 241
Period size: 41 Copynumber: 4.6 Consensus size: 40
20919967 TACTCGAATG
*
20919977 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAAGCGACT
*
20920018 ATATCCGGGCTAAGTCCTGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCC-GAAGGCATTTGTGCTAAGCGACT
* *
20920059 ACATCCGGACTAAGATCCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAAGCGACT
* * *
20920099 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAAGCGACT
*
20920139 ATATCCGGGTTAAGATCCGAAGGC
1 ATATCCGGGCTAAG-TCCGAAGGC
20920163 CTTGTGCGAG
Statistics
Matches: 132, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
39 1 0.01
40 63 0.48
41 65 0.49
42 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAAGCGACT
Found at i:20920121 original size:81 final size:81
Alignment explanation
Indices: 20919979--20920162 Score: 255
Period size: 81 Copynumber: 2.3 Consensus size: 81
20919969 CTCGAATGAT
* * *
20919979 ATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAAGCGACTATATCCGGGCTAAGTCCTGAAGGCT
1 ATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
* *
20920043 TTTGTGCTAAGCGACTAC
65 TTTATGCT-AGCGACCAC
*
20920061 ATCCGGACTAAGATCCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
1 ATCCGGGCTAAGATCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
* *
20920125 TTATGCTAGTGACCAT
66 TTATGCTAGCGACCAC
*
20920141 ATCCGGGTTAAGATCCGAAGGC
1 ATCCGGGCTAAGATCCGAAGGC
20920163 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
80 26 0.29
81 37 0.41
82 27 0.30
83 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (81 bp):
ATCCGGGCTAAGATCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGCTAGCGACCAC
Found at i:20930377 original size:46 final size:46
Alignment explanation
Indices: 20930324--20930492 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
20930314 TGAGCATCTA
20930324 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * * *
20930370 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* * * *
20930417 AACTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* *
20930463 AGCTCGTTCAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
20930493 GGGGCGGGTT
Statistics
Matches: 98, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 54 0.55
47 27 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:20932688 original size:40 final size:39
Alignment explanation
Indices: 20932629--20932760 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 39
20932619 CATTTGAATG
* *
20932629 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTG-TT
* * *
20932669 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTT
* * * *
20932709 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGT-GTT
20932749 ATATCC-GGCTAA
1 ATATCCGGGCTAA
20932761 ATTCCGAAGA
Statistics
Matches: 76, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
39 6 0.08
40 68 0.89
41 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGTT
Found at i:20937695 original size:38 final size:38
Alignment explanation
Indices: 20937618--20937696 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
20937608 GTCTGAACAA
* * * *
20937618 AAACATGTATTAAAGGCGTCTTAAACTAGGACATATTT
1 AAACATATATTAAAGACGTCCTAAACTAGGAAATATTT
* * *
20937656 AAACATATATTGAAGACGTCCTAAACTATGAAATCTTT
1 AAACATATATTAAAGACGTCCTAAACTAGGAAATATTT
20937694 AAA
1 AAA
20937697 AACCCTTGTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (38 bp):
AAACATATATTAAAGACGTCCTAAACTAGGAAATATTT
Found at i:20940175 original size:40 final size:40
Alignment explanation
Indices: 20940100--20940308 Score: 251
Period size: 41 Copynumber: 5.1 Consensus size: 40
20940090 GCAAAAATTG
* ** * *
20940100 TAAAACACAGAGCAATAGCGGCG-TTTTACCAAAAACACTGC
1 TAAAA-ACAGAGCATTAGCGGCGCTTTT-GGAAAAACGCCGC
* * * *
20940141 TAAAAACAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGT
1 TAAAAACAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGC
20940181 TAAAAAACAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGC
1 T-AAAAACAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGC
*
20940222 TAAAAACCAGAACATTAGCGGCGCTTTT-GATAAAACGCCGC
1 TAAAAA-CAGAGCATTAGCGGCGCTTTTGGA-AAAACGCCGC
*
20940263 TAAAAACCAGAACATTAGCGGCGCTTTTGGAAAAACGCCGC
1 TAAAAA-CAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGC
20940304 TAAAA
1 TAAAA
20940309 GTCATATAAC
Statistics
Matches: 152, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
40 32 0.21
41 118 0.78
42 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (40 bp):
TAAAAACAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGC
Found at i:20940487 original size:14 final size:14
Alignment explanation
Indices: 20940465--20940558 Score: 52
Period size: 14 Copynumber: 6.7 Consensus size: 14
20940455 TTAATTATCA
*
20940465 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
20940479 TTATGGTTTAAGATGGT
1 TTATGGTTT-A-A-GGT
* *
20940496 ATAGGGTTTAAGGT
1 TTATGGTTTAAGGT
20940510 TTATGAG-TTAA---
1 TTATG-GTTTAAGGT
* *
20940521 CTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
20940535 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
*
20940549 TTAAGGTTTA
1 TTATGGTTTA
20940559 TGAGTTAACT
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
10 1 0.02
11 8 0.13
14 37 0.61
15 3 0.05
16 2 0.03
17 10 0.16
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.45
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:20940625 original size:7 final size:7
Alignment explanation
Indices: 20940613--20940724 Score: 63
Period size: 7 Copynumber: 15.7 Consensus size: 7
20940603 GGGATTATAA
20940613 TTTAGGG
1 TTTAGGG
20940620 TTTAGGG
1 TTTAGGG
*
20940627 GTTAGGG
1 TTTAGGG
20940634 -TT-GGAG
1 TTTAGG-G
20940640 TTTAAGGCG
1 TTT-AGG-G
*
20940649 -TAAGGG
1 TTTAGGG
20940655 TTT-GGTG
1 TTTAGG-G
*
20940662 TTAAGGG
1 TTTAGGG
*
20940669 TTAAGGG
1 TTTAGGG
*
20940676 TTTAGTG
1 TTTAGGG
20940683 TTTAGGG
1 TTTAGGG
20940690 TTTATGGG
1 TTTA-GGG
*
20940698 -ATAGGGG
1 TTTA-GGG
*
20940705 TTAAGAGG
1 TTTAG-GG
20940713 TTTAGGG
1 TTTAGGG
20940720 TTTAG
1 TTTAG
20940725 ATTAATTAGT
Statistics
Matches: 82, Mismatches: 13, Indels: 20
0.71 0.11 0.17
Matches are distributed among these distances:
5 2 0.02
6 6 0.07
7 58 0.71
8 13 0.16
9 3 0.04
ACGTcount: A:0.20, C:0.01, G:0.42, T:0.38
Consensus pattern (7 bp):
TTTAGGG
Found at i:20946509 original size:10 final size:10
Alignment explanation
Indices: 20946494--20946524 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
20946484 TTCTTACTAT
20946494 TCATACTGAA
1 TCATACTGAA
20946504 TCATACTGAA
1 TCATACTGAA
20946514 TCATACTGAA
1 TCATACTGAA
20946524 T
1 T
20946525 ATTTTCATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (10 bp):
TCATACTGAA
Found at i:20947260 original size:15 final size:15
Alignment explanation
Indices: 20947240--20947268 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20947230 TTACAAGTGA
20947240 TTGTTGTTAAGATAC
1 TTGTTGTTAAGATAC
20947255 TTGTTGTTAAGATA
1 TTGTTGTTAAGATA
20947269 TTAAACCCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.48
Consensus pattern (15 bp):
TTGTTGTTAAGATAC
Found at i:20948031 original size:15 final size:15
Alignment explanation
Indices: 20948000--20948044 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
20947990 CATAGAAAAT
20948000 AAATAT-TATTTAATTA
1 AAATATATATTT--TTA
20948016 AAATATATATTTTTA
1 AAATATATATTTTTA
*
20948031 AAATTTATATTTTT
1 AAATATATATTTTT
20948045 TAGCGGCGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 16 0.59
16 6 0.22
17 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
AAATATATATTTTTA
Found at i:20954220 original size:50 final size:50
Alignment explanation
Indices: 20953972--20954221 Score: 213
Period size: 50 Copynumber: 5.0 Consensus size: 50
20953962 GTAACCGAAG
* * * * * *
20953972 CTATCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGGCC-AA
1 CTATCTAGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAA
* * * *
20954021 CAATCTGGTACACGTAGTAGCTTGCACTTATTACTATACACGTGACCTAA
1 CTATCTAGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAA
* * * *
20954071 CCATAT-GATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAA
1 CTATCTAG-TACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCT-AA
* * * * * * **
20954121 GT-TGTCAGGTACGCATAATAG-TCTGCACTTAGTACTACACATGCAACCTAA
1 CTATCT-A-GTACACGTAGTAGCT-TGCACTTAGTACTACACACGTGACCTAA
*
20954172 CTATCTAGTACACGTAGTAGCTTGCACTTATTACTACACACGTGACCTAA
1 CTATCTAGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAA
20954222 AACCATCTTA
Statistics
Matches: 157, Mismatches: 34, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
49 43 0.27
50 76 0.48
51 34 0.22
52 4 0.03
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (50 bp):
CTATCTAGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAA
Found at i:20958645 original size:20 final size:20
Alignment explanation
Indices: 20958608--20958646 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20958598 CCTGCAGTCC
* *
20958608 AAAATTTTCAACTTTTTCTT
1 AAAATTTTCAAATGTTTCTT
20958628 AAAATTTTCAAATGTTTCT
1 AAAATTTTCAAATGTTTCT
20958647 GATTTAGTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.13, G:0.03, T:0.51
Consensus pattern (20 bp):
AAAATTTTCAAATGTTTCTT
Found at i:20961184 original size:40 final size:40
Alignment explanation
Indices: 20961129--20961339 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
20961119 ATTTGAATGA
* *
20961129 TATCCAGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
20961169 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* *
20961209 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
20961249 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
20961289 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
20961329 TATCC-GGCTAA
1 TATCCGGGCTAA
20961340 ATTCCGAAGA
Statistics
Matches: 155, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 7 0.05
40 145 0.94
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:20969310 original size:40 final size:41
Alignment explanation
Indices: 20969251--20969402 Score: 211
Period size: 40 Copynumber: 3.8 Consensus size: 41
20969241 CATTTGAATG
* * *
20969251 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
20969291 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
20969331 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
20969371 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
20969403 TTGTGGTTAT
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
40 99 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:20969414 original size:80 final size:80
Alignment explanation
Indices: 20969251--20969422 Score: 213
Period size: 80 Copynumber: 2.2 Consensus size: 80
20969241 CATTTGAATG
* * * * *
20969251 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
* *
20969316 TTTGTGCGAGTTGAT
66 ATTGTGCGAGTGGAT
* *
20969331 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGC
** *
20969395 AATTGTGCTTGTGGTT
65 AATTGTGCGAGTGGAT
20969411 ATATCC-GGCTAA
1 ATATCCGGGCTAA
20969423 ATTCCGAAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 6 0.08
80 71 0.90
81 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTGGAT
Found at i:20970832 original size:15 final size:15
Alignment explanation
Indices: 20970800--20970841 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
20970790 GTTACATCAC
*
20970800 CAAAATATAGAATTT
1 CAAAATATAAAATTT
20970815 CAAAA-ATAAAATTAT
1 CAAAATATAAAATT-T
*
20970830 CAATATATAAAA
1 CAAAATATAAAA
20970842 CAAGACCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 10 0.43
16 6 0.26
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (15 bp):
CAAAATATAAAATTT
Found at i:20974704 original size:31 final size:31
Alignment explanation
Indices: 20974669--20974727 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
20974659 TATTCTAGTC
20974669 AAATTAAATTTTGTAAACAATTTATATATTG
1 AAATTAAATTTTGTAAACAATTTATATATTG
*
20974700 AAATTAAATTTTGTAAATAATTTATATA
1 AAATTAAATTTTGTAAACAATTTATATA
20974728 AAATTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (31 bp):
AAATTAAATTTTGTAAACAATTTATATATTG
Found at i:20976785 original size:40 final size:40
Alignment explanation
Indices: 20976722--20976801 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
20976712 ACTCCCCTGA
*
20976722 AGGTTCCTCTTTCCACACTTGAAAGTCTGCATGTTCTATC
1 AGGTTCCTCTTTCCACACCTGAAAGTCTGCATGTTCTATC
*
20976762 AGGTTCCTCTTTCTACACCTGAAAGTCTGCATGTTCTATC
1 AGGTTCCTCTTTCCACACCTGAAAGTCTGCATGTTCTATC
20976802 TCTGCTAAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.38
Consensus pattern (40 bp):
AGGTTCCTCTTTCCACACCTGAAAGTCTGCATGTTCTATC
Found at i:20981105 original size:27 final size:28
Alignment explanation
Indices: 20981021--20981114 Score: 118
Period size: 28 Copynumber: 3.4 Consensus size: 28
20981011 CACGAGATTG
* * * * *
20981021 GCACTAAGTGTGTGGGTTTCAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
20981050 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
20981078 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
20981105 GCACTGAGTG
1 GCACTAAGTG
20981115 CGGACTTAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 20 0.34
28 22 0.37
29 17 0.29
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:20981129 original size:27 final size:27
Alignment explanation
Indices: 20981049--20981130 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
20981039 TCAATTGTAC
* * *
20981049 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGCGCGA-CTTAATTATAT
* * *
20981077 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGCGCGACTTAATTATAT
*
20981104 AGCACTGAGTGCG-GACTTAATATATAT
1 AGCACTAAGTGCGCGACTTAAT-TATAT
20981131 TTTTGAATCG
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.12
27 26 0.54
28 16 0.33
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGCGCGACTTAATTATAT
Found at i:21006624 original size:28 final size:28
Alignment explanation
Indices: 21006592--21006661 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
21006582 ATAGTAAGTC
21006592 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
21006620 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
21006648 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21006662 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:21013318 original size:66 final size:67
Alignment explanation
Indices: 21013189--21013318 Score: 165
Period size: 66 Copynumber: 1.9 Consensus size: 67
21013179 GGGATGTATC
* *
21013189 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAAAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
21013254 AGGACA
62 AGGACA
* *
21013260 CCATGTAGACAAGAAAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAAAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
21013319 TTCACCATGT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
66 24 0.44
67 9 0.17
68 1 0.02
71 20 0.37
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (67 bp):
CCATGTAGACAAGAAAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:21020753 original size:61 final size:66
Alignment explanation
Indices: 21020642--21020791 Score: 222
Period size: 64 Copynumber: 2.3 Consensus size: 66
21020632 ATACTATATA
21020642 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCATGTAGACAAGAGAGCTACGTGAGAGAT-A
1 GTAGCTAGGTCACATGTGTGATAC-GGATGTATCCATGTAGACAAGAGAGCTACGTGAGAGATAA
21020706 AT
65 AT
21020708 G-AGC-AGGTCACATGTGTGATA-GGATG-A-CGCATGTAGACAAGAGAGCTACGTGAGAGATAA
1 GTAGCTAGGTCACATGTGTGATACGGATGTATC-CATGTAGACAAGAGAGCTACGTGAGAGATAA
21020768 AT
65 AT
* *
21020770 GTAGCTAGGTCGCATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
21020792 TCCAAGTGAA
Statistics
Matches: 78, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
60 1 0.01
61 30 0.38
62 9 0.12
63 3 0.04
64 31 0.40
65 3 0.04
66 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.23
Consensus pattern (66 bp):
GTAGCTAGGTCACATGTGTGATACGGATGTATCCATGTAGACAAGAGAGCTACGTGAGAGATAAA
T
Found at i:21027572 original size:46 final size:47
Alignment explanation
Indices: 21027411--21027678 Score: 237
Period size: 46 Copynumber: 5.7 Consensus size: 47
21027401 AGGGTATAAT
* * * * *
21027411 GCCGATGCCATGTCCCAGACGTGGTCTTACACTGGCTCTCACATATCCAT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-ACATCTCGAG
** *
21027461 GATGATGGATGTCCCAGACATGTCTTACACTAG--C-ACATCTCGCA-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCG-AG
* * *
21027505 GCCGATGCATGTCCCAAACATGTCTTACACTGGCT-TATATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGAG
* * * *
21027551 GCCGATGCATGTCTCAGACATGTCTTACACTAGCTCT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGAG
* * * * *
21027597 GCCGATGCCATGTCCCAGATATGGTCTTACATTGGCTCT-CATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTACAT-CTCGAG
21027645 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
21027679 ATACACACAT
Statistics
Matches: 177, Mismatches: 32, Indels: 22
0.77 0.14 0.10
Matches are distributed among these distances:
44 34 0.19
45 2 0.01
46 63 0.36
47 26 0.15
48 34 0.19
49 13 0.07
50 5 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGAG
Found at i:21027653 original size:94 final size:96
Alignment explanation
Indices: 21027408--21027679 Score: 330
Period size: 94 Copynumber: 2.9 Consensus size: 96
21027398 CATAGGGTAT
* * * ** *
21027408 AATGCCGATGCCATGTCCCAGACGTGGTCTTACACTGGCTCTCACATATCCAT-GATGATGGATG
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATAT-CGTGGCCGATGCATG
21027472 TCCCAGACATGTCTTACACTAGCACATCTCGC
65 TCCCAGACATGTCTTACACTAGCACATCTCGC
* * *
21027504 -A-GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-T-ATATCTCGAGGCCGATGCATGT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGTGGCCGATGCATGT
* * *
21027563 CTCAGACATGTCTTACACTAGCTC-TCGTCTC
66 CCCAGACATGTCTTACACTAGCACATC-TCGC
* *
21027594 AATGCCGATGCCATGTCCCAGATATGGTCTTACATTGGCTCTCATA-AT-GTGGCCGATGCATGT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGTGGCCGATGCATGT
21027657 CCCAGACATGTCTTACACTAGCA
66 CCCAGACATGTCTTACACTAGCA
21027680 TACACACATC
Statistics
Matches: 149, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
89 3 0.02
90 38 0.26
91 2 0.01
92 21 0.14
93 24 0.16
94 55 0.37
95 3 0.02
96 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (96 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGTGGCCGATGCATGT
CCCAGACATGTCTTACACTAGCACATCTCGC
Found at i:21029211 original size:42 final size:43
Alignment explanation
Indices: 21029101--21029215 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 43
21029091 CAAACTCGTA
* * * *
21029101 CAATACCAACGTCCCAGACGTGGCCTTACATGTAATCAAATAT
1 CAATGCCAACGTCCCAAACGTGGTCTTACATGAAATCAAATAT
*
21029144 CAATGCC-ACTATCCCAAACAG-GGTCTTACATGAAATCAAATAT
1 CAATGCCAAC-GTCCCAAAC-GTGGTCTTACATGAAATCAAATAT
* *
21029187 -GATGCCAACGTCTCAAACGTGGTCTTACA
1 CAATGCCAACGTCCCAAACGTGGTCTTACA
21029216 CGTAAAACAT
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
41 1 0.02
42 23 0.38
43 35 0.58
44 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (43 bp):
CAATGCCAACGTCCCAAACGTGGTCTTACATGAAATCAAATAT
Found at i:21031169 original size:22 final size:23
Alignment explanation
Indices: 21031144--21031189 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
21031134 CAACCAAATC
21031144 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
21031166 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
21031189 A
1 A
21031190 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:21031195 original size:23 final size:23
Alignment explanation
Indices: 21031151--21031195 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
21031141 ATCAATTCAA
*
21031151 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
21031174 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
21031196 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:21037905 original size:22 final size:23
Alignment explanation
Indices: 21037880--21037925 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
21037870 CAACCAAATC
21037880 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
21037902 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
21037925 A
1 A
21037926 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:21037931 original size:23 final size:23
Alignment explanation
Indices: 21037887--21037931 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
21037877 ATCAATTCAA
*
21037887 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
21037910 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
21037932 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:21039922 original size:40 final size:40
Alignment explanation
Indices: 21039878--21040105 Score: 370
Period size: 40 Copynumber: 5.7 Consensus size: 40
21039868 GCTACTAGCT
21039878 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
21039918 CAAATGCCTTTGGGACTTAGCCCGGTTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
21039958 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
21039998 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
21040038 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
21040077 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
21040106 CAATCCGAAT
Statistics
Matches: 176, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
38 1 0.01
39 34 0.19
40 140 0.80
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:21041359 original size:53 final size:53
Alignment explanation
Indices: 21041239--21041357 Score: 206
Period size: 53 Copynumber: 2.3 Consensus size: 53
21041229 CTCAAAGCTC
*
21041239 TTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTT
1 TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTT
*
21041292 TTTTTCTTTCTTTTTCTTTCTTCTATTTGGCCAAGAACAACATGAGAGC--TT
1 TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTT
21041343 TTTTTCTTTCTTTTT
1 TTTTTCTTTCTTTTT
21041358 TTTTTCATCA
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
51 17 0.27
53 47 0.73
ACGTcount: A:0.17, C:0.20, G:0.10, T:0.53
Consensus pattern (53 bp):
TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTT
Found at i:21047979 original size:40 final size:40
Alignment explanation
Indices: 21047912--21048158 Score: 349
Period size: 40 Copynumber: 6.2 Consensus size: 40
21047902 CCTTCGGAGT
* *
21047912 TTAG-CCGGATATAGCT-ACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
*
21047951 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* ** *
21047991 TTAGCCCGGTTATAGTAACTCATACAAGTGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
21048031 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
21048071 TTATCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
21048110 TTAGCCC-GAAATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
21048150 TTAGCCCGG
1 TTAGCCCGG
21048159 TTATCAATCC
Statistics
Matches: 188, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
38 3 0.02
39 36 0.19
40 148 0.79
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:21049368 original size:52 final size:50
Alignment explanation
Indices: 21049289--21049413 Score: 200
Period size: 52 Copynumber: 2.5 Consensus size: 50
21049279 ATTTCCTCAA
*
21049289 AGCTCTTTTTCCTTC-TTTTCTTTCTTCTATTCGGCCAAGAACAACATGAG
1 AGCT-TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAG
21049339 AGCTTTTTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAG
1 AGC--TTTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAG
21049391 AGCTTTTTTCTTTCTTTTT-TTTC
1 AGCTTTTTTCTTTCTTTTTCTTTC
21049414 ATCATCATTT
Statistics
Matches: 71, Mismatches: 1, Indels: 7
0.90 0.01 0.09
Matches are distributed among these distances:
49 4 0.06
50 19 0.27
51 9 0.13
52 39 0.55
ACGTcount: A:0.17, C:0.22, G:0.10, T:0.50
Consensus pattern (50 bp):
AGCTTTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAG
Found at i:21071841 original size:43 final size:43
Alignment explanation
Indices: 21071776--21071930 Score: 258
Period size: 43 Copynumber: 3.6 Consensus size: 43
21071766 ACGGCATTAC
*
21071776 GCCTGCTAGGCACGAAGACCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
21071819 GCCTGCTAGGCACGAAGGCCCGAATACACATCA-TCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACT-GGCACGAA
* * *
21071862 GCCTACTAGGCACGAAGGCTCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
21071905 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
21071931 TAATACCAAC
Statistics
Matches: 104, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
42 1 0.01
43 103 0.99
ACGTcount: A:0.31, C:0.32, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
Found at i:21071976 original size:38 final size:38
Alignment explanation
Indices: 21071946--21072233 Score: 519
Period size: 38 Copynumber: 7.7 Consensus size: 38
21071936 CCAACATTAG
*
21071946 GCCTGCGGGATTTAACCTGGATATATTACCAGCACGAA
1 GCCTGCGGGATTTAACCCGGATATATTACCAGCACGAA
*
21071984 GCCTGTGGGATTTAACCCGGATATATTA-CAGCACGAA
1 GCCTGCGGGATTTAACCCGGATATATTACCAGCACGAA
*
21072021 GCCTGCAGGATTTAACCCGGATATATTACCAGCACGAA
1 GCCTGCGGGATTTAACCCGGATATATTACCAGCACGAA
21072059 GCCTGCGGGATTTAACCCGGATATATTA-CAGCACGAA
1 GCCTGCGGGATTTAACCCGGATATATTACCAGCACGAA
21072096 GCCTGCGGGATTTAACCCGGATATATTA-CAGCACGAA
1 GCCTGCGGGATTTAACCCGGATATATTACCAGCACGAA
*
21072133 GCCTGCGGGATTTAACCCGGATATATTACTAGCACGAA
1 GCCTGCGGGATTTAACCCGGATATATTACCAGCACGAA
21072171 GCCTGCGGGATTTAACCCGGATATATTACCAGCACGAA
1 GCCTGCGGGATTTAACCCGGATATATTACCAGCACGAA
21072209 GCCTGCGGGATTTAACCCGGATATA
1 GCCTGCGGGATTTAACCCGGATATA
21072234 ATTCAGCATA
Statistics
Matches: 241, Mismatches: 7, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
37 109 0.45
38 132 0.55
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (38 bp):
GCCTGCGGGATTTAACCCGGATATATTACCAGCACGAA
Found at i:21072250 original size:75 final size:75
Alignment explanation
Indices: 21071946--21072241 Score: 533
Period size: 75 Copynumber: 3.9 Consensus size: 75
21071936 CCAACATTAG
* *
21071946 GCCTGCGGGATTTAACCTGGATATATTACCAGCACGAAGCCTGTGGGATTTAACCCGGATATATT
1 GCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
21072011 ACAGCACGAA
66 ACAGCACGAA
*
21072021 GCCTGCAGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 GCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
21072086 ACAGCACGAA
66 ACAGCACGAA
21072096 GCCTGCGGGATTTAACCCGGATATATTA-CAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 GCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
21072160 ACTAGCACGAA
66 AC-AGCACGAA
21072171 GCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
1 GCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT-AT
21072236 T-CAGCA
65 TACAGCA
21072242 TATAGCCTGT
Statistics
Matches: 214, Mismatches: 4, Indels: 6
0.96 0.02 0.03
Matches are distributed among these distances:
74 38 0.18
75 139 0.65
76 34 0.16
77 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (75 bp):
GCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
ACAGCACGAA
Found at i:21075344 original size:50 final size:49
Alignment explanation
Indices: 21075227--21075413 Score: 207
Period size: 50 Copynumber: 3.8 Consensus size: 49
21075217 TGAGGTCGCA
* * * * *
21075227 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
**
21075278 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * *
21075328 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* *
21075377 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
21075414 TAGCTTCGGC
Statistics
Matches: 118, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 40 0.34
50 43 0.36
51 30 0.25
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:21078781 original size:90 final size:90
Alignment explanation
Indices: 21078617--21078794 Score: 223
Period size: 90 Copynumber: 2.0 Consensus size: 90
21078607 AGTAAGATGC
* * * **
21078617 CAACGCCATATCCCAGATATGGTCTTACATGAGATCACAACTCGATGCCAATGCCATGTCCTGGA
1 CAACGCCATATCCCAGATATGGTCTTACATGAGAACACAACTCAATGCCAATGCCATATCCCAGA
* *
21078682 CATGGTCTTACATGGGATCTCATAT
66 CATGATCTTACACGGGATCTCATAT
* * **
21078707 CAACGCCATATCTCAGATATGGTCTTACATGATAACACATAC-CAATGCTGATGCCATATCCCAG
1 CAACGCCATATCCCAGATATGGTCTTACATGAGAACACA-ACTCAATGCCAATGCCATATCCCAG
* *
21078771 ATATGATCTTATACGGGATCTCAT
65 ACATGATCTTACACGGGATCTCAT
21078795 CAACCCACAT
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
90 72 0.97
91 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (90 bp):
CAACGCCATATCCCAGATATGGTCTTACATGAGAACACAACTCAATGCCAATGCCATATCCCAGA
CATGATCTTACACGGGATCTCATAT
Found at i:21082879 original size:48 final size:48
Alignment explanation
Indices: 21082817--21083154 Score: 554
Period size: 48 Copynumber: 7.0 Consensus size: 48
21082807 TACAAGACAA
* *
21082817 ATATATATATGTGGTAAAGCCGTATGGCTAAG-GTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCT-AGTGTGAAATATGTATGAG
*
21082865 ATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
21082913 ATATATATATGTGGTAAAGCCGTATGGCTAAG-GTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCT-AGTGTGAAATATGTATGAG
21082961 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
21083009 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
21083057 ATATGTATATGTGGTAAAGCCGAGTGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
21083105 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
21083153 AT
1 AT
21083155 GTGTGTATAT
Statistics
Matches: 272, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
47 4 0.01
48 266 0.98
49 2 0.01
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:21085531 original size:36 final size:36
Alignment explanation
Indices: 21085484--21085555 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
21085474 CATGTTCCTA
*
21085484 GCTTTAGATTTCACTATTAGGTGCTTCCATTTATCT
1 GCTTTAGATTTCACTATTAGATGCTTCCATTTATCT
21085520 GCTTTAGATTTCACTATTAGATGCTTCCATTTATCT
1 GCTTTAGATTTCACTATTAGATGCTTCCATTTATCT
21085556 TTCTTGAAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.47
Consensus pattern (36 bp):
GCTTTAGATTTCACTATTAGATGCTTCCATTTATCT
Found at i:21097662 original size:46 final size:46
Alignment explanation
Indices: 21097600--21097828 Score: 282
Period size: 46 Copynumber: 5.0 Consensus size: 46
21097590 AGTGTGCTCT
21097600 CTGATA-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
21097646 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
21097692 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ** * *
21097738 GTGACGGGGAAATGAATAAGACCATGGTTGAATGATACCGTGGCAAC
1 CTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
21097785 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
21097829 TCATGTCGAA
Statistics
Matches: 161, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
45 1 0.01
46 121 0.75
47 39 0.24
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:21097803 original size:93 final size:92
Alignment explanation
Indices: 21097605--21097828 Score: 288
Period size: 93 Copynumber: 2.4 Consensus size: 92
21097595 GCTCTCTGAT
* * **
21097605 AGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAACGTGTAAGACCAT
1 AGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGAGGAAACGAATAAGACCAT
* *
21097670 GGTTGAAAGATACCATGGCAACCTGAT
66 GGTTGAAAGATACCATGGCAACATGAC
* * *
21097697 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGGAAATGAATAAGACC
1 A-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-GAGGAAACGAATAAGACC
* *
21097761 ATGGTTGAATGATACCGTGGCAACATGAC
64 ATGGTTGAAAGATACCATGGCAACATGAC
* * * *
21097790 AGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 AGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
21097829 TCATGTCGAA
Statistics
Matches: 114, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
92 43 0.38
93 71 0.62
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (92 bp):
AGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGAGGAAACGAATAAGACCAT
GGTTGAAAGATACCATGGCAACATGAC
Found at i:21102603 original size:17 final size:17
Alignment explanation
Indices: 21102583--21102633 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
21102573 TGAAGAAGGG
*
21102583 AGCAAAATAGAAAGAGA
1 AGCAAAATAGAAAGAAA
* *
21102600 AGCAAAAGAGAATGAAA
1 AGCAAAATAGAAAGAAA
*
21102617 AGTAAAATA-AAA-AAA
1 AGCAAAATAGAAAGAAA
21102632 AG
1 AG
21102634 GGAAGTTAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
15 5 0.18
16 2 0.07
17 21 0.75
ACGTcount: A:0.69, C:0.04, G:0.20, T:0.08
Consensus pattern (17 bp):
AGCAAAATAGAAAGAAA
Found at i:21108447 original size:51 final size:51
Alignment explanation
Indices: 21108383--21108518 Score: 146
Period size: 51 Copynumber: 2.7 Consensus size: 51
21108373 TGGAAACATG
*
21108383 ATCTTAAAAGATATCATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATCATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * * ** * * ** *
21108434 ATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGTA
1 ATCTTAAAAGATATCATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * *
21108485 ATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 ATCTTAAAAGATATCATATTATAATCTTAGAGAT
21108519 TTGATGGTAG
Statistics
Matches: 66, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (51 bp):
ATCTTAAAAGATATCATATTATAATCTTAGAGATCTTAGATAAGATATGGA
Found at i:21110368 original size:96 final size:96
Alignment explanation
Indices: 21110202--21110487 Score: 464
Period size: 96 Copynumber: 3.0 Consensus size: 96
21110192 GTGTCCGAGG
* * * * *
21110202 AAGTCTGTTATCGATGGGAATGATCGAGCAGATACGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATGGAGCAGATAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
*
21110267 AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
66 TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
*
21110298 AAGTCTGTCATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATGGAGCAGATAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
*
21110363 TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGT
66 TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
* * *
21110394 AAGTTTGTCATCGCAGGGAACGATGGAGTAGATAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATGGAGCAGATAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
*
21110459 TAAAGCCGAAGCCAAGAGGGCTAAGAGGA
66 TAAAGCCGAAGCCAAGAGGGCAAAGAGGA
21110488 ACAAAAAGAA
Statistics
Matches: 177, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 177 1.00
ACGTcount: A:0.35, C:0.17, G:0.35, T:0.13
Consensus pattern (96 bp):
AAGTCTGTCATCGAAGGGAACGATGGAGCAGATAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
Found at i:21117515 original size:25 final size:25
Alignment explanation
Indices: 21117487--21117534 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
21117477 TGTACACGTG
* *
21117487 TATGCTCACATGGGCTGTAAATCAA
1 TATGCTCACACGAGCTGTAAATCAA
* *
21117512 TATGTTCTCACGAGCTGTAAATC
1 TATGCTCACACGAGCTGTAAATC
21117535 GGAATACTCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (25 bp):
TATGCTCACACGAGCTGTAAATCAA
Found at i:21118088 original size:21 final size:20
Alignment explanation
Indices: 21118058--21118099 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
21118048 TAATATTGGT
* *
21118058 AAGTGGATTAGAAAATAAAAG
1 AAGTGAATTA-AAAAGAAAAG
21118079 AAGTGAATTAAAAAGAAAAG
1 AAGTGAATTAAAAAGAAAAG
21118099 A
1 A
21118100 GAGGATGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.17
Consensus pattern (20 bp):
AAGTGAATTAAAAAGAAAAG
Found at i:21118874 original size:13 final size:13
Alignment explanation
Indices: 21118856--21118880 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21118846 TAATGGTATA
21118856 TTGAATCCATGAC
1 TTGAATCCATGAC
21118869 TTGAATCCATGA
1 TTGAATCCATGA
21118881 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:21119464 original size:27 final size:27
Alignment explanation
Indices: 21119430--21119607 Score: 182
Period size: 27 Copynumber: 6.6 Consensus size: 27
21119420 TAAATTGTAC
21119430 AGCACTAAGTGTGCGATATGACTATGT
1 AGCACTAAGTGTGCGATATGACTATGT
* * *
21119457 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATATGACTATGT
* *
21119483 ATGCACTAAGTGTGCGA-ATTGACCATGC
1 A-GCACTAAGTGTGCGATA-TGACTATGT
* *
21119511 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TATGACTATGT
* * *
21119539 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATATGACTATGT
* *
21119566 AGCACTAAGTGTGCGAGT-TGATTATAT
1 AGCACTAAGTGTGCGA-TATGACTATGT
*
21119593 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21119608 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 105 0.81
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATATGACTATGT
Found at i:21119545 original size:82 final size:81
Alignment explanation
Indices: 21119431--21119586 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
21119421 AAATTGTACA
* *
21119431 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21119495 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
21119512 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
21119577 TGCGAGTTGA
65 TGCGAATTGA
21119587 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21119598 original size:82 final size:81
Alignment explanation
Indices: 21119427--21119607 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
21119417 GATTAAATTG
* *
21119427 TACAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21119492 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
21119508 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21119572 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21119590 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21119608 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21119618 original size:27 final size:27
Alignment explanation
Indices: 21119512--21119618 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
21119502 TGACCATGCG
* * * *
21119512 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
21119540 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
21119567 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
21119594 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
21119619 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:21126113 original size:19 final size:20
Alignment explanation
Indices: 21126089--21126134 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
21126079 AGTGGATTAG
21126089 AAAATAAA-AGAAG-TGAATT
1 AAAATAAAGAGAAGATGAA-T
*
21126108 AAAATAAAGAGAGGATGAAT
1 AAAATAAAGAGAAGATGAAT
21126128 AAAATAA
1 AAAATAA
21126135 GGGAGGAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 8 0.33
20 12 0.50
21 4 0.17
ACGTcount: A:0.65, C:0.00, G:0.17, T:0.17
Consensus pattern (20 bp):
AAAATAAAGAGAAGATGAAT
Found at i:21126866 original size:13 final size:13
Alignment explanation
Indices: 21126848--21126872 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21126838 GTAATGGTAA
21126848 TTGAATCCATGAC
1 TTGAATCCATGAC
21126861 TTGAATCCATGA
1 TTGAATCCATGA
21126873 AATTTAGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:21127448 original size:27 final size:27
Alignment explanation
Indices: 21127414--21127590 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
21127404 TAAATTGTAC
21127414 AGCACTAAGTGTGCGATATGACTATGT
1 AGCACTAAGTGTGCGATATGACTATGT
* * *
21127441 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATATGACTATGT
* *
21127467 ATGCACTAAGTGTGCGA-ATGACCATGC
1 A-GCACTAAGTGTGCGATATGACTATGT
* *
21127494 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TATGACTATGT
* * *
21127522 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATATGACTATGT
* * *
21127549 AGCACTAAGTGTGCAAGT-TGATTATAT
1 AGCACTAAGTGTGCGA-TATGACTATGT
*
21127576 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21127591 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 22 0.17
27 82 0.65
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATATGACTATGT
Found at i:21142119 original size:12 final size:12
Alignment explanation
Indices: 21142102--21142127 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21142092 CATTCCGAAG
21142102 TATATATATACA
1 TATATATATACA
21142114 TATATATATACA
1 TATATATATACA
21142126 TA
1 TA
21142128 AGTATGCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:21142652 original size:27 final size:28
Alignment explanation
Indices: 21142568--21142665 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
21142558 CACGAGATTG
* * *
21142568 GCACTAAGTGTGC-AGGTTTAAATTGTACA
1 GCACTAAGTGTGCGA-GTTT-GATTATATA
21142597 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
21142625 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
21142652 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
21142666 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 17 0.27
30 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:21142676 original size:27 final size:27
Alignment explanation
Indices: 21142596--21142678 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
21142586 TAAATTGTAC
* *
21142596 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
21142624 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
21142651 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
21142678 A
1 A
21142679 TTTTGAATCG
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:21142679 original size:29 final size:27
Alignment explanation
Indices: 21142568--21142679 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
21142558 CACGAGATTG
** * *
21142568 GCACTAAGTGTGCAGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
21142597 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
21142625 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
21142652 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
21142680 TTTGAATCGT
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:21148720 original size:17 final size:18
Alignment explanation
Indices: 21148698--21148731 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21148688 AAACATTATT
21148698 TAATTTT-TTTCAAAATA
1 TAATTTTATTTCAAAATA
*
21148715 TAATTTTATTTTAAAAT
1 TAATTTTATTTCAAAAT
21148732 TTTGTTAGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATTTTATTTCAAAATA
Found at i:21150178 original size:47 final size:46
Alignment explanation
Indices: 21150068--21150188 Score: 133
Period size: 47 Copynumber: 2.6 Consensus size: 46
21150058 GTTATTGTGA
*
21150068 GCTAGTGTAAGACATGTCTGGAACAT-GCATCGGCCACATTATGAGAG
1 GCTAGTGTAAGACATGTCTGGAACATGGCACCGG-C-CATTATGAGAG
* *
21150115 CCT-GTGTAAGACCATGTCTGGGACATGGCACCGG-CATTGA-GACGAG
1 GCTAGTGTAAGA-CATGTCTGGAACATGGCACCGGCCATT-ATGA-GAG
21150161 TGCTAGTGTAAGACATGTCTGGAACATG
1 -GCTAGTGTAAGACATGTCTGGAACATG
21150189 CATCGGTCGC
Statistics
Matches: 63, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
45 6 0.10
46 12 0.19
47 31 0.49
48 14 0.22
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGAACATGGCACCGGCCATTATGAGAG
Found at i:21151129 original size:3 final size:3
Alignment explanation
Indices: 21151121--21151146 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21151111 CCATGTGTGA
21151121 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
21151147 ATTAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:21153361 original size:39 final size:39
Alignment explanation
Indices: 21153316--21153475 Score: 239
Period size: 39 Copynumber: 4.1 Consensus size: 39
21153306 ATTCAAGACA
* *
21153316 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTG
* * *
21153355 CTGGAAATGTATCTAGGCTAAAGTTCCGTAGGCTTCGTG
1 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTG
* *
21153394 CTGGAAATGTATCCGGGCTAAAGTTCCGCAGGCTTCGTG
1 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTG
* *
21153433 TTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTG
21153472 CTGG
1 CTGG
21153476 TAATATAATT
Statistics
Matches: 110, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 110 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (39 bp):
CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:21165097 original size:46 final size:45
Alignment explanation
Indices: 21165044--21165216 Score: 162
Period size: 46 Copynumber: 3.7 Consensus size: 45
21165034 GGGTTATTGT
*
21165044 GAGCTAGTGTAAGACATGTATGGGACATGCATCACCCACATT-ATGA-
1 GAGCTAGTGTAAGACATGTCTGGGACATGCAT--CCCACATTGA-GAC
*
21165090 GAGCTAGTGTAAGACCATGTCTGGGACATGGCAT-CGACATTGAGAC
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCCCACATTGAGAC
*
21165136 GAGTGCTAGTGTAAGGCATGTCTGGGACATGCATCGGCC-C--TGAGAC
1 GA--GCTAGTGTAAGACATGTCTGGGACATGCATC--CCACATTGAGAC
21165182 GCAAG-TCAGTGTAAGACATGTCTGGGACATGCATC
1 G--AGCT-AGTGTAAGACATGTCTGGGACATGCATC
21165217 GGCTATGAGA
Statistics
Matches: 110, Mismatches: 5, Indels: 24
0.79 0.04 0.17
Matches are distributed among these distances:
45 9 0.08
46 56 0.51
47 27 0.25
48 17 0.15
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCCCACATTGAGAC
Found at i:21165217 original size:46 final size:46
Alignment explanation
Indices: 21165095--21165263 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
21165085 TATGAGAGCT
* * *
21165095 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGTGC
1 AGTGTAAGACCATGTCTGGGACATAGCATCGGCAATGAGACGAGT-C
* **
21165142 TAGTGTAAG-GCATGTCTGGGACAT-GCATCGGCCCTGAGACGCAAGTC
1 -AGTGTAAGACCATGTCTGGGACATAGCATCGGCAATGAGACG--AGTC
* * *
21165189 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATAGCATCGGCAATGAGACGAGTC
*
21165233 AATGTAAGACCATGTCTGGGACATAGCATCG
1 AGTGTAAGACCATGTCTGGGACATAGCATCG
21165264 ACATAGATAT
Statistics
Matches: 107, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
44 11 0.10
45 14 0.13
46 56 0.52
47 15 0.14
48 11 0.10
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATAGCATCGGCAATGAGACGAGTC
Found at i:21169479 original size:40 final size:40
Alignment explanation
Indices: 21169267--21169472 Score: 333
Period size: 40 Copynumber: 5.2 Consensus size: 40
21169257 AACCCAAGTA
* * *
21169267 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
21169306 TCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAGATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
21169346 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
21169386 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
21169426 CCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
21169466 CCTTCGG
1 CCTTCGG
21169473 ATCTTAGTCC
Statistics
Matches: 155, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 12 0.08
40 143 0.92
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:21170869 original size:13 final size:13
Alignment explanation
Indices: 21170851--21170876 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21170841 ATTTTTATTT
21170851 TTAACATAAAATA
1 TTAACATAAAATA
21170864 TTAACATAAAATA
1 TTAACATAAAATA
21170877 ATTATAATAT
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:21175347 original size:40 final size:40
Alignment explanation
Indices: 21175303--21175494 Score: 287
Period size: 40 Copynumber: 4.8 Consensus size: 40
21175293 GGGTATAGCT
* * * *
21175303 ACTCGCTCGAATGCCTTTGGGACATAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
*
21175343 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
21175383 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
* *
21175423 ACTCGCACAAATGCCTTCGGGACTTAGCCTGGA-ACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGTA
* *
21175463 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
21175495 TTATCATCCA
Statistics
Matches: 141, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 1 0.01
40 140 0.99
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:21177516 original size:29 final size:29
Alignment explanation
Indices: 21177453--21177520 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
21177443 TAATCAACCG
21177453 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
21177482 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
21177511 CGCACACTTA
1 CGCACACTTA
21177521 CCTTTTCTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:21177690 original size:29 final size:29
Alignment explanation
Indices: 21177627--21177694 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
21177617 TAATCAACCG
21177627 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
21177656 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
21177685 CGCACACTTA
1 CGCACACTTA
21177695 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:21177864 original size:29 final size:29
Alignment explanation
Indices: 21177801--21177868 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
21177791 TAATCAACCG
21177801 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
21177830 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
21177859 CGCACACTTA
1 CGCACACTTA
21177869 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:21178011 original size:29 final size:30
Alignment explanation
Indices: 21177977--21178048 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
21177967 ATCAACCACG
*
21177977 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
21178006 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
21178035 CACACTTAGTGCCA
1 CACACTTAGTGCCA
21178049 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:21178042 original size:174 final size:174
Alignment explanation
Indices: 21177342--21178017 Score: 1298
Period size: 174 Copynumber: 3.9 Consensus size: 174
21177332 AACTCAAGGT
21177342 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
21177407 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
21177472 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
21177516 ACTTACCTTTTCTGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
21177581 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
21177646 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
21177690 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
21177755 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
21177820 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* * *
21177864 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
* *
21177929 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
21177994 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
21178018 TGTACAATTT
Statistics
Matches: 495, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 495 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:21183570 original size:40 final size:40
Alignment explanation
Indices: 21183511--21183778 Score: 455
Period size: 40 Copynumber: 6.7 Consensus size: 40
21183501 GAGCATTGGA
* *
21183511 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
21183551 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
* *
21183591 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
21183631 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
21183671 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
21183711 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
21183751 ATATGTCCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
21183779 ATGTGTTTGC
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
Found at i:21190999 original size:40 final size:40
Alignment explanation
Indices: 21190929--21191146 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
21190919 AAGCCAAGTA
* * * * *
21190929 CCTTCGGGATTTA-ACCGGGTATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
21190968 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21191008 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
21191048 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
21191088 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
21191128 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
21191147 TTATCATCCA
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 13 0.08
40 150 0.92
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:21195680 original size:13 final size:12
Alignment explanation
Indices: 21195652--21195709 Score: 53
Period size: 13 Copynumber: 4.6 Consensus size: 12
21195642 TTTGACACTC
**
21195652 TGTTTTAAAATA
1 TGTTTTAAGTTA
21195664 TGTTTTCAAGTTA
1 TGTTTT-AAGTTA
*
21195677 TGTTTTTAAGCTA
1 TG-TTTTAAGTTA
*
21195690 TGTTTTAAATATA
1 TGTTTTAAGT-TA
21195703 TGTTTTA
1 TGTTTTA
21195710 TGTGTGTTCC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
12 12 0.32
13 22 0.58
14 4 0.11
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.55
Consensus pattern (12 bp):
TGTTTTAAGTTA
Found at i:21196234 original size:58 final size:59
Alignment explanation
Indices: 21196125--21196241 Score: 211
Period size: 58 Copynumber: 2.0 Consensus size: 59
21196115 CTCAGCCATT
21196125 CTAATAAGACAAATATGTGAGCATGTTTTCCTGTTATTCATTTTCAAACAATAACAAAC
1 CTAATAAGACAAATATGTGAGCATGTTTTCCTGTTATTCATTTTCAAACAATAACAAAC
21196184 CTAATAAGGA-AAATATGTGAGCATG-TTTCCTGTTATTCATTTTCAAACAATAACAAAC
1 CTAATAA-GACAAATATGTGAGCATGTTTTCCTGTTATTCATTTTCAAACAATAACAAAC
21196242 TAAGTTTTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
58 33 0.58
59 22 0.39
60 2 0.04
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.33
Consensus pattern (59 bp):
CTAATAAGACAAATATGTGAGCATGTTTTCCTGTTATTCATTTTCAAACAATAACAAAC
Found at i:21202454 original size:43 final size:42
Alignment explanation
Indices: 21202391--21202502 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 42
21202381 TACCTTACTA
* * * *
21202391 ATGCCATATCCCAGATATGGTCTTACATG-TGATCTCTTATTG
1 ATGCCATAACCCAGATATGGTCTTACATGAAG-TCTCATATCG
* * *
21202433 ATGCCAATAACCTAGCTATGGTCTTAAATGAAGTCTCATATCG
1 ATGCC-ATAACCCAGATATGGTCTTACATGAAGTCTCATATCG
*
21202476 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATAACCCAGATATGGTCTTACA
21202503 CGAAAATCTC
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 23 0.40
43 33 0.58
44 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (42 bp):
ATGCCATAACCCAGATATGGTCTTACATGAAGTCTCATATCG
Found at i:21204687 original size:22 final size:22
Alignment explanation
Indices: 21204661--21204705 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
21204651 GATTTTCAAT
21204661 AATAATAATAAGAAAAT-AAATA
1 AATAATAATAAG-AAATCAAATA
*
21204683 AATAATAATGAGAAATCAAATA
1 AATAATAATAAGAAATCAAATA
21204705 A
1 A
21204706 TAGAATATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (22 bp):
AATAATAATAAGAAATCAAATA
Found at i:21208604 original size:23 final size:23
Alignment explanation
Indices: 21208578--21208622 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
21208568 TTTTACTTAG
21208578 CTTTTCCTAGCATACCAATGAGA
1 CTTTTCCTAGCATACCAATGAGA
21208601 CTTTTCCTAGCATACCAATGAG
1 CTTTTCCTAGCATACCAATGAG
21208623 CCAATCTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (23 bp):
CTTTTCCTAGCATACCAATGAGA
Found at i:21216265 original size:27 final size:27
Alignment explanation
Indices: 21216234--21216411 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
21216224 TAAATTGTAC
21216234 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21216261 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
** * *
21216287 ATGCACTAAGTGTGCGAACTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21216315 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21216343 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21216370 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21216397 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21216412 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 106 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21216348 original size:82 final size:81
Alignment explanation
Indices: 21216235--21216385 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
21216225 AAATTGTACA
* *
21216235 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21216299 TGCGAACTGACCATGCG
65 TGCGAACTGACCATGCG
** *
21216316 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
21216381 TGCGA
65 TGCGA
21216386 GTTGATTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.24
82 47 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAACTGACCATGCG
Found at i:21229483 original size:67 final size:67
Alignment explanation
Indices: 21229361--21229495 Score: 218
Period size: 67 Copynumber: 2.0 Consensus size: 67
21229351 CCGAAGCTAG
* *
21229361 AATGATTTCGCACACTTACTGCCATCTCAATTAGCCGAAGCTAAGTCGGTATCGCACACTTAATG
1 AATGATTTCGCACACTTACTGCCATCTCAATTAGCCGAAGCTAAATCGATATCGCACACTTAATG
21229426 CC
66 CC
* *
21229428 AATGATTTCGCACACTTACTGCCATCTCAATTAGCCGAAGCTAGAAT-GATTTCGCACACTTACT
1 AATGATTTCGCACACTTACTGCCATCTCAATTAGCCGAAGCTA-AATCGATATCGCACACTTAAT
21229492 GCC
65 GCC
21229495 A
1 A
21229496 TCTCAATTAG
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
67 61 0.97
68 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (67 bp):
AATGATTTCGCACACTTACTGCCATCTCAATTAGCCGAAGCTAAATCGATATCGCACACTTAATG
CC
Done.