Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 74 of 410
Found at i:20923694 original size:5 final size:5
Alignment explanation
Indices: 20923684--20923715 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
20923674 GTAGATGAAG
20923684 AGAAA AGAAA AGAAA AGAAA AGAAGA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAA-A AGAAA A
20923716 AACTGAATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:20923702 original size:15 final size:16
Alignment explanation
Indices: 20923660--20923715 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 16
20923650 TATGGGGGAA
*
20923660 AAGAAGAAGAG-AAAG
1 AAGAAGAAAAGAAAAG
* * *
20923675 TAGATGAAGAGAAAAG
1 AAGAAGAAAAGAAAAG
20923691 AA-AAGAAAAGAAAAG
1 AAGAAGAAAAGAAAAG
20923706 AAGAAGAAAA
1 AAGAAGAAAA
20923716 AACTGAATCC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 22 0.65
16 12 0.35
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.04
Consensus pattern (16 bp):
AAGAAGAAAAGAAAAG
Found at i:20925821 original size:44 final size:44
Alignment explanation
Indices: 20925734--20925821 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
20925724 ATCACATGTA
* *
20925734 TCGCATCCATCATGAACTCAGACCAACTCAAAGAGTTCAGATGC
1 TCGCATCCATAATGAACTCAGACCAACTCAAAGAGCTCAGATGC
* * *
20925778 TCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCAACTCAAAGAGCTCAGATGC
20925822 CTCATATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.19
Consensus pattern (44 bp):
TCGCATCCATAATGAACTCAGACCAACTCAAAGAGCTCAGATGC
Found at i:20929089 original size:46 final size:46
Alignment explanation
Indices: 20929039--20929250 Score: 216
Period size: 46 Copynumber: 4.6 Consensus size: 46
20929029 AAGTGTGTAT
* *
20929039 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACAATATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACGAGATGAGA
* * * *
20929085 GCTAGTGTAAGACCATGTTTGGGATATGGCA-TGGGCATTGAGATGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCA-CGAGATGAGA
* *
20929133 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACGAGATG-AGA
* * * * *
20929179 GCCAGTGTAAGACATGTCTTGGACATGCATCGGCTACGAGATGTG-
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACGAGATGAGA
* *
20929224 TC-AATGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
20929251 GTATCAGCAT
Statistics
Matches: 139, Mismatches: 20, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
44 8 0.06
45 15 0.11
46 61 0.44
47 33 0.24
48 22 0.16
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACGAGATGAGA
Found at i:20929139 original size:48 final size:46
Alignment explanation
Indices: 20929039--20929300 Score: 194
Period size: 46 Copynumber: 5.6 Consensus size: 46
20929029 AAGTGTGTAT
* * * *
20929039 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCA-CAATATGAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGG-CATCGAGATGAGA
* * *
20929085 GCTAGTGTAAGACCATGTTTGGGATATGGCATGGGCATTGAGATGAGA
1 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCATCGAGATGAGA
* *
20929133 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-A
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCATCGAGATG-AGA
* *
20929179 GCCAGTGTAAGACATGTCTT-GGACATGCATCGGC-TACGAGATGTG-
1 GCTAGTGTAAGACATGT-TTGGGACATGCATCGGCAT-CGAGATGAGA
* * * * * * *
20929224 TC-AATGTAAGACCATGTCTGGGACATGGTATCAGCATGGATATGTGAGA
1 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCATCGAGA--TGAGA
* * *
20929273 GCTACTGTCAGACCATGTCTGGGACATG
1 GCTAGTGTAAGA-CATGTTTGGGACATG
20929301 GCAACGACTT
Statistics
Matches: 176, Mismatches: 25, Indels: 27
0.77 0.11 0.12
Matches are distributed among these distances:
44 9 0.05
45 13 0.07
46 73 0.41
47 29 0.16
48 28 0.16
49 2 0.01
50 22 0.12
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCGGCATCGAGATGAGA
Found at i:20932221 original size:40 final size:40
Alignment explanation
Indices: 20932117--20932244 Score: 123
Period size: 40 Copynumber: 3.2 Consensus size: 40
20932107 CGGAATATAA
* ** *
20932117 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
* * * *
20932157 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
*** * *
20932197 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGG-TCTTAGC
20932237 CCGGATAT
1 CCGGATAT
20932245 CATTCAATTT
Statistics
Matches: 71, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
40 70 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:20940142 original size:40 final size:39
Alignment explanation
Indices: 20940091--20940239 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 39
20940081 AATACCATGT
*
20940091 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAAT-TCTC
* *
20940131 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATTAGCCA--CTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGA-TAG-AATTCTC
* *
20940170 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATT-TCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATTCT-C
* *
20940209 AGCATAATTGTCTTCGGG-CTTAGCCCGGATA
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATA
20940240 TCATTCAATT
Statistics
Matches: 92, Mismatches: 9, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
37 1 0.01
38 5 0.05
39 39 0.42
40 41 0.45
41 5 0.05
42 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATTCTC
Found at i:20940224 original size:79 final size:78
Alignment explanation
Indices: 20940091--20940238 Score: 201
Period size: 79 Copynumber: 1.9 Consensus size: 78
20940081 AATACCATGT
*
20940091 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
20940156 CGGATTAGCCACTA
65 CGGATTAGCCACTA
* * * * *
20940170 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
20940233 CCGGAT
64 CCGGAT
20940239 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
78 15 0.25
79 46 0.75
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATTAGCCACTA
Found at i:20945391 original size:30 final size:30
Alignment explanation
Indices: 20945355--20945455 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
20945345 GACAAGATTG
* * *
20945355 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
20945385 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
20945413 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
20945442 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
20945456 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:20945467 original size:29 final size:28
Alignment explanation
Indices: 20945384--20945459 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
20945374 AAAATTGTAC
* *
20945384 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
20945412 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
20945441 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
20945460 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:20948880 original size:40 final size:39
Alignment explanation
Indices: 20948699--20948850 Score: 250
Period size: 39 Copynumber: 3.9 Consensus size: 39
20948689 AATGTTCGAG
20948699 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
20948738 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
20948777 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
20948816 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
20948851 GGTTACCATA
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:20954191 original size:40 final size:39
Alignment explanation
Indices: 20954147--20954339 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
20954137 GTTCAAAACA
* * ** * *
20954147 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
20954187 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
20954227 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
20954266 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
20954305 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
20954340 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:20954258 original size:39 final size:39
Alignment explanation
Indices: 20954177--20954339 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
20954167 TATGGTAACC
* *
20954177 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
20954217 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
20954256 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
20954295 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
20954334 CGCACA
1 CGCACA
20954340 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:20961157 original size:40 final size:39
Alignment explanation
Indices: 20961113--20961305 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
20961103 GTTCAAAACA
* * ** * *
20961113 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
20961153 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
20961193 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
20961232 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
20961271 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
20961306 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:20961224 original size:39 final size:39
Alignment explanation
Indices: 20961143--20961305 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
20961133 TATGGTAACC
* *
20961143 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
20961183 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
20961222 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
20961261 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
20961300 CGCACA
1 CGCACA
20961306 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:20964537 original size:20 final size:21
Alignment explanation
Indices: 20964512--20964551 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20964502 TCTTAGAAAT
20964512 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
20964532 AGGGCAACATGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
20964552 CCATTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:20973898 original size:21 final size:21
Alignment explanation
Indices: 20973860--20973914 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
20973850 ATCCTTGACA
*
20973860 TCGCGACACCA-TGGAAGGATG
1 TCGCGACACCACT-AAAGGATG
* *
20973881 TTGTGACACCACTAAAGGATG
1 TCGCGACACCACTAAAGGATG
20973902 TCGCGACACCACT
1 TCGCGACACCACT
20973915 GCGTAAACTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.29, C:0.27, G:0.25, T:0.18
Consensus pattern (21 bp):
TCGCGACACCACTAAAGGATG
Found at i:20974259 original size:33 final size:33
Alignment explanation
Indices: 20974217--20974283 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
20974207 GGAGAGTGAC
*
20974217 ATAGACAACTACTTGTAATAGCTACAACCTTAT
1 ATAGACAACTACTTGCAATAGCTACAACCTTAT
20974250 ATAGACAACTACTTGCAATAGCTACAACCTTAT
1 ATAGACAACTACTTGCAATAGCTACAACCTTAT
20974283 A
1 A
20974284 CTCTAATCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.28
Consensus pattern (33 bp):
ATAGACAACTACTTGCAATAGCTACAACCTTAT
Found at i:20977590 original size:37 final size:37
Alignment explanation
Indices: 20977540--20977613 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
20977530 GTGATCCCAT
* * *
20977540 GTAAGACCTTGTCTGGGACATGGAATTGGCATTGATA
1 GTAAGACCATGTCTGGGACATGCAATTGGCATCGATA
* *
20977577 GTAAGACCATGTCTGGGATATGCCATTGGCATCGATA
1 GTAAGACCATGTCTGGGACATGCAATTGGCATCGATA
20977614 TGTGATCCCG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (37 bp):
GTAAGACCATGTCTGGGACATGCAATTGGCATCGATA
Found at i:20977632 original size:48 final size:48
Alignment explanation
Indices: 20977577--20977743 Score: 271
Period size: 48 Copynumber: 3.5 Consensus size: 48
20977567 GGCATTGATA
* *
20977577 GTAAGACCATGTCTGGGATATGCCATTGGCATCGATATGTGATCCCGT
1 GTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCGT
* *
20977625 GTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCGT
* **
20977673 GTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATTTCGT
1 GTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCGT
20977721 GTAAGACCATGTCTGGGACATGG
1 GTAAGACCATGTCTGGGACATGG
20977744 ACTCGATATG
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 111 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCGT
Found at i:20985334 original size:40 final size:40
Alignment explanation
Indices: 20985275--20985431 Score: 201
Period size: 40 Copynumber: 3.9 Consensus size: 40
20985265 TATTCGAATG
* * *
20985275 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGACT
*
20985315 ATATCCGGGCTAAGACCCGAAGGCATTTGTG-GTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCG-AGTGACT
* * * *
20985355 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
*
20985395 ATATCCGAGCTAAGACCCGAAGGCATTTGTGCGAGTG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
20985432 GTAATATCCG
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.02
40 99 0.98
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:20985442 original size:80 final size:80
Alignment explanation
Indices: 20985275--20985425 Score: 232
Period size: 80 Copynumber: 1.9 Consensus size: 80
20985265 TATTCGAATG
* * * * *
20985275 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTGCCATATCCGAGCTAAGACCCGAAGGCA
20985340 TTTGTGGTAGCGACT
66 TTTGTGGTAGCGACT
*
20985355 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGACCATATCCGAGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTG-CCATATCCGAGCTAAGACCCGAAGGC
20985419 ATTTGTG
65 ATTTGTG
20985426 CGAGTGGTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
79 2 0.03
80 62 0.97
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTGCCATATCCGAGCTAAGACCCGAAGGCA
TTTGTGGTAGCGACT
Found at i:20987930 original size:30 final size:30
Alignment explanation
Indices: 20987894--20987958 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
20987884 CCAGGGGACG
20987894 CACGGTCATGCATCGTGACCGTGTGTCACA
1 CACGGTCATGCATCGTGACCGTGTGTCACA
*
20987924 CACGGTCATGTATCGTGACCGTGTGTCACA
1 CACGGTCATGCATCGTGACCGTGTGTCACA
20987954 CACGG
1 CACGG
20987959 CTAAGACGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.20, C:0.29, G:0.28, T:0.23
Consensus pattern (30 bp):
CACGGTCATGCATCGTGACCGTGTGTCACA
Found at i:20989163 original size:20 final size:20
Alignment explanation
Indices: 20989109--20989197 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 20
20989099 CGTATAAACT
*
20989109 GTAATTCATTCA-TATAATTA
1 GTAATTCATT-AGTATAATCA
* ** *
20989129 GTAGTTCATCCGTATAACCA
1 GTAATTCATTAGTATAATCA
20989149 GTAATTCATTAGTAT-ATCA
1 GTAATTCATTAGTATAATCA
* **
20989168 GTAATTTATCCGTATCAAT-A
1 GTAATTCATTAGTAT-AATCA
20989188 GTAATTCATT
1 GTAATTCATT
20989198 CATTTCAACA
Statistics
Matches: 52, Mismatches: 14, Indels: 6
0.72 0.19 0.08
Matches are distributed among these distances:
19 15 0.29
20 35 0.67
21 2 0.04
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (20 bp):
GTAATTCATTAGTATAATCA
Found at i:20989182 original size:19 final size:20
Alignment explanation
Indices: 20989099--20989196 Score: 65
Period size: 20 Copynumber: 5.0 Consensus size: 20
20989089 CATTTTTATT
* * *
20989099 CGTATAAACTGTAATTCATT
1 CGTATAACCAGTAATTCATC
* ** *
20989119 CATATAATTAGTAGTTCATC
1 CGTATAACCAGTAATTCATC
*
20989139 CGTATAACCAGTAATTCATT
1 CGTATAACCAGTAATTCATC
* * *
20989159 AGTAT-ATCAGTAATTTATC
1 CGTATAACCAGTAATTCATC
*
20989178 CGTATCAA-TAGTAATTCAT
1 CGTAT-AACCAGTAATTCAT
20989197 TCATTTCAAC
Statistics
Matches: 58, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
19 15 0.26
20 42 0.72
21 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (20 bp):
CGTATAACCAGTAATTCATC
Found at i:20989191 original size:39 final size:40
Alignment explanation
Indices: 20989099--20989216 Score: 118
Period size: 40 Copynumber: 3.0 Consensus size: 40
20989089 CATTTTTATT
* * * *
20989099 CGTATAAACTGTAATTCATTCATATAATTAGTAGTTCATC
1 CGTATAACCAGTAATTCATTCATATAATCAGTAATTCATC
*
20989139 CGTATAACCAGTAATTCATT-AGTAT-ATCAGTAATTTATC
1 CGTATAACCAGTAATTCATTCA-TATAATCAGTAATTCATC
* *
20989178 CGTATCAA-TAGTAATTCATTCATTTCAA-CAGTAATTCAT
1 CGTAT-AACCAGTAATTCATTCATAT-AATCAGTAATTCAT
20989217 TCATTTCAAC
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
39 30 0.46
40 34 0.52
41 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (40 bp):
CGTATAACCAGTAATTCATTCATATAATCAGTAATTCATC
Found at i:20989205 original size:20 final size:20
Alignment explanation
Indices: 20989182--20989227 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
20989172 TTTATCCGTA
*
20989182 TCAATAGTAATTCATTCATT
1 TCAACAGTAATTCATTCATT
20989202 TCAACAGTAATTCATTCATT
1 TCAACAGTAATTCATTCATT
20989222 TCAACA
1 TCAACA
20989228 TAGCTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.20, G:0.04, T:0.39
Consensus pattern (20 bp):
TCAACAGTAATTCATTCATT
Found at i:20989423 original size:23 final size:23
Alignment explanation
Indices: 20989382--20989544 Score: 145
Period size: 23 Copynumber: 6.9 Consensus size: 23
20989372 GGTATCCTCC
* *
20989382 TGAGCTGATAAACAATAAGCACTAT
1 TGAGCTG--AAACAGTAAGCTCTAT
*
20989407 TGAGCTGAAACAGTAAGCTCTTT
1 TGAGCTGAAACAGTAAGCTCTAT
*
20989430 TGAGCTG-AACAGTAGGCTC-AT
1 TGAGCTGAAACAGTAAGCTCTAT
* * * *
20989451 ACGAGTTGAAAC-GATAAGCTCCAA
1 -TGAGCTGAAACAG-TAAGCTCTAT
20989475 TGAGCTGAAACAGTAAGCTCT-T
1 TGAGCTGAAACAGTAAGCTCTAT
*
20989497 TCGAGCTGATATATCAGTAAGCTCTAA
1 T-GAGCTGA-A-A-CAGTAAGCTCTAT
20989524 TGAGCTGAAACAGTAAGCTCT
1 TGAGCTGAAACAGTAAGCTCT
20989545 TTCAAGTTGA
Statistics
Matches: 114, Mismatches: 14, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
21 1 0.01
22 18 0.16
23 63 0.55
24 4 0.04
25 9 0.08
26 18 0.16
27 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTAT
Found at i:20989517 original size:26 final size:26
Alignment explanation
Indices: 20989485--20989569 Score: 97
Period size: 26 Copynumber: 3.4 Consensus size: 26
20989475 TGAGCTGAAA
20989485 CAGTAAGCTCTTTCGAGCTGATATAT
1 CAGTAAGCTCTTTCGAGCTGATATAT
*
20989511 CAGTAAGCTCTAAT-GAGCTGA-A-A-
1 CAGTAAGCTCT-TTCGAGCTGATATAT
* *
20989534 CAGTAAGCTCTTTCAAGTTGATATAT
1 CAGTAAGCTCTTTCGAGCTGATATAT
*
20989560 CGGTAAGCTC
1 CAGTAAGCTC
20989570 CAATGAGCTG
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
22 1 0.02
23 16 0.33
24 2 0.04
25 2 0.04
26 27 0.55
27 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (26 bp):
CAGTAAGCTCTTTCGAGCTGATATAT
Found at i:20989526 original size:49 final size:49
Alignment explanation
Indices: 20989465--20989602 Score: 213
Period size: 49 Copynumber: 2.8 Consensus size: 49
20989455 GTTGAAACGA
*
20989465 TAAGCTCCAATGAGCTGAAACAGTAAGCTCTTTCGAGCTGATATATCAG
1 TAAGCTCCAATGAGCTGAAACAGTAAGCTCTTTCAAGCTGATATATCAG
* * *
20989514 TAAGCTCTAATGAGCTGAAACAGTAAGCTCTTTCAAGTTGATATATCGG
1 TAAGCTCCAATGAGCTGAAACAGTAAGCTCTTTCAAGCTGATATATCAG
* * *
20989563 TAAGCTCCAATGAGCTGAAATAGTAAGCTCGTACAAGCTG
1 TAAGCTCCAATGAGCTGAAACAGTAAGCTCTTTCAAGCTG
20989603 TGGTGAGTCC
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 80 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (49 bp):
TAAGCTCCAATGAGCTGAAACAGTAAGCTCTTTCAAGCTGATATATCAG
Found at i:20989592 original size:23 final size:23
Alignment explanation
Indices: 20989465--20989592 Score: 80
Period size: 23 Copynumber: 5.3 Consensus size: 23
20989455 GTTGAAACGA
*
20989465 TAAGCTCCAATGAGCTGAAACAG
1 TAAGCTCCAATGAGCTGAAATAG
**
20989488 TAAGCT-CTTTCGAGCTGATATATCAG
1 TAAGCTCCAAT-GAGCTGA-A-AT-AG
* *
20989514 TAAGCTCTAATGAGCTGAAACAG
1 TAAGCTCCAATGAGCTGAAATAG
** * * *
20989537 TAAGCT-CTTTCAAGTTGATATATCGG
1 TAAGCTCCAAT-GAGCTGA-A-AT-AG
20989563 TAAGCTCCAATGAGCTGAAATAG
1 TAAGCTCCAATGAGCTGAAATAG
20989586 TAAGCTC
1 TAAGCTC
20989593 GTACAAGCTG
Statistics
Matches: 76, Mismatches: 19, Indels: 20
0.66 0.17 0.17
Matches are distributed among these distances:
22 3 0.04
23 34 0.45
24 5 0.07
25 4 0.05
26 27 0.36
27 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (23 bp):
TAAGCTCCAATGAGCTGAAATAG
Found at i:20995832 original size:6 final size:6
Alignment explanation
Indices: 20995821--20995899 Score: 99
Period size: 6 Copynumber: 13.2 Consensus size: 6
20995811 AACAAAATAG
20995821 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
* * *
20995869 A-AATAT TTATAT ATATAAT -GAAAT ATAAAT A
1 ATAA-AT ATAAAT ATA-AAT ATAAAT ATAAAT A
20995900 GATCAATTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
5 5 0.08
6 55 0.87
7 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (6 bp):
ATAAAT
Found at i:20995912 original size:30 final size:30
Alignment explanation
Indices: 20995829--20995917 Score: 76
Period size: 30 Copynumber: 3.0 Consensus size: 30
20995819 AGATAAATAT
* * *
20995829 AAATATAAAT--ATAAATATAAATATAAATAT
1 AAATATAAATAAATAATTATATATAT-AAT-G
*
20995859 AAATATAAATAAATATTTATATATATAATG
1 AAATATAAATAAATAATTATATATATAATG
* *
20995889 AAATATAAATAGATCAATT-TATATTTAAT
1 AAATATAAATAAAT-AATTATATATATAAT
20995918 TTGCGAATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
30 32 0.65
31 6 0.12
32 11 0.22
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.38
Consensus pattern (30 bp):
AAATATAAATAAATAATTATATATATAATG
Found at i:20996856 original size:12 final size:11
Alignment explanation
Indices: 20996821--20996856 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
20996811 CAGTACATAT
20996821 GTGATTAGAGG
1 GTGATTAGAGG
20996832 GTGATTAGAGG
1 GTGATTAGAGG
20996843 GTGATTAGGAGG
1 GTGATTA-GAGG
20996855 GT
1 GT
20996857 TCAAGAACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 18 0.75
12 6 0.25
ACGTcount: A:0.25, C:0.00, G:0.47, T:0.28
Consensus pattern (11 bp):
GTGATTAGAGG
Found at i:20999732 original size:40 final size:40
Alignment explanation
Indices: 20999688--20999954 Score: 261
Period size: 40 Copynumber: 6.7 Consensus size: 40
20999678 TTAGTGCTTA
20999688 TGATTGTACTTCGGTACCCCTGAATGCACATACGTGCCCC
1 TGATTGTACTTCGGTACCCCTGAATGCACATACGTGCCCC
* * **
20999728 TGATTGTAGTTCGATACCTTTGAATGCACATACGTG-CCC
1 TGATTGTACTTCGGTACCCCTGAATGCACATACGTGCCCC
* * *
20999767 TTATTTGTACTGCGGTACCCCTAAATGCACATA-GATGCCCC
1 TGA-TTGTACTTCGGTACCCCTGAATGCACATACG-TGCCCC
* * *
20999808 TGATTGTACTTCAGTATCCCTAAATGCACATACGTG-CCC
1 TGATTGTACTTCGGTACCCCTGAATGCACATACGTGCCCC
* * * ***
20999847 TTATTTGTACTTTGGTACCTCTGAATGCACATACGTGCTTG
1 TGA-TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCC
* * * * * *
20999888 TGATTGTACTTTGGTACCCTTGAATACATATACATGCCCT
1 TGATTGTACTTCGGTACCCCTGAATGCACATACGTGCCCC
* *
20999928 TGCTTGTACTTCGGTACTCCCTAAATG
1 TGATTGTACTTCGGTAC-CCCTGAATG
20999955 TAGTATAATG
Statistics
Matches: 182, Mismatches: 38, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
39 11 0.06
40 157 0.86
41 14 0.08
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (40 bp):
TGATTGTACTTCGGTACCCCTGAATGCACATACGTGCCCC
Found at i:20999834 original size:80 final size:79
Alignment explanation
Indices: 20999691--20999954 Score: 291
Period size: 80 Copynumber: 3.3 Consensus size: 79
20999681 GTGCTTATGA
* * *
20999691 TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGATTGTAGTTCG-ATACCTTTGAATGC
1 TTGTACTTCGGTACCCCTAAATGCACATACGTGCCCCTGATTGTACTTCGTAT-CC-CTGAATGC
20999755 ACATACGTGCCCTTAT
64 ACATACGTGCCCTTAT
* *
20999771 TTGTACTGCGGTACCCCTAAATGCACATA-GATGCCCCTGATTGTACTTCAGTATCCCTAAATGC
1 TTGTACTTCGGTACCCCTAAATGCACATACG-TGCCCCTGATTGTACTTC-GTATCCCTGAATGC
20999835 ACATACGTGCCCTTAT
64 ACATACGTGCCCTTAT
* * * *** * *
20999851 TTGTACTTTGGTACCTCTGAATGCACATACGTGCTTGTGATTGTACTTTGGTA-CCCTTGAATAC
1 TTGTACTTCGGTACCCCTAAATGCACATACGTGCCCCTGATTGTAC-TTCGTATCCC-TGAATGC
* * **
20999915 ATATACATGCCCTTGC
64 ACATACGTGCCCTTAT
20999931 TTGTACTTCGGTACTCCCTAAATG
1 TTGTACTTCGGTAC-CCCTAAATG
20999955 TAGTATAATG
Statistics
Matches: 155, Mismatches: 22, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
79 4 0.03
80 136 0.88
81 13 0.08
82 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (79 bp):
TTGTACTTCGGTACCCCTAAATGCACATACGTGCCCCTGATTGTACTTCGTATCCCTGAATGCAC
ATACGTGCCCTTAT
Found at i:20999873 original size:120 final size:119
Alignment explanation
Indices: 20999688--20999954 Score: 313
Period size: 120 Copynumber: 2.2 Consensus size: 119
20999678 TTAGTGCTTA
* * * *
20999688 TGATTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGATTGTAGTTCGATACCTTTGAAT
1 TGATTGTACTTCGGTATCCCTAAATGCACATACGTGCCCCTGATTGTACTTCGATACCTCTGAAT
* *
20999753 GCACATACGTGCCCTTAT-TTGTACTGCGGTACCCCTAAATGCACATAGATGCCCC
66 GCACATACGTG--CTTATATTGTACTGCGGTACCCCTAAATACACATACATGCCCC
* * * *
20999808 TGATTGTACTTCAGTATCCCTAAATGCACATACGTG-CCCTTATTTGTACTTTGGTACCTCTGAA
1 TGATTGTACTTCGGTATCCCTAAATGCACATACGTGCCCCTGA-TTGTACTTCGATACCTCTGAA
* ** * * * *
20999872 TGCACATACGTGCTTGTGATTGTACTTTGGTACCCTTGAATACATATACATGCCCT
65 TGCACATACGTGCTTAT-ATTGTACTGCGGTACCCCTAAATACACATACATGCCCC
*
20999928 TGCTTGTACTTCGGTACTCCCTAAATG
1 TGATTGTACTTCGGTA-TCCCTAAATG
20999955 TAGTATAATG
Statistics
Matches: 124, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
118 4 0.03
119 5 0.04
120 105 0.85
121 10 0.08
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (119 bp):
TGATTGTACTTCGGTATCCCTAAATGCACATACGTGCCCCTGATTGTACTTCGATACCTCTGAAT
GCACATACGTGCTTATATTGTACTGCGGTACCCCTAAATACACATACATGCCCC
Found at i:21017636 original size:15 final size:15
Alignment explanation
Indices: 21017618--21017654 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
21017608 AGCTAGTAAA
21017618 TGCACCCATTATCGT
1 TGCACCCATTATCGT
21017633 TGCACCCATTATCGT
1 TGCACCCATTATCGT
21017648 TGCACCC
1 TGCACCC
21017655 GATTGGTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.19, C:0.38, G:0.14, T:0.30
Consensus pattern (15 bp):
TGCACCCATTATCGT
Found at i:21022962 original size:40 final size:40
Alignment explanation
Indices: 21022817--21022962 Score: 163
Period size: 40 Copynumber: 3.6 Consensus size: 40
21022807 GCTACTCATT
* * *
21022817 CAAATGCCTTCGGGA-CATAGCCCGGTTATAGTAACTCGTA
1 CAAATGCCTTC-GGATCTTAGCCCGGATATAGTAACTCGCA
* *
21022857 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATATAGTAACTCGCA
* * * *
21022897 CGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATATAGTAAC-TCGCA
21022938 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
21022963 CATCATTCGA
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
39 3 0.03
40 79 0.86
41 10 0.11
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATATAGTAACTCGCA
Found at i:21025173 original size:28 final size:28
Alignment explanation
Indices: 21025094--21025176 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 28
21025084 GCATGAATAT
*
21025094 AAATGTGATTTGGGCCT-GATGGGCCATAT
1 AAATGTGA-TTGGGCCTAG-TGGGCCATAC
** *
21025123 AAATGCAAATTGGGCCTAATGGGCCATAC
1 AAATG-TGATTGGGCCTAGTGGGCCATAC
21025152 AAATGTGATTGGGCCTAGTGGGCCA
1 AAATGTGATTGGGCCTAGTGGGCCA
21025177 GATACAGGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
28 17 0.38
29 27 0.60
30 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (28 bp):
AAATGTGATTGGGCCTAGTGGGCCATAC
Found at i:21025568 original size:11 final size:11
Alignment explanation
Indices: 21025552--21025576 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21025542 TATGTATATC
21025552 TACTGCATACA
1 TACTGCATACA
21025563 TACTGCATACA
1 TACTGCATACA
21025574 TAC
1 TAC
21025577 GATATTCTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.28, G:0.08, T:0.28
Consensus pattern (11 bp):
TACTGCATACA
Found at i:21027135 original size:42 final size:43
Alignment explanation
Indices: 21027035--21027196 Score: 168
Period size: 43 Copynumber: 3.8 Consensus size: 43
21027025 AAGCTCATAC
* * * * * *
21027035 ATGCCAACGTCCCAGACGTGGTATTACATGTAATCAAATATTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAATTAGTG
21027078 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAATTA-TG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAATTAGTG
* * * * *
21027120 ATGCCAATGTTCCAGACATGGTCTTACATGTAAATC-ATAAGTCA
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATCAATTAGT-G
*
21027164 ATGCCAACGTCCCAGACGTGGTCTTACACGAAA
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAA
21027197 ACACATATCG
Statistics
Matches: 100, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
42 32 0.32
43 42 0.42
44 26 0.26
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAATTAGTG
Found at i:21027186 original size:86 final size:85
Alignment explanation
Indices: 21027035--21027196 Score: 211
Period size: 86 Copynumber: 1.9 Consensus size: 85
21027025 AAGCTCATAC
* **
21027035 ATGCCAACGTCCCAGACGTGGTATTACATGTAATCAAATATTGATGCCACTGTCCCAGACATGGT
1 ATGCCAACGTCCCAGACATGGTATTACATGTAATCAAATATCAATGCCACTGTCCCAGACATGGT
21027100 CTTACACGAAATCAATTATG
66 CTTACACGAAATCAATTATG
* * * * *
21027120 ATGCCAATGTTCCAGACATGGTCTTACATGTAAATCATAA-GTCAATGCCAAC-GTCCCAGACGT
1 ATGCCAACGTCCCAGACATGGTATTACATGT-AATCA-AATATCAATGCC-ACTGTCCCAGACAT
21027183 GGTCTTACACGAAA
63 GGTCTTACACGAAA
21027197 ACACATATCG
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
85 27 0.41
86 35 0.53
87 4 0.06
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACATGGTATTACATGTAATCAAATATCAATGCCACTGTCCCAGACATGGT
CTTACACGAAATCAATTATG
Found at i:21030555 original size:40 final size:40
Alignment explanation
Indices: 21030496--21030703 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
21030486 CAATTGAATG
* * * *
21030496 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * *
21030536 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
21030576 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
21030616 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
21030656 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
21030696 ATATCCGG
1 ATATCCGG
21030704 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.01
40 138 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:21030634 original size:80 final size:80
Alignment explanation
Indices: 21030497--21030703 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 80
21030487 AATTGAATGA
* * ** * * *
21030497 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CA
*
21030562 -TTGTGCTAGT-G-AC
65 TTTGTGCAAGTCGTAC
* * *
21030575 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
*
21030640 ATTTGTGCAAGTCGTTC
64 ATTTGTGCAAGTCGTAC
* *
21030657 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
21030704 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
78 1 0.01
79 2 0.02
80 103 0.94
81 1 0.01
82 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAT
TTGTGCAAGTCGTAC
Found at i:21040846 original size:40 final size:40
Alignment explanation
Indices: 21040787--21040928 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
21040777 AAATTGAATG
* * *
21040787 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
21040827 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
21040867 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
21040907 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
21040929 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:21040929 original size:40 final size:39
Alignment explanation
Indices: 21040826--21040938 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 39
21040816 TGCTGGAAAT
* * **
21040826 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTCAC
*
21040866 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
*
21040906 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGC
21040939 ACATGTTATA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.05
40 60 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
Found at i:21048820 original size:40 final size:40
Alignment explanation
Indices: 21048729--21048839 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 40
21048719 ATAACCACGT
* *
21048729 GCACGAATGCCTTCGGGTCTTAGCCTGGATAGAATGACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
21048769 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* *
21048809 GCAC-AATTGCCTTCGGGTCTTAACTCGGATA
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
21048840 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.06
40 57 0.92
ACGTcount: A:0.22, C:0.27, G:0.26, T:0.25
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:21056933 original size:40 final size:40
Alignment explanation
Indices: 21056888--21057054 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
21056878 CGGAATACAA
21056888 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
21056928 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
21056968 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * * * *
21057008 CCGGATATAATTTCCAGCA-TAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
21057047 CCGGATAT
1 CCGGATAT
21057055 CATTCAATTG
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 25 0.24
40 80 0.76
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:21065084 original size:40 final size:40
Alignment explanation
Indices: 21065039--21065168 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
21065029 CGGAATACAA
21065039 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
21065079 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
21065119 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
21065159 CCGGATATAA
1 CCGGATATAA
21065169 TTTCCAGCAA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:21068567 original size:40 final size:40
Alignment explanation
Indices: 21068512--21068649 Score: 116
Period size: 40 Copynumber: 3.5 Consensus size: 40
21068502 TGAATGATAC
* * *
21068512 CCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATAT
1 CCGGGCTAAGACCCGAAGACAATTATGCTAGAAACTATAT
* * * ***
21068552 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTATAT
1 CCGGGCTAAGACCCGAAGACAATTATGCTAGAAACTATAT
* * * ** * *
21068592 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTCTAT
1 CCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACTATAT
21068632 CCGGGCTAAGACCCGAAG
1 CCGGGCTAAGACCCGAAG
21068650 GCATTTGTGC
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.04
40 79 0.96
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGACAATTATGCTAGAAACTATAT
Found at i:21068673 original size:40 final size:39
Alignment explanation
Indices: 21068546--21068675 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
21068536 ATGCTGGAAA
* * *
21068546 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAT-GC
* *
21068587 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATG-C
*
21068625 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGC
21068666 TTATATCCGG
1 TTATATCCGG
21068676 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGC
Found at i:21073993 original size:46 final size:44
Alignment explanation
Indices: 21073862--21074024 Score: 136
Period size: 46 Copynumber: 3.5 Consensus size: 44
21073852 TATGAGATCC
* * *
21073862 AGTGTAAGACAATGTCTGGGACATGGCATCGGCATTGGGATGA-GTGCT
1 AGTGTAAGAC-ATGTCTGGGACAT-GCTTCGGC-CT-CGA-GACGTGCT
*
21073910 AGTGTAAGACATGTCTAGGACATGCTTCGGCCTCGAGACGTAAGCT
1 AGTGTAAGACATGTCTGGGACATGCTTCGGCCTCGAGACGT--GCT
* *
21073956 AGTGTAAGACATGTCTGGGACATGCATT-GG-TTACGAGATGTG-T
1 AGTGTAAGACATGTCTGGGACATGC-TTCGGCCT-CGAGACGTGCT
*
21073999 CAGTGTAAGACCATGTCTGAGACATG
1 -AGTGTAAGA-CATGTCTGGGACATG
21074025 GCATCAGCAC
Statistics
Matches: 100, Mismatches: 8, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
43 3 0.03
44 14 0.14
45 16 0.16
46 43 0.43
47 14 0.14
48 10 0.10
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCTTCGGCCTCGAGACGTGCT
Found at i:21095932 original size:19 final size:19
Alignment explanation
Indices: 21095908--21095951 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
21095898 AAACAACTTA
21095908 TATTTTGAAATGTTGGATT
1 TATTTTGAAATGTTGGATT
21095927 TATTTTGAAATGTTGGATT
1 TATTTTGAAATGTTGGATT
21095946 TATTTT
1 TATTTT
21095952 ATGAATGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.25, C:0.00, G:0.18, T:0.57
Consensus pattern (19 bp):
TATTTTGAAATGTTGGATT
Found at i:21096381 original size:26 final size:26
Alignment explanation
Indices: 21096352--21096404 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
21096342 AAATTACACT
21096352 TATTATATACATATTTCATTAATAGA
1 TATTATATACATATTTCATTAATAGA
21096378 TATTATATACATATTTCATTAATAGA
1 TATTATATACATATTTCATTAATAGA
21096404 T
1 T
21096405 CCGAAAATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.47
Consensus pattern (26 bp):
TATTATATACATATTTCATTAATAGA
Found at i:21111935 original size:17 final size:17
Alignment explanation
Indices: 21111913--21111946 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21111903 AAGTACACAC
*
21111913 TGTCATTGCATTTTCAT
1 TGTCATTACATTTTCAT
*
21111930 TGTCATTATATTTTCAT
1 TGTCATTACATTTTCAT
21111947 GATTAGTGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.56
Consensus pattern (17 bp):
TGTCATTACATTTTCAT
Found at i:21117227 original size:13 final size:13
Alignment explanation
Indices: 21117209--21117234 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21117199 GAGCAATTGT
21117209 ACACGGGCGTGTC
1 ACACGGGCGTGTC
21117222 ACACGGGCGTGTC
1 ACACGGGCGTGTC
21117235 CCTTCAAGCC
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:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:21117609 original size:20 final size:20
Alignment explanation
Indices: 21117586--21117628 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
21117576 AAATATTTGA
21117586 CTTGTTCTTAATTATGTGTT
1 CTTGTTCTTAATTATGTGTT
21117606 CTTGTTCTTAATTATGTGTT
1 CTTGTTCTTAATTATGTGTT
21117626 CTT
1 CTT
21117629 AATTCTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.12, G:0.14, T:0.60
Consensus pattern (20 bp):
CTTGTTCTTAATTATGTGTT
Found at i:21121615 original size:40 final size:40
Alignment explanation
Indices: 21121553--21121802 Score: 324
Period size: 40 Copynumber: 6.5 Consensus size: 40
21121543 AAGCCAAGTA
* * *
21121553 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
21121592 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
21121632 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
21121672 CCTTC--GACTTA-CCC-GATATAGTAACTCGCA--AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
21121706 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
21121746 CCTTCGGGACTTAGCCC-GA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
21121785 CCTTC-GGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
21121803 TTATCATCCA
Statistics
Matches: 193, Mismatches: 8, Indels: 20
0.87 0.04 0.09
Matches are distributed among these distances:
34 9 0.05
36 22 0.11
37 6 0.03
38 34 0.18
39 35 0.18
40 87 0.45
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:21121729 original size:74 final size:76
Alignment explanation
Indices: 21121553--21121802 Score: 323
Period size: 74 Copynumber: 3.2 Consensus size: 76
21121543 AAGCCAAGTA
* * * *
21121553 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATGCCTTC-GGACTTAGCCC-GATATA
21121616 GTAACTCGCACGAATG
63 GTAACTCGCA--AATG
21121632 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATGCCTTC-GACTTA-CCCGATATAGTA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATGCCTTCGGACTTAGCCCGATATAGTA
21121695 ACTCGCAAATG
66 ACTCGCAAATG
*
21121706 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGA-ACTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATGCCTTC-GGACTTAGCCCGATA-TAG
*
21121770 TCACTAGCGCAAATG
64 TAACT--CGCAAATG
21121785 CCTTC-GGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
21121803 TTATCATCCA
Statistics
Matches: 157, Mismatches: 6, Indels: 17
0.87 0.03 0.09
Matches are distributed among these distances:
74 48 0.31
76 23 0.15
77 15 0.10
78 18 0.11
79 26 0.17
80 27 0.17
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (76 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATGCCTTCGGACTTAGCCCGATATAGTA
ACTCGCAAATG
Found at i:21121795 original size:114 final size:115
Alignment explanation
Indices: 21121588--21121801 Score: 335
Period size: 114 Copynumber: 1.9 Consensus size: 115
21121578 TACTCGCTCG
*
21121588 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
* *
21121653 ATAGTAACTCGCACGAATGCCTTCGACTTA-CCCGATATAGTAACTCGCA
66 ATAGTAACTAGCACAAATGCCTTCGACTTAGCCCGATATAGTAACTCGCA
*
21121702 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC-GA-
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
* *
21121765 ACTAGTCACTAGCGCAAATGCCTTCGGACTTAGCCCG
66 A-TAGTAACTAGCACAAATGCCTTC-GACTTAGCCCG
21121802 GTTATCATCC
Statistics
Matches: 91, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
112 1 0.01
113 21 0.23
114 65 0.71
115 4 0.04
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.22
Consensus pattern (115 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
ATAGTAACTAGCACAAATGCCTTCGACTTAGCCCGATATAGTAACTCGCA
Found at i:21129719 original size:40 final size:40
Alignment explanation
Indices: 21129657--21129913 Score: 369
Period size: 40 Copynumber: 6.5 Consensus size: 40
21129647 AAGCCAAGTA
* * * *
21129657 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
21129696 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
21129736 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
21129776 CCTTCGGGACTTA-CCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
21129815 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
21129855 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
21129895 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
21129914 TTATCATCCA
Statistics
Matches: 202, Mismatches: 12, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
39 50 0.25
40 152 0.75
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:21129815 original size:79 final size:80
Alignment explanation
Indices: 21129657--21129913 Score: 378
Period size: 79 Copynumber: 3.2 Consensus size: 80
21129647 AAGCCAAGTA
* * * *
21129657 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATGCCTTCGGGACTTAGCCCGGATATA
*
21129720 GTAACTCGCACGAATG
65 GTAACTCGCACAAATG
21129736 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTA-CCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGCCCGGATATAG
*
21129800 TAACTCGTACAAATG
66 TAACTCGCACAAATG
* *
21129815 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACTA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGCCCGGATA-TA
* *
21129879 GTCACTAGCACAAATG
65 GTAACTCGCACAAATG
21129895 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
21129914 TTATCATCCA
Statistics
Matches: 162, Mismatches: 12, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
79 89 0.55
80 73 0.45
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTCGCACAAATG
Found at i:21129868 original size:119 final size:119
Alignment explanation
Indices: 21129657--21129913 Score: 376
Period size: 119 Copynumber: 2.2 Consensus size: 119
21129647 AAGCCAAGTA
* * * *
21129657 CCTTCGGGATTTAACCGGATATAGCTACTCGCTCGAATGCCTTCGGGACATAGCCCGGATATAGT
1 CCTTCGGGACTTACCCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGAATATAGT
* * *
21129722 AACTCGCACGAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
66 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACTAGTAACTAGCACAAATG
*
21129776 CCTTCGGGACTTACCCGGATATAG-TAACTCG-TACAAATGCCTTCGGGACTTAGCCCGAATATA
1 CCTTCGGGACTTACCCGGATATAGCT-ACTCGCT-CAAATGCCTTCGGGACATAGCCCGAATATA
*
21129839 GTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCACAAATG
64 GTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTAACTAGCACAAATG
21129895 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTA-CCCGG
21129914 TTATCATCCA
Statistics
Matches: 125, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
118 3 0.02
119 117 0.94
120 5 0.04
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (119 bp):
CCTTCGGGACTTACCCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGAATATAGT
AACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTAACTAGCACAAATG
Found at i:21140434 original size:46 final size:46
Alignment explanation
Indices: 21140345--21140556 Score: 209
Period size: 46 Copynumber: 4.6 Consensus size: 46
21140335 GTGCCGATTC
* * * *
21140345 CATGTCCTAGACATGGTCTTACACT-G-ACACATCTCGTA-GTCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCG-AGGCCGATG
* *
21140390 CATGTCCCAGACATGTCTTACACTAGCT-TACATCTCGAGGTCGATT
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCGAGGCCGATG
* * * *
21140436 CATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAGGCCGATG
* * * *
21140482 CCATGTCCCAGACATGGTCTTACACTCGCTCTCATAAT-GTGGCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCGAGGCCGATG
21140530 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
21140557 ACACAAATAT
Statistics
Matches: 140, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
44 10 0.07
45 15 0.11
46 63 0.45
47 28 0.20
48 23 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAGGCCGATG
Found at i:21140513 original size:48 final size:47
Alignment explanation
Indices: 21140286--21140553 Score: 188
Period size: 46 Copynumber: 5.8 Consensus size: 47
21140276 CATAGGGTAT
* * *
21140286 AATGTCGATGCCATGTCTCTGACATGGTCTTACACTGACAC-C-TCT-
1 AATGTCGATGCCATGTCCCAGACATGGTCTTACACTG-CTCTCATCTC
* * * *
21140331 ATATGTGCCGATTCCATGTCCTAGACATGGTCTTACACTG-ACACATCTC
1 A-ATGT--CGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCATCTC
*
21140380 -GTAGTCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACATCTC
1 AAT-GTCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCT-CATCTC
* * * * *
21140426 GAGGTCGAT-TCATGTCCTAGACAT-GTCTTACACTAGCTCTCGTCTC
1 AATGTCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCATCTC
*
21140472 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTCGCTCTCA--T-
1 AATGTCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCATCTC
*
21140517 AATGTGGCCAATG-CATGTCCCAGACAT-GTCTTACACT
1 AATGT---CGATGCCATGTCCCAGACATGGTCTTACACT
21140554 AGCACACAAA
Statistics
Matches: 183, Mismatches: 22, Indels: 35
0.76 0.09 0.15
Matches are distributed among these distances:
44 10 0.05
45 19 0.10
46 71 0.39
47 30 0.16
48 53 0.29
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (47 bp):
AATGTCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCATCTC
Found at i:21140534 original size:94 final size:93
Alignment explanation
Indices: 21140286--21140561 Score: 255
Period size: 94 Copynumber: 3.0 Consensus size: 93
21140276 CATAGGGTAT
* * * *
21140286 AATGTCGATGCCATGTCTCTGACATGGTCTTACACTGACACCTC-TATATGT-GCCGATTCCATG
1 AATGTCGATGCCATGTCCCAGACATGGTCTTACACTG-C-TCTCATA-ATGTGGCC-AATCCATG
21140349 TCCTAGACATGGTCTTACACT-G-ACACATCTC
62 TCCTAGACAT-GTCTTACACTAGCACACATCTC
* * * * * *
21140380 -GTAGTCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-CTCGAGGTCGATTCATG
1 AAT-GTCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCT-CATAAT-GTGGCCAATCCATG
* * *
21140440 TCCTAGACATGTCTTACACTAGCTCTCGTCTC
62 TCCTAGACATGTCTTACACTAGCACACATCTC
* *
21140472 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTCGCTCTCATAATGTGGCCAATGCATGTCC
1 AATGTCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCATAATGTGGCCAATCCATGTCC
*
21140537 CAGACATGTCTTACACTAGCACACA
65 TAGACATGTCTTACACTAGCACACA
21140562 AATATCCCGA
Statistics
Matches: 144, Mismatches: 25, Indels: 26
0.74 0.13 0.13
Matches are distributed among these distances:
90 12 0.08
91 18 0.12
92 26 0.18
93 29 0.20
94 57 0.40
95 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (93 bp):
AATGTCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCATAATGTGGCCAATCCATGTCCT
AGACATGTCTTACACTAGCACACATCTC
Found at i:21147361 original size:33 final size:32
Alignment explanation
Indices: 21147310--21147373 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
21147300 ACGAAGTCAC
* *
21147310 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
21147342 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
21147374 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:21148121 original size:27 final size:27
Alignment explanation
Indices: 21148073--21148155 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 27
21148063 ATAGACATTA
* ** *
21148073 ACCCTCCAGGGGTAAATCGGTAGTCCT
1 ACCCTACAGGGGTATTTCGGTAATCCT
* *
21148100 ACCCTACAGGGGTATTTTGGTAATTCT
1 ACCCTACAGGGGTATTTCGGTAATCCT
* *
21148127 ACCTTACAGGGGTATTTCGGTAATTCT
1 ACCCTACAGGGGTATTTCGGTAATCCT
21148154 AC
1 AC
21148156 AACTTATCCA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (27 bp):
ACCCTACAGGGGTATTTCGGTAATCCT
Found at i:21155139 original size:28 final size:27
Alignment explanation
Indices: 21155077--21155171 Score: 129
Period size: 28 Copynumber: 3.5 Consensus size: 27
21155067 TCCTAGGTAA
* * *
21155077 TCGGTAGTCCTACC-TATAGGGGTATT
1 TCGGTAATTCTACCTTACAGGGGTATT
21155103 TCGGTAATTCTACCTTACAGGGGTATTT
1 TCGGTAATTCTACCTTACAGGGGTA-TT
*
21155131 TCGATAATTCTACCTTACAGGGGTATT
1 TCGGTAATTCTACCTTACAGGGGTATT
21155158 TCAGGTAATTCTAC
1 TC-GGTAATTCTAC
21155172 AACTTATCCA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
26 12 0.20
27 13 0.21
28 36 0.59
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (27 bp):
TCGGTAATTCTACCTTACAGGGGTATT
Found at i:21159616 original size:71 final size:71
Alignment explanation
Indices: 21159500--21159631 Score: 264
Period size: 71 Copynumber: 1.9 Consensus size: 71
21159490 CGATTTGTCT
21159500 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
21159565 CTTTCA
66 CTTTCA
21159571 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACAT
21159632 GGGATACATC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.33
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:21167125 original size:71 final size:71
Alignment explanation
Indices: 21167041--21167204 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
21167031 CGATTTGTCT
21167041 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
21167106 CTTTCA
66 CTTTCA
21167112 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
21167177 CTTTCA
66 CTTTCA
21167183 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
21167205 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:21167242 original size:71 final size:70
Alignment explanation
Indices: 21167041--21167238 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
21167031 CGATTTGTCT
* * * *
21167041 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
21167106 CTTTCA
65 CTTTCA
* * * *
21167112 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
21167177 CTTTCA
65 CTTTCA
* *
21167183 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
21167239 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:21169927 original size:28 final size:27
Alignment explanation
Indices: 21169864--21169933 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
21169854 ATAGTGAGTC
21169864 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
21169891 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
21169919 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21169934 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:21172017 original size:2 final size:2
Alignment explanation
Indices: 21172012--21172050 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
21172002 ACACACACAC
21172012 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21172051 CGATTTATCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21172531 original size:27 final size:27
Alignment explanation
Indices: 21172484--21172538 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
21172474 ATACTTGAAT
*
21172484 TCATTTCAAGTTTCACATCTCATTTCA
1 TCATTTCAAGTTTCACATCTCATCTCA
* **
21172511 TCATTTCATGTTTCATTTCTCATCTCA
1 TCATTTCAAGTTTCACATCTCATCTCA
21172538 T
1 T
21172539 ATTCCTTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.22, C:0.25, G:0.04, T:0.49
Consensus pattern (27 bp):
TCATTTCAAGTTTCACATCTCATCTCA
Found at i:21172576 original size:43 final size:42
Alignment explanation
Indices: 21172526--21172610 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 42
21172516 TCATGTTTCA
* *
21172526 TTTCTCATCTCATATTCCTTTCTCAA-CTTTTTCATTTCAATAT
1 TTTCTCATCACATATTCATTTCT-AATCTTTTTCA-TTCAATAT
*
21172569 TTTCTCATCACATATTCATTTCTAATTTTTTTCATTCAATAT
1 TTTCTCATCACATATTCATTTCTAATCTTTTTCATTCAATAT
21172611 CAACACATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 10 0.26
43 28 0.74
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.54
Consensus pattern (42 bp):
TTTCTCATCACATATTCATTTCTAATCTTTTTCATTCAATAT
Found at i:21176150 original size:11 final size:11
Alignment explanation
Indices: 21176134--21176159 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
21176124 CACATTATTT
21176134 CATGTCATTCA
1 CATGTCATTCA
21176145 CATGTCATTCA
1 CATGTCATTCA
21176156 CATG
1 CATG
21176160 AGTTCGATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (11 bp):
CATGTCATTCA
Found at i:21178045 original size:13 final size:13
Alignment explanation
Indices: 21177993--21178049 Score: 60
Period size: 13 Copynumber: 4.3 Consensus size: 13
21177983 GTTAACACTT
*
21177993 TGAAATGGCTATA
1 TGAAATGGTTATA
* *
21178006 TGAATTGGTTAAA
1 TGAAATGGTTATA
* *
21178019 TAGAAATAGATATA
1 T-GAAATGGTTATA
21178033 TGAAATGGTTATA
1 TGAAATGGTTATA
21178046 TGAA
1 TGAA
21178050 TCAGTTATAC
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
13 25 0.74
14 9 0.26
ACGTcount: A:0.44, C:0.02, G:0.21, T:0.33
Consensus pattern (13 bp):
TGAAATGGTTATA
Found at i:21180744 original size:102 final size:107
Alignment explanation
Indices: 21180550--21180764 Score: 323
Period size: 102 Copynumber: 2.0 Consensus size: 107
21180540 CTCACTCGCG
21180550 TTTATATTTTTTATTTCATGTTGTTTTAAGCTTCTTCTTCTTTCTTTTTAATGAATGTTTTTAAC
1 TTTATATTTTTTATTTCATGTTGTTTTAAG----TTCTTCTTTCTTTTTAATGAATGTTTTTAAC
** *
21180615 ATATTAGCTTCCTTAGTTAAATGATTAAATAATAATTATTTCA-CA
62 ATATTAAATTCCTTAGTTAAATGATTAAATAATAATAATTTCATCA
21180660 TTTATA-TTTTTATTTCATGTTGTTTTAAG-T-TTCTTT-TTTTTAATGAATGTTTTTAACATAT
1 TTTATATTTTTTATTTCATGTTGTTTTAAGTTCTTCTTTCTTTTTAATGAATGTTTTTAACATAT
*
21180721 TAAATTCCTTAGTTAAATTATTAAATAATAATAATTTCATCA
66 TAAATTCCTTAGTTAAATGATTAAATAATAATAATTTCATCA
21180763 TT
1 TT
21180765 GAGACCCAAT
Statistics
Matches: 100, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
102 60 0.60
103 10 0.10
104 1 0.01
109 23 0.23
110 6 0.06
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.55
Consensus pattern (107 bp):
TTTATATTTTTTATTTCATGTTGTTTTAAGTTCTTCTTTCTTTTTAATGAATGTTTTTAACATAT
TAAATTCCTTAGTTAAATGATTAAATAATAATAATTTCATCA
Found at i:21188054 original size:88 final size:89
Alignment explanation
Indices: 21187905--21188105 Score: 368
Period size: 88 Copynumber: 2.3 Consensus size: 89
21187895 GAGTCGAGTA
21187905 GAATCGAGTCAAAAATTTTCGAGTTAGTCGAGTTGACAAATCCTATTTTAGCAACCGAACTCAAT
1 GAATCGAGTCAAAAATTTTCGAGTTAGTCGAGTTGACAAATCCTATTTTAGCAACCGAACTCAAT
21187970 TTG-AAATTTTTTCGAATCGAATC
66 TTGAAAATTTTTTCGAATCGAATC
*
21187993 GAATCGAGTCAAAAATTTTTGAGTTAGTCGAGTTGACAAATCCTATTTTAGCAACCGAACTCAAT
1 GAATCGAGTCAAAAATTTTCGAGTTAGTCGAGTTGACAAATCCTATTTTAGCAACCGAACTCAAT
21188058 TTGAAAATTTTTTCGAATCGAATC
66 TTGAAAATTTTTTCGAATCGAATC
**
21188082 GAATCGAGTCAAAAAAATTCGAGT
1 GAATCGAGTCAAAAATTTTCGAGT
21188106 CAAGTTGAGT
Statistics
Matches: 108, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
88 67 0.62
89 41 0.38
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (89 bp):
GAATCGAGTCAAAAATTTTCGAGTTAGTCGAGTTGACAAATCCTATTTTAGCAACCGAACTCAAT
TTGAAAATTTTTTCGAATCGAATC
Found at i:21189998 original size:19 final size:16
Alignment explanation
Indices: 21189989--21190019 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21189979 AAATGACAAT
21189989 AAATTATTAAAATAAA
1 AAATTATTAAAATAAA
*
21190005 AACTTATTAAAATAA
1 AAATTATTAAAATAA
21190020 GTGTATAATA
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:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATTAAAATAAA
Found at i:21191250 original size:13 final size:14
Alignment explanation
Indices: 21191228--21191260 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
21191218 ATATTTAAAT
21191228 ATTTAATATTA-TA
1 ATTTAATATTATTA
*
21191241 ATTTATTATTATTA
1 ATTTAATATTATTA
21191255 ATTTAA
1 ATTTAA
21191261 ATTCAATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTTAATATTATTA
Found at i:21191875 original size:11 final size:11
Alignment explanation
Indices: 21191855--21191883 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
21191845 ATATGATGTC
21191855 AATT-TTTATT
1 AATTCTTTATT
21191865 AATTCTTTATT
1 AATTCTTTATT
21191876 AATTCTTT
1 AATTCTTT
21191884 CAAATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (11 bp):
AATTCTTTATT
Found at i:21193309 original size:12 final size:12
Alignment explanation
Indices: 21193292--21193318 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21193282 TTTTTTTCTC
21193292 CTTCATTCCTTA
1 CTTCATTCCTTA
21193304 CTTCATTCCTTA
1 CTTCATTCCTTA
21193316 CTT
1 CTT
21193319 ATCAAATGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.52
Consensus pattern (12 bp):
CTTCATTCCTTA
Found at i:21193594 original size:9 final size:9
Alignment explanation
Indices: 21193580--21193605 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
21193570 TGTAATGATA
21193580 AAAATATTG
1 AAAATATTG
21193589 AAAATATTG
1 AAAATATTG
21193598 AAAATATT
1 AAAATATT
21193606 TATATAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (9 bp):
AAAATATTG
Found at i:21195391 original size:20 final size:20
Alignment explanation
Indices: 21195362--21195417 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
21195352 TTTGTAGCAA
21195362 TAGA-ATATTGTTATATAAAT
1 TAGATATATTGTTATAT-AAT
*
21195382 T-GATATATTGTTATATATT
1 TAGATATATTGTTATATAAT
*
21195401 TAGATATTTTGTTATAT
1 TAGATATATTGTTATAT
21195418 GCTATATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.16
20 27 0.84
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.54
Consensus pattern (20 bp):
TAGATATATTGTTATATAAT
Found at i:21196459 original size:31 final size:31
Alignment explanation
Indices: 21196424--21196487 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
21196414 AAGATCCCTC
21196424 TACTTGGATATTGGTTAAAATATAAACACTT
1 TACTTGGATATTGGTTAAAATATAAACACTT
*
21196455 TACTTGGATATTGGTTAAAATGTAAACACTT
1 TACTTGGATATTGGTTAAAATATAAACACTT
21196486 TA
1 TA
21196488 GTAAATTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (31 bp):
TACTTGGATATTGGTTAAAATATAAACACTT
Found at i:21197082 original size:26 final size:25
Alignment explanation
Indices: 21197037--21197086 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
21197027 TAACACTAGC
* *
21197037 TATGTTTTTAATGTAGTGTTTGTTAT
1 TATGATTTTAATGTAATG-TTGTTAT
*
21197063 TATGATTTTAATTTAATGTTGTTA
1 TATGATTTTAATGTAATGTTGTTA
21197087 GTGTTATTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (25 bp):
TATGATTTTAATGTAATGTTGTTAT
Found at i:21199286 original size:16 final size:16
Alignment explanation
Indices: 21199265--21199309 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
21199255 ATTTAAAACT
21199265 TATATTTAGATATAAA
1 TATATTTAGATATAAA
*
21199281 TATATTT--ATATGAA
1 TATATTTAGATATAAA
21199295 TATATCTTAGATATA
1 TATAT-TTAGATATA
21199310 TTCATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 11 0.46
15 2 0.08
16 7 0.29
17 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (16 bp):
TATATTTAGATATAAA
Found at i:21199299 original size:2 final size:2
Alignment explanation
Indices: 21199274--21199344 Score: 60
Period size: 2 Copynumber: 36.5 Consensus size: 2
21199264 TTATATTTAG
* * * *
21199274 AT AT AA AT AT AT TT AT AT GA- AT AT AT CT -T AG AT AT AT -T CAT
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT -AT
21199315 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21199345 ATTTACTTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
1 4 0.07
2 50 0.89
3 2 0.04
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21199434 original size:63 final size:63
Alignment explanation
Indices: 21199367--21199491 Score: 180
Period size: 63 Copynumber: 2.0 Consensus size: 63
21199357 ACCAAAATAA
* * * *
21199367 TATATAATTTATGAAGAAGCTAAAAATTAGATTATAAATAT-ATATGTGTAAAATATTTAAATG
1 TATATAATTTATCAAGAAACTAAAAATTAGAGTATAAATATCATAT-TGAAAAATATTTAAATG
*
21199430 TATATAATTTATCAATAAACTAAAAATTAGAGTATAAATATGCATATTGAAAAATATTTAAA
1 TATATAATTTATCAAGAAACTAAAAATTAGAGTATAAATAT-CATATTGAAAAATATTTAAA
21199492 AACAATGATA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
63 37 0.67
64 14 0.25
65 4 0.07
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (63 bp):
TATATAATTTATCAAGAAACTAAAAATTAGAGTATAAATATCATATTGAAAAATATTTAAATG
Found at i:21203078 original size:20 final size:21
Alignment explanation
Indices: 21203048--21203089 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
21203038 GGTCTAGAAA
21203048 GAAAGAAAAAAGAAAAAAAGG
1 GAAAGAAAAAAGAAAAAAAGG
*
21203069 GAAA-AAAAAAGAAGAAAAGG
1 GAAAGAAAAAAGAAAAAAAGG
21203089 G
1 G
21203090 CCCAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (21 bp):
GAAAGAAAAAAGAAAAAAAGG
Found at i:21205974 original size:93 final size:93
Alignment explanation
Indices: 21205810--21205993 Score: 287
Period size: 93 Copynumber: 2.0 Consensus size: 93
21205800 GATTAGGGAT
** * * *
21205810 ATGTCAAATTGAGTAATTGGGGTGAGGTGCTTGAGTTGCCATCTCATTTCGCATAAAAATATTTG
1 ATGTCAAATTGAGTAACCGAGGTAAGGTGCTTGAGTTGCCATCTCATTTCGCATAAAAAGATTTG
21205875 ACTATGTCTCAAATTTGTTGAAAAAACC
66 ACTATGTCTCAAATTTGTTGAAAAAACC
* * * *
21205903 ATGTGAAATTGAGTAACCGAGGTAAGGTGCTTGGGTTGTCATCTTATTTCGCATAAAAAGATTTG
1 ATGTCAAATTGAGTAACCGAGGTAAGGTGCTTGAGTTGCCATCTCATTTCGCATAAAAAGATTTG
21205968 ACTATGTCTCAAATTTGTTGAAAAAA
66 ACTATGTCTCAAATTTGTTGAAAAAA
21205994 ATATATATGG
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 82 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.34
Consensus pattern (93 bp):
ATGTCAAATTGAGTAACCGAGGTAAGGTGCTTGAGTTGCCATCTCATTTCGCATAAAAAGATTTG
ACTATGTCTCAAATTTGTTGAAAAAACC
Found at i:21211446 original size:40 final size:40
Alignment explanation
Indices: 21211358--21211544 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
21211348 ATAACTACAA
* * * *** *
21211358 GCACAATTGCCTTC-GGTCTTAACCCGGATTTGGTAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
21211397 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
21211437 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* * *
21211477 GCACGAATGCCTTCGGGTCTTAGCTCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* *
21211517 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
21211545 GTATCATTCA
Statistics
Matches: 132, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 13 0.10
40 118 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:21213410 original size:30 final size:30
Alignment explanation
Indices: 21213374--21213474 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
21213364 GACAAGATTG
* * *
21213374 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
21213404 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
21213432 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
21213461 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
21213475 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:21213486 original size:29 final size:28
Alignment explanation
Indices: 21213403--21213478 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
21213393 AAAATTGTAC
* *
21213403 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
21213431 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
21213460 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
21213479 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:21220862 original size:26 final size:28
Alignment explanation
Indices: 21220802--21220870 Score: 124
Period size: 26 Copynumber: 2.5 Consensus size: 28
21220792 AAATTTGTAC
21220802 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
21220830 AGCACTAAGTGTGCGAG-TTGAT-ATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
21220856 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
21220871 GACTCACTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 19 0.46
27 5 0.12
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:21223604 original size:41 final size:41
Alignment explanation
Indices: 21223559--21223676 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
21223549 TGAAAGATAA
21223559 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
21223600 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
21223630 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
21223671 ATGTAG
1 ATGTAG
21223677 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:21223615 original size:71 final size:71
Alignment explanation
Indices: 21223527--21223690 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
21223517 GAGATGTATC
21223527 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
21223592 AGGACA
66 AGGACA
21223598 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
21223663 AGGACA
66 AGGACA
21223669 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
21223691 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:21231183 original size:41 final size:41
Alignment explanation
Indices: 21231138--21231255 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
21231128 TGAAAGATAA
21231138 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
21231179 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
21231209 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
21231250 ATGTAG
1 ATGTAG
21231256 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:21231194 original size:71 final size:71
Alignment explanation
Indices: 21231106--21231269 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
21231096 GAGATGTATC
21231106 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
21231171 AGGACA
66 AGGACA
21231177 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
21231242 AGGACA
66 AGGACA
21231248 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
21231270 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:21239036 original size:27 final size:28
Alignment explanation
Indices: 21238980--21239049 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
21238970 AAATTTGTAC
21238980 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
21239008 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
21239035 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
21239050 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:21239060 original size:27 final size:27
Alignment explanation
Indices: 21238980--21239061 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
21238970 AAATTTGTAC
* *
21238980 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
21239008 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
21239035 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
21239062 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:21253221 original size:15 final size:16
Alignment explanation
Indices: 21253197--21253249 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 16
21253187 ATAAGAAAAT
21253197 ATTATTAAATTATTTA
1 ATTATTAAATTATTTA
*
21253213 ATT-TTAAA-TAGTTA
1 ATTATTAAATTATTTA
* *
21253227 ATTACTATATTATTTAA
1 ATTATTAAATTATTT-A
21253244 ATTATT
1 ATTATT
21253250 CATTTTTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
14 8 0.28
15 8 0.28
16 7 0.24
17 6 0.21
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTATTAAATTATTTA
Found at i:21260559 original size:79 final size:79
Alignment explanation
Indices: 21260405--21260563 Score: 259
Period size: 79 Copynumber: 2.0 Consensus size: 79
21260395 AATAACAATT
21260405 AATATATAATATAAAGTATATTAATATATTACTTAGTATTTATCTTAAAAATAAAAACTCTTAAA
1 AATATATAATATAAAGTATATTAATATATTACTTAGTATTTATCTTAAAAATAAAAACTCTTAAA
*
21260470 TAAATGGTGATAAA
66 TAAATAGTGATAAA
* *
21260484 AATATATAATATAAAGTATATTAATATATTACTT-G-ATATTATCTTAGAAATAAAAACTGTTAA
1 AATATATAATATAAAGTATATTAATATATTACTTAGTAT-TTATCTTAAAAATAAAAACTCTTAA
21260547 ATAAAATAGTGATAAA
65 AT-AAATAGTGATAAA
21260563 A
1 A
21260564 TACTAAGCAA
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
77 2 0.03
78 26 0.35
79 47 0.63
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (79 bp):
AATATATAATATAAAGTATATTAATATATTACTTAGTATTTATCTTAAAAATAAAAACTCTTAAA
TAAATAGTGATAAA
Found at i:21269672 original size:12 final size:12
Alignment explanation
Indices: 21269655--21269681 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21269645 GCCGGCCCAT
21269655 GATCTAGAAGGA
1 GATCTAGAAGGA
21269667 GATCTAGAAGGA
1 GATCTAGAAGGA
21269679 GAT
1 GAT
21269682 TTGGCTAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.33, T:0.19
Consensus pattern (12 bp):
GATCTAGAAGGA
Found at i:21273239 original size:40 final size:40
Alignment explanation
Indices: 21273173--21273276 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 40
21273163 AAATTGAATG
* * *
21273173 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
* * ***
21273212 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
21273252 ATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
21273277 TTTGTGCACA
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
39 13 0.24
40 42 0.76
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
Found at i:21273295 original size:40 final size:41
Alignment explanation
Indices: 21273173--21273299 Score: 124
Period size: 40 Copynumber: 3.2 Consensus size: 41
21273163 AAATTGAATG
* * *
21273173 ATATCCGGGCTAAG-CCCGAAGACAATTATGC---TGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAATGG--CTT
* *
21273212 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-T
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAATGGCTT
*
21273252 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACAT-GCTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-ATGGCTT
21273292 ATATCCGG
1 ATATCCGG
21273300 TTATATTCCG
Statistics
Matches: 75, Mismatches: 7, Indels: 11
0.81 0.08 0.12
Matches are distributed among these distances:
39 16 0.21
40 56 0.75
43 3 0.04
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAATGGCTT
Found at i:21281180 original size:40 final size:40
Alignment explanation
Indices: 21281121--21281262 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
21281111 AAATTGAATG
* * *
21281121 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
21281161 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
21281201 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
21281241 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
21281263 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:21281263 original size:40 final size:39
Alignment explanation
Indices: 21281160--21281272 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 39
21281150 TGCTGGAAAT
* * **
21281160 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTCAC
*
21281200 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
*
21281240 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGC
21281273 ACATGTTATA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.05
40 60 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
Found at i:21289662 original size:24 final size:24
Alignment explanation
Indices: 21289563--21289663 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
21289553 AAGTCCGTCA
21289563 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGTTGATAAG
*
21289587 GGATAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGTTGATAAG
* *
21289611 GGATAGGACTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGTTGATAAG
* *
21289635 GGAGAGGATTTAGGAGCTGATCAG
1 GGAGAGGATTTAGGAGTTGATAAG
21289659 GGAGA
1 GGAGA
21289664 ACAGTGTTGG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.33, C:0.03, G:0.41, T:0.24
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGTTGATAAG
Found at i:21292514 original size:29 final size:29
Alignment explanation
Indices: 21292481--21292554 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
21292471 GTGACGAGAT
21292481 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
21292510 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
21292539 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
21292555 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:21292570 original size:29 final size:29
Alignment explanation
Indices: 21292538--21292613 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
21292528 CTGGAAATAT
* *
21292538 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
21292567 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
21292596 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
21292614 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:21300383 original size:29 final size:29
Alignment explanation
Indices: 21300350--21300423 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
21300340 GTGACGAGAT
21300350 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
21300379 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
21300408 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
21300424 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:21300439 original size:29 final size:29
Alignment explanation
Indices: 21300407--21300482 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
21300397 CTGGAAATAT
* *
21300407 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
21300436 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
21300465 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
21300483 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:21302124 original size:27 final size:27
Alignment explanation
Indices: 21302082--21302192 Score: 143
Period size: 27 Copynumber: 4.1 Consensus size: 27
21302072 AGGAAGCATC
* *
21302082 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* *
21302109 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
21302136 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* * *
21302163 CTTGTGACTCTGTCACA-TTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
21302189 CTGG
1 CTGG
21302193 CAGCAATGCT
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 12 0.16
27 61 0.84
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGTT
Found at i:21307823 original size:24 final size:24
Alignment explanation
Indices: 21307791--21307887 Score: 158
Period size: 24 Copynumber: 4.0 Consensus size: 24
21307781 CAGTCAGGAG
*
21307791 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCTGATAAGGGAT
*
21307815 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCTGATAAGGGAT
*
21307839 AGGATTTAGGAGCTGATAAGGGAG
1 AGGATTTAGGAGCTGATAAGGGAT
*
21307863 AGGATTTAGGAGCTGATTAGGGAT
1 AGGATTTAGGAGCTGATAAGGGAT
21307887 A
1 A
21307888 ACAGTGTTGG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 69 1.00
ACGTcount: A:0.33, C:0.02, G:0.38, T:0.27
Consensus pattern (24 bp):
AGGATTTAGGAGCTGATAAGGGAT
Found at i:21309335 original size:27 final size:27
Alignment explanation
Indices: 21309295--21309405 Score: 134
Period size: 27 Copynumber: 4.1 Consensus size: 27
21309285 AGGAAGCGTC
* *
21309295 CTGGTGGCTATGCCATATTTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
21309322 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* * *
21309349 CTGGTGGCTCTACCACAATTATCTTTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* * *
21309376 TTGGTGACTCTGTCACA-TTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
21309402 CTGG
1 CTGG
21309406 CAGAAATGCT
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 11 0.15
27 60 0.85
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.41
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGTT
Found at i:21327833 original size:27 final size:27
Alignment explanation
Indices: 21327792--21327989 Score: 227
Period size: 27 Copynumber: 7.3 Consensus size: 27
21327782 TACTGAAATG
** * *
21327792 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
* * **
21327819 CCCTCGATTTATAGAATTACCGTTCCA
1 CCCTCGATTTACAAAATTACCGTTTTA
21327846 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
* *
21327873 CCCTCGATTTATAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
* * * *
21327900 CACTCGATTTAGAGAATTTCCGTTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
* *
21327927 CCCTCGATTTACAAAATTATCATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
*
21327954 CCCTC-AGTTTACAAAATTACTGTTTTA
1 CCCTCGA-TTTACAAAATTACCGTTTTA
21327981 CCCTCGATT
1 CCCTCGATT
21327990 GTGAAATTAA
Statistics
Matches: 145, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 143 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCGTTTTA
Done.