Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 55 of 284
Found at i:19278401 original size:17 final size:19
Alignment explanation
Indices: 19278366--19278413 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
19278356 AATTTCTAAT
19278366 ATATTTTTTATAAATTTTA
1 ATATTTTTTATAAATTTTA
19278385 AT-TTTTTTATAAA-TTTA
1 ATATTTTTTATAAATTTTA
19278402 ATGATTTTTTAT
1 AT-ATTTTTTAT
19278414 GTTTTTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.22
18 11 0.41
19 10 0.37
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
ATATTTTTTATAAATTTTA
Found at i:19278410 original size:27 final size:27
Alignment explanation
Indices: 19278380--19278432 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
19278370 TTTTTATAAA
*
19278380 TTTTAATTTTTTTATAAATTTA-ATGAT
1 TTTTAATGTTTTTAT-AATTTATATGAT
*
19278407 TTTTTATGTTTTTATAATTTATATGA
1 TTTTAATGTTTTTATAATTTATATGA
19278433 GTAGAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (27 bp):
TTTTAATGTTTTTATAATTTATATGAT
Found at i:19282611 original size:42 final size:41
Alignment explanation
Indices: 19282493--19282649 Score: 118
Period size: 42 Copynumber: 3.6 Consensus size: 41
19282483 GGAACTTTGA
* *
19282493 CATCGATCTGAGATATT-GTGTAAGACCGTGTCAGGGACACAGG
1 CATCGATCT--GAT-TTCGTGTAAGACCATGTCTGGGACACAGG
* * ** *
19282536 CCTCGATTTGAGATTTACGTGTAAGAATATGTCTGGGACATAGG
1 CATCGATCT--GATTT-CGTGTAAGACCATGTCTGGGACACAGG
* *
19282580 CATCGTATCTGATTTCGTGTAAGACCCTGTCTGGGACAGAGG
1 CATCG-ATCTGATTTCGTGTAAGACCATGTCTGGGACACAGG
* * *
19282622 TATCGATACTGAATTACATGTAAGACCA
1 CATCGAT-CTG-ATTTCGTGTAAGACCA
19282650 AGTCCAGGAC
Statistics
Matches: 92, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
41 2 0.02
42 32 0.35
43 30 0.33
44 25 0.27
45 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (41 bp):
CATCGATCTGATTTCGTGTAAGACCATGTCTGGGACACAGG
Found at i:19283092 original size:36 final size:36
Alignment explanation
Indices: 19283042--19283113 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
19283032 TCGTAGCTAT
19283042 TGAAGGCTCAGGGATAGTCGAGGAATTGTCACCATA
1 TGAAGGCTCAGGGATAGTCGAGGAATTGTCACCATA
*
19283078 TGAAGGCTCGGGGATAGTCGAGGAATTGTCACCATA
1 TGAAGGCTCAGGGATAGTCGAGGAATTGTCACCATA
19283114 CTATCGAACT
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:0.29, C:0.17, G:0.32, T:0.22
Consensus pattern (36 bp):
TGAAGGCTCAGGGATAGTCGAGGAATTGTCACCATA
Found at i:19290120 original size:43 final size:44
Alignment explanation
Indices: 19290067--19290231 Score: 137
Period size: 43 Copynumber: 3.9 Consensus size: 44
19290057 AACTTTAACA
* * *
19290067 TCGATCTGAGATATCA-TGTAAGACCGTGTTTGGGACACAGGCC
1 TCGATCTGAGATATAAGTGTAAGACCATGTCTGGGACACAGGCC
* * * *
19290110 TCGATTTGAGATTTAAGTGTAAGACCATGTCTGGGACATAGGCA
1 TCGATCTGAGATATAAGTGTAAGACCATGTCTGGGACACAGGCC
** * * * *
19290154 TCGTATCT--GAT-T-TCTGTAAGACCCTGTCTGGGATAGAGGCA
1 TCG-ATCTGAGATATAAGTGTAAGACCATGTCTGGGACACAGGCC
*
19290195 TCGATACTGA-AT-TAAATGTAAGACCATGTCTGGGACA
1 TCGAT-CTGAGATATAAGTGTAAGACCATGTCTGGGACA
19290232 TCGGCATTGT
Statistics
Matches: 99, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
40 2 0.02
41 29 0.29
42 4 0.04
43 35 0.35
44 26 0.26
45 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (44 bp):
TCGATCTGAGATATAAGTGTAAGACCATGTCTGGGACACAGGCC
Found at i:19290182 original size:41 final size:43
Alignment explanation
Indices: 19290082--19290238 Score: 151
Period size: 41 Copynumber: 3.7 Consensus size: 43
19290072 CTGAGATATC
* * * * *
19290082 ATGTAAGACCGTGTTTGGGACACAGGCCTCGAT-TTGAGATTTAA
1 ATGTAAGACCATGTCTGGGACATAGGCATCGATACTGA-A-TTAA
* *
19290126 GTGTAAGACCATGTCTGGGACATAGGCATCG-TATCTG-ATT-T
1 ATGTAAGACCATGTCTGGGACATAGGCATCGATA-CTGAATTAA
* * * *
19290167 CTGTAAGACCCTGTCTGGGATAGAGGCATCGATACTGAATTAA
1 ATGTAAGACCATGTCTGGGACATAGGCATCGATACTGAATTAA
*
19290210 ATGTAAGACCATGTCTGGGACATCGGCAT
1 ATGTAAGACCATGTCTGGGACATAGGCAT
19290239 TGTACCCGTA
Statistics
Matches: 91, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
41 30 0.33
42 7 0.08
43 26 0.29
44 26 0.29
45 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (43 bp):
ATGTAAGACCATGTCTGGGACATAGGCATCGATACTGAATTAA
Found at i:19291762 original size:23 final size:22
Alignment explanation
Indices: 19291731--19291775 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
19291721 GAACTATTAG
* *
19291731 GAACGAAATCGTGAAATCCTTTA
1 GAACCAAATCATGAAAT-CTTTA
*
19291754 GAACCAAATTATGAAATCTTTA
1 GAACCAAATCATGAAATCTTTA
19291776 ATCTTTCCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (22 bp):
GAACCAAATCATGAAATCTTTA
Found at i:19296152 original size:55 final size:52
Alignment explanation
Indices: 19296065--19296274 Score: 206
Period size: 55 Copynumber: 3.9 Consensus size: 52
19296055 ATTAGGGTTT
* *
19296065 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGT
1 AAGGA-ACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * * *
19296120 AAGGGAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AA-GGAACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
** * * *
19296175 AAAGGTCCCATGTAAGACCATGCCGAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGAACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* * *
19296228 AAGGATACCATGTAAAACCATGTCAAGACATGGCAATGGTAAGTTTC
1 AAGGA-ACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC
19296275 AAAAGGATAC
Statistics
Matches: 125, Mismatches: 23, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
52 5 0.04
53 39 0.31
54 11 0.09
55 65 0.52
56 5 0.04
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (52 bp):
AAGGAACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:19296271 original size:108 final size:110
Alignment explanation
Indices: 19296072--19296272 Score: 293
Period size: 108 Copynumber: 1.8 Consensus size: 110
19296062 TTTAAGGATA
* * *
19296072 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGTAAGGGAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGGAACCATGTAAAA
*
19296137 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
19296182 CCATGTAAGACCATGCCGAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAA-GGATACCATGTAA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGGA-ACCATGTAA
*
19296243 AACCATGTCAAGACATGGCAATGGTAAGTT
64 AACCATGTCAAGACATGGCAATGATAAGTT
19296273 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
107 6 0.07
108 43 0.52
109 7 0.09
110 26 0.32
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGGAACCATGTAAAA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:19296509 original size:16 final size:16
Alignment explanation
Indices: 19296488--19296518 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19296478 ATAAATTTGA
19296488 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
19296504 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
19296519 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:19298345 original size:51 final size:51
Alignment explanation
Indices: 19298283--19298432 Score: 228
Period size: 51 Copynumber: 2.9 Consensus size: 51
19298273 CGTGTAGCAA
* **
19298283 CAACATTATCCAGTCCATCAAATGTTGCAAAATCACCAGCATATTCATCAG
1 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAG
* * * *
19298334 CTACATTATCCACTCAATCTGATGCTGCAAAATCACCAACATATTCATCAG
1 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAG
*
19298385 CAACATTATCCACCCCATCTGATGTTGCAAAATCACCAGCATATTCAT
1 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
19298433 TAGTAGCAAC
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 87 1.00
ACGTcount: A:0.35, C:0.29, G:0.09, T:0.27
Consensus pattern (51 bp):
CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAG
Found at i:19300840 original size:28 final size:28
Alignment explanation
Indices: 19300772--19301037 Score: 453
Period size: 28 Copynumber: 9.5 Consensus size: 28
19300762 CATGAGATTG
* * * *
19300772 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
19300801 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
19300829 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
19300857 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
19300885 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
19300913 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
19300941 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
19300969 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
19300997 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
19301024 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
19301038 GACTTAATAT
Statistics
Matches: 228, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
27 24 0.11
28 186 0.82
29 18 0.08
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:19313096 original size:117 final size:117
Alignment explanation
Indices: 19312916--19313126 Score: 291
Period size: 117 Copynumber: 1.8 Consensus size: 117
19312906 GGTAACAGAA
* * * * * * *
19312916 ATCAACACCATCAGGACCACTGTCGCATAAAAAATCGACAAAACAAACCAATAGTTTTGGCACTG
1 ATCAACAACATCAGGACCACTATCGAATAAAAAATCGACAAAACAAACCAATAATTATCGCACTA
19312981 AAATTGCAACAATAAATCACA-ATTAACCATCTACAATTTTTACAACAGTTTT
66 AAATTGCAACAATAAATCACAGA-TAACCATCTACAATTTTTACAACAGTTTT
* *
19313033 ATCAACAACATCGGGACCACTATCGAATAAAAAATCGACAAAACAAACC-CTACATTATCGCACT
1 ATCAACAACATCAGGACCACTATCGAATAAAAAATCGACAAAACAAACCAATA-ATTATCGCACT
* *
19313097 AAAATTGCAATAGTAAATCACAGATAACCA
65 AAAATTGCAACAATAAATCACAGATAACCA
19313127 ACAAATCAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
116 2 0.02
117 78 0.96
118 1 0.01
ACGTcount: A:0.45, C:0.24, G:0.09, T:0.22
Consensus pattern (117 bp):
ATCAACAACATCAGGACCACTATCGAATAAAAAATCGACAAAACAAACCAATAATTATCGCACTA
AAATTGCAACAATAAATCACAGATAACCATCTACAATTTTTACAACAGTTTT
Found at i:19319993 original size:28 final size:29
Alignment explanation
Indices: 19319937--19319994 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
19319927 AATTAGTACA
*
19319937 AAATGAAAATTGATATTGGATATGAAAAT
1 AAATGAAAAGTGATATTGGATATGAAAAT
* * *
19319966 AAATGAAAAGTG-TCTTGGATGTGGAAAT
1 AAATGAAAAGTGATATTGGATATGAAAAT
19319994 A
1 A
19319995 TTGTAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.47, C:0.02, G:0.22, T:0.29
Consensus pattern (29 bp):
AAATGAAAAGTGATATTGGATATGAAAAT
Found at i:19324167 original size:46 final size:46
Alignment explanation
Indices: 19324101--19324191 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
19324091 CCGACCATCC
*
19324101 CTCTCTCCCATGGGGTCTTCTTCCTTTCATTTTACTAGCTTTTTTT
1 CTCTCTCCCATGGGGTCTTCTTCCTTCCATTTTACTAGCTTTTTTT
*
19324147 CTCTC-CCCTATGGGGTCTTCTTCCTTCCATTTTTCTAGCTTTTTT
1 CTCTCTCCC-ATGGGGTCTTCTTCCTTCCATTTTACTAGCTTTTTT
19324192 CTCAAATTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 3 0.07
46 39 0.93
ACGTcount: A:0.08, C:0.30, G:0.11, T:0.52
Consensus pattern (46 bp):
CTCTCTCCCATGGGGTCTTCTTCCTTCCATTTTACTAGCTTTTTTT
Found at i:19327246 original size:26 final size:26
Alignment explanation
Indices: 19327208--19327291 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
19327198 CATGAAATTC
* *
19327208 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
19327234 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
19327260 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
19327286 TTATCA
1 TTATCA
19327292 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:19331265 original size:12 final size:12
Alignment explanation
Indices: 19331248--19331274 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19331238 TTGAATTTGA
19331248 TGATTTGATATT
1 TGATTTGATATT
19331260 TGATTTGATATT
1 TGATTTGATATT
19331272 TGA
1 TGA
19331275 ATGGTTAAAT
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:0.26, C:0.00, G:0.19, T:0.56
Consensus pattern (12 bp):
TGATTTGATATT
Found at i:19331921 original size:27 final size:28
Alignment explanation
Indices: 19331891--19331943 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
19331881 AACACAATTT
*
19331891 GGGCCTAAGCCC-TTTCAGTATCAGTTA
1 GGGCCTAAGCCCATTTCAGTAACAGTTA
*
19331918 GGGCCTTAGCCCATTTCAGTAACAGT
1 GGGCCTAAGCCCATTTCAGTAACAGT
19331944 AGCAATCTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (28 bp):
GGGCCTAAGCCCATTTCAGTAACAGTTA
Found at i:19333165 original size:18 final size:18
Alignment explanation
Indices: 19333142--19333176 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19333132 GAGTTAAAAG
*
19333142 AATCGAGTTATTTGAGTT
1 AATCGAGTTATTCGAGTT
19333160 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
19333177 CAACTAGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.40
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:19333245 original size:9 final size:9
Alignment explanation
Indices: 19333226--19333266 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
19333216 TGAGTTTTCA
*
19333226 AATTTGAAT
1 AATTCGAAT
*
19333235 AACTCGAAT
1 AATTCGAAT
19333244 AATTCGAAT
1 AATTCGAAT
19333253 AATTCGAAT
1 AATTCGAAT
19333262 AATTC
1 AATTC
19333267 AAAATCAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (9 bp):
AATTCGAAT
Found at i:19333525 original size:30 final size:30
Alignment explanation
Indices: 19333483--19333541 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
19333473 AACTTTTTAT
19333483 TTTCCCCCAAAATTTTTAC-TCCCTCCCAC
1 TTTCCCCCAAAATTTTTACTTCCCTCCCAC
* *
19333512 TTTCCTCCTAAAATTTTTACTTCCTTCCCA
1 TTTCC-CCCAAAATTTTTACTTCCCTCCCA
19333542 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 5 0.19
30 13 0.50
31 8 0.31
ACGTcount: A:0.20, C:0.39, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTCCCCCAAAATTTTTACTTCCCTCCCAC
Found at i:19337660 original size:50 final size:50
Alignment explanation
Indices: 19337364--19337651 Score: 244
Period size: 50 Copynumber: 5.8 Consensus size: 50
19337354 AGCCATGCAA
* * * * * * *
19337364 ATGTATTTGGATGA-AAAATTGTCTC-ATTTCTTTGAAACAATCCATGCTG
1 ATGTATTTGAATGAGAAAAATGTCTCTA-TGCATTGAAACCATCCATGATC
* *** *
19337413 ATGTATTTGATTGAAGAAAAATGTCT-TCATGCATTTGAAATTTTCCAT-TTC
1 ATGTATTTGAATG-AGAAAAATGTCTCT-ATGCA-TTGAAACCATCCATGATC
** * * * * *
19337464 ATGTA-TCAAGATGAGATAAACGTCTCTATGCATTGAAAACATTCATTATC
1 ATGTATTTGA-ATGAGAAAAATGTCTCTATGCATTGAAACCATCCATGATC
* * * *
19337514 ATGTATTTGAATAAGAAAAACGTCTTTATGCATTAAAACCATCCATGATC
1 ATGTATTTGAATGAGAAAAATGTCTCTATGCATTGAAACCATCCATGATC
* * *
19337564 ATGTATTTGAATGTGAAAAATGTCTCTATGCATTAAAACCACCCATGATC
1 ATGTATTTGAATGAGAAAAATGTCTCTATGCATTGAAACCATCCATGATC
* *
19337614 ATGTATTTAAATGAGAAAAATGTCTCTATGCAATGAAA
1 ATGTATTTGAATGAGAAAAATGTCTCTATGCATTGAAA
19337652 TTGTCCATGC
Statistics
Matches: 192, Mismatches: 38, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
49 21 0.11
50 137 0.71
51 22 0.11
52 12 0.06
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (50 bp):
ATGTATTTGAATGAGAAAAATGTCTCTATGCATTGAAACCATCCATGATC
Found at i:19337693 original size:20 final size:19
Alignment explanation
Indices: 19337668--19337710 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
19337658 ATGCTTCATA
19337668 CTTGAAACCGTCCATCCATG
1 CTTGAAA-CGTCCATCCATG
* *
19337688 CTTGAAATGTCCATCTATG
1 CTTGAAACGTCCATCCATG
19337707 CTTG
1 CTTG
19337711 TTGGTTAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (19 bp):
CTTGAAACGTCCATCCATG
Found at i:19349656 original size:40 final size:40
Alignment explanation
Indices: 19349601--19349778 Score: 254
Period size: 40 Copynumber: 4.5 Consensus size: 40
19349591 CGGATGGTAA
* *
19349601 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-T
*
19349641 CCGGGCTAAGCCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
*
19349681 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
* *
19349721 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATAT
*
19349761 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
19349779 TACTTGGTTT
Statistics
Matches: 129, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 17 0.13
40 111 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
Found at i:19352254 original size:53 final size:53
Alignment explanation
Indices: 19352184--19352289 Score: 176
Period size: 53 Copynumber: 2.0 Consensus size: 53
19352174 GGTTAATAAG
*
19352184 AATGTGTATTGACTATCAACAGCTCAATAAGGTTACGATAAAGAAGAAGTATC
1 AATGTGTATTGACTATCAACAGCTCAATAAGGTTACAATAAAGAAGAAGTATC
* * *
19352237 AATGTGTATTGATTATCAATAGCTCAATAAGGTTACAATAAAGAATAAGTATC
1 AATGTGTATTGACTATCAACAGCTCAATAAGGTTACAATAAAGAAGAAGTATC
19352290 TGTTGCTGAG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.29
Consensus pattern (53 bp):
AATGTGTATTGACTATCAACAGCTCAATAAGGTTACAATAAAGAAGAAGTATC
Found at i:19356991 original size:48 final size:47
Alignment explanation
Indices: 19356887--19357004 Score: 141
Period size: 47 Copynumber: 2.5 Consensus size: 47
19356877 TGATGCCGAT
* * * * *
19356887 GCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATCAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTAAACTGACTCATCCATCAAGGCGAC
*
19356934 GCCATGTCCCAGACATGGTCTTAAACTGACT-ATCGAGATCAAGGCTGAC
1 GCCATGTCCCAGACATGGTCTTAAACTGACTCATC--CATCAAGGC-GAC
19356983 G-CATGTCCCAGACATGGTCTTA
1 GCCATGTCCCAGACATGGTCTTA
19357005 CACTAGCTTC
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
46 3 0.05
47 28 0.45
48 28 0.45
49 3 0.05
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTAAACTGACTCATCCATCAAGGCGAC
Found at i:19357120 original size:46 final size:47
Alignment explanation
Indices: 19356881--19357198 Score: 208
Period size: 48 Copynumber: 6.8 Consensus size: 47
19356871 AGGGTATGAT
* * *
19356881 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGC-T-CATCCATCAA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTACAT-CTTAAA
* * * * *
19356928 GTCGATGCCATGTCCCAGACATGGTCTTAAACTGACTATCGAGATC--AAG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCT-T--ACATCTTAAA
* * * * *
19356977 GCTGACGCATGTCCCAGACATGGTCTTACACTAGCTTCACATATCT-AT
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTT-ACATCT-TAAA
* * * * ***
19357025 GCCGATTACATG-CTCAGACATGGTTTTACACTGAC--ACATCTCGTA
1 GCCGA-TGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTTAAA
19357070 GCCGATGCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTTAAA
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTTAAA
* * ** * *
19357116 GCCGATGCATGTCCCAAACAT-GTCTTACACTAGCTCT-TGTCTCAAT
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTTAAA
* *
19357162 GTCGATGCCATGTTCCAGACATGGTCTTACACTGGCT
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCT
19357199 CTCATAATGT
Statistics
Matches: 210, Mismatches: 45, Indels: 31
0.73 0.16 0.11
Matches are distributed among these distances:
44 16 0.08
45 18 0.09
46 54 0.26
47 46 0.22
48 63 0.30
49 10 0.05
51 1 0.00
52 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTTAAA
Found at i:19357971 original size:39 final size:39
Alignment explanation
Indices: 19357928--19358007 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
19357918 GCATATATAG
19357928 CACAAAGTATGATCGTGATTAACCATTCCAATGGCCAAT
1 CACAAAGTATGATCGTGATTAACCATTCCAATGGCCAAT
19357967 CACAAAGTATGATCGTGATTAACCATTCCAATGGCCAAT
1 CACAAAGTATGATCGTGATTAACCATTCCAATGGCCAAT
19358006 CA
1 CA
19358008 TTGCCAAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (39 bp):
CACAAAGTATGATCGTGATTAACCATTCCAATGGCCAAT
Found at i:19358689 original size:40 final size:40
Alignment explanation
Indices: 19358641--19358814 Score: 303
Period size: 40 Copynumber: 4.3 Consensus size: 40
19358631 GCTACTTGCT
*
19358641 CAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCA
* * * *
19358681 CAATTGCCTTCGAGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCA
19358721 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCA
19358761 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCA
19358801 CAAATGCCTTCGGG
1 CAAATGCCTTCGGG
19358815 NATACTTAAT
Statistics
Matches: 127, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 127 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCA
Found at i:19369208 original size:25 final size:25
Alignment explanation
Indices: 19369179--19369229 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
19369169 ATGTTTTGAG
19369179 TATATGGCATGTATAGGGACTTTGT
1 TATATGGCATGTATAGGGACTTTGT
*
19369204 TATATGGCATGTATAGGGATTTTGT
1 TATATGGCATGTATAGGGACTTTGT
19369229 T
1 T
19369230 CTTGTTGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.06, G:0.27, T:0.43
Consensus pattern (25 bp):
TATATGGCATGTATAGGGACTTTGT
Found at i:19372624 original size:23 final size:23
Alignment explanation
Indices: 19372575--19372633 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
19372565 CTTAAACGGG
**
19372575 ACACCACCGAAGTGGGTAATAGA
1 ACACCACCGAAGCAGGTAATAGA
**
19372598 ACACTGCCGAAGCAGGTAACTAG-
1 ACACCACCGAAGCAGGTAA-TAGA
19372621 ACACCACCGAAGC
1 ACACCACCGAAGC
19372634 GAGTAAACAG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
23 26 0.90
24 3 0.10
ACGTcount: A:0.37, C:0.29, G:0.24, T:0.10
Consensus pattern (23 bp):
ACACCACCGAAGCAGGTAATAGA
Found at i:19372639 original size:23 final size:22
Alignment explanation
Indices: 19372574--19372639 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 22
19372564 ACTTAAACGG
* *
19372574 GACACCACCGAAGTGGGTAATA
1 GACACCACCGAAGCGAGTAATA
**
19372596 GAACACTGCCGAAGC-AGGTAACTA
1 G-ACACCACCGAAGCGA-GTAA-TA
19372620 GACACCACCGAAGCGAGTAA
1 GACACCACCGAAGCGAGTAA
19372640 ACAGAGAGCG
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
22 1 0.03
23 29 0.85
24 4 0.12
ACGTcount: A:0.38, C:0.26, G:0.26, T:0.11
Consensus pattern (22 bp):
GACACCACCGAAGCGAGTAATA
Found at i:19390468 original size:14 final size:14
Alignment explanation
Indices: 19390449--19390481 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
19390439 TGGATTTTGA
*
19390449 ATATGCTATGACAT
1 ATATGCTATGAAAT
19390463 ATATGCTATGAAAT
1 ATATGCTATGAAAT
19390477 ATATG
1 ATATG
19390482 TCAAATGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.36
Consensus pattern (14 bp):
ATATGCTATGAAAT
Found at i:19396036 original size:56 final size:57
Alignment explanation
Indices: 19395975--19396134 Score: 193
Period size: 56 Copynumber: 2.9 Consensus size: 57
19395965 CATAACATAG
* * *
19395975 CACGCCTCTCAACAGGGCTACCTAAAAGCACCCAGACCTAGCATGCATCACATAA-T-
1 CACGCCTCTCAACGGGGCTA-CTAAAAGCTCCCAGACCTAGCATGTATCACATAATTA
* * * * *
19396031 CACGCCTCTCAACGGGGCTAC-ATAAGCTCCCGGACCTAGCGTATACCACATAATTA
1 CACGCCTCTCAACGGGGCTACTAAAAGCTCCCAGACCTAGCATGTATCACATAATTA
* *
19396087 CATGCCTCTCAACGGGGCTA-TACAAGCTCCCAGACCTAGCATGTATCA
1 CACGCCTCTCAACGGGGCTACTAAAAGCTCCCAGACCTAGCATGTATCA
19396135 TGCCATCAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
54 25 0.29
55 2 0.02
56 60 0.69
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.19
Consensus pattern (57 bp):
CACGCCTCTCAACGGGGCTACTAAAAGCTCCCAGACCTAGCATGTATCACATAATTA
Found at i:19400083 original size:17 final size:18
Alignment explanation
Indices: 19400042--19400084 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
19400032 TGTATTTACT
19400042 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
19400060 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
19400077 TATTATAT
1 TATTATAT
19400085 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:19400095 original size:18 final size:17
Alignment explanation
Indices: 19400072--19400108 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
19400062 ATATAAAGTA
*
19400072 AATTATATTATATTATAT
1 AATTATAATATATTA-AT
19400090 AATTATAATATATTAAT
1 AATTATAATATATTAAT
19400107 AA
1 AA
19400109 AATAAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTATAATATATTAAT
Found at i:19400188 original size:11 final size:13
Alignment explanation
Indices: 19400164--19400195 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
19400154 GGAAAGAAAT
19400164 AAGGAAAAAGGGA
1 AAGGAAAAAGGGA
19400177 AA-GAAAAA-GGA
1 AAGGAAAAAGGGA
19400188 AAGGAAAA
1 AAGGAAAA
19400196 TTTAGGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAGGAAAAAGGGA
Found at i:19400188 original size:19 final size:20
Alignment explanation
Indices: 19400152--19400189 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19400142 CACGAATAGC
19400152 AGGGAAAGAAATAAGGAAAA
1 AGGGAAAGAAATAAGGAAAA
19400172 AGGGAAAGAAA-AAGGAAA
1 AGGGAAAGAAATAAGGAAA
19400190 GGAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.03
Consensus pattern (20 bp):
AGGGAAAGAAATAAGGAAAA
Found at i:19400965 original size:20 final size:20
Alignment explanation
Indices: 19400940--19401027 Score: 167
Period size: 20 Copynumber: 4.4 Consensus size: 20
19400930 ATTCCGACTG
*
19400940 TGTGTCGATGAGACACTATA
1 TGTGTCGATGAGACGCTATA
19400960 TGTGTCGATGAGACGCTATA
1 TGTGTCGATGAGACGCTATA
19400980 TGTGTCGATGAGACGCTATA
1 TGTGTCGATGAGACGCTATA
19401000 TGTGTCGATGAGACGCTATA
1 TGTGTCGATGAGACGCTATA
19401020 TGTGTCGA
1 TGTGTCGA
19401028 ATACTGTTAC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.31
Consensus pattern (20 bp):
TGTGTCGATGAGACGCTATA
Found at i:19401278 original size:10 final size:10
Alignment explanation
Indices: 19401263--19401296 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
19401253 GTTATACAAT
19401263 TATTGAATGA
1 TATTGAATGA
19401273 TATTGAATGA
1 TATTGAATGA
*
19401283 TATGGAATGTA
1 TATTGAATG-A
19401294 TAT
1 TAT
19401297 AAAGAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (10 bp):
TATTGAATGA
Found at i:19407101 original size:5 final size:5
Alignment explanation
Indices: 19407093--19407134 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
19407083 TATAAAGTAA
*
19407093 ATTAT ATTAT ATTAT ATTAT ATTAT A-TA- ATTAT AATAT ATTA
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTA
19407135 ATAAAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 1 0.03
4 4 0.12
5 28 0.85
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
ATTAT
Found at i:19407103 original size:17 final size:18
Alignment explanation
Indices: 19407062--19407104 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
19407052 TGTATTTACT
19407062 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
19407080 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
19407097 TATTATAT
1 TATTATAT
19407105 TATATTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:19407218 original size:11 final size:13
Alignment explanation
Indices: 19407194--19407225 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
19407184 GGAAAGAAAT
19407194 AAGGAAAAAGGGA
1 AAGGAAAAAGGGA
19407207 AA-GAAAAA-GGA
1 AAGGAAAAAGGGA
19407218 AAGGAAAA
1 AAGGAAAA
19407226 TTTAGGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAGGAAAAAGGGA
Found at i:19407218 original size:19 final size:20
Alignment explanation
Indices: 19407182--19407219 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19407172 CACGAATAGC
19407182 AGGGAAAGAAATAAGGAAAA
1 AGGGAAAGAAATAAGGAAAA
19407202 AGGGAAAGAAA-AAGGAAA
1 AGGGAAAGAAATAAGGAAA
19407220 GGAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.03
Consensus pattern (20 bp):
AGGGAAAGAAATAAGGAAAA
Found at i:19413863 original size:20 final size:20
Alignment explanation
Indices: 19413838--19413875 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
19413828 TTTTATTGAT
19413838 TTAATATTAAAGTGATTATC
1 TTAATATTAAAGTGATTATC
19413858 TTAATATTAAAGTGATTA
1 TTAATATTAAAGTGATTA
19413876 AGTTTAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (20 bp):
TTAATATTAAAGTGATTATC
Found at i:19416960 original size:32 final size:32
Alignment explanation
Indices: 19416919--19416984 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
19416909 TAGGATAGTT
19416919 TCTTTCAGACATAATAGGAAATAGTGGGACTG
1 TCTTTCAGACATAATAGGAAATAGTGGGACTG
*
19416951 TCTTTCAGACATAATGGGAAATAGTGGGACTG
1 TCTTTCAGACATAATAGGAAATAGTGGGACTG
19416983 TC
1 TC
19416985 AGTCTGTTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (32 bp):
TCTTTCAGACATAATAGGAAATAGTGGGACTG
Found at i:19420328 original size:5 final size:5
Alignment explanation
Indices: 19420318--19420342 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19420308 ACCACAACAA
19420318 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
19420343 TTTGCAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:19423900 original size:49 final size:48
Alignment explanation
Indices: 19423831--19424140 Score: 175
Period size: 47 Copynumber: 6.6 Consensus size: 48
19423821 TTTCCGCTGC
* *
19423831 CATGTCCCTGACATGGTCTTACACTAGCTATC-TCCATCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTA-CATCCATCGACGCCGATG
* * ** *
19423879 CCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATACG-CGCTGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCT-ACATCCAT-CGACGCCGATG
* * *
19423929 CATGTCCCAGACAT-GCCTTACACTAGC-ACGAACC-T-TA-GCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTAC-ATCCATCGACGCCGATG
* * * * * *
19423973 CATGTCCCAAACA-CGTCTTACACTGGCTAACAT-CATTGAGGCTGATG
1 CATGTCCCAGACATGGTCTTACACTAGCT-ACATCCATCGACGCCGATG
* * * *
19424020 CATGTCCCAGACAT-GTCTTACACTGGC-AC-TCACCTCTACGTCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTACATC-CATCGACGCCGATG
* ** * *
19424066 CCATGTCCCAGACGTGGTCTTACACGGGCTACCAT-GAT-G-CGGCAGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCTA-CATCCATCGAC-GCCGATG
* *
19424114 CAGGTCCCAGACA-CGTCTTACACTAGC
1 CATGTCCCAGACATGGTCTTACACTAGC
19424141 CCTCATCTCA
Statistics
Matches: 202, Mismatches: 39, Indels: 43
0.71 0.14 0.15
Matches are distributed among these distances:
44 31 0.15
45 4 0.02
46 24 0.12
47 56 0.28
48 29 0.14
49 45 0.22
50 10 0.05
51 3 0.01
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTAGCTACATCCATCGACGCCGATG
Found at i:19424125 original size:94 final size:93
Alignment explanation
Indices: 19423831--19424189 Score: 341
Period size: 94 Copynumber: 3.8 Consensus size: 93
19423821 TTTCCGCTGC
* * *
19423831 CATGTCCCTGACATGGTCTTACACTAGCTATCTC-CATCGAGGCCGATGCCATGTCCCAGACATG
1 CATGTCCCAGACAT-GTCTTACACTAGC-A-CTCACCTCTA-GCCGATGCCATGTCCCAGACATG
* * *
19423895 GTCTTACACTAGCT-CTCGTGTATACGCGCTGATG
62 GTCTTACACTGGCTAC-CATG-ATGCG-GCTGATG
* ** * *
19423929 CATGTCCCAGACATGCCTTACACTAGCACGAACCT-TAGCCGATG-CATGTCCCAAACA-CGTCT
1 CATGTCCCAGACATGTCTTACACTAGCACTCACCTCTAGCCGATGCCATGTCCCAGACATGGTCT
* * *
19423991 TACACTGGCTAACATCATTGAGGCTGATG
66 TACACTGGCTACCATGA-TGCGGCTGATG
* * *
19424020 CATGTCCCAGACATGTCTTACACTGGCACTCACCTCTACGTCGATGCCATGTCCCAGACGTGGTC
1 CATGTCCCAGACATGTCTTACACTAGCACTCACCTCTA-GCCGATGCCATGTCCCAGACATGGTC
* *
19424085 TTACACGGGCTACCATGATGCGGCAGATG
65 TTACACTGGCTACCATGATGCGGCTGATG
* * * * * * *
19424114 CAGGTCCCAGACACGTCTTACACTAGCCCTCATCTCAATGCCGATTCCACGTCCCAGACATGGTC
1 CATGTCCCAGACATGTCTTACACTAGCACTCACCTCTA-GCCGATGCCATGTCCCAGACATGGTC
* *
19424179 CTATACTGGCT
65 TTACACTGGCT
19424190 CTCACATAAC
Statistics
Matches: 213, Mismatches: 41, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
91 39 0.18
92 19 0.09
93 18 0.08
94 89 0.42
95 20 0.09
96 3 0.01
97 12 0.06
98 13 0.06
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCACCTCTAGCCGATGCCATGTCCCAGACATGGTCT
TACACTGGCTACCATGATGCGGCTGATG
Found at i:19425652 original size:24 final size:24
Alignment explanation
Indices: 19425625--19425676 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
19425615 AGGTCTTTTA
19425625 GGCATAAACTTATAATAATTCACC
1 GGCATAAACTTATAATAATTCACC
19425649 GGCATAAACTTATAATAATTCACC
1 GGCATAAACTTATAATAATTCACC
19425673 GGCA
1 GGCA
19425677 ATAAGCCTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (24 bp):
GGCATAAACTTATAATAATTCACC
Found at i:19427363 original size:3 final size:3
Alignment explanation
Indices: 19427355--19427379 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
19427345 AAATTGTAAG
19427355 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
19427380 AATTTGTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:19446986 original size:37 final size:37
Alignment explanation
Indices: 19446940--19447018 Score: 158
Period size: 37 Copynumber: 2.1 Consensus size: 37
19446930 AATTTTAAGT
19446940 TTGATGTGTTAGGTAGTTATAAGCTAGGCTAAATTGA
1 TTGATGTGTTAGGTAGTTATAAGCTAGGCTAAATTGA
19446977 TTGATGTGTTAGGTAGTTATAAGCTAGGCTAAATTGA
1 TTGATGTGTTAGGTAGTTATAAGCTAGGCTAAATTGA
19447014 TTGAT
1 TTGAT
19447019 TTTGGCATGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.29, C:0.05, G:0.27, T:0.39
Consensus pattern (37 bp):
TTGATGTGTTAGGTAGTTATAAGCTAGGCTAAATTGA
Found at i:19451121 original size:48 final size:47
Alignment explanation
Indices: 19451064--19451528 Score: 174
Period size: 48 Copynumber: 9.7 Consensus size: 47
19451054 GAGGGTGAAT
* * * *
19451064 TGCCGATGCCATGTTCCAAACATGTTCTTACATTGGCTCATATGTC-GAA
1 TGCCGATGCCATG-TCCAAACATGGTCTTACACTGGCTC-T-CGTCTCAA
* * *
19451113 -GCCGATGCCATGTCCCAGCATGGTCTTACACTAGCTCTCGTCTCAA
1 TGCCGATGCCATGTCCAAACATGGTCTTACACTGGCTCTCGTCTCAA
*
19451159 TGCCGATGCCATGTCCTAAACATGGTCTTACACTGGCTCTC--AT-AA
1 TGCCGATGCCATGTCC-AAACATGGTCTTACACTGGCTCTCGTCTCAA
* * * * * *
19451204 TGTGGCCGATGCCATGTCCCAGAGATGGTCTTACACTAG-TGCACATATCAA
1 --T-GCCGATGCCATGT-CCAAACATGGTCTTACACTGGCT-CTCGTCTCAA
* * * *
19451255 TGCCAATGCCAT-TCCTCAGACGTGGTCTTACACTGGCT-T--TCATAATA
1 TGCCGATGCCATGT-C-CAAACATGGTCTTACACTGGCTCTCGTC-TCA-A
* ** * * * * * * *
19451302 TGGTCGATATCATATCCCAGACATGGTCTTACACTAG-TGCACATATTAA
1 T-GCCGATGCCATGT-CCAAACATGGTCTTACACTGGCT-CTCGTCTCAA
* * * * *
19451351 TGCCAATGCCATGTCCTAGACTTGGTCTTACACTAGCTCTC--AT-AA
1 TGCCGATGCCATGTCC-AAACATGGTCTTACACTGGCTCTCGTCTCAA
* * * *
19451396 TGTGGCCGACT-CCATGTCCCAGACATGGTCTTACACTAG-TGCACGTATCAA
1 --T-GCCGA-TGCCATGT-CCAAACATGGTCTTACACTGGCT-CTCGTCTCAA
* * * *
19451447 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCATAC-C-A
1 TGCCGATGCCATGT-CCAAACATGGTCTTACACTGGCTCTCGT-CTCAA
* *
19451494 TAGCTGATGCCATGTCCCAGACATGGTCTTACACT
1 T-GCCGATGCCATGT-CCAAACATGGTCTTACACT
19451529 AGCACACATA
Statistics
Matches: 334, Mismatches: 46, Indels: 73
0.74 0.10 0.16
Matches are distributed among these distances:
45 8 0.02
46 8 0.02
47 50 0.15
48 242 0.72
49 15 0.04
50 6 0.02
51 5 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
TGCCGATGCCATGTCCAAACATGGTCTTACACTGGCTCTCGTCTCAA
Found at i:19451281 original size:96 final size:96
Alignment explanation
Indices: 19451113--19451541 Score: 551
Period size: 96 Copynumber: 4.5 Consensus size: 96
19451103 ATATGTCGAA
* * * *
19451113 GCCGATGCCATGTCCCAG-CATGGTCTTACACTAGCT-CTCGTCTCAATGCCGATGCCATGTCCT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-TGCACATATCAATGCCAATGCCATGTCCT
* *
19451176 AAACATGGTCTTACACTGGCTCTCATAATGTG
65 AGACATGGTCTTACACTGGCTCTCATAATATG
*
19451208 GCCGATGCCATGTCCCAGAGATGGTCTTACACTAGTGCACATATCAATGCCAATGCCAT-TCCTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGTGCACATATCAATGCCAATGCCATGTCCT-
* *
19451272 AGACGTGGTCTTACACTGGCTTTCATAATATG
65 AGACATGGTCTTACACTGGCTCTCATAATATG
* ** * *
19451304 GTCGATATCATATCCCAGACATGGTCTTACACTAGTGCACATATTAATGCCAATGCCATGTCCTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGTGCACATATCAATGCCAATGCCATGTCCTA
* * *
19451369 GACTTGGTCTTACACTAGCTCTCATAATGTG
66 GACATGGTCTTACACTGGCTCTCATAATATG
* ** *
19451400 GCCGACT-CCATGTCCCAGACATGGTCTTACACTAGTGCACGTATCAATGCTGATGCCATGTCCC
1 GCCGA-TGCCATGTCCCAGACATGGTCTTACACTAGTGCACATATCAATGCCAATGCCATGTCCT
* ** *
19451464 AGACATGGTCTTACACTGGTTCTCATACCATA
65 AGACATGGTCTTACACTGGCTCTCATAATATG
* **
19451496 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGTGCACATATCA
19451542 CCCAAATGTC
Statistics
Matches: 290, Mismatches: 38, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
95 24 0.08
96 261 0.90
97 5 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGTGCACATATCAATGCCAATGCCATGTCCTA
GACATGGTCTTACACTGGCTCTCATAATATG
Found at i:19458647 original size:96 final size:96
Alignment explanation
Indices: 19458533--19458900 Score: 490
Period size: 96 Copynumber: 3.8 Consensus size: 96
19458523 TATGTCGAGA
* * * * *
19458533 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCTAA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGCCGATGCCATGTCCTAG
19458598 ACATGGTCTTACACTAGCTCTCATAATATGG
66 ACATGGTCTTACACTAGCTCTCATAATATGG
* *
19458629 CCGATGCCATGTCCCAGACATGGTCTTAAACTAG-TGCACATATCAATGCCAATGCCATG-CCTC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-CACATATCAATGCCGATGCCATGTCCT-
* *
19458692 AGACGTGGTCTTACACTGGCTCTCATAATATGG
64 AGACATGGTCTTACACTAGCTCTCATAATATGG
* ** * * * * *
19458725 TCGATATCATATCTCAGACATGGTCTTACACTAGCGCACATATCAATGCCAATGCCATGTCTTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGCCGATGCCATGTCCTAG
* *
19458790 ACTTGGTCTTACACTAGCTCTCATAATGTGG
66 ACATGGTCTTACACTAGCTCTCATAATATGG
* * *
19458821 CCGATGCCATGTCTCAAACATGGTCTTACACTAGCGT-ACATATCAATGCCGATGCCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGC-TCACATATCAATGCCGATGCCATGTCCTA
19458885 GACATGGTCTTACACT
65 GACATGGTCTTACACT
19458901 GGCACACATA
Statistics
Matches: 237, Mismatches: 30, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
95 4 0.02
96 231 0.97
97 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (96 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGCCGATGCCATGTCCTAG
ACATGGTCTTACACTAGCTCTCATAATATGG
Found at i:19458815 original size:192 final size:192
Alignment explanation
Indices: 19458547--19458903 Score: 545
Period size: 192 Copynumber: 1.9 Consensus size: 192
19458537 TGCCATGTCC
* * * * * *
19458547 CAGACATGGTCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCTAAACATGGTCTTACAC
1 CAGACATGGTCTTACACTAGCGCACATATCAATGCCAATGCCATGTCCTAAACATGGTCTTACAC
* *
19458612 TAGCTCTCATAATATGGCCGATGCCATGTCCCAGACATGGTCTTAAACTAGTGCACATATCAATG
66 TAGCTCTCATAATATGGCCGATGCCATGTCCCAAACATGGTCTTAAACTAGCGCACATATCAATG
*
19458677 CCAATGCCATG-CCTCAGACGTGGTCTTACACTGGCTCTCATAATATGGTCGATATCATATCT
131 CCAATGCCATGTCC-CAGACATGGTCTTACACTGGCTCTCATAATATGGTCGATATCATATCT
* * *
19458739 CAGACATGGTCTTACACTAGCGCACATATCAATGCCAATGCCATGTCTTAGACTTGGTCTTACAC
1 CAGACATGGTCTTACACTAGCGCACATATCAATGCCAATGCCATGTCCTAAACATGGTCTTACAC
* * * *
19458804 TAGCTCTCATAATGTGGCCGATGCCATGTCTCAAACATGGTCTTACACTAGCGTACATATCAATG
66 TAGCTCTCATAATATGGCCGATGCCATGTCCCAAACATGGTCTTAAACTAGCGCACATATCAATG
*
19458869 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC
131 CCAATGCCATGTCCCAGACATGGTCTTACACTGGC
19458904 ACACATATCA
Statistics
Matches: 147, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
192 145 0.99
193 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (192 bp):
CAGACATGGTCTTACACTAGCGCACATATCAATGCCAATGCCATGTCCTAAACATGGTCTTACAC
TAGCTCTCATAATATGGCCGATGCCATGTCCCAAACATGGTCTTAAACTAGCGCACATATCAATG
CCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGTCGATATCATATCT
Found at i:19458910 original size:48 final size:48
Alignment explanation
Indices: 19458486--19458913 Score: 381
Period size: 48 Copynumber: 8.9 Consensus size: 48
19458476 GGTGAATTGT
* * * * * * *
19458486 CGATGCCATGTTCCAAACATGGTCTTACATTGGCTCATATGTCGA-GAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATG-C
* * * *
19458534 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGC
* * *
19458582 CGATGCCATGTCCTAAACATGGTCTTACACTAGCTCTCATA--ATATGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCA-AT-GC
*
19458630 CGATGCCATGTCCCAGACATGGTCTTAAACTAG-TGCACATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCT-CACATATCAATGC
* * * * *
19458678 CAATGCCATG-CCTCAGACGTGGTCTTACACTGGCTCTCATA--ATATGGT
1 CGATGCCATGTCC-CAGACATGGTCTTACACTAGCTCACATATCA-AT-GC
** * * *
19458726 CGATATCATATCTCAGACATGGTCTTACACTAGCGCACATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGC
* ** * * *
19458774 CAATGCCATGTCTTAGACTTGGTCTTACACTAGCTCTCATA--ATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCA-AT-GC
* *
19458822 CGATGCCATGTCTCAAACATGGTCTTACACTAGCGT-ACATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC-TCACATATCAATGC
* *
19458870 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCA
19458914 CTCAAATGCT
Statistics
Matches: 307, Mismatches: 54, Indels: 38
0.77 0.14 0.10
Matches are distributed among these distances:
46 3 0.01
47 8 0.03
48 284 0.93
49 9 0.03
50 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGC
Found at i:19461707 original size:50 final size:51
Alignment explanation
Indices: 19461653--19461757 Score: 167
Period size: 50 Copynumber: 2.1 Consensus size: 51
19461643 GAAAAAGTGT
* * *
19461653 AAATATGATAAAATTTAGGGGCAAAAATGTAA-TTTTACCATAGTATGATA
1 AAATATGAGAAAATTTAGGGACAAAAATGTAATTTTTACCATAGTATGAGA
*
19461703 AAATATGAGAAAATTTAGGGACAAAAATGTAATTTTTGCCATAGTATGAGA
1 AAATATGAGAAAATTTAGGGACAAAAATGTAATTTTTACCATAGTATGAGA
19461754 AAAT
1 AAAT
19461758 TTAGTAATTA
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
50 30 0.60
51 20 0.40
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (51 bp):
AAATATGAGAAAATTTAGGGACAAAAATGTAATTTTTACCATAGTATGAGA
Found at i:19463694 original size:26 final size:26
Alignment explanation
Indices: 19463665--19463772 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
19463655 TGGTACAAAT
19463665 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
19463691 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
19463717 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
19463743 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19463769 TGAT
1 TGAT
19463773 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:19468159 original size:80 final size:80
Alignment explanation
Indices: 19468064--19468223 Score: 223
Period size: 80 Copynumber: 2.0 Consensus size: 80
19468054 ATTGAGAGTT
** *** *
19468064 TTTATAGTTAAGAAAGTGGTTTGGCTAGGCTTCGGGTGAAAATAAATTGAATG-AAATTATTTTA
1 TTTATAGTTAAGAAAGTGGTACGGCTAGGCTTAAAGTGAAAAAAAATTGAATGAAAATTATTTTA
*
19468128 CAAGCCTAGGGGTAAA
66 CAAGCC-AAGGGTAAA
* *
19468144 TTTATAGTTATGAAAGTGGTACGGGTAGGCTTAAAGTGAAAAAAAATTGAATGAAAATTATTTTA
1 TTTATAGTTAAGAAAGTGGTACGGCTAGGCTTAAAGTGAAAAAAAATTGAATGAAAATTATTTTA
19468209 CAAGCCAAGGGTAAA
66 CAAGCCAAGGGTAAA
19468224 AGTGTAAATA
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
80 53 0.76
81 17 0.24
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.31
Consensus pattern (80 bp):
TTTATAGTTAAGAAAGTGGTACGGCTAGGCTTAAAGTGAAAAAAAATTGAATGAAAATTATTTTA
CAAGCCAAGGGTAAA
Found at i:19468704 original size:621 final size:622
Alignment explanation
Indices: 19467523--19468765 Score: 2078
Period size: 621 Copynumber: 2.0 Consensus size: 622
19467513 ATTGAGAGTT
** *** *
19467523 TTTATAGTTAAGAAAGTGGTTTGGCTAGGCTTCGGGTGAAAATAAATTGAATGAAATTATTTTAC
1 TTTATAGTTAAGAAAGTGGTACGGCTAGGCTTAAAGTGAAAAAAAATTGAATGAAATTATTTTAC
*
19467588 AAGCCTAGGGGTAAAAGTGTAAATATGATAAAATTTAGGGGAAAAAATGTAATTTTTGCCATAGC
66 AAGCCTAAGGGTAAAAGTGTAAATATGATAAAATTTAGGGGAAAAAATGTAATTTTTGCCATAGC
19467653 ATGACAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCA
131 ATGACAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCA
19467718 ACCCCTCGGCCAAAAGTTTGAAGACCACCATGGCTAGGGTTTTGTTTAACCTTTCCAAGCTCCAT
196 ACCCCTCGGCCAAAAGTTTGAAGACCACCATGGCTAGGGTTTTGTTTAACCTTTCCAAGCTCCAT
*
19467783 AGTAAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGACATCCTTGTAACATGATCT
261 AGTAAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCT
*
19467848 ACATATTTCTACCATTTATTTGAGTTATGATGAAGGTCTAGGGTTTAAACCATGTTATAAATTTG
326 ACATATTTCTACCATTTATTTGAGATATGATGAAGGTCTAGGGTTTAAACCATGTTATAAATTTG
* *
19467913 TGTATTTTAATGTTTAATGGTAGATTATGCATGTTTATGGTTGGAGAAACAACTTTTGCTAAGTG
391 TGTATTTTAATGTTTAATGGTAGATTATGCATGTTTAAGGTTGAAGAAACAACTTTTGCTAAGTG
* * * *
19467978 ATTTTCAATGAAAATGCTAAAAAGGACTAACTTGTGAAAGTTATAAAATTTTTCATAAAAGTGTG
456 ATTTTAAATGAAAATGATAAAAAGGACTAACTTGTAAAAGTTACAAAATTTTTCATAAAAGTGTG
* * **
19468043 ATTTACTGGAAATTGAGAGTTTTTATAGTTAAGAAAGTGGTTTGGCTAGGCTTCGGGTGAAAATA
521 ATTTACTGGAAATTGAGAGTTTTTATAGTTAAGAAAGTGGTTTCGCTAAGCTTAAGGTGAAAATA
19468108 AATTGAATG-AAATTATTTTACAAGCCTAGGGGTAAA
586 AATTGAATGAAAATTATTTTACAAGCCTAGGGGTAAA
* *
19468144 TTTATAGTTATGAAAGTGGTACGGGTAGGCTTAAAGTGAAAAAAAATTGAATGAAAATTATTTTA
1 TTTATAGTTAAGAAAGTGGTACGGCTAGGCTTAAAGTGAAAAAAAATTGAATG-AAATTATTTTA
* *
19468209 CAAGCC-AAGGGTAAAAGTGTAAATATGATAAAATTTAGGGGCAAAAATGTAATTTTCT-TCATA
65 CAAGCCTAAGGGTAAAAGTGTAAATATGATAAAATTTAGGGGAAAAAATGTAATTTT-TGCCATA
* * *
19468272 GTATGATAAATTTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTT
129 GCATGACAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTT
* * * * *
19468337 CAACCCCTCGGCCGAAATTTTGGAGAGCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCC
194 CAACCCCTCGGCCAAAAGTTTGAAGACCACCATGGCTAGGGTTTTGTTTAACCTTTCCAAGCTCC
19468402 ATAGTAAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGAT
259 ATAGTAAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGAT
* * *
19468467 CTGCCTATTTCTACCATTTATTTGAGATATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATT
324 CTACATATTTCTACCATTTATTTGAGATATGATGAAGGTCTAGGGTTTAAACCATGTTATAAATT
*
19468532 TGTGTATTTTGATGTTTAATGGTAGATTATGCATGTTTAAGGTTGAAGAAACAACTTTTGCTAAG
389 TGTGTATTTTAATGTTTAATGGTAGATTATGCATGTTTAAGGTTGAAGAAACAACTTTTGCTAAG
* *
19468597 TGATTTTAAATGAAAATGATAAAAAGGTCTAATTTGTAAAAGTTACAAAATTTTTCATAAAAGTG
454 TGATTTTAAATGAAAATGATAAAAAGGACTAACTTGTAAAAGTTACAAAATTTTTCATAAAAGTG
* * * *
19468662 TGATTTAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGGTTTCGCTAAGCTTAAGGTGAAAA
519 TGATTTACTGGAAATTGAGAGTTTTTATAGTTAAGAAAGTGGTTTCGCTAAGCTTAAGGTGAAAA
19468727 TAAATTGAATGAAAATTATTTTACAAGCCTAGGGGTAAA
584 TAAATTGAATGAAAATTATTTTACAAGCCTAGGGGTAAA
19468766 GTATAAATAT
Statistics
Matches: 578, Mismatches: 41, Indels: 5
0.93 0.07 0.01
Matches are distributed among these distances:
621 533 0.92
622 45 0.08
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (622 bp):
TTTATAGTTAAGAAAGTGGTACGGCTAGGCTTAAAGTGAAAAAAAATTGAATGAAATTATTTTAC
AAGCCTAAGGGTAAAAGTGTAAATATGATAAAATTTAGGGGAAAAAATGTAATTTTTGCCATAGC
ATGACAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCA
ACCCCTCGGCCAAAAGTTTGAAGACCACCATGGCTAGGGTTTTGTTTAACCTTTCCAAGCTCCAT
AGTAAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCT
ACATATTTCTACCATTTATTTGAGATATGATGAAGGTCTAGGGTTTAAACCATGTTATAAATTTG
TGTATTTTAATGTTTAATGGTAGATTATGCATGTTTAAGGTTGAAGAAACAACTTTTGCTAAGTG
ATTTTAAATGAAAATGATAAAAAGGACTAACTTGTAAAAGTTACAAAATTTTTCATAAAAGTGTG
ATTTACTGGAAATTGAGAGTTTTTATAGTTAAGAAAGTGGTTTCGCTAAGCTTAAGGTGAAAATA
AATTGAATGAAAATTATTTTACAAGCCTAGGGGTAAA
Found at i:19470737 original size:542 final size:539
Alignment explanation
Indices: 19468144--19471343 Score: 5261
Period size: 537 Copynumber: 5.9 Consensus size: 539
19468134 TAGGGGTAAA
* * * *
19468144 TTTATAGTTATGAAAGTGGTACGGGTAGGCTTAAAGTGAAAAAAAATTGAATGAAAATTATTTTA
1 TTTATAGTTATGAAAGTGGTTCGGCTAGGCTTAAGGTGAAAATAAATTGAATGAAAATTATTTTA
* *
19468209 CAAGCCAAGGGTAAAAGTGTAAATATGATAAAATTTAGGGGCAAAAATGTAATTTTCTTCATAGT
66 CAAGCCTAGGGTAAAAGTGTAAATATGATAAAATTTAGGGGCAAAAATGTAATTTT-TCCATAGT
19468274 ATGATAAATTTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCA
130 ATGATAAA-TTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCA
* *
19468339 ACCCCTCGGCCGAAATTTTGGAGAGCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCAT
194 ACCCCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCAT
19468404 AGTAAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCT
259 AGTAAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCT
19468469 GCCTATTTCTACCATTTATTTGAGATATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTTG
324 GCCTATTTCTACCATTTATTTGAGATATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTTG
*
19468534 TGTATTTTGATGTTTAATGGTAGATTATGCATGTTTAAGGTTGAAGAAACAACTTTTGCTAAGTG
389 TGTATTTTGATGTTTAATGGTAGATTATGCATGTTTAAGGTTGGAGAAACAACTTTTGCTAAGTG
* * * * *
19468599 ATTTTAAATGAAAATGATAAAAAGGTCTAATTTGTAAAAGTTACAAAATTTTTCATAAAAGTGTG
454 ATTTTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGTG
19468664 ATTTAGTGGAAATTGTGGGTT
519 ATTTAGTGGAAATTGTGGGTT
*
19468685 TTTATAGTTATGAAAGTGGTTTC-GCTAAGCTTAAGGTGAAAATAAATTGAATGAAAATTATTTT
1 TTTATAGTTATGAAAGTGG-TTCGGCTAGGCTTAAGGTGAAAATAAATTGAATGAAAATTATTTT
* *
19468749 ACAAGCCTAGGGGT-AAAGTATAAATATGATAAAATTTAGGGGCAAAATTGTAATTTTTGCCATA
65 ACAAGCCTA-GGGTAAAAGTGTAAATATGATAAAATTTAGGGGCAAAAATGTAATTTTT-CCATA
* *
19468813 GTATGATAAAATTTAGTAATTAAATG-TTGAA-AAA-AAAATAAAAGCCAAATTGTGGTCATCTT
128 GTATGAT-AAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTT
* * *
19468875 CAACCCCTTGGCCGAAATTTTGAAGACAACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTTC
192 CAACCCCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCC
19468940 ATAGTAAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGAT
257 ATAGTAAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGAT
19469005 CTGCCTATTTCTACCATTTATTTGAGATATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATT
322 CTGCCTATTTCTACCATTTATTTGAGATATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATT
*
19469070 TGTGTATTTTGATGTTTAATGGTAGATTATGCATGTTTAAGGTTGAAGAAACAACTTTTGCTAAG
387 TGTGTATTTTGATGTTTAATGGTAGATTATGCATGTTTAAGGTTGGAGAAACAACTTTTGCTAAG
* * * * *
19469135 TGATTTTAAATGAAAATGATAAAAAGGTCTAATTTGTAAAAGTTACAAAATTTTTCATAAAAGTG
452 TGATTTTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTG
19469200 TGATTTAGTGGAAATTGTGGGTT
517 TGATTTAGTGGAAATTGTGGGTT
* * *
19469223 TTTATAGTTATAAAAGTGGTTCGGCTAGGCTTAAGGTGAAAAATAAATTCAATGCAAATTATTTT
1 TTTATAGTTATGAAAGTGGTTCGGCTAGGCTTAAGGTG-AAAATAAATTGAATGAAAATTATTTT
* *
19469288 ACAAGCATAGGGTAAAAGTGTAAATATGATAAAATTTAGGGGCAAAAAAT-TAATTTTTTTCATA
65 ACAAGCCTAGGGTAAAAGTGTAAATATGATAAAATTTAGGGGC-AAAAATGTAA-TTTTTCCATA
*
19469352 GTAT-AT---TTTAGTCATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTC
128 GTATGATAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTC
*
19469413 AACTCCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCA
193 AACCCCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCA
19469478 TAGTAAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATC
258 TAGTAAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATC
19469543 TGCCTATTTCTACCATTTATTTGAGATATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTT
323 TGCCTATTTCTACCATTTATTTGAGATATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTT
* *
19469608 GTGTATTTTGATGTTTAATGGTAGATTATGCATGTTTATGGTTGGACAAACAACTTTTGCTAAGT
388 GTGTATTTTGATGTTTAATGGTAGATTATGCATGTTTAAGGTTGGAGAAACAACTTTTGCTAAGT
* * * *
19469673 GATTTTCAATGAAAATGGTAACAAGGACAAATTTGTAAAAGTTATATAATTTGTCATAAAAGTGT
453 GATTTTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGT
19469738 GATTTAGTGGAAATTGTGGGTT
518 GATTTAGTGGAAATTGTGGGTT
* * *
19469760 TTTATAGTTATAAAAGTGGTTCGGCTAGGCTTAAGGTGAAAAATAAATTCAATGCAAATTATTTT
1 TTTATAGTTATGAAAGTGGTTCGGCTAGGCTTAAGGTG-AAAATAAATTGAATGAAAATTATTTT
* *
19469825 ACAAGCATAGGGTAAAAGTGTAAATATGATAAAATTTAGGGGCAAAAAAT-TAATTTTTTTCATA
65 ACAAGCCTAGGGTAAAAGTGTAAATATGATAAAATTTAGGGGC-AAAAATGTAA-TTTTTCCATA
*
19469889 GTAT-AT---TTTAGTCATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTC
128 GTATGATAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTC
* *
19469950 AACTCCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTTCA
193 AACCCCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCA
19470015 TAGTAAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATC
258 TAGTAAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATC
19470080 TGCCTATTTCTACCATTTATTTGAGATATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTT
323 TGCCTATTTCTACCATTTATTTGAGATATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTT
* *
19470145 GTGTATTTTGATGTTTAATGGTAGATTATGCATGTTTAGGGTTGGAGAAACAACTTTTGCAAAGT
388 GTGTATTTTGATGTTTAATGGTAGATTATGCATGTTTAAGGTTGGAGAAACAACTTTTGCTAAGT
19470210 GATTTTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGT
453 GATTTTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGT
*
19470275 GATTTAGTGCAAATTGTGGGTT
518 GATTTAGTGGAAATTGTGGGTT
* *
19470297 TTTATAGTTATGAAAGTGTTTTGGCTAGGCTTAAGGTGAAAATAAATTGAATGAAAATTATTTTA
1 TTTATAGTTATGAAAGTGGTTCGGCTAGGCTTAAGGTGAAAATAAATTGAATGAAAATTATTTTA
* *
19470362 CAAGCCTAGGGGTAAATGTGTAAATATGATAAAATTTGGGGGCAAAAATGTAATTTTGTCCATAG
66 CAAGCCTA-GGGTAAAAGTGTAAATATGATAAAATTTAGGGGCAAAAATGTAATTTT-TCCATAG
* * *
19470427 TATGATAAAATTTAGAAATTAAATGTTTAAATAAAAAAAATAAAAGCCAAATCTTGGTCATCTTC
129 TATGAT-AAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTC
* *
19470492 AACCCCTTGGCCGAAATTTTGAAGACCACCATGGTTAGGGTTTTGTTTAAGCTTTCCAAGCTCCA
193 AACCCCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCA
* *
19470557 TAGTAAGTCCGTTCTTGCTCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGGTC
258 TAGTAAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATC
* *
19470622 TACCTATTTCTACCACTTATTTGAG-TCATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATT
323 TGCCTATTTCTACCATTTATTTGAGAT-ATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATT
* * * * * *
19470686 TGTGCATTTTGATGTTTAATGCTAGATTATGCAAGTTTATGGTTCGAGAAACAATTTTTGCTAAG
387 TGTGTATTTTGATGTTTAATGGTAGATTATGCATGTTTAAGGTTGGAGAAACAACTTTTGCTAAG
* ***
19470751 TGATTTTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATCAAATTTGTCATAAAACAA
452 TGATTTTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTG
19470816 TGATTTAGTGGAAATTGTGGGTT
517 TGATTTAGTGGAAATTGTGGGTT
19470839 TTTATAGTTATGAAAGTGGTTTC-GCTAGGCTTAAGGTGAAAATAAATTGAATGAAAATTATTTT
1 TTTATAGTTATGAAAGTGG-TTCGGCTAGGCTTAAGGTGAAAATAAATTGAATGAAAATTATTTT
*
19470903 ACAAG-CTTGGGTAACAA-TGTAAATA-GTATAAAATTTAGGGGCAAAAATGTAATTTTTGCCAT
65 ACAAGCCTAGGGTAA-AAGTGTAAATATG-ATAAAATTTAGGGGCAAAAATGTAATTTTT-CCAT
* *
19470965 TGTATAATAAATTTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCT
127 AGTATGATAAA-TTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCT
* * * *
19471030 TCAACTCCTCGGCCGAAATTTTGAAGACCACCATGGCTACGGTTTTCTTTAAGCTTTCCAAGGTC
191 TCAACCCCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTC
* * *
19471095 CATAGTAAGTCCATTATTGCCCAGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGA
256 CATAGTAAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGA
* * *
19471160 TCTACCTATTTCTACCATTTATTTAAGTTATGATGAAGGTCTAGGGTTTGAACCATGTTATAAAT
321 TCTGCCTATTTCTACCATTTATTTGAGATATGATGAAGGTCTAGGGTTTGAACCATGTTATAAAT
* *
19471225 TTGTGTATTTTGATGTTTAATGGTAGATTATGCATGTTTAGGGTTGGAGAAACAACTTTTGCAAA
386 TTGTGTATTTTGATGTTTAATGGTAGATTATGCATGTTTAAGGTTGGAGAAACAACTTTTGCTAA
19471290 GTGATTTTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTT
451 GTGATTTTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTT
19471344 AGTAATTAAA
Statistics
Matches: 2517, Mismatches: 115, Indels: 55
0.94 0.04 0.02
Matches are distributed among these distances:
534 14 0.01
535 4 0.00
536 45 0.02
537 970 0.39
538 410 0.16
539 79 0.03
540 408 0.16
541 136 0.05
542 449 0.18
543 2 0.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (539 bp):
TTTATAGTTATGAAAGTGGTTCGGCTAGGCTTAAGGTGAAAATAAATTGAATGAAAATTATTTTA
CAAGCCTAGGGTAAAAGTGTAAATATGATAAAATTTAGGGGCAAAAATGTAATTTTTCCATAGTA
TGATAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAAC
CCCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCATAG
TAAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTGC
CTATTTCTACCATTTATTTGAGATATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTG
TATTTTGATGTTTAATGGTAGATTATGCATGTTTAAGGTTGGAGAAACAACTTTTGCTAAGTGAT
TTTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGTGAT
TTAGTGGAAATTGTGGGTT
Found at i:19471514 original size:72 final size:73
Alignment explanation
Indices: 19471411--19471560 Score: 284
Period size: 72 Copynumber: 2.1 Consensus size: 73
19471401 CTCGGCTGAA
*
19471411 ATTTTGAAGACCACCACGGCTAGGGTTTTGTTTAAGCTTTTCAAGCTCCATAGTTCTTACCCCTT
1 ATTTTGAAGACCACCACGGCTAGGGTTTTGTTTAAGCTTTTCAAGCTCCATAGTTCTTACCCCAT
19471476 TTTTAATG
66 TTTTAATG
19471484 ATTTT-AAGACCACCACGGCTAGGGTTTTGTTTAAGCTTTTCAAGCTCCATAGTTCTTACCCCAT
1 ATTTTGAAGACCACCACGGCTAGGGTTTTGTTTAAGCTTTTCAAGCTCCATAGTTCTTACCCCAT
19471548 TTTTAATG
66 TTTTAATG
19471556 ATTTT
1 ATTTT
19471561 CACGTTTTTG
Statistics
Matches: 76, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
72 71 0.93
73 5 0.07
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (73 bp):
ATTTTGAAGACCACCACGGCTAGGGTTTTGTTTAAGCTTTTCAAGCTCCATAGTTCTTACCCCAT
TTTTAATG
Found at i:19477831 original size:40 final size:40
Alignment explanation
Indices: 19477742--19478005 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
19477732 TTGAATGATG
* *
19477742 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
19477781 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
19477821 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19477860 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19477900 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
19477940 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
19477981 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19478006 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:19478023 original size:120 final size:118
Alignment explanation
Indices: 19477742--19478038 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
19477732 TTGAATGATG
* *
19477742 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
19477802 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
19477860 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
19477925 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
19477981 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
19478039 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:19502585 original size:9 final size:9
Alignment explanation
Indices: 19502573--19502649 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
19502563 TTTGATAAAC
19502573 ATGATATGT
1 ATGATATGT
*
19502582 ATGATATGCAC
1 ATGATATG--T
19502593 ATGATATGT
1 ATGATATGT
*
19502602 ATGATATGCAC
1 ATGATATG--T
*
19502613 ATGACATGT
1 ATGATATGT
*
19502622 ATGATATGCAC
1 ATGATATG--T
19502633 ATGATATGT
1 ATGATATGT
19502642 ATGATATG
1 ATGATATG
19502650 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:19502598 original size:11 final size:11
Alignment explanation
Indices: 19502582--19502653 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
19502572 CATGATATGT
19502582 ATGATATGCAC
1 ATGATATGCAC
*
19502593 ATGATATG--T
1 ATGATATGCAC
19502602 ATGATATGCAC
1 ATGATATGCAC
* *
19502613 ATGACATG--T
1 ATGATATGCAC
19502622 ATGATATGCAC
1 ATGATATGCAC
*
19502633 ATGATATG--T
1 ATGATATGCAC
19502642 ATGATATGCAC
1 ATGATATGCAC
19502653 A
1 A
19502654 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:19502661 original size:20 final size:20
Alignment explanation
Indices: 19502571--19502653 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
19502561 ATTTTGATAA
19502571 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
19502591 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
19502611 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
19502631 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
19502651 ACA
1 ACA
19502654 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:19502763 original size:24 final size:24
Alignment explanation
Indices: 19502707--19502849 Score: 204
Period size: 23 Copynumber: 6.0 Consensus size: 24
19502697 GAGGAAGTGC
*
19502707 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
19502731 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
19502754 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
19502778 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
19502801 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
19502826 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
19502850 ATGATAAAGC
Statistics
Matches: 110, Mismatches: 2, Indels: 13
0.88 0.02 0.10
Matches are distributed among these distances:
23 51 0.46
24 29 0.26
25 21 0.19
26 9 0.08
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:19502776 original size:47 final size:48
Alignment explanation
Indices: 19502707--19502828 Score: 212
Period size: 47 Copynumber: 2.6 Consensus size: 48
19502697 GAGGAAGTGC
*
19502707 AAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTATT-
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTA
19502754 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT-A
19502803 AAAAGGGCTT-TGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
19502829 AGAGGCTAGG
Statistics
Matches: 72, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
47 46 0.64
48 16 0.22
49 10 0.14
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTA
Found at i:19503074 original size:31 final size:31
Alignment explanation
Indices: 19503036--19503099 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
19503026 CGTTTACCGT
19503036 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
19503067 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
19503098 AA
1 AA
19503100 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:19513897 original size:25 final size:25
Alignment explanation
Indices: 19513868--19513915 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
19513858 TTATAATATG
* * *
19513868 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
19513893 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
19513916 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:19514202 original size:20 final size:20
Alignment explanation
Indices: 19513952--19514194 Score: 441
Period size: 20 Copynumber: 12.2 Consensus size: 20
19513942 ATTTTGATAA
19513952 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
19513972 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
19513992 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
19514012 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
19514032 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
19514052 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
19514072 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
19514092 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
19514112 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
19514132 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
19514152 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
19514172 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
19514192 ACA
1 ACA
19514195 CGAGATGTTC
Statistics
Matches: 213, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 213 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:19514304 original size:24 final size:24
Alignment explanation
Indices: 19514248--19514390 Score: 177
Period size: 23 Copynumber: 6.0 Consensus size: 24
19514238 GAGGAAGTGC
*
19514248 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
19514272 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
19514295 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
19514319 -AAAGGGCTTATGCCTCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
19514342 AAAAAAGGGCTT-TGCCTCAATTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
19514367 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
19514391 ATGATAAAGC
Statistics
Matches: 106, Mismatches: 6, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
23 50 0.47
24 29 0.27
25 18 0.17
26 9 0.08
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:19514317 original size:47 final size:48
Alignment explanation
Indices: 19514248--19514369 Score: 185
Period size: 47 Copynumber: 2.6 Consensus size: 48
19514238 GAGGAAGTGC
*
19514248 AAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTATT-
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTA
*
19514295 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCTCAGTTATTAA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT-A
* *
19514344 AAAAGGGCTT-TGCCTCAATTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
19514370 AGAGGCTAGG
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
47 45 0.65
48 14 0.20
49 10 0.14
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTA
Found at i:19521032 original size:48 final size:48
Alignment explanation
Indices: 19520976--19521273 Score: 271
Period size: 48 Copynumber: 6.2 Consensus size: 48
19520966 TGACACCTGT
* *
19520976 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGATATGTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGA
** * * *
19521024 GCCAGTGTAAGAATATGTTTGGGACATGGCATCGTCATTGATATGTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGA
* * * * **
19521072 GCTAGTGTAAAACCATGTCTGGGACATAGCATCGATCA--CATCATAAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CATTGAT-ATGTGA
* * * * * *
19521120 GCCAATGTAAGACCATGTTTGGAACATGGCATTGGCAAT-AT-TGTGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGT--GA
* * * *
19521168 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGA
* * * * *
19521216 GCTAGTATAAGACCATGTCTGGGACATGGCATCGACCTCGACATGTGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGA
*
19521264 GCCAATGTAA
1 GCCAGTGTAA
19521274 TTGGAACATG
Statistics
Matches: 197, Mismatches: 45, Indels: 16
0.76 0.17 0.06
Matches are distributed among these distances:
46 1 0.01
47 4 0.02
48 187 0.95
49 3 0.02
50 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGA
Found at i:19523699 original size:42 final size:42
Alignment explanation
Indices: 19523652--19523739 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
19523642 TGAATTATAC
19523652 ATGTTTCATTGAAATATGTAAATATATCTATGTATTAGCCAA
1 ATGTTTCATTGAAATATGTAAATATATCTATGTATTAGCCAA
19523694 ATGTTTCATTGAAATATGTAAATATATCTATGTATTAGCCAA
1 ATGTTTCATTGAAATATGTAAATATATCTATGTATTAGCCAA
19523736 ATGT
1 ATGT
19523740 GAATAAGTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (42 bp):
ATGTTTCATTGAAATATGTAAATATATCTATGTATTAGCCAA
Found at i:19530290 original size:68 final size:67
Alignment explanation
Indices: 19530218--19530367 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
19530208 CATCATGTGT
* * * *
19530218 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
19530280 ATGTAG
62 ATGTAG
** * *
19530286 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
19530351 AG
66 AG
19530353 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
19530368 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:19530323 original size:64 final size:64
Alignment explanation
Indices: 19530242--19530421 Score: 186
Period size: 67 Copynumber: 2.8 Consensus size: 64
19530232 AGACATTATG
* *
19530242 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
19530306 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
19530371 AA
63 AA
* * * *
19530373 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGA
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGA
19530422 AAGCCGAACT
Statistics
Matches: 94, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 15 0.16
64 21 0.22
65 8 0.09
66 16 0.17
67 31 0.33
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:19543825 original size:39 final size:39
Alignment explanation
Indices: 19543782--19543959 Score: 293
Period size: 39 Copynumber: 4.6 Consensus size: 39
19543772 GAATTTAAGC
*
19543782 CCGGATATAATTCCAGCTCATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
*
19543821 CCGGATAAAATTCCAGCACATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
* * *
19543860 CTGGATATAATTCCATCACATAGCCTACGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
*
19543899 TCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
*
19543938 CCGGATATAATTTCAGCACATA
1 CCGGATATAATTCCAGCACATA
19543960 CAATTATGAT
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 127 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
Found at i:19550456 original size:46 final size:44
Alignment explanation
Indices: 19550313--19550456 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 44
19550303 CCCGCCCCTA
* *
19550313 AGTGACCTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
19550360 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
19550406 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
19550452 AGTGA
1 AGTGA
19550457 CATGTCACTT
Statistics
Matches: 78, Mismatches: 11, Indels: 16
0.74 0.10 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 33 0.42
47 29 0.37
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:19550891 original size:30 final size:30
Alignment explanation
Indices: 19550857--19550916 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
19550847 ATTTAATACG
19550857 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
19550887 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
19550917 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:19555249 original size:39 final size:39
Alignment explanation
Indices: 19555206--19555362 Score: 296
Period size: 39 Copynumber: 4.0 Consensus size: 39
19555196 GAATTTAAGC
*
19555206 CCGGATATAATTCCAGCTCATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
*
19555245 CCGGATAAAATTCCAGCACATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
19555284 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
19555323 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
19555362 C
1 C
19555363 NNNNNNNNNN
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 115 1.00
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
Found at i:19562061 original size:159 final size:158
Alignment explanation
Indices: 19561772--19562089 Score: 557
Period size: 159 Copynumber: 2.0 Consensus size: 158
19561762 ATAAGCTCTA
* * *
19561772 GCAGGATCACGAGCCTCAGATCTGGTTGTAGCATCTCTAGATCCTCTCTGATCGCCACTAGCATT
1 GCAGGAGCACGAGCCTCAGATCTGGTGGTAACATCTCTAGATCCTCTCTGATCGCCACTAGCATT
19561837 CCCCGTATTTCTAGATGGTCTACCTCGAGCAGTAGTAGCACCCGATTTCCCACTCTGATTTACAT
66 CCCCGTATTTCTAGATGGTCTACCTCGAGCAGTAGTAGCACCCGATTTCCCACTCTGATTTACAT
19561902 TCTGTTCAGACAGTCTCGAGCAATCCTT
131 TCTGTTCAGACAGTCTCGAGCAATCCTT
*
19561930 NGCAGGAGCACGAGCCTCAGATCTGGTGGTAACATCTCTAGATCCTCTCTGA-CTGCCACTAGCC
1 -GCAGGAGCACGAGCCTCAGATCTGGTGGTAACATCTCTAGATCCTCTCTGATC-GCCACTAGCA
*
19561994 TTCCCCGTATTTTTAGATGGTCTACCTCGAGCAGTAGTAGCACCCGATTTCCCACTCTGATTTAC
64 TTCCCCGTATTTCTAGATGGTCTACCTCGAGCAGTAGTAGCACCCGATTTCCCACTCTGATTTAC
*
19562059 ATTCTGTTCAGACAGTCTCGGGCAATCCTT
129 ATTCTGTTCAGACAGTCTCGAGCAATCCTT
19562089 G
1 G
19562090 ATAAAGTGGC
Statistics
Matches: 152, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
158 2 0.01
159 150 0.99
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (158 bp):
GCAGGAGCACGAGCCTCAGATCTGGTGGTAACATCTCTAGATCCTCTCTGATCGCCACTAGCATT
CCCCGTATTTCTAGATGGTCTACCTCGAGCAGTAGTAGCACCCGATTTCCCACTCTGATTTACAT
TCTGTTCAGACAGTCTCGAGCAATCCTT
Found at i:19564233 original size:39 final size:39
Alignment explanation
Indices: 19564190--19564563 Score: 676
Period size: 39 Copynumber: 9.6 Consensus size: 39
19564180 GAATTTAAGC
*
19564190 CCGGATATAATTCCAGCTCATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
* * *
19564229 CCGGATAAAATTCCAGGACATAGCCTGCAGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
19564268 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
19564307 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
19564346 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
19564385 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
19564424 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
* * *
19564463 CTGGATAAAATTCCAGCACATAGCCTACGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
*
19564502 CCGGATATAATTCCAGCACATAGCCTCCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
19564541 CCGGATATAATTCCAGCACATAG
1 CCGGATATAATTCCAGCACATAG
19564564 AATTATGATC
Statistics
Matches: 322, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 322 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
Found at i:19579609 original size:28 final size:28
Alignment explanation
Indices: 19579569--19579678 Score: 129
Period size: 27 Copynumber: 4.0 Consensus size: 28
19579559 GGAGGAAGCA
19579569 TTCTGGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
19579597 TTCTGGTGGCTATGCCACAAATATTTG-
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
19579624 TTCTGGTGGCTCA-GCCA-TAATATCTGT
1 TTCTGGTGGCT-ATGCCACAAATATCTGT
* * * *
19579651 ATCTGGTGACTCTGTCAC-AATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
19579678 T
1 T
19579679 ATGGCAGCCA
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
26 7 0.10
27 36 0.51
28 27 0.39
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (28 bp):
TTCTGGTGGCTATGCCACAAATATCTGT
Found at i:19585926 original size:62 final size:62
Alignment explanation
Indices: 19585829--19585953 Score: 196
Period size: 62 Copynumber: 2.0 Consensus size: 62
19585819 TTTTTTATAA
* * *
19585829 GCAGGAATGGTATGTGATGGAACTCAGATGAAACTCTATCAGGAAGAGTTTGAGTTGTACAG
1 GCAGGAATGGTATGTGATGAAAATCAGATGAAACTCTATCAGAAAGAGTTTGAGTTGTACAG
* * *
19585891 GCAGGAATGGTATGTGATGAAAATCAGGTGAAACTCTGTCAGAAAGAGTTTGAGTTGTTCAG
1 GCAGGAATGGTATGTGATGAAAATCAGATGAAACTCTATCAGAAAGAGTTTGAGTTGTACAG
19585953 G
1 G
19585954 GGATTGAGTA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.26
Consensus pattern (62 bp):
GCAGGAATGGTATGTGATGAAAATCAGATGAAACTCTATCAGAAAGAGTTTGAGTTGTACAG
Found at i:19588600 original size:48 final size:48
Alignment explanation
Indices: 19588547--19588679 Score: 162
Period size: 48 Copynumber: 2.8 Consensus size: 48
19588537 CCATGTTAGC
* * * *
19588547 CCGCACACATAGTGCCTTAGT-AATCCACATACATATTGACATTCCAA-T
1 CCGCACACATAGTGCCATA-TAAATCCACACACATAGTGACA-TACAATT
* *
19588595 CCGCACACATAGTGCCATATAAATCCGCACACATAGTGCCATACAATT
1 CCGCACACATAGTGCCATATAAATCCACACACATAGTGACATACAATT
* *
19588643 CCGCACACATAGTGCCATACAAGTCCACACACATAGT
1 CCGCACACATAGTGCCATATAAATCCACACACATAGT
19588680 ACCAAAGTCA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
47 5 0.07
48 69 0.93
ACGTcount: A:0.35, C:0.32, G:0.12, T:0.22
Consensus pattern (48 bp):
CCGCACACATAGTGCCATATAAATCCACACACATAGTGACATACAATT
Found at i:19588619 original size:24 final size:24
Alignment explanation
Indices: 19588547--19588679 Score: 135
Period size: 24 Copynumber: 5.5 Consensus size: 24
19588537 CCATGTTAGC
*
19588547 CCGCACACATAGTGCCTTAGT-AAT
1 CCGCACACATAGTGCCATA-TAAAT
* * * * *
19588571 CCACATACATATTGACAT-TCCAAT
1 CCGCACACATAGTGCCATAT-AAAT
19588595 CCGCACACATAGTGCCATATAAAT
1 CCGCACACATAGTGCCATATAAAT
* *
19588619 CCGCACACATAGTGCCATACAATT
1 CCGCACACATAGTGCCATATAAAT
* *
19588643 CCGCACACATAGTGCCATACAAGT
1 CCGCACACATAGTGCCATATAAAT
*
19588667 CCACACACATAGT
1 CCGCACACATAGT
19588680 ACCAAAGTCA
Statistics
Matches: 92, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
22 1 0.01
24 90 0.98
25 1 0.01
ACGTcount: A:0.35, C:0.32, G:0.12, T:0.22
Consensus pattern (24 bp):
CCGCACACATAGTGCCATATAAAT
Found at i:19593486 original size:79 final size:81
Alignment explanation
Indices: 19593384--19593567 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
19593374 GCTCCTCGTT
* *
19593384 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
19593446 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
19593464 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
19593528 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
19593544 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19593568 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:19593501 original size:39 final size:41
Alignment explanation
Indices: 19593384--19593567 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
19593374 GCTCCTCGTT
* *
19593384 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
19593424 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
19593464 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
19593503 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
19593544 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19593568 CATCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:19600943 original size:57 final size:57
Alignment explanation
Indices: 19600881--19601041 Score: 232
Period size: 57 Copynumber: 2.8 Consensus size: 57
19600871 CTGACTGATT
* * * *
19600881 TCGCACACATAGCGCTCGATTAAAGAACTCACACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
**
19600938 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* * * *
19600995 TGGCACACATAGTGCTCGGTTGAAGAACTTGCACACACAGTGCCTCA
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCA
19601042 TAACTCCAGC
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 94 1.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (57 bp):
TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
Found at i:19600945 original size:29 final size:29
Alignment explanation
Indices: 19600912--19601009 Score: 110
Period size: 29 Copynumber: 3.4 Consensus size: 29
19600902 AAAGAACTCA
19600912 CACACATAGTGCCTCAATTACCAATCTCG
1 CACACATAGTGCCTCAATTACCAATCTCG
* **
19600941 CACACATAGTG-CTCGATTGAAGAA-CTCG
1 CACACATAGTGCCTCAATT-ACCAATCTCG
* ** *
19600969 CACACATAGTGCCTCAACTACTGATCTGG
1 CACACATAGTGCCTCAATTACCAATCTCG
19600998 CACACATAGTGC
1 CACACATAGTGC
19601010 TCGGTTGAAG
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
28 23 0.40
29 34 0.60
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (29 bp):
CACACATAGTGCCTCAATTACCAATCTCG
Found at i:19600976 original size:28 final size:27
Alignment explanation
Indices: 19600881--19601037 Score: 134
Period size: 28 Copynumber: 5.6 Consensus size: 27
19600871 CTGACTGATT
*
19600881 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATT-AAGAAC
* * **
19600909 TCACACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTG-CTCGATTAAGAA-C
19600938 TCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATT-AAGAAC
* * * *
19600966 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCGATTA-AGAAC
* *
19600995 TGGCACACATAGTGCTCGGTTGAAGAAC
1 TCGCACACATAGTGCTCGATT-AAGAAC
* *
19601023 TTGCACACACAGTGC
1 TCGCACACATAGTGC
19601038 CTCATAACTC
Statistics
Matches: 102, Mismatches: 21, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
28 57 0.56
29 45 0.44
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (27 bp):
TCGCACACATAGTGCTCGATTAAGAAC
Found at i:19601114 original size:40 final size:40
Alignment explanation
Indices: 19601069--19601320 Score: 423
Period size: 40 Copynumber: 6.3 Consensus size: 40
19601059 CCTTCGAGGT
* *
19601069 TTAGCCCGGATATATCACTAGCACGAATGCTTTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
19601109 TTAGCCCGGATACATTACTAGCATGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
19601149 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
19601189 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
19601229 TTAGCCCGGATTCATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
19601269 TTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
19601309 TTAGCCTGGATA
1 TTAGCCCGGATA
19601321 TATATAACTC
Statistics
Matches: 201, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 201 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
Found at i:19604280 original size:27 final size:27
Alignment explanation
Indices: 19604250--19604424 Score: 199
Period size: 27 Copynumber: 6.4 Consensus size: 27
19604240 ATTGTACAGT
*
19604250 ACTAAGTGTGCGATTTGACTATGTTGC
1 ACTAAGTGTGCGATTTGACTATGTAGC
** *
19604277 ACTAAGTGTGCGAAATGAATATG-ATGC
1 ACTAAGTGTGCGATTTGACTATGTA-GC
* * **
19604304 ACTAAGTGTGCGAATTGACCATGCGGC
1 ACTAAGTGTGCGATTTGACTATGTAGC
19604331 ACTAAGTGTGCGAGTTTGACTATGTAGC
1 ACTAAGTGTGCGA-TTTGACTATGTAGC
* *
19604359 ACTAAGTGTGCGATTTGATTACGTAGC
1 ACTAAGTGTGCGATTTGACTATGTAGC
* * *
19604386 ACTAAGTGTGCGAGTTGATTATATAGC
1 ACTAAGTGTGCGATTTGACTATGTAGC
*
19604413 ACTGAGTGTGCG
1 ACTAAGTGTGCG
19604425 GACTCAATAT
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
ACTAAGTGTGCGATTTGACTATGTAGC
Found at i:19604361 original size:82 final size:81
Alignment explanation
Indices: 19604250--19604403 Score: 229
Period size: 82 Copynumber: 1.9 Consensus size: 81
19604240 ATTGTACAGT
* *
19604250 ACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTG
1 ACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGTG
19604314 CGAATTGACCATGCGGC
65 CGAATTGACCATGCGGC
** *
19604331 ACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTG
1 ACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTG
*
19604396 CGAGTTGA
65 CGAATTGA
19604404 TTATATAGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 13 0.20
82 51 0.78
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
ACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTGC
GAATTGACCATGCGGC
Found at i:19604415 original size:82 final size:81
Alignment explanation
Indices: 19604244--19604424 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
19604234 GATTAAATTG
* * *
19604244 TACAGTACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
19604309 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
19604325 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
19604389 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
19604407 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
19604425 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:19605877 original size:37 final size:37
Alignment explanation
Indices: 19605824--19605926 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
19605814 CGAATAGTCC
*
19605824 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
19605861 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
19605898 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
19605927 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:19606128 original size:48 final size:48
Alignment explanation
Indices: 19606073--19606400 Score: 583
Period size: 48 Copynumber: 6.9 Consensus size: 48
19606063 CCACACCTCC
19606073 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
19606121 TACATATTTCACATTAGCCATT--GCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
19606167 TACATATTTCACACTAGCCATTCAGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
19606215 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
19606263 TACATATTTCACATTAGCCATT--GCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
19606309 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
19606357 TACATATTTCACACTAGCCATTCGGCTTTACCACACATATATAT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
19606401 ATTTATCTTG
Statistics
Matches: 269, Mismatches: 7, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
46 90 0.33
48 179 0.67
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.34
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:19606180 original size:94 final size:95
Alignment explanation
Indices: 19606073--19606400 Score: 572
Period size: 94 Copynumber: 3.5 Consensus size: 95
19606063 CCACACCTCC
*
19606073 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
19606138 CCATT-GCTTTACCACATATACATATCTCA
66 CCATTCGCTTTACCACATATACATATCTCA
*
19606167 TACATATTTCACACTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACACTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
19606232 CCATTCGGCTTTACCACATATACATATCTCA
66 CCATTC-GCTTTACCACATATACATATCTCA
*
19606263 TACATATTTCACATTAGCCATT--GCTTTACCACATATACATATCTCATACATATTTCACACTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
19606326 CCATTCGGCTTTACCACATATACATATCTCA
66 CCATTC-GCTTTACCACATATACATATCTCA
* *
19606357 TACATATTTCACACTAGCCATTCGGCTTTACCACACATATATAT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
19606401 ATTTATCTTG
Statistics
Matches: 224, Mismatches: 6, Indels: 6
0.95 0.03 0.03
Matches are distributed among these distances:
94 161 0.72
96 63 0.28
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.34
Consensus pattern (95 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
CCATTCGCTTTACCACATATACATATCTCA
Found at i:19606228 original size:142 final size:142
Alignment explanation
Indices: 19606073--19606400 Score: 629
Period size: 142 Copynumber: 2.3 Consensus size: 142
19606063 CCACACCTCC
19606073 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
19606138 CCATTGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCAGCTTTACCACAT
66 CCATTGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCAGCTTTACCACAT
19606203 ATACATATCTCA
131 ATACATATCTCA
19606215 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
*
19606280 CCATTGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACAT
66 CCATTGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCAGCTTTACCACAT
19606345 ATACATATCTCA
131 ATACATATCTCA
* *
19606357 TACATATTTCACACTAGCCATTCGGCTTTACCACACATATATAT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
19606401 ATTTATCTTG
Statistics
Matches: 183, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
142 183 1.00
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.34
Consensus pattern (142 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCAGCTTTACCACAT
ATACATATCTCA
Found at i:19606966 original size:307 final size:307
Alignment explanation
Indices: 19606409--19607023 Score: 1185
Period size: 307 Copynumber: 2.0 Consensus size: 307
19606399 ATATTTATCT
19606409 TGTACATCAATTTCAGCAATAGCTTATAAGCAACTCAAATAGTTTCATCAATGTTTACAACAAAT
1 TGTACATCAATTTCAGCAATAGCTTATAAGCAACTCAAATAGTTTCATCAATGTTTACAACAAAT
*
19606474 TCACATATTCACTACAAGTTGTTTTCCTGAGCAATAGTCACTAAATTATTTATAACTGGAGCTAC
66 TCACATATTCACTACAAGCTGTTTTCCTGAGCAATAGTCACTAAATTATTTATAACTGGAGCTAC
19606539 AAAACTCAAAATCAATTGCCGTTAATTTTCCCTGAATATAGACTCATATATCTTCCATCCATAAA
131 AAAACTCAAAATCAATTGCCGTTAATTTTCCCTGAATATAGACTCATATATCTTCCATCCATAAA
* *
19606604 ATTTTCAGAATTTTAGGTTTGGCCAATCAATACTAGATTTTTCTTAAAGTTTCCCCTGTTTCACT
196 ATTTTCAGAATTTTAGGTTTGGCCAATCAATACCAGATTTTTCTTAAAATTTCCCCTGTTTCACT
19606669 GTTTGACTAATCTGACCACTCTTCACTACGAATCAAATTTCTCATTG
261 GTTTGACTAATCTGACCACTCTTCACTACGAATCAAATTTCTCATTG
19606716 TGTACATCAATTTCAGCAATAGCTTATAAGCAACTCAAATAGTTTCATCAATGTTTACAACAAAT
1 TGTACATCAATTTCAGCAATAGCTTATAAGCAACTCAAATAGTTTCATCAATGTTTACAACAAAT
*
19606781 TCACATATTCACTACAAGCTGTTTTCCTGCGCAATAGTCACTAAATTATTTATAACTGGAGCTAC
66 TCACATATTCACTACAAGCTGTTTTCCTGAGCAATAGTCACTAAATTATTTATAACTGGAGCTAC
*
19606846 AAAACTCAAAATCAATTTCCGTTAATTTTCCCTGAATATAGACTCATATATCTTCCATCCATAAA
131 AAAACTCAAAATCAATTGCCGTTAATTTTCCCTGAATATAGACTCATATATCTTCCATCCATAAA
19606911 ATTTTCAGAATTTTAGGTTTGGCCAATCAATACCAGATTTTTCTTAAAATTTCCCCTGTTTCACT
196 ATTTTCAGAATTTTAGGTTTGGCCAATCAATACCAGATTTTTCTTAAAATTTCCCCTGTTTCACT
19606976 GTTTGACTAATCTGACCACTCTTCACTACGAATCAAATTTCTCATTG
261 GTTTGACTAATCTGACCACTCTTCACTACGAATCAAATTTCTCATTG
19607023 T
1 T
19607024 ACAGAATTCA
Statistics
Matches: 303, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
307 303 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (307 bp):
TGTACATCAATTTCAGCAATAGCTTATAAGCAACTCAAATAGTTTCATCAATGTTTACAACAAAT
TCACATATTCACTACAAGCTGTTTTCCTGAGCAATAGTCACTAAATTATTTATAACTGGAGCTAC
AAAACTCAAAATCAATTGCCGTTAATTTTCCCTGAATATAGACTCATATATCTTCCATCCATAAA
ATTTTCAGAATTTTAGGTTTGGCCAATCAATACCAGATTTTTCTTAAAATTTCCCCTGTTTCACT
GTTTGACTAATCTGACCACTCTTCACTACGAATCAAATTTCTCATTG
Found at i:19607590 original size:280 final size:280
Alignment explanation
Indices: 19607089--19607647 Score: 1091
Period size: 280 Copynumber: 2.0 Consensus size: 280
19607079 GTCTAAGCAT
*
19607089 ATAAATTTTATCTTATAACCATTTTTTTAAAAATTATAATGATTTTCTAAAAACAGAACAGGGGA
1 ATAAATTTTATCTTATAACCATTTTTGTAAAAATTATAATGATTTTCTAAAAACAGAACAGGGGA
19607154 TTTCGGAGTCATTCTGACACTGTCTCACACAACTTTAAATATCTCTTTATAGGAAATTTCTTTGC
66 TTTCGGAGTCATTCTGACACTGTCTCACACAACTTTAAATATCTCTTTATAGGAAATTTCTTTGC
19607219 TTACACGGTCTCTTTTATAAGAAACTAGACTAATTAAGCTTTGATTACATATTTTATTCAGCCTA
131 TTACACGGTCTCTTTTATAAGAAACTAGACTAATTAAGCTTTGATTACATATTTTATTCAGCCTA
19607284 TAATTCCACACCAACAATTTATAGTGATTTTCTAAAATCACGTTACTGCTGCTGTCCTAAGCAAA
196 TAATTCCACACCAACAATTTATAGTGATTTTCTAAAATCACGTTACTGCTGCTGTCCTAAGCAAA
19607349 TTATTACAATTTGCTCTTAC
261 TTATTACAATTTGCTCTTAC
* *
19607369 ATAAATTTTATCTTTTAACCATTTTTGTAAAAATTATAATGATTTTCTAAAAATAGAACAGGGGA
1 ATAAATTTTATCTTATAACCATTTTTGTAAAAATTATAATGATTTTCTAAAAACAGAACAGGGGA
19607434 TTTCGGAGTCATTCTGACACTGTCTCACACAACTTTAAATATCTCTTTATAGGAAATTTCTTTGC
66 TTTCGGAGTCATTCTGACACTGTCTCACACAACTTTAAATATCTCTTTATAGGAAATTTCTTTGC
19607499 TTACACGGTCTCTTTTATAAGAAACTAGACTAATTAAGCTTTGATTACATATTTTATTCAGCCTA
131 TTACACGGTCTCTTTTATAAGAAACTAGACTAATTAAGCTTTGATTACATATTTTATTCAGCCTA
19607564 TAATTCCACACCAACAATTTATAGTGATTTTCTAAAATCACGTTACTGCTGCTGTCCTAAGCAAA
196 TAATTCCACACCAACAATTTATAGTGATTTTCTAAAATCACGTTACTGCTGCTGTCCTAAGCAAA
19607629 TTATTACAATTTGCTCTTA
261 TTATTACAATTTGCTCTTA
19607648 AATTTCCAAG
Statistics
Matches: 276, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
280 276 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.39
Consensus pattern (280 bp):
ATAAATTTTATCTTATAACCATTTTTGTAAAAATTATAATGATTTTCTAAAAACAGAACAGGGGA
TTTCGGAGTCATTCTGACACTGTCTCACACAACTTTAAATATCTCTTTATAGGAAATTTCTTTGC
TTACACGGTCTCTTTTATAAGAAACTAGACTAATTAAGCTTTGATTACATATTTTATTCAGCCTA
TAATTCCACACCAACAATTTATAGTGATTTTCTAAAATCACGTTACTGCTGCTGTCCTAAGCAAA
TTATTACAATTTGCTCTTAC
Found at i:19610183 original size:24 final size:25
Alignment explanation
Indices: 19610143--19610192 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
19610133 AAGGAATTCG
*
19610143 CACACACACGTGCCTC-TAATCATT
1 CACACACAAGTGCCTCTTAATCATT
*
19610167 CACACACATAGTG-CTCTTATTCATT
1 CACACACA-AGTGCCTCTTAATCATT
19610192 C
1 C
19610193 GTTATTACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.28, C:0.34, G:0.08, T:0.30
Consensus pattern (25 bp):
CACACACAAGTGCCTCTTAATCATT
Found at i:19610401 original size:40 final size:40
Alignment explanation
Indices: 19610369--19610550 Score: 256
Period size: 40 Copynumber: 4.5 Consensus size: 40
19610359 CCAGCATGAT
* * * *
19610369 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
19610409 TGCTCTTTGGAACTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
19610449 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * *
19610489 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
*
19610529 TGCTCTTCGGAACTTAGTCCGG
1 TGCTCTTCGGAACTTAGCCCGG
19610551 TCGGAACTTA
Statistics
Matches: 123, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 123 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
Found at i:19610485 original size:80 final size:80
Alignment explanation
Indices: 19610369--19610550 Score: 283
Period size: 80 Copynumber: 2.3 Consensus size: 80
19610359 CCAGCATGAT
* * * *
19610369 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGAACTTAGCACGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACAACACCAGCACGAATGCTCTTTGGAACTTAGCACGGATA
19610434 TATCACTAGCACGAA
66 TATCACTAGCACGAA
* * * * *
19610449 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTTGGGATTTAGCCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACAACACCAGCACGAATGCTCTTTGGAACTTAGCACGGATA
19610514 TATCACTAGCACGAA
66 TATCACTAGCACGAA
19610529 TGCTCTTCGGAACTTAGTCCGG
1 TGCTCTTCGGAACTTAGTCCGG
19610551 TCGGAACTTA
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 93 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
TGCTCTTCGGAACTTAGTCCGGATACAACACCAGCACGAATGCTCTTTGGAACTTAGCACGGATA
TATCACTAGCACGAA
Found at i:19610556 original size:16 final size:16
Alignment explanation
Indices: 19610535--19610566 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
19610525 CGAATGCTCT
19610535 TCGGAACTTAGTCCGG
1 TCGGAACTTAGTCCGG
19610551 TCGGAACTTAGTCCGG
1 TCGGAACTTAGTCCGG
19610567 ATACAACACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.25
Consensus pattern (16 bp):
TCGGAACTTAGTCCGG
Found at i:19610577 original size:96 final size:96
Alignment explanation
Indices: 19610455--19610646 Score: 366
Period size: 96 Copynumber: 2.0 Consensus size: 96
19610445 CGAATGCTCT
* *
19610455 TCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTTGGGATTTAGCCCGGATATATCAC
1 TCGGAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCAC
19610520 TAGCACGAATGCTCTTCGGAACTTAGTCCGG
66 TAGCACGAATGCTCTTCGGAACTTAGTCCGG
19610551 TCGGAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCAC
1 TCGGAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCAC
19610616 TAGCACGAATGCTCTTCGGAACTTAGTCCGG
66 TAGCACGAATGCTCTTCGGAACTTAGTCCGG
19610647 ATACATCACT
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 94 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (96 bp):
TCGGAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCAC
TAGCACGAATGCTCTTCGGAACTTAGTCCGG
Found at i:19610618 original size:40 final size:40
Alignment explanation
Indices: 19610551--19610772 Score: 347
Period size: 40 Copynumber: 5.6 Consensus size: 40
19610541 CTTAGTCCGG
* * *
19610551 TCGGAACTTAGTCCGGATACAACACTAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
* *
19610591 TCGGGATTTAGCCCGGATATATCACTAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
* * *
19610631 TCGGAACTTAGTCCGGATACATCACTAGCATGAATGCTCT
1 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
*
19610671 TCGGGACTTAGCCTGGATACATCACTAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
*
19610711 TCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCT
1 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
19610751 TCGGGACTTAGCCCGGAT-CATC
1 TCGGGACTTAGCCCGGATACATC
19610773 GTCGAGACCT
Statistics
Matches: 166, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 4 0.02
40 162 0.98
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
Found at i:19610697 original size:176 final size:176
Alignment explanation
Indices: 19610387--19610726 Score: 563
Period size: 176 Copynumber: 1.9 Consensus size: 176
19610377 GGGACCTAGC
* *
19610387 CCGGATATAACACCAGCACGAATGCTCTTTGGAACTTAGCACGGATATATCACTAGCACGAATGC
1 CCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAATGC
* * *
19610452 TCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTTGGGATTTAGCCCGGATATAT
66 TCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAT
*
19610517 CACTAGCACGAATGCTCTTCGGAACTTAGTCCGGTCGGAACTTAGT
131 CACTAGCACGAATGCTCTTCGGAACTTAGCCCGGTCGGAACTTAGT
* * * *
19610563 CCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGC
1 CCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAATGC
* *
19610628 TCTTCGGAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCTGGATACAT
66 TCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAT
*
19610693 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGG
131 CACTAGCACGAATGCTCTTCGGAACTTAGCCCGG
19610727 ATACATCACT
Statistics
Matches: 151, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
176 151 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (176 bp):
CCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAATGC
TCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAT
CACTAGCACGAATGCTCTTCGGAACTTAGCCCGGTCGGAACTTAGT
Found at i:19610748 original size:216 final size:216
Alignment explanation
Indices: 19610369--19610766 Score: 638
Period size: 216 Copynumber: 1.8 Consensus size: 216
19610359 CCAGCATGAT
*
19610369 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGAACTTAGCACGGATA
1 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATA
* *
19610434 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTTGG
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGG
* * *
19610499 GATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGTCGGAACTTAGTC
131 GACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGTCGGAACTTAGTC
19610564 CGGATACAACACTAGCACGAA
196 CGGATACAACACTAGCACGAA
** * *
19610585 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTC-CGGAT
1 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGAACTTAG-CACGGAT
* *
19610649 ACATCACTAGCATGAATGCTCTTCGGGACTTAG-CCTGGATACATCACTAGCACGAATGCTCTTC
65 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCC-GGATACATCACTAGCACGAATGCTCTTC
* *
19610713 GGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG
129 GGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGG
19610767 ATCATCGTCG
Statistics
Matches: 166, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
215 2 0.01
216 163 0.98
217 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (216 bp):
TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATA
CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGG
GACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGTCGGAACTTAGTC
CGGATACAACACTAGCACGAA
Found at i:19619659 original size:28 final size:29
Alignment explanation
Indices: 19619576--19619666 Score: 121
Period size: 29 Copynumber: 3.2 Consensus size: 29
19619566 AAAAGCATGA
* * *
19619576 ATATGAATGTGTTTTGGTCCTAATGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
* *
19619605 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
*
19619634 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
19619662 ATATG
1 ATATG
19619667 CATGTATGTA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
28 20 0.36
29 36 0.64
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.31
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCCTAATGGGCC
Found at i:19620612 original size:18 final size:18
Alignment explanation
Indices: 19620585--19620648 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
19620575 GCCTTCCCTT
19620585 TTATTATTATTTGAATTG
1 TTATTATTATTTGAATTG
* ***
19620603 TTATTTTTATGTTCCCTT-
1 TTATTATTAT-TTGAATTG
19620621 TTATTATTATTTGAATTG
1 TTATTATTATTTGAATTG
*
19620639 TTATTTTTAT
1 TTATTATTAT
19620649 GCATTGTAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
17 4 0.11
18 27 0.77
19 4 0.11
ACGTcount: A:0.22, C:0.05, G:0.08, T:0.66
Consensus pattern (18 bp):
TTATTATTATTTGAATTG
Found at i:19620625 original size:36 final size:36
Alignment explanation
Indices: 19620578--19620649 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
19620568 AAATAAGGCC
19620578 TTCCCTTTTATTATTATTTGAATTGTTATTTTTATG
1 TTCCCTTTTATTATTATTTGAATTGTTATTTTTATG
19620614 TTCCCTTTTATTATTATTTGAATTGTTATTTTTATG
1 TTCCCTTTTATTATTATTTGAATTGTTATTTTTATG
19620650 CATTGTAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.64
Consensus pattern (36 bp):
TTCCCTTTTATTATTATTTGAATTGTTATTTTTATG
Found at i:19621002 original size:111 final size:111
Alignment explanation
Indices: 19620866--19621071 Score: 283
Period size: 111 Copynumber: 1.9 Consensus size: 111
19620856 TCACCATTTA
* *
19620866 ACCAAAATCAGAAATTGAAGCATGGGCTTTG-TAATATACTAAACAACGATAAGAAAAACGTAGA
1 ACCAAAATCAGAAATTGAAGCATGGGC-TTGATAATATACGAAACAACGATAACAAAAACGTAGA
19620930 AATTATCAAAAATCG-ATCAAAACACATACCTCTATTTCAAAATCATC
65 AATTATCAAAAATCGAAT-AAAACACATACCTCTATTTCAAAATCATC
* * * * *
19620977 ACCAAAATTAGAAATTG-AGATATGGGCTTGATAGTATACGAAGCAACGATTACAAAAACGTAGA
1 ACCAAAATCAGAAATTGAAG-CATGGGCTTGATAATATACGAAACAACGATAACAAAAACGTAGA
* *
19621041 ATTTATCAAAAATCGAATAAAATACATACCT
65 AATTATCAAAAATCGAATAAAACACATACCT
19621072 TAATTAAGCC
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
110 5 0.06
111 76 0.92
112 2 0.02
ACGTcount: A:0.48, C:0.16, G:0.13, T:0.24
Consensus pattern (111 bp):
ACCAAAATCAGAAATTGAAGCATGGGCTTGATAATATACGAAACAACGATAACAAAAACGTAGAA
ATTATCAAAAATCGAATAAAACACATACCTCTATTTCAAAATCATC
Found at i:19621729 original size:43 final size:43
Alignment explanation
Indices: 19621682--19621906 Score: 241
Period size: 43 Copynumber: 5.4 Consensus size: 43
19621672 TTGCACATAC
* * * *
19621682 AGTGCATCATCGGATAAAATTGAAACAACATACTGGTACACAA
1 AGTGCATCATCGGATAAAACTGAAGCAACATACTGGCACACAT
* *
19621725 AGTGCATCATTGGATAAAACCGAAGCAACATACT-GCACACA-
1 AGTGCATCATCGGATAAAACTGAAGCAACATACTGGCACACAT
* * * *
19621766 A-T-CATCAT---ATAATA-TCGAAGCAACGTACTGGTACATAT
1 AGTGCATCATCGGATAAAACT-GAAGCAACATACTGGCACACAT
* * *
19621804 AGTACATCATCGAATAATACTGAAGCAACATACTGGCACACAT
1 AGTGCATCATCGGATAAAACTGAAGCAACATACTGGCACACAT
* *
19621847 AGTGCATCATCGGATAAAACTGAAGCAACATACTAGAACACAT
1 AGTGCATCATCGGATAAAACTGAAGCAACATACTGGCACACAT
*
19621890 AGTGCATCATCAGATAA
1 AGTGCATCATCGGATAA
19621907 TACCGAAGTA
Statistics
Matches: 154, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
36 17 0.11
37 5 0.03
38 1 0.01
39 7 0.05
40 7 0.05
41 1 0.01
42 6 0.04
43 109 0.71
44 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (43 bp):
AGTGCATCATCGGATAAAACTGAAGCAACATACTGGCACACAT
Found at i:19626860 original size:12 final size:12
Alignment explanation
Indices: 19626822--19626864 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
19626812 CCAACCACAT
19626822 GCCGTGTGACTAG
1 GCCGTGTG-CTAG
* * *
19626835 CCCATGTGCCAG
1 GCCGTGTGCTAG
19626847 GCCGTGTGCTAG
1 GCCGTGTGCTAG
19626859 GCCGTG
1 GCCGTG
19626865 CCAAACCTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
12 18 0.75
13 6 0.25
ACGTcount: A:0.12, C:0.30, G:0.37, T:0.21
Consensus pattern (12 bp):
GCCGTGTGCTAG
Found at i:19632571 original size:37 final size:37
Alignment explanation
Indices: 19632464--19632572 Score: 155
Period size: 37 Copynumber: 2.9 Consensus size: 37
19632454 AGCTCAGACG
* * *
19632464 AAATCTCCACACGAAGTTATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
19632501 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* **
19632538 TAATCTCCACACGTAGTCATCAAGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
19632573 ATATATTTCC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:19632924 original size:48 final size:49
Alignment explanation
Indices: 19632718--19632957 Score: 197
Period size: 50 Copynumber: 4.8 Consensus size: 49
19632708 GCACATCGCC
19632718 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA-CATATCTCATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACCATATCTC--A
* * * *
19632768 TATATATTTCACA-TTGACCATTCGGCTTTACCACATATGATCAAATATCTAA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATAT-A-C-CATATCTCA
** ** ** * * *
19632820 TA-ATA-CGCAC-CTTCCACATT-GGTCGTTCGGCCACAATATACGCACATCGCC
1 TACATATTTCACACTAGC-CATTCGG-C-TT-TACCAC-ATATAC-CATATCTCA
19632871 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA-CATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACCATATCTCA
*
19632919 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
19632958 TGCATGTTCA
Statistics
Matches: 150, Mismatches: 25, Indels: 32
0.72 0.12 0.15
Matches are distributed among these distances:
48 44 0.29
49 5 0.03
50 48 0.32
51 17 0.11
52 13 0.09
53 12 0.08
54 11 0.07
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.33
Consensus pattern (49 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACCATATCTCA
Done.