Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 93 of 186
Found at i:30361039 original size:40 final size:40
Alignment explanation
Indices: 30360980--30361072 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
30360970 TCTCGAACAG
* ** **
30360980 TAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGTAT
1 TAGCGGAGCTTTTCAAAAAACGCCGCTATAGATCGACCAT
* *
30361020 TAGCGGAGCTTTTCAAAAAATGCCGCTATAGGTCGACCAT
1 TAGCGGAGCTTTTCAAAAAACGCCGCTATAGATCGACCAT
30361060 TAGC-GACGCTTTT
1 TAGCGGA-GCTTTT
30361073 TGACAAACGC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.04
40 43 0.96
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (40 bp):
TAGCGGAGCTTTTCAAAAAACGCCGCTATAGATCGACCAT
Found at i:30361201 original size:40 final size:40
Alignment explanation
Indices: 30361140--30361240 Score: 139
Period size: 40 Copynumber: 2.5 Consensus size: 40
30361130 GGCACTAGCG
* * *
30361140 GCGCTTTTTGAAAACCACCGCTATAGATTGAGCATTAACA
1 GCGCTTTTTGAAAAACACCGCTATAGATCGACCATTAACA
* * * *
30361180 GCGCTTTTTAAAAAACGCCGCTATAGGTCGACCATTAGCA
1 GCGCTTTTTGAAAAACACCGCTATAGATCGACCATTAACA
30361220 GCGCTTTTTGAAAAACACCGC
1 GCGCTTTTTGAAAAACACCGC
30361241 AAAAAAATTA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (40 bp):
GCGCTTTTTGAAAAACACCGCTATAGATCGACCATTAACA
Found at i:30361266 original size:155 final size:154
Alignment explanation
Indices: 30360980--30361509 Score: 675
Period size: 155 Copynumber: 3.4 Consensus size: 154
30360970 TCTCGAACAG
* * * *
30360980 TAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGTATTAGCGGAGCTTTTCAAAAAATGCCG
1 TAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAAACGCCG
* * *
30361045 CTATAGGTCGACCATTAGCGACGCTTTTTGACAAACGCCACAAAAAAATTAAGCACAACGTTGTC
66 CTATAGGTCGACCATTAGCG-CGCTTTTTGAAAAACGCCGCAAAAAAATTAAGCACAACGTCGTC
* *
30361110 GTTTTATGTTGAGATGTAGTGGCAC
130 GTTTTATGTTGAGCTTTAGTGGCAC
* * * * *
30361135 TAGCGGCGCTTTTTGAAAACCACCGCTATAGATTGAGCATTAACAGCGCTTTTTAAAAAACGCCG
1 TAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAAACGCCG
* *
30361200 CTATAGGTCGACCATTAGCAGCGCTTTTTGAAAAACACCGCAAAAAAATTAAGCAAAACGTCGTC
66 CTATAGGTCGACCATTAGC-GCGCTTTTTGAAAAACGCCGCAAAAAAATTAAGCACAACGTCGTC
*
30361265 GTTTTATGTTGAGCTTTAGTGGCAG
130 GTTTTATGTTGAGCTTTAGTGGCAC
**** * * * * *
30361290 TAGTTTTGCTTTTTGAAAAATGCTGCTATAAATTGAGCATTAGCGGCGCTTTTT-AAAAACGCTG
1 TAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAAACGCCG
* * * *
30361354 CTATAGGTCGACCATTAGCGGCACTTTTTGAAAAACGCCGCAAAAAAATTAAGCACAATGCCATC
66 CTATAGGTCGACCATTAGC-GCGCTTTTTGAAAAACGCCGCAAAAAAATTAAGCACAACGTCGTC
* * *
30361419 GTTTTGTGTTGAGCTTTAGTGACAT
130 GTTTTATGTTGAGCTTTAGTGGCAC
* * * * * *
30361444 TAACGGTGCTTTTTGAAAAATGCCGCTATAGATCGAGCTTTAGCGGCGCTTTATCAAAAACGCCG
1 TAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAAACGCCG
30361509 C
66 C
30361510 AAAAAACGTT
Statistics
Matches: 324, Mismatches: 49, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
154 134 0.41
155 189 0.58
156 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (154 bp):
TAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAAACGCCG
CTATAGGTCGACCATTAGCGCGCTTTTTGAAAAACGCCGCAAAAAAATTAAGCACAACGTCGTCG
TTTTATGTTGAGCTTTAGTGGCAC
Found at i:30361354 original size:39 final size:40
Alignment explanation
Indices: 30361297--30361391 Score: 129
Period size: 39 Copynumber: 2.4 Consensus size: 40
30361287 CAGTAGTTTT
* * *
30361297 GCTTTTTGAAAAATGCTGCTATAAATTGAGCATTAGCGGC
1 GCTTTTTGAAAAACGCTGCTATAAATCGACCATTAGCGGC
**
30361337 GCTTTTT-AAAAACGCTGCTATAGGTCGACCATTAGCGGC
1 GCTTTTTGAAAAACGCTGCTATAAATCGACCATTAGCGGC
*
30361376 ACTTTTTGAAAAACGC
1 GCTTTTTGAAAAACGC
30361392 CGCAAAAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (40 bp):
GCTTTTTGAAAAACGCTGCTATAAATCGACCATTAGCGGC
Found at i:30361762 original size:14 final size:14
Alignment explanation
Indices: 30361743--30361796 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
30361733 TTAATTATTA
30361743 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
* *
30361757 TTATAGTTTAAGAT
1 TTATAGTTTAGGGT
* *
30361771 ATATGGTTTAGGGT
1 TTATAGTTTAGGGT
30361785 TTA-AGCTTTAGG
1 TTATAG-TTTAGG
30361797 AGTTATTATT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
13 1 0.03
14 30 0.97
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.46
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:30361857 original size:14 final size:14
Alignment explanation
Indices: 30361840--30361883 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
30361830 AAGGGTTAGG
30361840 GGTTTAGGATTTAT
1 GGTTTAGGATTTAT
* *
30361854 GGTTTATGTTTTAT
1 GGTTTAGGATTTAT
* *
30361868 GATTTAGGGTTTAT
1 GGTTTAGGATTTAT
30361882 GG
1 GG
30361884 GGATAGGGGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.52
Consensus pattern (14 bp):
GGTTTAGGATTTAT
Found at i:30361866 original size:21 final size:21
Alignment explanation
Indices: 30361842--30361882 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30361832 GGGTTAGGGG
*
30361842 TTTAGGATTTATGGTTTATGT
1 TTTAGGATTTAGGGTTTATGT
*
30361863 TTTATGATTTAGGGTTTATG
1 TTTAGGATTTAGGGTTTATG
30361883 GGGATAGGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (21 bp):
TTTAGGATTTAGGGTTTATGT
Found at i:30362972 original size:19 final size:19
Alignment explanation
Indices: 30362950--30362987 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
30362940 AAAAATCTTC
* *
30362950 AAAATAAAATTTAAAATTT
1 AAAAAAAAACTTAAAATTT
30362969 AAAAAAAAACTTAAAATTT
1 AAAAAAAAACTTAAAATTT
30362988 TAATATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAAAAAACTTAAAATTT
Found at i:30362985 original size:31 final size:31
Alignment explanation
Indices: 30362926--30362985 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
30362916 TTTATATGTT
* *
30362926 AATTTAAAAATTATAAAAATCTTCAAAATAA
1 AATTTAAAAATTAAAAAAAACTTCAAAATAA
*
30362957 AATTTAAAATTTAAAAAAAAACTT-AAAAT
1 AATTTAAAAATT-AAAAAAAACTTCAAAAT
30362986 TTTAATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 16 0.64
32 9 0.36
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (31 bp):
AATTTAAAAATTAAAAAAAACTTCAAAATAA
Found at i:30365133 original size:23 final size:23
Alignment explanation
Indices: 30365085--30365129 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
30365075 CTATCCCCAC
*
30365085 ATGGTGTGCTGGGTTGGATGGAG
1 ATGGTGTGCAGGGTTGGATGGAG
30365108 ATGGTGTGCAGGGTTGG-TGGAG
1 ATGGTGTGCAGGGTTGGATGGAG
30365130 GATGTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.13, C:0.04, G:0.53, T:0.29
Consensus pattern (23 bp):
ATGGTGTGCAGGGTTGGATGGAG
Found at i:30368955 original size:22 final size:22
Alignment explanation
Indices: 30368930--30368975 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
30368920 ATATTTTTTA
*
30368930 TTTATCCTTAAAATTATATAGT
1 TTTATCCTTAAAAGTATATAGT
30368952 TTTATCCTTAAAAGTATATAGT
1 TTTATCCTTAAAAGTATATAGT
30368974 TT
1 TT
30368976 AAAGTTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.50
Consensus pattern (22 bp):
TTTATCCTTAAAAGTATATAGT
Found at i:30370503 original size:14 final size:14
Alignment explanation
Indices: 30370484--30370515 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
30370474 GATGATTGTT
*
30370484 CTAATCTAAATTTA
1 CTAATCTAAATTAA
30370498 CTAATCTAAATTAA
1 CTAATCTAAATTAA
30370512 CTAA
1 CTAA
30370516 GAACGCGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.38
Consensus pattern (14 bp):
CTAATCTAAATTAA
Found at i:30382076 original size:27 final size:27
Alignment explanation
Indices: 30382045--30382098 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
30382035 TGTTGCACAA
30382045 GGGAAAGAGGACTATGTGTGCAGATTG
1 GGGAAAGAGGACTATGTGTGCAGATTG
30382072 GGGAAAGAGGACTATGTGTGCAGATTG
1 GGGAAAGAGGACTATGTGTGCAGATTG
30382099 AAGAAGAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.07, G:0.41, T:0.22
Consensus pattern (27 bp):
GGGAAAGAGGACTATGTGTGCAGATTG
Found at i:30387087 original size:28 final size:27
Alignment explanation
Indices: 30387008--30387088 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 27
30386998 TAACATATAC
* *
30387008 AAAAATTTAAAATATATATTATGTATAA
1 AAAAATTTAAAATA-ATAATATGTAAAA
* * *
30387036 AATAATTTAAAATAAAAGACATGTAAAA
1 AAAAATTTAAAATAATA-ATATGTAAAA
*
30387064 AAAAACTTCAAAATAATAATATGTA
1 AAAAA-TTTAAAATAATAATATGTA
30387089 TGGTGGTTTA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
27 2 0.05
28 30 0.71
29 10 0.24
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (27 bp):
AAAAATTTAAAATAATAATATGTAAAA
Found at i:30397423 original size:20 final size:21
Alignment explanation
Indices: 30397398--30397436 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
30397388 TTACGCTGAT
30397398 AAAAT-AAAAACCCTAACCTA
1 AAAATAAAAAACCCTAACCTA
30397418 AAAATAAAAAACCCTAACC
1 AAAATAAAAAACCCTAACC
30397437 CTAGAGAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.62, C:0.26, G:0.00, T:0.13
Consensus pattern (21 bp):
AAAATAAAAAACCCTAACCTA
Found at i:30397966 original size:28 final size:29
Alignment explanation
Indices: 30397916--30397977 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
30397906 TTTTTTAGAG
30397916 TTTTTAATAATTTTTACAAAATTTTAAATA
1 TTTTTAAT-ATTTTTACAAAATTTTAAATA
* * *
30397946 TTTTTAAT-TTTTTACAGAATTTTTATTA
1 TTTTTAATATTTTTACAAAATTTTAAATA
30397974 TTTT
1 TTTT
30397978 AAAAAGAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 21 0.72
30 8 0.28
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (29 bp):
TTTTTAATATTTTTACAAAATTTTAAATA
Found at i:30399921 original size:15 final size:16
Alignment explanation
Indices: 30399889--30399921 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
30399879 CATTATCAAT
30399889 AAAATTCATATGTTATA
1 AAAATTCATA-GTTATA
30399906 AAAATTCATA-TTATA
1 AAAATTCATAGTTATA
30399921 A
1 A
30399922 TATTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
17 10 0.62
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
AAAATTCATAGTTATA
Found at i:30402258 original size:25 final size:25
Alignment explanation
Indices: 30402230--30402278 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
30402220 ATTTATTTTC
30402230 TTTTTTTGTTT-CTCTATTTGTTTGA
1 TTTTTTT-TTTACTCTATTTGTTTGA
*
30402255 TTTTTTTTTTACTCTTTTTGTTTG
1 TTTTTTTTTTACTCTATTTGTTTG
30402279 GAGTATGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.06, C:0.08, G:0.10, T:0.76
Consensus pattern (25 bp):
TTTTTTTTTTACTCTATTTGTTTGA
Found at i:30409232 original size:46 final size:46
Alignment explanation
Indices: 30409182--30409540 Score: 364
Period size: 46 Copynumber: 7.7 Consensus size: 46
30409172 TGGTTGAGCA
30409182 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
30409228 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
30409273 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
30409321 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
30409366 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
30409414 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
30409459 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
30409507 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
30409541 GGGGCGGGTT
Statistics
Matches: 259, Mismatches: 27, Indels: 54
0.76 0.08 0.16
Matches are distributed among these distances:
42 6 0.02
43 12 0.05
45 9 0.03
46 119 0.46
47 87 0.34
48 9 0.03
50 11 0.04
51 6 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30409297 original size:47 final size:47
Alignment explanation
Indices: 30409228--30409489 Score: 310
Period size: 47 Copynumber: 5.6 Consensus size: 47
30409218 GATGCGAATG
30409228 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
* * * *
30409275 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAG-GCA
30409319 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
* * * *
30409368 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAG-GCA
30409412 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
30409461 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
30409490 ACTTATGGAT
Statistics
Matches: 181, Mismatches: 16, Indels: 36
0.78 0.07 0.15
Matches are distributed among these distances:
43 2 0.01
44 6 0.03
45 4 0.02
46 64 0.35
47 93 0.51
48 4 0.02
49 6 0.03
50 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
Found at i:30409338 original size:93 final size:93
Alignment explanation
Indices: 30409179--30409535 Score: 687
Period size: 93 Copynumber: 3.8 Consensus size: 93
30409169 GGATGGTTGA
30409179 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
30409244 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
30409272 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
30409337 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
30409365 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
30409430 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
30409458 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
30409523 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
30409536 ACTTAGGGGC
Statistics
Matches: 261, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 261 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:30410417 original size:27 final size:27
Alignment explanation
Indices: 30410386--30410439 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
30410376 ATTATAAGTC
30410386 AATCTTTATATGTAAATATTCCTTATT
1 AATCTTTATATGTAAATATTCCTTATT
30410413 AATCTTTATATGTAAATATTCCTTATT
1 AATCTTTATATGTAAATATTCCTTATT
30410440 GAGTCTAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.52
Consensus pattern (27 bp):
AATCTTTATATGTAAATATTCCTTATT
Found at i:30411434 original size:57 final size:57
Alignment explanation
Indices: 30411371--30411480 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 57
30411361 TTTGTAATGC
* * *
30411371 AATATATTTGGTAGTGTCCGAGAACATAGGCATAATTTACTGAACCTTGTTAATGGA
1 AATATATTTGGTAGTGTCCGAGAACATAGACATAATTTACCGAACCTCGTTAATGGA
** * *
30411428 AATATATTTGGTAGTGTTTGAGGACGTAGACATAATTTACCGAACCTCGTTAA
1 AATATATTTGGTAGTGTCCGAGAACATAGACATAATTTACCGAACCTCGTTAA
30411481 ATTTCTAGTG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 46 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.34
Consensus pattern (57 bp):
AATATATTTGGTAGTGTCCGAGAACATAGACATAATTTACCGAACCTCGTTAATGGA
Found at i:30427110 original size:46 final size:46
Alignment explanation
Indices: 30427043--30427137 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
30427033 TGTTGAATGA
* *
30427043 AGAGCGGTGCATGCTTTAGATGTGGTTCTCTTGACCACTTCCTTAG
1 AGAGCGGTGCATGCTATAGATGTGGTTCTCTTGACCACTTCCTCAG
30427089 AGAGCGGTGCATGCTATAGATGTGGTTCTCTTGACCACTTCCTCAG
1 AGAGCGGTGCATGCTATAGATGTGGTTCTCTTGACCACTTCCTCAG
30427135 AGA
1 AGA
30427138 TTGCCCAGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (46 bp):
AGAGCGGTGCATGCTATAGATGTGGTTCTCTTGACCACTTCCTCAG
Found at i:30432243 original size:20 final size:20
Alignment explanation
Indices: 30432213--30432264 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
30432203 CGGGTTAGGG
*
30432213 ACACAGACGTGTCCTAAAGC
1 ACACAGGCGTGTCCTAAAGC
*
30432233 ACACGGGCGTGTCCTAAAGC
1 ACACAGGCGTGTCCTAAAGC
30432253 ACACAGGCGTGT
1 ACACAGGCGTGT
30432265 TCATTGTCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.15
Consensus pattern (20 bp):
ACACAGGCGTGTCCTAAAGC
Found at i:30436553 original size:20 final size:20
Alignment explanation
Indices: 30436469--30436584 Score: 85
Period size: 20 Copynumber: 5.8 Consensus size: 20
30436459 TTGTACGGGA
* * *
30436469 TTGCACTTCAGTGTCTCTAT
1 TTGCACTTCGGTGCCTCTGT
* *
30436489 TTGCACTTTGATGCCT-T-T
1 TTGCACTTCGGTGCCTCTGT
* * *
30436507 TTCACACTTCGGTGTCTTTGT
1 TT-GCACTTCGGTGCCTCTGT
*
30436528 TTGCACTTCGGTGCCTCTGA
1 TTGCACTTCGGTGCCTCTGT
* *
30436548 TCGCACATT-TGTGCCTCTGT
1 TTGCAC-TTCGGTGCCTCTGT
*
30436568 TTGCACTTCGATGCCTC
1 TTGCACTTCGGTGCCTC
30436585 CTCTATTATG
Statistics
Matches: 73, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
18 3 0.04
19 13 0.18
20 52 0.71
21 5 0.07
ACGTcount: A:0.11, C:0.28, G:0.19, T:0.42
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTGT
Found at i:30456920 original size:10 final size:10
Alignment explanation
Indices: 30456889--30456922 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
30456879 TATTTATGTG
30456889 TTTTTTTTGT
1 TTTTTTTTGT
* *
30456899 TTTTTCTGGT
1 TTTTTTTTGT
30456909 TTTTTTTTGT
1 TTTTTTTTGT
30456919 TTTT
1 TTTT
30456923 ACTTTTTTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:30459358 original size:11 final size:11
Alignment explanation
Indices: 30459342--30459370 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
30459332 GAAGAAATGG
30459342 GAAGGTGGGGA
1 GAAGGTGGGGA
30459353 GAAGGTGGGGA
1 GAAGGTGGGGA
30459364 GAAGGTG
1 GAAGGTG
30459371 TTCGCGTGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.62, T:0.10
Consensus pattern (11 bp):
GAAGGTGGGGA
Found at i:30464088 original size:20 final size:20
Alignment explanation
Indices: 30464063--30464103 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
30464053 CCGAGTTTAT
30464063 GAGAGCAATTGTCATTAAAA
1 GAGAGCAATTGTCATTAAAA
30464083 GAGAGCAATTGTCATTAAAA
1 GAGAGCAATTGTCATTAAAA
30464103 G
1 G
30464104 GGATTTAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (20 bp):
GAGAGCAATTGTCATTAAAA
Found at i:30464183 original size:53 final size:53
Alignment explanation
Indices: 30464103--30464235 Score: 266
Period size: 53 Copynumber: 2.5 Consensus size: 53
30464093 GTCATTAAAA
30464103 GGGATTTAGCCTGGACTGGTAATCTCGGCATTGCTCTATGAGTTAATACTACG
1 GGGATTTAGCCTGGACTGGTAATCTCGGCATTGCTCTATGAGTTAATACTACG
30464156 GGGATTTAGCCTGGACTGGTAATCTCGGCATTGCTCTATGAGTTAATACTACG
1 GGGATTTAGCCTGGACTGGTAATCTCGGCATTGCTCTATGAGTTAATACTACG
30464209 GGGATTTAGCCTGGACTGGTAATCTCG
1 GGGATTTAGCCTGGACTGGTAATCTCG
30464236 CCGTAAGATA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 80 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.32
Consensus pattern (53 bp):
GGGATTTAGCCTGGACTGGTAATCTCGGCATTGCTCTATGAGTTAATACTACG
Found at i:30481492 original size:17 final size:17
Alignment explanation
Indices: 30481435--30481493 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
30481425 ATTCCACTTC
30481435 CTTGATTTTGATTTCTT
1 CTTGATTTTGATTTCTT
* * **
30481452 CTTGAGTATGAGTCCACTTT
1 CTTGATTTTGA-T-TTC-TT
30481472 CTTGATTTTGATTTCTT
1 CTTGATTTTGATTTCTT
30481489 CTTGA
1 CTTGA
30481494 GTAAACAATT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
17 16 0.52
18 2 0.06
19 2 0.06
20 11 0.35
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (17 bp):
CTTGATTTTGATTTCTT
Found at i:30482914 original size:14 final size:14
Alignment explanation
Indices: 30482891--30482920 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30482881 TGTATTCTTG
*
30482891 ATGTTTATAAGTTT
1 ATGTTGATAAGTTT
30482905 ATGTTGATAAGTTT
1 ATGTTGATAAGTTT
30482919 AT
1 AT
30482921 TTGTATATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (14 bp):
ATGTTGATAAGTTT
Found at i:30486035 original size:16 final size:16
Alignment explanation
Indices: 30486014--30486047 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
30486004 ACGGACGCTT
30486014 CCATGGAATTAATAAG
1 CCATGGAATTAATAAG
30486030 CCATGGAATTAATAAG
1 CCATGGAATTAATAAG
30486046 CC
1 CC
30486048 GCGCAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (16 bp):
CCATGGAATTAATAAG
Found at i:30487641 original size:20 final size:20
Alignment explanation
Indices: 30487616--30487655 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
30487606 TCCTAGACAT
30487616 GTCTTACACTAGCTTACGTC
1 GTCTTACACTAGCTTACGTC
30487636 GTCTTACACTAGCTTACGTC
1 GTCTTACACTAGCTTACGTC
30487656 TCGAGGCCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (20 bp):
GTCTTACACTAGCTTACGTC
Found at i:30499039 original size:46 final size:44
Alignment explanation
Indices: 30498951--30499058 Score: 139
Period size: 46 Copynumber: 2.4 Consensus size: 44
30498941 CAATGCTACA
*
30498951 TCCCAGACATGGTCTTACACTGACACATCTCGTAGCCTATGCATG
1 TCCCAGACAT-GTCTTACACTGACACATCTCGTAGCCGATGCATG
*
30498996 TCCCAGACATGTCTTATACT-AGCTTACATCTCG-AGGCCGATGCATG
1 TCCCAGACATGTCTTACACTGA-C--ACATCTCGTA-GCCGATGCATG
30499042 TCCCAGACATGTCTTAC
1 TCCCAGACATGTCTTAC
30499059 TATAGCACTT
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
43 1 0.02
44 10 0.18
45 11 0.20
46 34 0.61
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.28
Consensus pattern (44 bp):
TCCCAGACATGTCTTACACTGACACATCTCGTAGCCGATGCATG
Found at i:30499081 original size:46 final size:46
Alignment explanation
Indices: 30498989--30499159 Score: 140
Period size: 46 Copynumber: 3.7 Consensus size: 46
30498979 CTCGTAGCCT
*
30498989 ATGCATGTCCCAGACATGTCTTA-TACTAGCTTACATCTCGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACTACTAGCTTA-ATCTCAAGGCCG
* *
30499035 ATGCATGTCCCAGACATGTCTTACTA-TAGCACTT-GTCTCAATGCCG
1 ATGCATGTCCCAGACATGTCTTACTACTAG--CTTAATCTCAAGGCCG
* * * * * *
30499081 ATGTCAGGTCTCAGACATGGTCTTAC-ACTGGC-T-CTCTTAATGTGGCTG
1 ATG-CATGTCCCAGACAT-GTCTTACTACTAGCTTAATCTCAA---GGCCG
30499129 ATGCATGTCCCAGACATGTCTTAC-ACTAGCT
1 ATGCATGTCCCAGACATGTCTTACTACTAGCT
30499160 CACACGAGTG
Statistics
Matches: 102, Mismatches: 13, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
45 6 0.06
46 51 0.50
47 27 0.26
48 18 0.18
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACTACTAGCTTAATCTCAAGGCCG
Found at i:30500723 original size:19 final size:18
Alignment explanation
Indices: 30500699--30500742 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
30500689 AATATGAATA
30500699 AAATTTATCTACCTAAAT
1 AAATTTATCTACCTAAAT
*
30500717 AAGATTTATCTATCTAAAT
1 AA-ATTTATCTACCTAAAT
30500736 AAATTTA
1 AAATTTA
30500743 AAATATATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:30501843 original size:13 final size:13
Alignment explanation
Indices: 30501825--30501850 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30501815 TAATAAACTG
30501825 TACTAACTGGCTA
1 TACTAACTGGCTA
30501838 TACTAACTGGCTA
1 TACTAACTGGCTA
30501851 AGTAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TACTAACTGGCTA
Found at i:30502268 original size:47 final size:46
Alignment explanation
Indices: 30502148--30502275 Score: 136
Period size: 45 Copynumber: 2.8 Consensus size: 46
30502138 TCTCACCTAT
* * *
30502148 AATGAACTCGAAACGCAACTCAACGAGCTCGGGTG-TTCGCATCCA
1 AATGAACTCGAAACGAAACTCAACGAGTTCGGATGCTTCGCATCCA
* * *
30502193 AATGAACTTGGAAC-ACAACTCAACGAGTTCAGATGCTT-GCATCCA
1 AATGAACTCGAAACGA-AACTCAACGAGTTCGGATGCTTCGCATCCA
* *
30502238 TAGGTGAACTCGAAACGAAACTCAATGAGTTCGGATGC
1 -A-ATGAACTCGAAACGAAACTCAACGAGTTCGGATGC
30502276 CTCATAATTC
Statistics
Matches: 67, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
45 35 0.52
46 3 0.04
47 28 0.42
48 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (46 bp):
AATGAACTCGAAACGAAACTCAACGAGTTCGGATGCTTCGCATCCA
Found at i:30503948 original size:23 final size:24
Alignment explanation
Indices: 30503911--30503957 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
30503901 ATTTAAGTTC
*
30503911 ATTTCACATGTATAACATGTTTTA
1 ATTTCACATGAATAACATGTTTTA
*
30503935 ATTTC-CATGAATAATATGTTTTA
1 ATTTCACATGAATAACATGTTTTA
30503958 GATTCGTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.47
Consensus pattern (24 bp):
ATTTCACATGAATAACATGTTTTA
Found at i:30505102 original size:27 final size:27
Alignment explanation
Indices: 30505071--30505248 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30505061 TAAATTGTAC
30505071 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30505098 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30505124 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30505152 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
30505180 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30505207 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30505234 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30505249 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30505185 original size:82 final size:81
Alignment explanation
Indices: 30505072--30505227 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30505062 AAATTGTACA
* *
30505072 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30505136 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
30505153 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
30505218 TGCGAGTTGA
65 TGCGAATTGA
30505228 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30505239 original size:82 final size:81
Alignment explanation
Indices: 30505068--30505248 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
30505058 GATTAAATTG
* *
30505068 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30505133 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
30505149 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
30505213 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30505231 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30505249 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30522555 original size:40 final size:39
Alignment explanation
Indices: 30522524--30522733 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
30522514 GGACTAAGAT
* *
30522524 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
30522564 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
30522604 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
30522644 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
30522684 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
30522723 CCGAAGGCATT
1 CCGAAGGCATT
30522734 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:30522687 original size:120 final size:120
Alignment explanation
Indices: 30522471--30522733 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
30522461 TTGAATGCTG
* *
30522471 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
30522535 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
30522591 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
30522654 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
30522710 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
30522734 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:30522753 original size:79 final size:80
Alignment explanation
Indices: 30522472--30522768 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
30522462 TGAATGCTGT
* ** * * * **
30522472 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
30522535 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
30522552 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
30522616 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
30522632 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
30522696 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
30522711 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
30522769 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:30530506 original size:40 final size:39
Alignment explanation
Indices: 30530475--30530684 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
30530465 GGACTAAGAT
* *
30530475 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
30530515 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
30530555 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
30530595 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
30530635 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
30530674 CCGAAGGCATT
1 CCGAAGGCATT
30530685 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:30530638 original size:120 final size:120
Alignment explanation
Indices: 30530422--30530684 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
30530412 TTGAATGCTG
* *
30530422 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
30530486 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
30530542 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
30530605 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
30530661 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
30530685 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:30530704 original size:79 final size:80
Alignment explanation
Indices: 30530423--30530719 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
30530413 TGAATGCTGT
* ** * * * **
30530423 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
30530486 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
30530503 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
30530567 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
30530583 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
30530647 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
30530662 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
30530720 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:30532194 original size:282 final size:282
Alignment explanation
Indices: 30531690--30532254 Score: 1049
Period size: 282 Copynumber: 2.0 Consensus size: 282
30531680 ATTAGGGGTC
*
30531690 ATACCATATATGTATGGATTCCTCTCTGAGTCTAGTTTCCATAGAAACAAACGGCATCAGTATTG
1 ATACCATATATGTATGGATTCCTCTCTGAGTCTAGTTTCCATAGAAACAAACGGAATCAGTATTG
* * *
30531755 AAGCTCTGTGCAGAGAGATATCCCAGTCGTAATGGGAAAAGGTCAGTGTAGTCGACCCCTGTAAC
66 AAGCTCTGTACAGAGAGATATCCAAGTCGAAATGGGAAAAGGTCAGTGTAGTCGACCCCTGTAAC
30531820 ATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGACCAAAAATTCTAGAAAAAAATACAT
131 ATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGACCAAAAATTCTAGAAAAAAATACAT
30531885 AGGTGGGGACATGAGTCTAGTTTCAGGGAAAAATCACAAAACTGATTTTCGAGTTGTGAAACTCA
196 AGGTGGGGACATGAGTCTAGTTTCAGGGAAAAATCACAAAACTGATTTTCGAGTTGTGAAACTCA
*
30531950 AGATATGATTTTTGAAGCGACT
261 AGATATGATTTTTGAAGCCACT
*
30531972 ATACCATATATTTATGGATTCCTCTCTGAGTCTAGTTTCCATAGAAACAAACGGAATCAGTATTG
1 ATACCATATATGTATGGATTCCTCTCTGAGTCTAGTTTCCATAGAAACAAACGGAATCAGTATTG
* *
30532037 AAGCTCTGTACAGAGAGATATCCAAGTTGAAATGGGAAAAGGTCAGTGTAGTCGTCCCCTGTAAC
66 AAGCTCTGTACAGAGAGATATCCAAGTCGAAATGGGAAAAGGTCAGTGTAGTCGACCCCTGTAAC
30532102 ATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGACCAAAAATTCTAGAAAAAAATACAT
131 ATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGACCAAAAATTCTAGAAAAAAATACAT
*
30532167 AGGTGGGGATATGAGTCTAGTTTCAGGGAAAAATCACAAAACTGATTTTCGAGTTGTGAAACTCA
196 AGGTGGGGACATGAGTCTAGTTTCAGGGAAAAATCACAAAACTGATTTTCGAGTTGTGAAACTCA
30532232 AGATATGATTTTTGAAGCCACT
261 AGATATGATTTTTGAAGCCACT
30532254 A
1 A
30532255 GTACTCAGAC
Statistics
Matches: 274, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
282 274 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (282 bp):
ATACCATATATGTATGGATTCCTCTCTGAGTCTAGTTTCCATAGAAACAAACGGAATCAGTATTG
AAGCTCTGTACAGAGAGATATCCAAGTCGAAATGGGAAAAGGTCAGTGTAGTCGACCCCTGTAAC
ATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGACCAAAAATTCTAGAAAAAAATACAT
AGGTGGGGACATGAGTCTAGTTTCAGGGAAAAATCACAAAACTGATTTTCGAGTTGTGAAACTCA
AGATATGATTTTTGAAGCCACT
Found at i:30550751 original size:30 final size:30
Alignment explanation
Indices: 30550705--30550764 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
30550695 TTCCCGAGCC
* *
30550705 TAGGGGTAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
30550735 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
30550765 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:30556115 original size:39 final size:40
Alignment explanation
Indices: 30555965--30556227 Score: 324
Period size: 40 Copynumber: 6.7 Consensus size: 40
30555955 GCTCCTCGTT
* * *
30555965 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
30556005 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
30556045 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
30556085 CAAATGCCTTC-GGACTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
30556124 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
30556163 CAAATACCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
30556204 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30556228 CATCATTCAA
Statistics
Matches: 203, Mismatches: 13, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
38 2 0.01
39 86 0.42
40 105 0.52
41 10 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:30556182 original size:79 final size:78
Alignment explanation
Indices: 30555965--30556227 Score: 322
Period size: 79 Copynumber: 3.3 Consensus size: 78
30555955 GCTCCTCGTT
* *
30555965 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCACAAATGCCTTC-GGACTTAGCCC
*
30556028 GGATTTAGTAACTCGCA
63 GGAATTAGT-ACTCGCA
* *
30556045 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCACAAATGCCTTCGGACTTAGCCCGGA
30556110 ATTAGTATCTCGCA
66 ATTAGTA-CTCGCA
* * *
30556124 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATACCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCACAAATGCCTTCGGA-CTTAGCCCGG
*
30556188 ATATT-GTCACTTAGCA
65 A-ATTAGT-AC-TCGCA
30556204 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30556228 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
78 45 0.27
79 65 0.40
80 52 0.32
81 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCACAAATGCCTTCGGACTTAGCCCGGA
ATTAGTACTCGCA
Found at i:30559257 original size:93 final size:93
Alignment explanation
Indices: 30559142--30559312 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
30559132 ACCCATAAGT
* * *
30559142 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
30559207 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
30559235 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
*
30559300 CGAGTTCGGATGC
66 CGAGCTCGGATGC
30559313 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:30559309 original size:46 final size:46
Alignment explanation
Indices: 30559134--30559309 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
30559124 TGTAACCCAC
* *
30559134 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
30559180 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
30559230 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
30559273 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
30559310 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.58
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:30571090 original size:30 final size:30
Alignment explanation
Indices: 30571056--30571113 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
30571046 CCCGAGCCTA
*
30571056 GGGCAAAAGTGTAATTATGCAAAAGTTTAG
1 GGGCAAAAATGTAATTATGCAAAAGTTTAG
* *
30571086 GGGCAAAAATGTAATTTTGCCAAAGTTT
1 GGGCAAAAATGTAATTATGCAAAAGTTT
30571114 GTATTAAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (30 bp):
GGGCAAAAATGTAATTATGCAAAAGTTTAG
Found at i:30572480 original size:43 final size:43
Alignment explanation
Indices: 30572419--30572504 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
30572409 ATGATGAGTA
*
30572419 AGTTATGAAATTGAAGCTTAATTAGTCTATTTTCATATGGATT
1 AGTTATGAAATTGAAGCTTAATGAGTCTATTTTCATATGGATT
30572462 AGTTATGAAATTGAAGCTTAATGAGTCTATTTTCATATGGATT
1 AGTTATGAAATTGAAGCTTAATGAGTCTATTTTCATATGGATT
30572505 GAAAAAAACA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (43 bp):
AGTTATGAAATTGAAGCTTAATGAGTCTATTTTCATATGGATT
Found at i:30578702 original size:50 final size:50
Alignment explanation
Indices: 30578627--30578722 Score: 183
Period size: 50 Copynumber: 1.9 Consensus size: 50
30578617 CCGTAGCTTA
*
30578627 AGGAAGAAAGAAAAGAAGAATTCGGTTCTTCTTGGCCGAAATGAAACTTG
1 AGGAAGAAAGAAAAGAAGAAATCGGTTCTTCTTGGCCGAAATGAAACTTG
30578677 AGGAAGAAAGAAAAGAAGAAATCGGTTCTTCTTGGCCGAAATGAAA
1 AGGAAGAAAGAAAAGAAGAAATCGGTTCTTCTTGGCCGAAATGAAA
30578723 AGAGGAAGAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.43, C:0.11, G:0.26, T:0.20
Consensus pattern (50 bp):
AGGAAGAAAGAAAAGAAGAAATCGGTTCTTCTTGGCCGAAATGAAACTTG
Found at i:30581120 original size:40 final size:40
Alignment explanation
Indices: 30580197--30581101 Score: 1733
Period size: 40 Copynumber: 22.6 Consensus size: 40
30580187 CAGATGATAA
* * *
30580197 CCGGGCTAAGACCCGAAGGCATTTGTGC-TAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACTATA-T
**
30580237 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30580277 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30580317 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30580357 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30580397 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30580437 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30580477 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30580517 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30580557 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30580597 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30580637 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30580677 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30580717 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30580757 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30580797 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30580837 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30580877 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30580917 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30580957 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30580997 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30581037 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30581077 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
30581102 AGTGAGTGGC
Statistics
Matches: 857, Mismatches: 6, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
40 855 1.00
41 2 0.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
Found at i:30590127 original size:40 final size:40
Alignment explanation
Indices: 30589244--30590113 Score: 1713
Period size: 40 Copynumber: 21.8 Consensus size: 40
30589234 CGGATGATAA
**
30589244 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30589284 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30589324 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30589364 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30589404 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30589444 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30589484 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30589524 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30589564 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30589604 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30589644 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30589684 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30589724 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30589764 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30589804 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30589844 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30589884 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30589924 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30589964 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30590004 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
30590044 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
*
30590084 CCGGGCTAAGTCCCGAAGGCATTTGAGCGA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGA
30590114 GTGGCTATAT
Statistics
Matches: 827, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 827 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
Found at i:30592894 original size:50 final size:50
Alignment explanation
Indices: 30592809--30593074 Score: 295
Period size: 50 Copynumber: 5.3 Consensus size: 50
30592799 GCTAAATGAC
* * * * * *
30592809 CTTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTGTATTGGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
* * *
30592859 CTTGAATATTCGGCCATGA-AGGTATGCACAAATGTGATATTATATTTGAAT
1 CTTGTATATTCGGCCAT-ATAGGTAAGCACATATGTGATATTATATTTG-AT
* * * * * *
30592910 -TTGTATATTCGGCCTTATAAGTAAGTACATATGGGATGTTAAATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
* **
30592959 CTTGCATATTCAACCATATAGGTAAGCACATATGTGATATT-TATTTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATA-TTTGAT
* *
30593009 CTTGCATATTCGGCCATATAGGTAAGCACATATATGATATTATATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
*
30593059 CTTGTATATTTGGCCA
1 CTTGTATATTCGGCCA
30593075 AATCAATGAT
Statistics
Matches: 180, Mismatches: 30, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
49 4 0.02
50 171 0.95
51 5 0.03
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (50 bp):
CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
Found at i:30596650 original size:27 final size:26
Alignment explanation
Indices: 30596604--30596663 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
30596594 GCGAGGCTGC
30596604 CAGATATTGTGACGAAGCCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * * *
30596631 CAGATATTGTGGCTAGGCCACTAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
30596657 CAGATAT
1 CAGATAT
30596664 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:30601344 original size:46 final size:46
Alignment explanation
Indices: 30601294--30601469 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
30601284 TGGTTGAGCA
30601294 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30601340 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
30601385 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
30601433 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30601470 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30601450 original size:93 final size:93
Alignment explanation
Indices: 30601291--30601461 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
30601281 GGATGGTTGA
* *
30601291 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30601356 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
30601384 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30601449 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
30601462 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30604429 original size:15 final size:15
Alignment explanation
Indices: 30604409--30604477 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
30604399 GTATCTTGGG
30604409 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
30604424 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
30604439 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
30604454 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
30604469 TTTCTTTAT
1 TTTCTTTAT
30604478 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:30604478 original size:30 final size:30
Alignment explanation
Indices: 30604400--30604487 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
30604390 CATAGTATCG
* * * *
30604400 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
30604430 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
30604460 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
30604488 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:30609606 original size:42 final size:43
Alignment explanation
Indices: 30609555--30609666 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 43
30609545 AAAATTCTTA
*
30609555 AGTGGTCCAAATTCATGATAT-ATG-TAGCATCCGAGCTCATTG
1 AGTGGTCCAAATTCATGAT-TGATGCGAGCATCCGAGCTCATTG
* * *
30609597 AGTGGTCCAAGTTCATTATTGATGCGAGCATCCGAGCTCGTTG
1 AGTGGTCCAAATTCATGATTGATGCGAGCATCCGAGCTCATTG
* * *
30609640 AGTGGTCCGAATTCATAATGGATGCGA
1 AGTGGTCCAAATTCATGATTGATGCGA
30609667 TATGTGTAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 20 0.33
43 39 0.65
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (43 bp):
AGTGGTCCAAATTCATGATTGATGCGAGCATCCGAGCTCATTG
Found at i:30613720 original size:58 final size:58
Alignment explanation
Indices: 30613651--30613761 Score: 163
Period size: 58 Copynumber: 1.9 Consensus size: 58
30613641 TCGAGTCAAA
*
30613651 GAATCATGTATGTAATTGAA-TATGTATAAGGCTAGATGAAAAAAATAGGAAAAATAAAT
1 GAATCATGTATGTAATT-AAGTATGTATAAGGCCAGATGAAAAAAA-AGGAAAAATAAAT
* *
30613710 GAAT-ATGTATGTAATTAAGTATGTATAAGGCCAGATTAAAAAAAAGGGAAAA
1 GAATCATGTATGTAATTAAGTATGTATAAGGCCAGATGAAAAAAAAGGAAAAA
30613762 CAGAGTTAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
57 9 0.19
58 35 0.73
59 4 0.08
ACGTcount: A:0.50, C:0.04, G:0.20, T:0.26
Consensus pattern (58 bp):
GAATCATGTATGTAATTAAGTATGTATAAGGCCAGATGAAAAAAAAGGAAAAATAAAT
Found at i:30619964 original size:46 final size:47
Alignment explanation
Indices: 30619836--30620000 Score: 155
Period size: 46 Copynumber: 3.5 Consensus size: 47
30619826 AGGCCGACGC
* * *
30619836 CATGTCCTAGACATGGTGTTACACTAGCTCTGACATATTTGT-GCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCT-T-ACAT-CTTGTAGCCGATG
* *
30619885 CCATATCCCAGACATGGTCTTACACT-GAC--ACATCTTGTAACCGATG
1 -CATGTCCCAGACATGGTCTTACACTAG-CTTACATCTTGTAGCCGATG
* * *
30619931 CATGTCCTAGACAT-GTCTTACACTAGCTTACATCTCG-AGGCCAATG
1 CATGTCCCAGACATGGTCTTACACTAGCTTACATCTTGTA-GCCGATG
30619977 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
30620001 GGCAACACAA
Statistics
Matches: 98, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
44 11 0.11
45 18 0.18
46 45 0.46
49 1 0.01
50 23 0.23
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTAGCTTACATCTTGTAGCCGATG
Found at i:30623453 original size:40 final size:39
Alignment explanation
Indices: 30623355--30623617 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
30623345 TCCTCGTTCA
* * * *
30623355 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
30623394 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
30623433 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
30623473 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
30623513 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
30623553 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
30623594 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
30623618 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:30623577 original size:120 final size:119
Alignment explanation
Indices: 30623355--30623617 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
30623345 TCCTCGTTCA
* * *
30623355 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
30623420 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
30623473 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
30623538 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
30623594 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
30623618 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:30623626 original size:41 final size:41
Alignment explanation
Indices: 30623549--30623626 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
30623539 TTTGTATCTC
* * *
30623549 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
30623590 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
30623627 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:30633018 original size:44 final size:45
Alignment explanation
Indices: 30632970--30633069 Score: 114
Period size: 46 Copynumber: 2.2 Consensus size: 45
30632960 CTAGACATGG
* **
30632970 TCTTACACTGAC-ACGTCTC-ATAGCTGATGCATGTCCCAGACATA
1 TCTTACACTGACTACATCTCGA-AGCCAATGCATGTCCCAGACATA
* * *
30633014 TCTTACACTGGCTTACATCTCGAGGCCAATGCATGTCCCAGACATG
1 TCTTACACTGAC-TACATCTCGAAGCCAATGCATGTCCCAGACATA
30633060 TCTTACACTG
1 TCTTACACTG
30633070 GCAACACAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
44 11 0.23
46 35 0.74
47 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (45 bp):
TCTTACACTGACTACATCTCGAAGCCAATGCATGTCCCAGACATA
Found at i:30634940 original size:17 final size:17
Alignment explanation
Indices: 30634918--30634964 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
30634908 AACCGCAACC
30634918 AATATTCTTTGGTTTTT
1 AATATTCTTTGGTTTTT
*
30634935 AATATTCCGTTT-ATTTTT
1 AATATT-C-TTTGGTTTTT
30634953 -ATATTCTTTGGT
1 AATATTCTTTGGT
30634965 ATGTAACCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
15 3 0.12
16 2 0.08
17 11 0.44
18 6 0.24
19 3 0.12
ACGTcount: A:0.19, C:0.09, G:0.11, T:0.62
Consensus pattern (17 bp):
AATATTCTTTGGTTTTT
Found at i:30639155 original size:26 final size:27
Alignment explanation
Indices: 30639118--30639169 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 27
30639108 AATTCAAATC
30639118 TTTATGAGTCATAATATATTTTAAGCT
1 TTTATGAGTCATAATATATTTTAAGCT
30639145 TTTATGA-TCATAATATATTTTAAGC
1 TTTATGAGTCATAATATATTTTAAGC
30639170 CAAATTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.48
Consensus pattern (27 bp):
TTTATGAGTCATAATATATTTTAAGCT
Found at i:30643196 original size:42 final size:40
Alignment explanation
Indices: 30643131--30643272 Score: 133
Period size: 42 Copynumber: 3.4 Consensus size: 40
30643121 ACTAAGATTA
*
30643131 CGTGTAAGACCATATCTAGGATATAGCATCGATATGAGACTT
1 CGTGTAAGACCATATCTA-GATAT-GCATCGATACGAGACTT
** *
30643173 CGTGTAAGACCATATCTGAGATATGACATCTTTAGGAGACTT
1 CGTGTAAGACCATATCT-AGATATG-CATCGATACGAGACTT
* *
30643215 TGTGTAAGACCATAGCTAGACTATTGGCATCGATACGAGA-TT
1 CGTGTAAGACCATATCTAGA-TA-T-GCATCGATACGAGACTT
* *
30643257 ACATGCAAGACCATAT
1 -CGTGTAAGACCATAT
30643273 TTGATATATG
Statistics
Matches: 82, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
41 4 0.05
42 54 0.66
43 23 0.28
44 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (40 bp):
CGTGTAAGACCATATCTAGATATGCATCGATACGAGACTT
Found at i:30643267 original size:85 final size:84
Alignment explanation
Indices: 30643132--30643286 Score: 206
Period size: 85 Copynumber: 1.8 Consensus size: 84
30643122 CTAAGATTAC
* * * *
30643132 GTGTAAGACCATATCTAGGATATAGCATCGATATGAGACTTCGTGTAAGACCATATCTGAGATAT
1 GTGTAAGACCATAGCTAGGATATAGCATCGATACGAGACTTCATGCAAGACCATATCTGAGATAT
30643197 GACATCTTTAGGAGACTTT
66 GACATCTTTAGGAGACTTT
* * *
30643216 GTGTAAGACCATAGCTA-GACTATTGGCATCGATACGAGA-TTACATGCAAGACCATATTTGATA
1 GTGTAAGACCATAGCTAGGA-TA-TAGCATCGATACGAGACTT-CATGCAAGACCATATCTGAGA
30643279 TATGACAT
63 TATGACAT
30643287 TGGTACGATA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
83 2 0.03
84 20 0.33
85 39 0.64
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (84 bp):
GTGTAAGACCATAGCTAGGATATAGCATCGATACGAGACTTCATGCAAGACCATATCTGAGATAT
GACATCTTTAGGAGACTTT
Found at i:30647776 original size:32 final size:32
Alignment explanation
Indices: 30647707--30647812 Score: 133
Period size: 32 Copynumber: 3.3 Consensus size: 32
30647697 CAGTTCTGTG
* * *
30647707 AAATGGTAACAAATATCAACTTTTCATTTTGTG
1 AAATGATAACAAATATCAAC-TTTAATTTTGTA
30647740 AAATGATAACAAAT-TACAACTTTAATTTTGTA
1 AAATGATAACAAATAT-CAACTTTAATTTTGTA
* * *
30647772 AAATGATAACAAATATTAGCTTTAATTTTTTA
1 AAATGATAACAAATATCAACTTTAATTTTGTA
30647804 AAATGATAA
1 AAATGATAA
30647813 TAATATTCCT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
32 47 0.72
33 18 0.28
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (32 bp):
AAATGATAACAAATATCAACTTTAATTTTGTA
Found at i:30650638 original size:12 final size:13
Alignment explanation
Indices: 30650597--30650643 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
30650587 GAATTAATTT
30650597 TTAAT-AAAAATA
1 TTAATAAAAAATA
** *
30650609 TTTTTAGAAAATA
1 TTAATAAAAAATA
30650622 TTAATAAAAAATA
1 TTAATAAAAAATA
30650635 -TAATAAAAA
1 TTAATAAAAA
30650644 TCTAATATAG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
12 12 0.43
13 16 0.57
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (13 bp):
TTAATAAAAAATA
Found at i:30652263 original size:19 final size:18
Alignment explanation
Indices: 30652239--30652274 Score: 63
Period size: 18 Copynumber: 1.9 Consensus size: 18
30652229 TATTAATATC
30652239 TTTTTCTTAGTTTTGGCCT
1 TTTTTC-TAGTTTTGGCCT
30652258 TTTTTCTAGTTTTGGCC
1 TTTTTCTAGTTTTGGCC
30652275 AATTGCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.06, C:0.17, G:0.17, T:0.61
Consensus pattern (18 bp):
TTTTTCTAGTTTTGGCCT
Found at i:30653494 original size:16 final size:18
Alignment explanation
Indices: 30653468--30653501 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
30653458 TTTAATTAGA
30653468 TAAATTAAATTTC-CAAT
1 TAAATTAAATTTCTCAAT
30653485 TAAA-TAAATTTCTCAAT
1 TAAATTAAATTTCTCAAT
30653502 CCAATTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAATTAAATTTCTCAAT
Found at i:30656168 original size:34 final size:35
Alignment explanation
Indices: 30656120--30656196 Score: 129
Period size: 34 Copynumber: 2.2 Consensus size: 35
30656110 ATCAAGATAT
* *
30656120 ATCATTTTAGAAGGCAATATATACACCAAACTAA-
1 ATCATTTTACAAGGCAATATACACACCAAACTAAC
30656154 ATCATTTTACAAGGCAATATACACACCAAACTAAC
1 ATCATTTTACAAGGCAATATACACACCAAACTAAC
30656189 ATCATTTT
1 ATCATTTT
30656197 CGAGCCATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 32 0.80
35 8 0.20
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (35 bp):
ATCATTTTACAAGGCAATATACACACCAAACTAAC
Found at i:30658881 original size:29 final size:29
Alignment explanation
Indices: 30658839--30658897 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
30658829 GCTATGTAAG
30658839 TATGTTTATAAGTTAGTAAATTACCGGGT
1 TATGTTTATAAGTTAGTAAATTACCGGGT
30658868 TATGTTTATAAGTTAGTAAATTACCGGGT
1 TATGTTTATAAGTTAGTAAATTACCGGGT
30658897 T
1 T
30658898 GCCGTGATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (29 bp):
TATGTTTATAAGTTAGTAAATTACCGGGT
Found at i:30665607 original size:40 final size:40
Alignment explanation
Indices: 30665545--30665710 Score: 269
Period size: 40 Copynumber: 4.2 Consensus size: 40
30665535 TTATTTAATG
* *
30665545 TGGAATGGTATCCGGGCTTAAAGACCCGCAGGATTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* * *
30665585 TAGAATCGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGT
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* *
30665625 TGGAATTGTATCTGGGCTTAAAGACCCGCAGGCTTCATGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
30665665 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
30665705 TGGAAT
1 TGGAAT
30665711 GACATCCGGG
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:30672297 original size:40 final size:39
Alignment explanation
Indices: 30672252--30672364 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 39
30672242 TTATTTGATG
30672252 TGGAATGGTATCCGTGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATGGTATCCG-GCTTAAAGACCCGCAGGCTTCGTGC
*
30672292 TGGAATCGTATCCGAGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATGGTATCCG-GCTTAAAGACCCGCAGGCTTCGTGC
** * * *
30672332 TGGAATGACATCCGGGTTAAAAACCTGCAGGCT
1 TGGAATGGTATCCGGCTTAAAGACCCGCAGGCT
30672365 GTGCTAGATA
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 16 0.25
40 49 0.75
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TGGAATGGTATCCGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:30676576 original size:47 final size:46
Alignment explanation
Indices: 30676292--30676598 Score: 200
Period size: 47 Copynumber: 6.6 Consensus size: 46
30676282 TTGCCGATGC
* *
30676292 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTGCTGACG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCATA-ATGCG-GCCGAAG
* * * * * *
30676341 CATGTCCTAGACATGTCTTACACTAG--CACA-ACT-CTTAGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATAATGC--GGCCGAAG
* * * * *
30676385 CGTGTCTCAGACACGTCTTACACTGGCTATCTC-T-GTCGAGGCC-AATG
1 CATGTCCCAGACATGTCTTACACTGGC--TCTCATAAT-GCGGCCGAA-G
* * * * * *
30676432 CATGTCCCAGGCATGTCTTACTCTGGCACTCATAATACAGCTGAAG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATAATGCGGCCGAAG
* * * * *
30676478 CATGTCCCAGACATGTCTTACACTAGCCCTCGT-CTG-GAAGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATAATGCG--GCCGAAG
*
30676524 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGCGGCCGAAG
*
30676572 CATGTCCCAAACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
30676599 GCACAAATGA
Statistics
Matches: 195, Mismatches: 44, Indels: 41
0.70 0.16 0.15
Matches are distributed among these distances:
43 1 0.01
44 27 0.14
45 5 0.03
46 54 0.28
47 57 0.29
48 35 0.18
49 15 0.08
50 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATAATGCGGCCGAAG
Found at i:30678870 original size:28 final size:28
Alignment explanation
Indices: 30678807--30678960 Score: 238
Period size: 28 Copynumber: 5.5 Consensus size: 28
30678797 ATATTAAGTC
*
30678807 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
30678834 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
30678862 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
30678890 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
30678918 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
30678947 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30678961 CAATCTCATG
Statistics
Matches: 118, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.65
29 19 0.16
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:30679424 original size:12 final size:12
Alignment explanation
Indices: 30679407--30679433 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30679397 TGGGCATACT
30679407 TATGTATATATA
1 TATGTATATATA
30679419 TATGTATATATA
1 TATGTATATATA
30679431 TAT
1 TAT
30679434 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:30690704 original size:85 final size:84
Alignment explanation
Indices: 30690556--30690725 Score: 270
Period size: 85 Copynumber: 2.0 Consensus size: 84
30690546 TTTTTTCTAG
* * * *
30690556 AATTTTTGGTCGAGCCAATTAGTACAGTTTATTAGCTAAATTCTCCCCTGTTTCAGGGTTCGACT
1 AATTTTTGGTCGAGCCAATTAGTACAGTTTATTAGCTAAAGTCTCCCATGTTACAGGGATCGACT
30690621 ACACTGACCTTTGCGCATT
66 ACACTGACCTTTGCGCATT
*
30690640 ANATTTTTGGTCGGGCCAATTAGTACAGTTTATTAG-TCAAAGTCTCCCATGTTACAGGGATCGA
1 A-ATTTTTGGTCGAGCCAATTAGTACAGTTTATTAGCT-AAAGTCTCCCATGTTACAGGGATCGA
30690704 CTACACTGACCTTTGCGCATT
64 CTACACTGACCTTTGCGCATT
30690725 A
1 A
30690726 CGACTTAAAT
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
84 2 0.03
85 77 0.97
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (84 bp):
AATTTTTGGTCGAGCCAATTAGTACAGTTTATTAGCTAAAGTCTCCCATGTTACAGGGATCGACT
ACACTGACCTTTGCGCATT
Found at i:30698147 original size:46 final size:46
Alignment explanation
Indices: 30698092--30698263 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
30698082 GTTGAGGCCA
* *
30698092 AAGCATGTCCCAGGCATGTCTTACTCTGGCACTCATAATATGGCTG
1 AAGCATGTCCCAGACATGTCTTACACTGGCACTCATAATATGGCTG
* * * * *
30698138 AAGCATGTCCCAGACATGTCTTACACTGGCCCTCGT-CTGGA-AGCCG
1 AAGCATGTCCCAGACATGTCTTACACTGGCACTCATAAT--ATGGCTG
* * * *
30698184 ATGCCATGTCCCAGCCATGGTCTTACACTGGCTCTCATAATGTGGCTG
1 AAG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATAATATGGCTG
*
30698232 AAGCATGTCCTAGACATGTCTTACACTGGCAC
1 AAGCATGTCCCAGACATGTCTTACACTGGCAC
30698264 ACAAATCACC
Statistics
Matches: 101, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
45 1 0.01
46 51 0.50
47 26 0.26
48 22 0.22
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (46 bp):
AAGCATGTCCCAGACATGTCTTACACTGGCACTCATAATATGGCTG
Found at i:30705000 original size:13 final size:13
Alignment explanation
Indices: 30704979--30705008 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
30704969 GGGCACATAC
*
30704979 CCGTGTGGGTAGG
1 CCGTATGGGTAGG
30704992 CCGTATGGGTAGG
1 CCGTATGGGTAGG
30705005 CCGT
1 CCGT
30705009 GTGCTTACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.20, G:0.47, T:0.23
Consensus pattern (13 bp):
CCGTATGGGTAGG
Found at i:30712545 original size:10 final size:10
Alignment explanation
Indices: 30712530--30712557 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
30712520 GTTTTATACT
30712530 TAGGAGAGCA
1 TAGGAGAGCA
30712540 TAGGAGAGCA
1 TAGGAGAGCA
30712550 TAGGAGAG
1 TAGGAGAG
30712558 TGAAAGGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.07, G:0.43, T:0.11
Consensus pattern (10 bp):
TAGGAGAGCA
Found at i:30716041 original size:18 final size:20
Alignment explanation
Indices: 30716005--30716051 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
30715995 AATTGTAAGT
30716005 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
30716025 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
30716044 ATGATATA
1 AT-ATATA
30716052 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:30716522 original size:50 final size:51
Alignment explanation
Indices: 30716403--30716534 Score: 160
Period size: 50 Copynumber: 2.6 Consensus size: 51
30716393 ATTGTGAGAA
* * *
30716403 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTG-TTAACACAGTTTTAGGT
* * *
30716455 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTG-TACCATA-TTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTTAACACAGTT-TTAGGT
* *
30716505 CGCATGTGTAGTACTAAGTGTAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
30716535 TGCGTGTAAC
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
49 2 0.03
50 37 0.53
52 31 0.44
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTTAACACAGTTTTAGGT
Found at i:30717839 original size:49 final size:49
Alignment explanation
Indices: 30717762--30717856 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
30717752 TCTATTGTGA
* *
30717762 GGTCACATGTGTAGTACTAAGTATAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAATT
* * *
30717811 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATA
30717857 GCTTTGGCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAATT
Found at i:30723989 original size:43 final size:42
Alignment explanation
Indices: 30723940--30724044 Score: 120
Period size: 43 Copynumber: 2.5 Consensus size: 42
30723930 CTAGATATGA
* * *
30723940 TCTTACATGTTATCACATACCGATGCCATTGTCCCACACAGGG
1 TCTTACATGTAATCACATA-CAATGCCAATGTCCCACACAGGG
* * * * *
30723983 TCTTACACGAAATCACAATACAATGCCAATGTCCTAGACATGG
1 TCTTACATGTAATCAC-ATACAATGCCAATGTCCCACACAGGG
30724026 TCTTACATGTAATCACATA
1 TCTTACATGTAATCACATA
30724045 TCGAGTCGAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
42 3 0.06
43 45 0.88
44 3 0.06
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (42 bp):
TCTTACATGTAATCACATACAATGCCAATGTCCCACACAGGG
Found at i:30727760 original size:68 final size:63
Alignment explanation
Indices: 30727613--30727760 Score: 165
Period size: 63 Copynumber: 2.3 Consensus size: 63
30727603 ATATAGTTCG
* *
30727613 GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGTGACCTAGCCAATTTATCTCGTA
1 GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGCGACCTAGCCAATATATCTCGTA
* * *
30727676 GCTCTCTTGT-CTACATGGTGTACACAT-AGTATCACCCATGCGACCTAGCTACATCATAATGTC
1 GCTCTCTTGTAC-ACATGGTGAACAC-TCAGTACCACCCATGCGACCTAGC--CA--AT-ATATC
*
30727739 TTGTA
59 TCGTA
30727744 GCTCTCTTGTACACATG
1 GCTCTCTTGTACACATG
30727761 ATGTGCACTC
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
62 1 0.01
63 42 0.59
64 1 0.01
65 2 0.03
67 2 0.03
68 22 0.31
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (63 bp):
GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGCGACCTAGCCAATATATCTCGTA
Found at i:30744616 original size:34 final size:35
Alignment explanation
Indices: 30744542--30744624 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 35
30744532 TTGTATACTG
* * *
30744542 TTACTATGATGGGCTAAAGCCCTACTGATTACTGA
1 TTACTGTGATGGGCTAAAGCCCAACTGATTACTCA
*
30744577 -GACTGTGATGGGCTAAAGCCCAAACTGA-TAC-CA
1 TTACTGTGATGGGCTAAAGCCC-AACTGATTACTCA
*
30744610 TTACTGTGAAGGGCT
1 TTACTGTGATGGGCT
30744625 TAGGCCCGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
33 1 0.03
34 34 0.85
35 5 0.12
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (35 bp):
TTACTGTGATGGGCTAAAGCCCAACTGATTACTCA
Found at i:30780314 original size:93 final size:93
Alignment explanation
Indices: 30780155--30780325 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
30780145 GCCCCTAAGT
30780155 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATAAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATAAACTCGGACTCAACTCAA
30780220 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
** * ** *
30780248 GAACTCGGACTCAACTCAACGAG-TTTGGACATTTGCATCCATATGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAATAAACTCGGACTCAACTCA
30780312 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
30780326 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 3 0.04
93 68 0.96
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATAAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:30780315 original size:46 final size:45
Alignment explanation
Indices: 30780152--30780318 Score: 153
Period size: 46 Copynumber: 3.6 Consensus size: 45
30780142 ACTGCCCCTA
* *
30780152 AGTGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAG-TTAGGACATTTGCATCCAT
* * * * *
30780197 AAATAAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T
1 -AGTGAACTCGGACTCAACTCAACGAGTTAGGA---C-ATTTGCATCCAT
* *
30780245 CA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTTGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTAGGACATTTGCATCCAT
30780290 ATGTGAACTCGGACTCAACTCAACGAGTT
1 A-GTGAACTCGGACTCAACTCAACGAGTT
30780319 CGGATGCTCA
Statistics
Matches: 98, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 4 0.04
46 49 0.50
47 27 0.28
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTAGGACATTTGCATCCAT
Found at i:30788214 original size:27 final size:27
Alignment explanation
Indices: 30788180--30788233 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
30788170 TTTAATAGAA
30788180 TTGATTGGTTTAATTTCAATTTTAATT
1 TTGATTGGTTTAATTTCAATTTTAATT
*
30788207 TTGATTGGTTTAATTTTAATTTTAATT
1 TTGATTGGTTTAATTTCAATTTTAATT
30788234 AAGATATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.61
Consensus pattern (27 bp):
TTGATTGGTTTAATTTCAATTTTAATT
Found at i:30799212 original size:27 final size:27
Alignment explanation
Indices: 30799181--30799358 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
30799171 TAAATTGTAC
30799181 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30799208 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30799234 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30799262 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
30799290 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * * *
30799317 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30799344 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30799359 GACTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30799242 original size:54 final size:55
Alignment explanation
Indices: 30799181--30799358 Score: 209
Period size: 54 Copynumber: 3.3 Consensus size: 55
30799171 TAAATTGTAC
* *
30799181 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAATTGAATATGAT
* * * * *
30799236 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGA-ATTGAATATGAT
* * * * *
30799290 AGCACTAAGTGTGCGATTTGATTACGTGGCACTAAATGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAATTGAATATGAT
*
30799344 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30799359 GACTCAATAT
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
54 61 0.59
55 43 0.41
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAATTGAATATGAT
Found at i:30799322 original size:82 final size:81
Alignment explanation
Indices: 30799182--30799337 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
30799172 AAATTGTACA
* * *
30799182 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
30799247 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
30799263 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAAT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAAT
*
30799327 GTGCGAGTTGA
64 GTGCGAATTGA
30799338 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:30799349 original size:82 final size:81
Alignment explanation
Indices: 30799178--30799358 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
30799168 GATTAAATTG
* *
30799178 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
30799243 GTGTGCGAATTGACCA
66 ATGTGCGAATTGACCA
* * ** *
30799259 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
30799323 AAATGTGCGAGTTGATTA
64 AAATGTGCGAATTGACCA
* *
30799341 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30799359 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
ATGTGCGAATTGACCA
Found at i:30802452 original size:53 final size:52
Alignment explanation
Indices: 30802352--30802513 Score: 165
Period size: 47 Copynumber: 3.1 Consensus size: 52
30802342 CCATGGCAAC
* *
30802352 ATGTGATATGTGATTTCCGTATAAGACCATAGT-TGGGCTATGACATCGGAGAG
1 ATGTGATATGTG-CTTCCGTATAAGACCATA-TCTGGGATATGACATCGGAGAG
* *
30802405 ATGTGATTATGTGCTTCCGTATAAGACCATATCTAGGATATGGCATC---G-G
1 ATGTGA-TATGTGCTTCCGTATAAGACCATATCTGGGATATGACATCGGAGAG
* * * *
30802454 -TGTGATATATGCTACTGTATAAGACCATATCTGGGATATGACATCAGTGAGAT
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGACATC-G-GAGAG
30802507 ATGTGAT
1 ATGTGAT
30802514 TCGTGTAAGA
Statistics
Matches: 90, Mismatches: 10, Indels: 17
0.77 0.09 0.15
Matches are distributed among these distances:
47 35 0.39
48 5 0.06
49 1 0.01
50 1 0.01
52 2 0.02
53 34 0.38
54 12 0.13
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (52 bp):
ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGACATCGGAGAG
Found at i:30802572 original size:48 final size:47
Alignment explanation
Indices: 30802352--30802605 Score: 206
Period size: 48 Copynumber: 5.2 Consensus size: 47
30802342 CCATGGCAAC
* * *
30802352 ATGTGATATGTGATTTCCGTATAAGACCATAGTTGGGCTATGACATCGGAGA
1 ATGTGATATGTGA--TCCGTATAAGACCATAGCTGGGATATGGCATC---GA
* * *
30802404 GATGTGATTATGTGCTTCCGTATAAGACCATATCTAGGATATGGCATCG-
1 -ATGTGA-TATGTG-ATCCGTATAAGACCATAGCTGGGATATGGCATCGA
* * * * * *
30802453 GTGTGATATATGCTACTGTATAAGACCATATCTGGGATATGACATC-A
1 ATGTGATATGTGAT-CCGTATAAGACCATAGCTGGGATATGGCATCGA
* * * * *
30802500 GTGAGATATGTGATTCGTGTAAGACCATAGCTGGGTTATGGCATCGA
1 ATGTGATATGTGATCCGTATAAGACCATAGCTGGGATATGGCATCGA
* * * *
30802547 TATGTGATATATGATCCGTGTAAGACCATAGCTGGGCTATGGTATCGA
1 -ATGTGATATGTGATCCGTATAAGACCATAGCTGGGATATGGCATCGA
30802595 TATGTGATATG
1 -ATGTGATATG
30802606 GGATTATGTG
Statistics
Matches: 167, Mismatches: 28, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
46 26 0.16
47 45 0.27
48 56 0.34
50 1 0.01
53 33 0.20
54 6 0.04
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (47 bp):
ATGTGATATGTGATCCGTATAAGACCATAGCTGGGATATGGCATCGA
Found at i:30808343 original size:46 final size:46
Alignment explanation
Indices: 30808293--30808558 Score: 253
Period size: 46 Copynumber: 5.7 Consensus size: 46
30808283 TGGTTGAACA
*
30808293 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* * *
30808339 TCCGAACTCGTTGAGTTGAGTCTGAG-T---TTGTGAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--AGG
**
30808384 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATT
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* * *
30808432 TCCGAACTCGTTGAGTTGAGTCTGAG-T---TTGTGAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--AGG
* * *
30808477 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
*
30808525 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
30808559 GGGGCGGGTT
Statistics
Matches: 180, Mismatches: 21, Indels: 38
0.75 0.09 0.16
Matches are distributed among these distances:
42 8 0.04
43 12 0.07
45 6 0.03
46 80 0.44
47 50 0.28
48 5 0.03
50 11 0.06
51 8 0.04
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
Found at i:30808406 original size:47 final size:47
Alignment explanation
Indices: 30808339--30808506 Score: 211
Period size: 47 Copynumber: 3.6 Consensus size: 47
30808329 GATGCAAATG
*
30808339 TCCGAACTCGTTGAGTTGAGTCTGAGTTTGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTTGTGAGATGTAACTAGGCA
* * **
30808386 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--TT
1 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATGTAACTAGGCA
*
30808432 TCCGAACTCGTTGAGTTGAGTCTGAGTTTGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTTGTGAGATGTAACTAGGCA
30808479 TCCGAACTCGTTGAGTTGAGTCCGAGTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTT
30808507 CATTTATGGA
Statistics
Matches: 101, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 2 0.02
46 25 0.25
47 52 0.51
48 2 0.02
50 6 0.06
51 4 0.04
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTTGTGAGATGTAACTAGGCA
Found at i:30808450 original size:93 final size:93
Alignment explanation
Indices: 30808291--30808552 Score: 445
Period size: 93 Copynumber: 2.8 Consensus size: 93
30808281 GATGGTTGAA
*
30808291 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATCTCCGAACTCGTTGAGTT
30808356 GAGTCTGAGTTTGTGAGATGTAACTAGG
66 GAGTCTGAGTTTGTGAGATGTAACTAGG
*
30808384 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATTTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATCTCCGAACTCGTTGAGTT
30808449 GAGTCTGAGTTTGTGAGATGTAACTAGG
66 GAGTCTGAGTTTGTGAGATGTAACTAGG
* * * *
30808477 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-CGCTCGAGCTCGTTGAGT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATCTC-CGAACTCGTTGAGT
*
30808541 TGAGTCCGAGTT
65 TGAGTCTGAGTT
30808553 CACTTAGGGG
Statistics
Matches: 161, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
92 1 0.01
93 160 0.99
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATCTCCGAACTCGTTGAGTT
GAGTCTGAGTTTGTGAGATGTAACTAGG
Found at i:30808820 original size:19 final size:20
Alignment explanation
Indices: 30808783--30808820 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
30808773 ATAAGGTGGT
30808783 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
30808803 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
30808821 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:30812768 original size:40 final size:40
Alignment explanation
Indices: 30812713--30813699 Score: 1857
Period size: 40 Copynumber: 24.7 Consensus size: 40
30812703 AGCATTGGAT
30812713 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
30812753 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
30812793 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
30812833 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
30812873 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
30812913 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
30812953 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
30812993 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
30813033 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
30813073 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
30813113 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
30813153 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
30813193 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
30813233 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
30813273 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
30813313 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
30813353 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
30813393 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
30813433 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
30813473 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
* ** *
30813513 TATAGCCGGGCTGTGACCCAAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
30813553 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
* ** *
30813593 TATAGCCGGGCTGTGACCCAAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
30813633 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
* *
30813673 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
30813700 ATGTGTTTGC
Statistics
Matches: 924, Mismatches: 23, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 924 1.00
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
Found at i:30819652 original size:61 final size:61
Alignment explanation
Indices: 30819557--30819678 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 61
30819547 GATACTGAAG
* *
30819557 AAATAAGTATCGATATTTTTCTAATAGGTATTGATATGAGAATCTGTATTGATACCATTTT
1 AAATAAGTATCCATATTTTTCTAATAGGTATTGATATGAAAATCTGTATTGATACCATTTT
*
30819618 AAATAAGTATCCCTATTTTTCTAATAGGTATTGATATGAAAATCTGTATTGATACCATTTT
1 AAATAAGTATCCATATTTTTCTAATAGGTATTGATATGAAAATCTGTATTGATACCATTTT
30819679 TTCATTCTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (61 bp):
AAATAAGTATCCATATTTTTCTAATAGGTATTGATATGAAAATCTGTATTGATACCATTTT
Found at i:30823650 original size:31 final size:31
Alignment explanation
Indices: 30823612--30823672 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
30823602 TTATCAATAT
30823612 TTGACAAAAAATATCAATACCAAATCGATAC
1 TTGACAAAAAATATCAATACCAAATCGATAC
*
30823643 TTGACAAAAAGTATCAATACCAAATCGATA
1 TTGACAAAAAATATCAATACCAAATCGATA
30823673 TTTTTGGCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.51, C:0.18, G:0.08, T:0.23
Consensus pattern (31 bp):
TTGACAAAAAATATCAATACCAAATCGATAC
Found at i:30824835 original size:19 final size:20
Alignment explanation
Indices: 30824803--30824841 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
30824793 TTTAAACTTT
* *
30824803 ATTATAAATTAAAAATTATA
1 ATTATAAATAAAAAAATATA
30824823 ATTA-AAATAAAAAAATATA
1 ATTATAAATAAAAAAATATA
30824842 CCCTTCAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATTATAAATAAAAAAATATA
Found at i:30831559 original size:54 final size:53
Alignment explanation
Indices: 30831473--30831578 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 53
30831463 TGGCTGCCAG
* *
30831473 AACAGATAATGTGACAGAGTCACCGATACAGATAATCGTGGCAAAGCCACCAA
1 AACAGAAAATGTGACAGAGCCACCGATACAGATAATCGTGGCAAAGCCACCAA
* * *
30831526 AACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCA
1 AACAGAAA-ATGTGACAGAGCCACC-GATACAGATAATCGTGGCAAAGCCACCA
30831579 GGACGCTTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
53 7 0.15
54 36 0.78
55 3 0.07
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.16
Consensus pattern (53 bp):
AACAGAAAATGTGACAGAGCCACCGATACAGATAATCGTGGCAAAGCCACCAA
Found at i:30831579 original size:27 final size:27
Alignment explanation
Indices: 30831469--30831579 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
30831459 AGCATGGCTG
* *
30831469 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
30831495 CC-GATACAGATAATCGTGGCAAAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
*
30831522 CCAAAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
30831549 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
30831576 CCAG
1 CCAG
30831580 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
25 2 0.03
26 13 0.19
27 51 0.73
28 4 0.06
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:30833022 original size:24 final size:24
Alignment explanation
Indices: 30832995--30833065 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
30832985 CTAGATTTCC
**
30832995 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
30833019 TCCCTTACCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
30833043 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
30833066 CTCCTGACAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.25, C:0.39, G:0.01, T:0.34
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:30837950 original size:27 final size:27
Alignment explanation
Indices: 30837919--30838023 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
30837909 TTGCCAGAAT
* *
30837919 AGATAATGTGACAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
*
30837946 AGATAATCATGGCAGAGCCACCAGA-AC
1 AGATAAT-GTGGCAGAGCCACCAGATAC
*
30837973 AGAAATATGTGGCAGAGCCACCAGAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
* *
30838000 AGATTATTGTGGCATAGCCACCAG
1 AGA-TAATGTGGCAGAGCCACCAG
30838024 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
27 49 0.74
28 17 0.26
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:30839467 original size:24 final size:24
Alignment explanation
Indices: 30839440--30839510 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
30839430 CTAGATTTCC
**
30839440 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
30839464 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
* *
30839488 TCGCTTATCAACTCCGAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
30839511 CTTCTGACAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.25, C:0.37, G:0.04, T:0.34
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Done.