Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 107 of 172
Found at i:30868280 original size:24 final size:24
Alignment explanation
Indices: 30868253--30868300 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
30868243 CTTACTTTAG
30868253 TTTCTTATTATTCGTTATTTTGCC
1 TTTCTTATTATTCGTTATTTTGCC
30868277 TTTCTTATTATTCGTTATTTTGCC
1 TTTCTTATTATTCGTTATTTTGCC
30868301 GTATGATTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.17, G:0.08, T:0.62
Consensus pattern (24 bp):
TTTCTTATTATTCGTTATTTTGCC
Found at i:30869916 original size:45 final size:44
Alignment explanation
Indices: 30869846--30870186 Score: 230
Period size: 45 Copynumber: 7.6 Consensus size: 44
30869836 TAAAATCTGT
* * *
30869846 CACTGGGCTGTGGATACACAACAAAAATTCTCAGATTAAACTTGC
1 CACTAGGCTGTGGATACACAGCAAAAATTCT-AGATGAAACTTGC
* * *
30869891 CACT-GGACTGTGGGTACATAGC-AAAATATCATAGATAAAAGC-TGC
1 CACTAGG-CTGTGGATACACAGCAAAAAT-TC-TAGATGAAA-CTTGC
* * *
30869936 CACTAGGCTATAGATACACAGCAAAAATTCATAGATGAAACCTGC
1 CACTAGGCTGTGGATACACAGCAAAAATTC-TAGATGAAACTTGC
* * * * *
30869981 CACT-GGACTGTGGATGCACAACAAAATATTGCT-GATAAAATTTGT
1 CACTAGG-CTGTGGATACACAGCAAAA-ATT-CTAGATGAAACTTGC
* * * *
30870026 CACTAGGCTATGGATACATAGTAAAAATTCGTAGATGATACTTGC
1 CACTAGGCTGTGGATACACAGCAAAAATTC-TAGATGAAACTTGC
* * * * *
30870071 CACTAGACTATTGG-TACACAAC-AAAATATCACAGAT-AAAATATGC
1 CACTAGGCT-GTGGATACACAGCAAAAAT-TC-TAGATGAAACT-TGC
* * * *
30870116 CATTAGGTTGTGGATACACAGCAAAAATTCGCAGATGAAACTTGT
1 CACTAGGCTGTGGATACACAGCAAAAATTC-TAGATGAAACTTGC
* *
30870161 CACTAGGCTGTGGGTACACAACAAAA
1 CACTAGGCTGTGGATACACAGCAAAA
30870187 TATCGAAGAT
Statistics
Matches: 230, Mismatches: 47, Indels: 38
0.73 0.15 0.12
Matches are distributed among these distances:
43 1 0.00
44 25 0.11
45 176 0.77
46 27 0.12
47 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (44 bp):
CACTAGGCTGTGGATACACAGCAAAAATTCTAGATGAAACTTGC
Found at i:30870117 original size:135 final size:133
Alignment explanation
Indices: 30869833--30870200 Score: 345
Period size: 135 Copynumber: 2.7 Consensus size: 133
30869823 CTAATTTTAT
* * *
30869833 AGATAAAATCTGTCACTGGGCTGTGGATACACAACAAAAATT-CTCAGATTAAACTTGCCACT-G
1 AGATAAAATCTGCCACT-GGCTGTGGATACACAACAAAAATTGCT--GATAAAACTTGTCACTAG
* * *
30869896 GACTGTGGGTACATAGCAAAATATCATAGATAAAAGCTGCCACTAGGCTATAGATACACAGCAAA
63 G-CTGTGGGTACATAGAAAAATATCATAGATAAAAGCTGCCACTAGACTATAGATACACAACAAA
*
30869961 AATTCAT
127 AATTCAC
* * * *
30869968 AGATGAAACCTGCCACTGGACTGTGGATGCACAACAAAATATTGCTGATAAAATTTGTCACTAGG
1 AGATAAAATCTGCCACTGG-CTGTGGATACACAACAAAA-ATTGCTGATAAAACTTGTCACTAGG
* * * * * * *
30870033 CTATGGATACATAGTAAAAAT-TCGTAGATGATA-CTTGCCACTAGACTATTGGTACACAAC-AA
64 CTGTGGGTACATAG-AAAAATATCATAGATAAAAGC-TGCCACTAGACTATAGATACACAACAAA
30870095 AATATCAC
127 AAT-TCAC
* * * * * *
30870103 AGATAAAATATGCCATTAGGTTGTGGATACACAGCAAAAATTCGCAGATGAAACTTGTCACTAGG
1 AGATAAAATCTGCCACT-GGCTGTGGATACACAACAAAAATT-GCTGATAAAACTTGTCACTAGG
*
30870168 CTGTGGGTACACA-ACAAAATATCGA-AGATAAAA
64 CTGTGGGTACATAGA-AAAATATC-ATAGATAAAA
30870201 TCTGTCATTG
Statistics
Matches: 187, Mismatches: 34, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
133 1 0.01
134 16 0.09
135 156 0.83
136 12 0.06
137 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (133 bp):
AGATAAAATCTGCCACTGGCTGTGGATACACAACAAAAATTGCTGATAAAACTTGTCACTAGGCT
GTGGGTACATAGAAAAATATCATAGATAAAAGCTGCCACTAGACTATAGATACACAACAAAAATT
CAC
Found at i:30870216 original size:90 final size:90
Alignment explanation
Indices: 30869833--30870207 Score: 421
Period size: 90 Copynumber: 4.2 Consensus size: 90
30869823 CTAATTTTAT
* * * *
30869833 AGATAAAATCTGTCACTGGGCTGTGGATACACAACAAAAATTCTCAGATTAAACTTGCCACTGGA
1 AGATAAAATCTGTCACTAGGCTGTGGATACACAGCAAAAATTCGCAGATGAAACTTGCCACTGGA
* * *
30869898 CTGTGGGTACATAGCAAAATATCAT
66 CTGTGGGTACACAACAAAATATCAC
* * * * ** *
30869923 AGATAAAAGCTGCCACTAGGCTATAGATACACAGCAAAAATTCATAGATGAAACCTGCCACTGGA
1 AGATAAAATCTGTCACTAGGCTGTGGATACACAGCAAAAATTCGCAGATGAAACTTGCCACTGGA
* * **
30869988 CTGTGGATGCACAACAAAATATTGC
66 CTGTGGGTACACAACAAAATATCAC
* * * * * * * *
30870013 TGATAAAATTTGTCACTAGGCTATGGATACATAGTAAAAATTCGTAGATGATACTTGCCACTAGA
1 AGATAAAATCTGTCACTAGGCTGTGGATACACAGCAAAAATTCGCAGATGAAACTTGCCACTGGA
* *
30870078 CTATTGGTACACAACAAAATATCAC
66 CTGTGGGTACACAACAAAATATCAC
* * * * *
30870103 AGATAAAATATGCCATTAGGTTGTGGATACACAGCAAAAATTCGCAGATGAAACTTGTCACTAGG
1 AGATAAAATCTGTCACTAGGCTGTGGATACACAGCAAAAATTCGCAGATGAAACTTGCCACT-GG
30870168 -CTGTGGGTACACAACAAAATATCGA-
65 ACTGTGGGTACACAACAAAATATC-AC
30870193 AGATAAAATCTGTCA
1 AGATAAAATCTGTCA
30870208 TTGGGTTGTA
Statistics
Matches: 233, Mismatches: 50, Indels: 4
0.81 0.17 0.01
Matches are distributed among these distances:
90 231 0.99
91 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (90 bp):
AGATAAAATCTGTCACTAGGCTGTGGATACACAGCAAAAATTCGCAGATGAAACTTGCCACTGGA
CTGTGGGTACACAACAAAATATCAC
Found at i:30870226 original size:45 final size:45
Alignment explanation
Indices: 30870085--30870228 Score: 141
Period size: 45 Copynumber: 3.2 Consensus size: 45
30870075 AGACTATTGG
* *
30870085 TACACAACAAAATATC-ACAGATAAAATATGCCATTAGGTTGTGGA
1 TACACAACAAAATATCGA-AGATAAAATCTGTCATTAGGTTGTGGA
* * * * * *
30870130 TACACAGCAAAA-ATTCGCAGATGAAA-CTTGTCACTAGGCTGTGGG
1 TACACAACAAAATA-TCGAAGATAAAATC-TGTCATTAGGTTGTGGA
* *
30870175 TACACAACAAAATATCGAAGATAAAATCTGTCATTGGGTTGTAGA
1 TACACAACAAAATATCGAAGATAAAATCTGTCATTAGGTTGTGGA
*
30870220 TGCACAACA
1 TACACAACA
30870229 TATTTGTAGG
Statistics
Matches: 77, Mismatches: 17, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
44 1 0.01
45 74 0.96
46 2 0.03
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (45 bp):
TACACAACAAAATATCGAAGATAAAATCTGTCATTAGGTTGTGGA
Found at i:30870807 original size:28 final size:28
Alignment explanation
Indices: 30870749--30870967 Score: 228
Period size: 28 Copynumber: 7.9 Consensus size: 28
30870739 AAAATTTTGA
30870749 GCAAAACTATAAAATCTAAAAAAATAGGG
1 GCAAAACTATAAAATCT-AAAAAATAGGG
30870778 GCAAAACTATAAAATCTAAAAAATAGGG
1 GCAAAACTATAAAATCTAAAAAATAGGG
* *
30870806 GCAAAATTATAAAATCTAAAAAA-ATGG
1 GCAAAACTATAAAATCTAAAAAATAGGG
* * ** *
30870833 GAAAAATTATAAAATCTAAAAGTTAAGG
1 GCAAAACTATAAAATCTAAAAAATAGGG
* * *
30870861 GTAAAACTATAAAATCTAGAAAATATGG
1 GCAAAACTATAAAATCTAAAAAATAGGG
* * * * *
30870889 GAAAAATTGTAAAAT-TAAAAAAAAGGA
1 GCAAAACTATAAAATCTAAAAAATAGGG
* *
30870916 G-AAAACTGTAAAATTTAAAAAATAGGG
1 GCAAAACTATAAAATCTAAAAAATAGGG
* * *
30870943 ACAAAATTATAAAATCTGAAAAATA
1 GCAAAACTATAAAATCTAAAAAATA
30870968 AGAAACATAC
Statistics
Matches: 160, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
26 12 0.08
27 42 0.26
28 89 0.56
29 17 0.11
ACGTcount: A:0.59, C:0.06, G:0.13, T:0.21
Consensus pattern (28 bp):
GCAAAACTATAAAATCTAAAAAATAGGG
Found at i:30870852 original size:55 final size:56
Alignment explanation
Indices: 30870749--30870967 Score: 250
Period size: 55 Copynumber: 3.9 Consensus size: 56
30870739 AAAATTTTGA
* *
30870749 GCAAAACTATAAAATCTAAAAAAATAGGGGCAAAACTATAAAATCTAAAAAATAGGG
1 GCAAAACTATAAAATCTAAAAAAATA-GGGAAAAATTATAAAATCTAAAAAATAGGG
* ** *
30870806 GCAAAATTATAAAATCTAAAAAAAT-GGGAAAAATTATAAAATCTAAAAGTTAAGG
1 GCAAAACTATAAAATCTAAAAAAATAGGGAAAAATTATAAAATCTAAAAAATAGGG
* * * * *
30870861 GTAAAACTATAAAATCT-AGAAAATATGGGAAAAATTGTAAAAT-TAAAAAAAAGGA
1 GCAAAACTATAAAATCTAAAAAAATA-GGGAAAAATTATAAAATCTAAAAAATAGGG
* * *
30870916 G-AAAACTGTAAAAT-TTAAAAAATAGGGACAAAATTATAAAATCTGAAAAATA
1 GCAAAACTATAAAATCTAAAAAAATAGGGA-AAAATTATAAAATCTAAAAAATA
30870968 AGAAACATAC
Statistics
Matches: 137, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
53 5 0.04
54 37 0.27
55 55 0.40
56 16 0.12
57 24 0.18
ACGTcount: A:0.59, C:0.06, G:0.13, T:0.21
Consensus pattern (56 bp):
GCAAAACTATAAAATCTAAAAAAATAGGGAAAAATTATAAAATCTAAAAAATAGGG
Found at i:30870884 original size:83 final size:84
Alignment explanation
Indices: 30870751--30870967 Score: 255
Period size: 83 Copynumber: 2.6 Consensus size: 84
30870741 AATTTTGAGC
* *
30870751 AAAACTATAAAATCTAAAAAAATAGGGGCAAAACTATAAAATCTAAAAAATAGGGGCAAAATTAT
1 AAAACTATAAAATCTAAAAAAATAAGGGCAAAACTATAAAATCTAAAAAATAGGGGAAAAATTAT
*
30870816 AAAATCTAAAAAAATGG-GA
66 AAAAT-TAAAAAAAAGGAGA
* ** * * * *
30870835 AAAATTATAAAATCT-AAAAGTTAAGGGTAAAACTATAAAATCTAGAAAATATGGGAAAAATTGT
1 AAAACTATAAAATCTAAAAAAATAAGGGCAAAACTATAAAATCTAAAAAATAGGGGAAAAATTAT
30870899 AAAATTAAAAAAAAGGAG-
66 AAAATTAAAAAAAAGGAGA
* * * *
30870917 AAAACTGTAAAAT-TTAAAAAAT-AGGGACAAAATTATAAAATCTGAAAAATA
1 AAAACTATAAAATCTAAAAAAATAAGGG-CAAAACTATAAAATCTAAAAAATA
30870968 AGAAACATAC
Statistics
Matches: 112, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
81 5 0.04
82 46 0.41
83 47 0.42
84 14 0.12
ACGTcount: A:0.59, C:0.06, G:0.13, T:0.22
Consensus pattern (84 bp):
AAAACTATAAAATCTAAAAAAATAAGGGCAAAACTATAAAATCTAAAAAATAGGGGAAAAATTAT
AAAATTAAAAAAAAGGAGA
Found at i:30876838 original size:12 final size:12
Alignment explanation
Indices: 30876815--30876849 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
30876805 ACTTTAATCT
30876815 TTTTTATTATTG
1 TTTTTATTATTG
30876827 TTATTT-TTATTG
1 TT-TTTATTATTG
30876839 TTTTTATTATT
1 TTTTTATTATT
30876850 ACTTTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 3 0.14
12 15 0.71
13 3 0.14
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (12 bp):
TTTTTATTATTG
Found at i:30876857 original size:11 final size:10
Alignment explanation
Indices: 30876827--30876877 Score: 54
Period size: 9 Copynumber: 5.2 Consensus size: 10
30876817 TTTATTATTG
30876827 TTATT-TTTA
1 TTATTCTTTA
*
30876836 TTGTT-TTTA
1 TTATTCTTTA
30876845 TTATTACTTTA
1 TTATT-CTTTA
30876856 TTATTC-TTA
1 TTATTCTTTA
30876865 TTATTCTTGTA
1 TTATTCTT-TA
30876876 TT
1 TT
30876878 TCTTACTAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
9 21 0.58
10 2 0.06
11 13 0.36
ACGTcount: A:0.20, C:0.06, G:0.04, T:0.71
Consensus pattern (10 bp):
TTATTCTTTA
Found at i:30876857 original size:20 final size:20
Alignment explanation
Indices: 30876832--30876949 Score: 59
Period size: 21 Copynumber: 6.0 Consensus size: 20
30876822 TATTGTTATT
* *
30876832 TTTATTGTTTTTATTATTAC
1 TTTATTATTCTTATTATTAC
30876852 TTTATTATTCTTATTATT-C
1 TTTATTATTCTTATTATTAC
*
30876871 TTGTA-T-TTCTTACTA--AC
1 TT-TATTATTCTTATTATTAC
* * * *
30876888 TTTGTT-TTCATTGTCATTAGG
1 TTTATTATTC-TTATTATTA-C
* *
30876909 TTTCATTATTATTATTATTAT
1 TTT-ATTATTCTTATTATTAC
*
30876930 TATTATTATTATTATTATTA
1 T-TTATTATTCTTATTATTA
30876950 TTCGTATTAA
Statistics
Matches: 75, Mismatches: 13, Indels: 19
0.70 0.12 0.18
Matches are distributed among these distances:
16 1 0.01
17 7 0.09
18 11 0.15
19 4 0.05
20 19 0.25
21 20 0.27
22 11 0.15
23 2 0.03
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTATTATTCTTATTATTAC
Found at i:30876921 original size:3 final size:3
Alignment explanation
Indices: 30876913--30876951 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
30876903 ATTAGGTTTC
30876913 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
30876952 CGTATTAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:30878468 original size:12 final size:12
Alignment explanation
Indices: 30878448--30878489 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
30878438 TATTTCATGT
*
30878448 TTATGTTTATTG
1 TTATTTTTATTG
30878460 TTATTTTTA--G
1 TTATTTTTATTG
*
30878470 TTCTTTTTATTG
1 TTATTTTTATTG
30878482 TTATTTTT
1 TTATTTTT
30878490 TTAGACTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
10 9 0.36
12 16 0.64
ACGTcount: A:0.14, C:0.02, G:0.10, T:0.74
Consensus pattern (12 bp):
TTATTTTTATTG
Found at i:30883921 original size:21 final size:20
Alignment explanation
Indices: 30883896--30883966 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
30883886 AGTTTATTTC
30883896 ATTAAGCTTATTTATATTTTA
1 ATTAAGCTTATTT-TATTTTA
* * *
30883917 ATTAATCATGTTTTAGTTTTA
1 ATTAAGCTTATTTTA-TTTTA
* * *
30883938 ATTAATCTTAATTTA-CTTA
1 ATTAAGCTTATTTTATTTTA
30883957 ATTAAGCTTA
1 ATTAAGCTTA
30883967 ATTGTTAATT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 12 0.29
20 2 0.05
21 27 0.66
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.54
Consensus pattern (20 bp):
ATTAAGCTTATTTTATTTTA
Found at i:30884380 original size:57 final size:57
Alignment explanation
Indices: 30884311--30884422 Score: 179
Period size: 57 Copynumber: 2.0 Consensus size: 57
30884301 TTACGTTATT
**
30884311 TGAGAATTTACAATTCTGAAAGTTAGAATATGAAAGTTTAACTATTCAAAAATCATA
1 TGAGAATTTACAATTCTGAAAAATAGAATATGAAAGTTTAACTATTCAAAAATCATA
* * *
30884368 TGAGAATTTACAATTTTGAAAAATAGAATATGAAAGTTTTACTGTTCAAAAATCA
1 TGAGAATTTACAATTCTGAAAAATAGAATATGAAAGTTTAACTATTCAAAAATCA
30884423 AGGACTAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (57 bp):
TGAGAATTTACAATTCTGAAAAATAGAATATGAAAGTTTAACTATTCAAAAATCATA
Found at i:30884420 original size:29 final size:29
Alignment explanation
Indices: 30884334--30884420 Score: 74
Period size: 29 Copynumber: 3.0 Consensus size: 29
30884324 TTCTGAAAGT
*
30884334 TAGAATATGAAAGTTTAACTATTCAAAAA
1 TAGAATATGAAAGTTTTACTATTCAAAAA
* * *
30884363 T--CATATGAGAA--TTTACAATTTTGAAAAA
1 TAGAATATGA-AAGTTTTAC--TATTCAAAAA
*
30884391 TAGAATATGAAAGTTTTACTGTTCAAAAA
1 TAGAATATGAAAGTTTTACTATTCAAAAA
30884420 T
1 T
30884421 CAAGGACTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 14
0.68 0.11 0.22
Matches are distributed among these distances:
26 4 0.09
27 6 0.14
28 11 0.25
29 12 0.27
30 6 0.14
31 5 0.11
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.34
Consensus pattern (29 bp):
TAGAATATGAAAGTTTTACTATTCAAAAA
Found at i:30884859 original size:37 final size:37
Alignment explanation
Indices: 30884807--30884877 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
30884797 TTGGATAATG
* *
30884807 ATTTTCTTTAGTAATTTATTTTCCACCAAACAAAATA
1 ATTTTCTTTAATAATTCATTTTCCACCAAACAAAATA
30884844 ATTTTCTTTAATAATTCATTTTCCACCAAACAAA
1 ATTTTCTTTAATAATTCATTTTCCACCAAACAAA
30884878 CATACCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.38, C:0.18, G:0.01, T:0.42
Consensus pattern (37 bp):
ATTTTCTTTAATAATTCATTTTCCACCAAACAAAATA
Found at i:30885377 original size:16 final size:16
Alignment explanation
Indices: 30885340--30885379 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
30885330 TTAATAAAAT
* *
30885340 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
30885356 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
30885372 TAAAATTA
1 TAAAATTA
30885380 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:30885412 original size:59 final size:65
Alignment explanation
Indices: 30885346--30885510 Score: 216
Period size: 68 Copynumber: 2.6 Consensus size: 65
30885336 AAATTAAAAC
*
30885346 TAATTGTTATTAAAAT-T-A-A-TTG-TTAGTAAAATTATCAAATTATTAATTG-TTAATTGTAT
1 TAATTGTTAATAAAATCTAACATTTGATTAGTAAAATTATCAAATTATTAATTGATTAATTGTAT
*
30885405 TAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTGTATTAATTG
1 TAATTG-T-TAATAAAATCTAACATTTGATTAGTAAAATTATCAAATTATTAATTG-ATTAATTG
30885470 TAT
63 TAT
*
30885473 TAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAA
1 TAATTG-T-TAATAAAATCTAACATTTGATTAGTAAAA
30885511 CAAACTTGAT
Statistics
Matches: 93, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
59 6 0.06
60 1 0.01
61 8 0.09
62 1 0.01
63 1 0.01
64 1 0.01
65 3 0.03
66 26 0.28
68 46 0.49
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.45
Consensus pattern (65 bp):
TAATTGTTAATAAAATCTAACATTTGATTAGTAAAATTATCAAATTATTAATTGATTAATTGTAT
Found at i:30885452 original size:66 final size:67
Alignment explanation
Indices: 30885368--30885510 Score: 252
Period size: 68 Copynumber: 2.1 Consensus size: 67
30885358 AAATTAATTG
*
30885368 TTAGTAAAATTATCAAATTATTAATTG-TTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
1 TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
30885432 GA
66 GA
*
30885434 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTG-ATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
30885499 TGA
65 TGA
30885502 TTAGTAAAA
1 TTAGTAAAA
30885511 CAAACTTGAT
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
66 26 0.36
68 46 0.64
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (67 bp):
TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
GA
Found at i:30885464 original size:9 final size:9
Alignment explanation
Indices: 30885452--30885479 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
30885442 TTTATCAAAT
30885452 TATTAATTG
1 TATTAATTG
30885461 TATTAATTG
1 TATTAATTG
30885470 TATTAATTG
1 TATTAATTG
30885479 T
1 T
30885480 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:30885626 original size:23 final size:24
Alignment explanation
Indices: 30885579--30885624 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
30885569 AAATAAACTT
30885579 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
30885603 AAAATAAAAAA-TATATATATTT
1 AAAATAAAAAACTAT-TATATTT
30885625 AATATTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:30889660 original size:18 final size:18
Alignment explanation
Indices: 30889627--30889662 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30889617 TTACTTGACT
*
30889627 TGCCCGTGTGATCACACA
1 TGCCCGTGTGACCACACA
*
30889645 TGCCCGTGTGCCCACACA
1 TGCCCGTGTGACCACACA
30889663 ACCTACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.39, G:0.22, T:0.19
Consensus pattern (18 bp):
TGCCCGTGTGACCACACA
Found at i:30892104 original size:49 final size:50
Alignment explanation
Indices: 30892045--30892149 Score: 151
Period size: 49 Copynumber: 2.1 Consensus size: 50
30892035 CGTGGCCGTA
* * *
30892045 TGGGCCACACGGGCTAGGCCAGAT-TGGGCGTGTAGG-GCACACAGGCATG
1 TGGGCCACACGGGCAAGGCCA-ATCTGGGCGTGTAGGCCCACACAAGCATG
*
30892094 TGGGCTACACGGGCAAGGCCAATCTGGGCGTGTAGGCCCACACAAGCATG
1 TGGGCCACACGGGCAAGGCCAATCTGGGCGTGTAGGCCCACACAAGCATG
30892144 TGGGCC
1 TGGGCC
30892150 CAAAATTTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
48 2 0.04
49 31 0.63
50 16 0.33
ACGTcount: A:0.21, C:0.27, G:0.38, T:0.14
Consensus pattern (50 bp):
TGGGCCACACGGGCAAGGCCAATCTGGGCGTGTAGGCCCACACAAGCATG
Found at i:30899241 original size:32 final size:32
Alignment explanation
Indices: 30899172--30899254 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
30899162 TGAGTGTGGC
* * *
30899172 CGTGT-GGCCACATAGGCTAGGCCAGATTTGG
1 CGTGTGGGCCACATGGGCAAGGCCAGATTCGG
*
30899203 CATGTGGGCCACATGGGCAAGGCCA-ATCTCGG
1 CGTGTGGGCCACATGGGCAAGGCCAGAT-TCGG
*
30899235 CGTGTGGGCACACACGGGCA
1 CGTGTGGGC-CACATGGGCA
30899255 TGTTGGCCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
31 6 0.14
32 28 0.65
33 9 0.21
ACGTcount: A:0.20, C:0.27, G:0.36, T:0.17
Consensus pattern (32 bp):
CGTGTGGGCCACATGGGCAAGGCCAGATTCGG
Found at i:30900648 original size:40 final size:40
Alignment explanation
Indices: 30900593--30900756 Score: 265
Period size: 40 Copynumber: 4.1 Consensus size: 40
30900583 TGTTATACTC
30900593 TCTGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
1 TCTGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
* * *
30900633 TCTGTCTAGTGTGTTTCAGTTGGATTAGCTCCTATGAGCT
1 TCTGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
* *
30900673 TCTGTCTGGTGTGTTTTGGTTGGATTAGCTCTTATGAGAT
1 TCTGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
* *
30900713 TCTGTCTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCA
1 TCTGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
30900753 TCTG
1 TCTG
30900757 GTGTGTTTTG
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 112 1.00
ACGTcount: A:0.12, C:0.15, G:0.29, T:0.44
Consensus pattern (40 bp):
TCTGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
Found at i:30901576 original size:32 final size:32
Alignment explanation
Indices: 30901540--30901602 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
30901530 GTGTGGGTCG
*
30901540 CACGGGCT-AGGCCAGAT-TGGGTGGGTGGGCCA
1 CACGGG-TAAGGCCA-ATCTGGGTAGGTGGGCCA
*
30901572 CACGGGTAAGGCCAATCTGGGTATGTGGGCC
1 CACGGGTAAGGCCAATCTGGGTAGGTGGGCC
30901603 CGTAATTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 3 0.11
32 24 0.89
ACGTcount: A:0.17, C:0.22, G:0.43, T:0.17
Consensus pattern (32 bp):
CACGGGTAAGGCCAATCTGGGTAGGTGGGCCA
Found at i:30912193 original size:15 final size:16
Alignment explanation
Indices: 30912173--30912206 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
30912163 GGTAATTGAC
30912173 AAAAAAAGA-AAAAAG
1 AAAAAAAGAGAAAAAG
*
30912188 AAAAAAAGAGAGAAAG
1 AAAAAAAGAGAAAAAG
30912204 AAA
1 AAA
30912207 TAAATGGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAGAAAAAG
Found at i:30912203 original size:16 final size:16
Alignment explanation
Indices: 30912173--30912224 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
30912163 GGTAATTGAC
*
30912173 AAAAAAAGA-AAAAAG
1 AAAAAAAGAGAGAAAG
30912188 AAAAAAAGAGAGAAAG
1 AAAAAAAGAGAGAAAG
* *
30912204 AAATAAATG-GAGACAG
1 AAA-AAAAGAGAGAAAG
30912220 AAAAA
1 AAAAA
30912225 TAAAAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 11 0.34
16 17 0.53
17 4 0.12
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (16 bp):
AAAAAAAGAGAGAAAG
Found at i:30912674 original size:34 final size:34
Alignment explanation
Indices: 30912614--30912679 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
30912604 TCCTATAAAT
* *
30912614 AATCCTTATTATAATAAAGTCCAATTAGCATAGA
1 AATCCTTATTATAAAAAAATCCAATTAGCATAGA
*
30912648 AATCCTTA-TACTAAAAAAATCTAATTAGCATA
1 AATCCTTATTA-TAAAAAAATCCAATTAGCATA
30912680 AATTGTAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 2 0.07
34 26 0.93
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (34 bp):
AATCCTTATTATAAAAAAATCCAATTAGCATAGA
Found at i:30914124 original size:14 final size:14
Alignment explanation
Indices: 30914105--30914157 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 14
30914095 AGACATTTTA
*
30914105 TTTTTCAAAAGCGC
1 TTTTTCAAAAGCAC
*
30914119 TTTTTCATAA-CAC
1 TTTTTCAAAAGCAC
* *
30914132 TTTTTTAAAAACAC
1 TTTTTCAAAAGCAC
30914146 -TTTTCAAAAGCA
1 TTTTTCAAAAGCA
30914158 ATGCTAAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
13 20 0.62
14 12 0.38
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.40
Consensus pattern (14 bp):
TTTTTCAAAAGCAC
Found at i:30915274 original size:63 final size:64
Alignment explanation
Indices: 30915157--30915279 Score: 176
Period size: 63 Copynumber: 1.9 Consensus size: 64
30915147 GCTGTGTGTT
* *
30915157 AGGCTGTGTAACTCACTATTTTGGAATTAGAGTCACACAGGCTAGAAACACAGG-CATGTGTCC
1 AGGCCGTGTAACTCACTATTTTGGAATTAGAGTCACACAGGCCAGAAACACAGGCCATGTGTCC
* * ** *
30915220 AGGCCGTGTGACTCACTATTTTGGAATTAGAGTCACATAGGCCAGCCACCCAGGCCATGT
1 AGGCCGTGTAACTCACTATTTTGGAATTAGAGTCACACAGGCCAGAAACACAGGCCATGT
30915280 CAATCCACAC
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
63 47 0.90
64 5 0.10
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (64 bp):
AGGCCGTGTAACTCACTATTTTGGAATTAGAGTCACACAGGCCAGAAACACAGGCCATGTGTCC
Found at i:30915653 original size:76 final size:76
Alignment explanation
Indices: 30915524--30915672 Score: 262
Period size: 76 Copynumber: 2.0 Consensus size: 76
30915514 TAAGGTATGT
* *
30915524 TGTTGACACTATTTTTTGATAAAACGGGGTCAACTTGGGTTTTGAAAAATGAAAACGAAAGTGGG
1 TGTTGACACCATTTTTTGATAAAACGGGGTCAACTTGGGTTTTGAAAAATGAAAACAAAAGTGGG
30915589 AGTCGCCAAGC
66 AGTCGCCAAGC
* *
30915600 TGTTGACACCATTTTTTGATAAAACGGGGTCGACTTGGGTTTTGAAAATTGAAAACAAAAGTGGG
1 TGTTGACACCATTTTTTGATAAAACGGGGTCAACTTGGGTTTTGAAAAATGAAAACAAAAGTGGG
30915665 AGTCGCCA
66 AGTCGCCA
30915673 CCAATCCTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 69 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (76 bp):
TGTTGACACCATTTTTTGATAAAACGGGGTCAACTTGGGTTTTGAAAAATGAAAACAAAAGTGGG
AGTCGCCAAGC
Found at i:30916277 original size:108 final size:109
Alignment explanation
Indices: 30915941--30916278 Score: 565
Period size: 109 Copynumber: 3.1 Consensus size: 109
30915931 TGGATTAAGA
*
30915941 TTTAAGAGGATATTTGGCTATTTGGTCGAACGAG--AAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
*
30916004 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTGTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
* *
30916048 TTTAAAAGGATATTTGACTATTTGGTCGAACGAGAAAAATCGAAACCTAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
30916113 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
* * *
30916157 TTTAAAACGATATTTGGCTATTTGGTCGAATGAGAAAAATCGAAACCCAGCATATTA-GGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* * *
30916221 TTTCTCGAATTTTCAAACGCAAAATATTGCCTTATTTTAAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
30916265 TTTAAAAGGATATT
1 TTTAAAAGGATATT
30916279 AGTATGCATA
Statistics
Matches: 216, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
107 32 0.15
108 61 0.28
109 123 0.57
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (109 bp):
TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
Found at i:30923150 original size:76 final size:76
Alignment explanation
Indices: 30923059--30923220 Score: 315
Period size: 76 Copynumber: 2.1 Consensus size: 76
30923049 CTTCCCCAGT
30923059 GGAGTCGCCAAGCTGTTGACACCATTTTTTGATAAAACGGGGTCGACTTGGGTTTTGAAAAATGA
1 GGAGTCGCCAAGCTGTTGACACCATTTTTTGATAAAACGGGGTCGACTTGGGTTTTGAAAAATGA
30923124 AAACGAAAGTG
66 AAACGAAAGTG
30923135 GGAGTCGCCAAGCTGTTGACACCATTTTTTGATAAAACGGGGTCGACTTGGGTTTTGAAAAATGA
1 GGAGTCGCCAAGCTGTTGACACCATTTTTTGATAAAACGGGGTCGACTTGGGTTTTGAAAAATGA
30923200 AAACGAAAGTG
66 AAACGAAAGTG
*
30923211 GAAGTCGCCA
1 GGAGTCGCCA
30923221 CTAATCCTTT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 85 1.00
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.25
Consensus pattern (76 bp):
GGAGTCGCCAAGCTGTTGACACCATTTTTTGATAAAACGGGGTCGACTTGGGTTTTGAAAAATGA
AAACGAAAGTG
Found at i:30923678 original size:109 final size:109
Alignment explanation
Indices: 30923489--30923827 Score: 610
Period size: 109 Copynumber: 3.1 Consensus size: 109
30923479 TGGATTAAGA
* *
30923489 TTTAAGAGGATATTTAGCTATTTGGTCGAACGAG--AAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
*
30923552 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAACT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
30923596 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
30923661 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
* *
30923705 TTTAAAAGGATATTTGGTTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACAT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
30923770 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
*
30923814 TTTAAAGGGATATT
1 TTTAAAAGGATATT
30923828 AGTATGCGTA
Statistics
Matches: 224, Mismatches: 6, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
107 32 0.14
109 192 0.86
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (109 bp):
TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
Found at i:30924442 original size:3 final size:3
Alignment explanation
Indices: 30924434--30924463 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
30924424 TAAATGAATA
30924434 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
30924464 GGTATAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:30926440 original size:26 final size:26
Alignment explanation
Indices: 30926410--30926460 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
30926400 TCTTCTATTT
30926410 TGTTATAAGATCGTTATGAAAATCTA
1 TGTTATAAGATCGTTATGAAAATCTA
*
30926436 TGTTATACGATCGTTATGAAAATCT
1 TGTTATAAGATCGTTATGAAAATCT
30926461 CTGTGATACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (26 bp):
TGTTATAAGATCGTTATGAAAATCTA
Found at i:30926469 original size:26 final size:26
Alignment explanation
Indices: 30926418--30926469 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
30926408 TTTGTTATAA
*
30926418 GATCGTTATGAAAATCTATGTTATAC
1 GATCGTTATGAAAATCTATGTGATAC
*
30926444 GATCGTTATGAAAATCTCTGTGATAC
1 GATCGTTATGAAAATCTATGTGATAC
30926470 TCTGATTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (26 bp):
GATCGTTATGAAAATCTATGTGATAC
Found at i:30929909 original size:32 final size:32
Alignment explanation
Indices: 30929849--30929909 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
30929839 TTTTTTAATA
* *
30929849 TTTATATTATATATTAGTATAAATATAAATTT
1 TTTATATTATAAATTAGTATAAACATAAATTT
*
30929881 TTTATGTTATAAATTA-TATAATACATAAA
1 TTTATATTATAAATTAGTATAA-ACATAAA
30929910 AATAACATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 5 0.20
32 20 0.80
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (32 bp):
TTTATATTATAAATTAGTATAAACATAAATTT
Found at i:30940164 original size:13 final size:13
Alignment explanation
Indices: 30940146--30940172 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30940136 ACAACACGTG
30940146 AAACATTAGAAAC
1 AAACATTAGAAAC
30940159 AAACATTAGAAAC
1 AAACATTAGAAAC
30940172 A
1 A
30940173 CTTCGGTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.15, G:0.07, T:0.15
Consensus pattern (13 bp):
AAACATTAGAAAC
Found at i:30941524 original size:21 final size:22
Alignment explanation
Indices: 30941489--30941541 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
30941479 TCAAATAAAA
* *
30941489 TAATAATATTTATATTTATTAT
1 TAATAATATTAATATATATTAT
*
30941511 TAAT-ATATTAATATATATTTT
1 TAATAATATTAATATATATTAT
30941532 TCAATAATAT
1 T-AATAATAT
30941542 ATTAAGAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 15 0.58
22 7 0.27
23 4 0.15
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAATATTAATATATATTAT
Found at i:30941678 original size:13 final size:15
Alignment explanation
Indices: 30941644--30941680 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
30941634 TGTATATTTA
*
30941644 ATAATATTGAATATT
1 ATAATATTTAATATT
30941659 ATAATATTTAAT-TT
1 ATAATATTTAATATT
30941673 -TAATATTT
1 ATAATATTT
30941681 TAACATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.38
14 2 0.10
15 11 0.52
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
ATAATATTTAATATT
Found at i:30941679 original size:21 final size:19
Alignment explanation
Indices: 30941653--30941696 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
30941643 AATAATATTG
*
30941653 AATATTATAATATTTAATTTT
1 AATATTATAACATTT--TTTT
*
30941674 AATATTTTAACATTTTTTT
1 AATATTATAACATTTTTTT
30941693 AATA
1 AATA
30941697 AAATATCTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
21 13 0.62
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
AATATTATAACATTTTTTT
Found at i:30943584 original size:114 final size:114
Alignment explanation
Indices: 30943452--30943824 Score: 423
Period size: 114 Copynumber: 3.3 Consensus size: 114
30943442 CGTTTTTAAA
* *
30943452 AAAACGCCGTAAAAGAACA-TCATTAGTGGCGTTTATTTGTAAGCGCCGCAAAATACCTTAACCA
1 AAAACGCCGCAAAAGAACAGT-ATTAGTGGCGTTTATTTATAAGCGCCGCAAAATACCTTAACCA
* *
30943516 AAACGCAGCGTTTTGTTTTGAGGTATATTAGAATTCGTGGCGTTTACGAT
65 AAACGCAACGTTTTGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAT
* ** * * *
30943566 AAAACGCCGCAAAAGAACAGTATTAGCGGCGTATTA-CAAAAAGCGCCTC-AAATATCTTAACCA
1 AAAACGCCGCAAAAGAACAGTATTAGTGGCGT-TTATTTATAAGCGCCGCAAAATACCTTAACCA
* * * ** * *** *
30943629 AAACGCACCG-TTTGATCTTGAGGTAGATTAGTGTTTGTGGCGTTTTTAAA
65 AAACGCAACGTTTTG-TTTTGAGGTATATTAGAATTAGTGGCGTTTACGAT
* * * *
30943679 AAAACGCCGTAAAAGAACA-TCGTTAGTGGCGTTTATTTTTAAACGCCGCAAAATACCTTAACCA
1 AAAACGCCGCAAAAGAACAGT-ATTAGTGGCGTTTATTTATAAGCGCCGCAAAATACCTTAACCA
* *
30943743 AAACGCAACGTTTGGTTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
65 AAACGCAACGTTTTGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAT
* *
30943793 AAAACGCCACTAAAGAACAGTATTAGTGGCGT
1 AAAACGCCGCAAAAGAACAGTATTAGTGGCGT
30943825 ATTACAAAAA
Statistics
Matches: 207, Mismatches: 44, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
112 8 0.04
113 82 0.40
114 109 0.53
115 8 0.04
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (114 bp):
AAAACGCCGCAAAAGAACAGTATTAGTGGCGTTTATTTATAAGCGCCGCAAAATACCTTAACCAA
AACGCAACGTTTTGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAT
Found at i:30943670 original size:113 final size:114
Alignment explanation
Indices: 30943436--30943915 Score: 429
Period size: 113 Copynumber: 4.2 Consensus size: 114
30943426 CCCGAACAAC
*** * ****
30943436 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACA-TCATTAGTGGCGT-TTATTTGTAAGCGCC
1 TAGTGGCGTTTACGAAAAAACGCCGCAAAAGAACAGT-ATTAGTGGCGTATTA-CAAAAAGCGCC
* * *
30943499 GCAAAATACCTTAACCAAAACGCAGCGTTTTGTTTTGAGGTATATTAGAAT
64 GCAAAATACCTTAACCAAAACGCACCGTTTGGTTTTGAGGTAGATTAGAAT
* * * *
30943550 TCGTGGCGTTTACGATAAAACGCCGCAAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCCTC
1 TAGTGGCGTTTACGAAAAAACGCCGCAAAAGAACAGTATTAGTGGCGTATTACAAAAAGCGCCGC
* * * **
30943615 -AAATATCTTAACCAAAACGCACCGTTTGATCTTGAGGTAGATTAGTGT
66 AAAATACCTTAACCAAAACGCACCGTTTGGTTTTGAGGTAGATTAGAAT
* *** * * ***
30943663 TTGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACA-TCGTTAGTGGCGT-TTATTTTTAAA-CGC
1 TAGTGGCGTTTACGAAAAAACGCCGCAAAAGAACAGT-ATTAGTGGCGTATTA--CAAAAAGCGC
* * *
30943725 CGCAAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATTAAAAT
63 CGCAAAATACCTTAACCAAAACGCACCGTTTGGTTTTGAGGTAGATTAGAAT
* * * *
30943777 TAGTGGCGTTTACGATAAAACGCCACTAAAGAACAGTATTAGTGGCGTATTACAAAAAGCGCCAC
1 TAGTGGCGTTTACGAAAAAACGCCGCAAAAGAACAGTATTAGTGGCGTATTACAAAAAGCGCCGC
** * * **
30943842 -AAATATCGGT-ACTAAAACGCACCGTTTGGTGTTGAGG-AGGATTAGTGT
66 AAAATA-CCTTAACCAAAACGCACCGTTTGGTTTTGAGGTA-GATTAGAAT
* **
30943890 TAGTGGCGCTTATTAAAAAACGCCGC
1 TAGTGGCGTTTACGAAAAAACGCCGC
30943916 CAAATATCGG
Statistics
Matches: 288, Mismatches: 67, Indels: 23
0.76 0.18 0.06
Matches are distributed among these distances:
112 5 0.02
113 141 0.49
114 134 0.47
115 8 0.03
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (114 bp):
TAGTGGCGTTTACGAAAAAACGCCGCAAAAGAACAGTATTAGTGGCGTATTACAAAAAGCGCCGC
AAAATACCTTAACCAAAACGCACCGTTTGGTTTTGAGGTAGATTAGAAT
Found at i:30943833 original size:227 final size:227
Alignment explanation
Indices: 30943436--30943914 Score: 757
Period size: 227 Copynumber: 2.1 Consensus size: 227
30943426 CCCGAACAAC
*
30943436 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAACGCCGC
* * * *
30943501 AAAATACCTTAACCAAAACGCAGCGTTTTGTTTTGAGGTATATTAGAATTCGTGGCGTTTACGAT
66 AAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
* * *
30943566 AAAACGCCGCAAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCCTCAAATATC-TTAACCAA
131 AAAACGCCACAAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCCACAAATATCGGT-ACCAA
30943630 AACGCACCGTTTGATCTTGAGGTA-GATTAGTGT
195 AACGCACCGTTTGATCTTGAGG-AGGATTAGTGT
* * *
30943663 TTGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCGTTAGTGGCGTTTATTTTTAAACGCCGC
1 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAACGCCGC
30943728 AAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
66 AAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
* * *
30943793 AAAACGCCACTAAAGAACAGTATTAGTGGCGTATTACAAAAAGCGCCACAAATATCGGTACTAAA
131 AAAACGCCACAAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCCACAAATATCGGTACCAAA
* *
30943858 ACGCACCGTTTGGTGTTGAGGAGGATTAGTGT
196 ACGCACCGTTTGATCTTGAGGAGGATTAGTGT
*
30943890 TAGTGGCGCTTATT-AAAAAACGCCG
1 TAGTGGCG-TTTTTAAAAAAACGCCG
30943915 CCAAATATCG
Statistics
Matches: 231, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
226 1 0.00
227 225 0.97
228 5 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (227 bp):
TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAACGCCGC
AAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
AAAACGCCACAAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCCACAAATATCGGTACCAAA
ACGCACCGTTTGATCTTGAGGAGGATTAGTGT
Found at i:30946775 original size:44 final size:45
Alignment explanation
Indices: 30946698--30946791 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 45
30946688 GCTTCTATTA
*
30946698 TTGTTCATTACTATTTTTTTTGACTGGTTTAGGGTGTTAAGAACT
1 TTGTTCATTACTATTTTTTTTGAATGGTTTAGGGTGTTAAGAACT
*
30946743 TTGTTCATTACTA-TTTTTTTGAATGGTTTAGGGTGTTAGGAACT
1 TTGTTCATTACTATTTTTTTTGAATGGTTTAGGGTGTTAAGAACT
*
30946787 GTGTT
1 TTGTT
30946792 TAACTATTGT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 33 0.72
45 13 0.28
ACGTcount: A:0.19, C:0.07, G:0.22, T:0.51
Consensus pattern (45 bp):
TTGTTCATTACTATTTTTTTTGAATGGTTTAGGGTGTTAAGAACT
Found at i:30946805 original size:44 final size:44
Alignment explanation
Indices: 30946707--30946806 Score: 132
Period size: 44 Copynumber: 2.3 Consensus size: 44
30946697 ATTGTTCATT
* * *
30946707 ACTATTTTTTTTGACTGGTTTAGGGTGTTAAGAACTTTGTTCATT
1 ACTATTTTTTTTGAATGGTTTAGGGTGTTAAGAACTGTGTT-ATA
*
30946752 ACTA-TTTTTTTGAATGGTTTAGGGTGTTAGGAACTGTGTT-TA
1 ACTATTTTTTTTGAATGGTTTAGGGTGTTAAGAACTGTGTTATA
30946794 ACTATTGTTTTTT
1 ACTATT-TTTTTT
30946807 TTCTCCAGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
42 5 0.10
43 1 0.02
44 39 0.80
45 4 0.08
ACGTcount: A:0.20, C:0.07, G:0.21, T:0.52
Consensus pattern (44 bp):
ACTATTTTTTTTGAATGGTTTAGGGTGTTAAGAACTGTGTTATA
Found at i:30948038 original size:17 final size:17
Alignment explanation
Indices: 30948016--30948065 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
30948006 TTAATATCTA
30948016 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
30948033 TATAAGTTTTCT-AA--
1 TATAAGTTTTCTAAATT
30948047 -ATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
30948063 TAT
1 TAT
30948066 TTGTATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.38
14 2 0.07
16 2 0.07
17 14 0.48
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:30948052 original size:13 final size:13
Alignment explanation
Indices: 30948034--30948061 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30948024 TTCTAAATTT
30948034 ATAAGTTTTCTAA
1 ATAAGTTTTCTAA
30948047 ATAAGTTTTCTAA
1 ATAAGTTTTCTAA
30948060 AT
1 AT
30948062 TTATTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (13 bp):
ATAAGTTTTCTAA
Found at i:30948092 original size:15 final size:15
Alignment explanation
Indices: 30948057--30948095 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
30948047 ATAAGTTTTC
*
30948057 TAAATTTATTTGTAT
1 TAAATTTATTAGTAT
30948072 TAAAATTTATTAGTAT
1 T-AAATTTATTAGTAT
30948088 TAAATTTA
1 TAAATTTA
30948096 CTTCGTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (15 bp):
TAAATTTATTAGTAT
Found at i:30948138 original size:62 final size:61
Alignment explanation
Indices: 30948027--30948175 Score: 165
Period size: 62 Copynumber: 2.4 Consensus size: 61
30948017 ATAAGTTTTC
* *** * * *
30948027 TAAATTTATAAGTTTTCTAAATAAGTTTTCTAAATTTATTTGTATTAAAATTTAT-TAGTAT
1 TAAATTTATAAGTTTTCTAAATAAGTGTTCTAAATTTAGGAGAAATAAAATATATGT-GTAT
** *
30948088 TAAATTTACTTCGTTTTCTAAATAAGTGTTCTAAATTTGGGAGAAATAAAATATATGTGTAT
1 TAAATTTA-TAAGTTTTCTAAATAAGTGTTCTAAATTTAGGAGAAATAAAATATATGTGTAT
* *
30948150 TAAGTTTATAAGTTTTCTACATAAGT
1 TAAATTTATAAGTTTTCTAAATAAGT
30948176 TACATAATAC
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
61 23 0.32
62 48 0.67
63 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (61 bp):
TAAATTTATAAGTTTTCTAAATAAGTGTTCTAAATTTAGGAGAAATAAAATATATGTGTAT
Found at i:30948326 original size:9 final size:9
Alignment explanation
Indices: 30948312--30948667 Score: 275
Period size: 9 Copynumber: 40.8 Consensus size: 9
30948302 TATGTTATAA
*
30948312 TACATAACC
1 TACATAACT
*
30948321 TACATAAAT
1 TACATAACT
30948330 TA-AGTAACT
1 TACA-TAACT
30948339 TACATAACT
1 TACATAACT
*
30948348 TACATAAACC
1 TACAT-AACT
* *
30948358 TGCATAAAT
1 TACATAACT
*
30948367 TAAATAACT
1 TACATAACT
30948376 TACATAACT
1 TACATAACT
*
30948385 TACATAACC
1 TACATAACT
*
30948394 TACATAAAT
1 TACATAACT
30948403 TA-AGTAACT
1 TACA-TAACT
30948412 TACATAACT
1 TACATAACT
*
30948421 TACATAAAT
1 TACATAACT
30948430 TA-AGTAACT
1 TACA-TAACT
30948439 TACATAACT
1 TACATAACT
30948448 TACATAAACT
1 TACAT-AACT
* *
30948458 TGCATAAAT
1 TACATAACT
*
30948467 TAAATAACT
1 TACATAACT
30948476 TACATAACT
1 TACATAACT
*
30948485 TACATAACC
1 TACATAACT
*
30948494 TACATAAAT
1 TACATAACT
30948503 TA-AGTAACT
1 TACA-TAACT
*
30948512 TACACAACT
1 TACATAACT
*
30948521 TACATTA--
1 TACATAACT
30948528 TACATAACCT
1 TACATAA-CT
*
30948538 T-CTTAACT
1 TACATAACT
*
30948546 TACATTA-T
1 TACATAACT
*
30948554 T-CACAACT
1 TACATAACT
*
30948562 CACATAA-T
1 TACATAACT
30948570 TA-AT-A-T
1 TACATAACT
*
30948576 TAACACAACT
1 T-ACATAACT
30948586 TACATAA--
1 TACATAACT
*
30948593 TACATTACT
1 TACATAACT
30948602 TACATAACT
1 TACATAACT
*
30948611 TACATTACT
1 TACATAACT
30948620 TACAGT-ACT
1 TACA-TAACT
30948629 TACATAA--
1 TACATAACT
30948636 TACATAA--
1 TACATAACT
30948643 TACATAACT
1 TACATAACT
*
30948652 TACATTACT
1 TACATAACT
30948661 TACATAA
1 TACATAA
30948668 TACATAAAAA
Statistics
Matches: 275, Mismatches: 46, Indels: 52
0.74 0.12 0.14
Matches are distributed among these distances:
6 3 0.01
7 32 0.12
8 14 0.05
9 203 0.74
10 23 0.08
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.33
Consensus pattern (9 bp):
TACATAACT
Found at i:30948393 original size:73 final size:71
Alignment explanation
Indices: 30948312--30948525 Score: 291
Period size: 73 Copynumber: 3.1 Consensus size: 71
30948302 TATGTTATAA
*
30948312 TACATAACCTACATAAATTAAGTAACTTACATAACTTACATAAACCTGCATAAATTAAATAACTT
1 TACATAACCTACATAAATTAAGTAACTTACATAACTTACAT-AACCT-CATAAATTAAGTAACTT
30948377 ACATAACT
64 ACATAACT
30948385 TACATAACCTACATAAATTAAGTAACTTACATAAC-T---T-A---CATAAATTAAGTAACTTAC
1 TACATAACCTACATAAATTAAGTAACTTACATAACTTACATAACCTCATAAATTAAGTAACTTAC
30948442 ATAACT
66 ATAACT
* * *
30948448 TACATAAACTTGCATAAATTAAATAACTTACATAACTTACATAACCTACATAAATTAAGTAACTT
1 TACAT-AACCTACATAAATTAAGTAACTTACATAACTTACATAACCT-CATAAATTAAGTAACTT
*
30948513 ACACAACT
64 ACATAACT
30948521 TACAT
1 TACAT
30948526 TATACATAAC
Statistics
Matches: 126, Mismatches: 5, Indels: 20
0.83 0.03 0.13
Matches are distributed among these distances:
63 29 0.23
64 27 0.21
65 1 0.01
67 1 0.01
68 1 0.01
69 2 0.02
72 1 0.01
73 64 0.51
ACGTcount: A:0.48, C:0.19, G:0.03, T:0.31
Consensus pattern (71 bp):
TACATAACCTACATAAATTAAGTAACTTACATAACTTACATAACCTCATAAATTAAGTAACTTAC
ATAACT
Found at i:30948431 original size:100 final size:100
Alignment explanation
Indices: 30948312--30948525 Score: 401
Period size: 100 Copynumber: 2.1 Consensus size: 100
30948302 TATGTTATAA
*
30948312 TACATAACCTACATAAATTAAGTAACTTACATAACTTACATAAACCTGCATAAATTAAATAACTT
1 TACATAACTTACATAAATTAAGTAACTTACATAACTTACATAAACCTGCATAAATTAAATAACTT
30948377 ACATAACTTACATAACCTACATAAATTAAGTAACT
66 ACATAACTTACATAACCTACATAAATTAAGTAACT
*
30948412 TACATAACTTACATAAATTAAGTAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTT
1 TACATAACTTACATAAATTAAGTAACTTACATAACTTACATAAACCTGCATAAATTAAATAACTT
30948477 ACATAACTTACATAACCTACATAAATTAAGTAACT
66 ACATAACTTACATAACCTACATAAATTAAGTAACT
*
30948512 TACACAACTTACAT
1 TACATAACTTACAT
30948526 TATACATAAC
Statistics
Matches: 111, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 111 1.00
ACGTcount: A:0.48, C:0.19, G:0.03, T:0.31
Consensus pattern (100 bp):
TACATAACTTACATAAATTAAGTAACTTACATAACTTACATAAACCTGCATAAATTAAATAACTT
ACATAACTTACATAACCTACATAAATTAAGTAACT
Found at i:30948653 original size:32 final size:33
Alignment explanation
Indices: 30948602--30948674 Score: 112
Period size: 32 Copynumber: 2.2 Consensus size: 33
30948592 ATACATTACT
*
30948602 TACATAACTTACATTACTTACAGTACTTACATAA
1 TACATAAC-TACATAACTTACAGTACTTACATAA
*
30948636 TACATAA-TACATAACTTACATTACTTACATAA
1 TACATAACTACATAACTTACAGTACTTACATAA
30948668 TACATAA
1 TACATAA
30948675 AAATGTATCA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 30 0.81
34 7 0.19
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.34
Consensus pattern (33 bp):
TACATAACTACATAACTTACAGTACTTACATAA
Found at i:30954211 original size:21 final size:21
Alignment explanation
Indices: 30954185--30954255 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
30954175 CTACAACTTA
* *
30954185 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
30954206 AAGCAGCA-GCTGCAGCGAGGG
1 AAGCAG-AGGCTGCAGCGAGGG
* *
30954227 AAGCGGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
30954248 AAGCAGAG
1 AAGCAGAG
30954256 CAGAGCAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
20 1 0.02
21 41 0.95
22 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.46, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:30954673 original size:42 final size:42
Alignment explanation
Indices: 30954579--30954818 Score: 363
Period size: 42 Copynumber: 5.7 Consensus size: 42
30954569 GTATAAAAGT
* * *
30954579 GCCGCTAAAGACCATGTTTTTTAGCGGCGCTTAGAAAAAAGAT
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAA-AC
*
30954622 GCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAAC
* *
30954664 GCCGCTAAAGAACTTGTTCTTTAGAGGCGCTTAGAAAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAAC
* * *
30954706 GCCGCTAAAGAACATGTTTTTTAGAGGCGCTTAGAAACAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAAC
* *
30954748 GCCGCCAAAGAACATGTTCTTTAGCGGCGCTTAGGAAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAAC
*
30954790 GCCGCTAAAGAACATGGTCTTTAGCGGCG
1 GCCGCTAAAGAACATGTTCTTTAGCGGCG
30954819 TTTTTGTTTG
Statistics
Matches: 182, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
42 143 0.79
43 39 0.21
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (42 bp):
GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAAC
Found at i:30956460 original size:35 final size:35
Alignment explanation
Indices: 30956409--30956522 Score: 185
Period size: 35 Copynumber: 3.2 Consensus size: 35
30956399 ACTCTCTGTT
30956409 TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
* *
30956444 TTGGTGTGTTTTGGAGGGATTAGCTCTTACGAGCA
1 TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
30956479 TTGGTGTGTTTCGGAGGGATT-GCCTCTTATGAGCA
1 TTGGTGTGTTTCGGAGGGATTAG-CTCTTATGAGCA
30956514 TCTGGTGTG
1 T-TGGTGTG
30956523 CTTTGGTTGG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
34 1 0.01
35 65 0.89
36 7 0.10
ACGTcount: A:0.15, C:0.12, G:0.35, T:0.38
Consensus pattern (35 bp):
TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
Found at i:30964389 original size:67 final size:66
Alignment explanation
Indices: 30964314--30964526 Score: 159
Period size: 67 Copynumber: 3.2 Consensus size: 66
30964304 ATTATAATGT
*
30964314 ATTT-AATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTA
1 ATTTAAATAATAATTATGTTTAAATATAATTAAA-TATTTATTATTGATATTAATAATCTTATTA
30964378 AA
65 AA
* * ** * * * * * *
30964380 ATTTAAATAACAATAACAAATTT--CTGCTAATTATAAGAATT-TTATT-AAATT-ATATATTTT
1 ATTTAAATAATAAT--TATGTTTAAAT-ATAATTA-AATATTTATTATTGATATTAATA-ATCTT
30964440 AATTAAAA
61 -ATT-AAA
* * *
30964448 TATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAATAATCTTAT
1 -AT-TTAAATAATAATTATGTTTAAATATAATT-AAATATTTATTATTGATATTAATAATCTTAT
30964513 TAAA
63 TAAA
30964517 ATTTAAATAA
1 ATTTAAATAA
30964527 CATTGACAAT
Statistics
Matches: 106, Mismatches: 25, Indels: 31
0.65 0.15 0.19
Matches are distributed among these distances:
65 3 0.03
66 12 0.11
67 24 0.23
68 17 0.16
69 21 0.20
70 19 0.18
71 7 0.07
72 3 0.03
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (66 bp):
ATTTAAATAATAATTATGTTTAAATATAATTAAATATTTATTATTGATATTAATAATCTTATTAA
A
Found at i:30964423 original size:137 final size:138
Alignment explanation
Indices: 30964270--30964528 Score: 421
Period size: 137 Copynumber: 1.9 Consensus size: 138
30964260 TAAGAATATG
* *
30964270 AATTATTAAGAATTTTATTAAATTATATACCAAAATTATAATGTATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
* * * *
30964335 AATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAAA
66 AATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
30964400 TTTCTGCT
131 TTTCTGCT
****
30964408 AATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
30964472 AATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACA
66 AATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACA
30964529 TTGACAATAA
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
137 106 0.95
138 5 0.05
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.45
Consensus pattern (138 bp):
AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
AATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
TTTCTGCT
Found at i:30964446 original size:18 final size:17
Alignment explanation
Indices: 30964418--30964452 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30964408 AATTATAAGA
*
30964418 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
30964435 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
30964453 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:30964517 original size:70 final size:69
Alignment explanation
Indices: 30964304--30964518 Score: 170
Period size: 70 Copynumber: 3.1 Consensus size: 69
30964294 ATATACCAAA
* * * * *
30964304 ATTATAATGTATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATTAATA
1 ATTAAAATATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTA-TGATAATAATA
30964369 ATCTT
65 ATCTT
* ** * * ** * * * * * * *
30964374 ATTAAAATTTAAATAACAATAA-CAAATTT--CTGCTAATTATAAGAATT-TTATTA-AATTATA
1 ATTAAAATATATTTAATAATAATTATGTTTAAAT-ATAATTAAAATATTTATTATGATAATAATA
*
30964434 TATTTT
65 -ATCTT
30964440 AATTAAAATATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAAT
1 -ATTAAAATATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTA-TGATAATAAT
30964505 AATCTT
64 AATCTT
30964511 ATTAAAAT
1 ATTAAAAT
30964519 TTAAATAACA
Statistics
Matches: 102, Mismatches: 34, Indels: 18
0.66 0.22 0.12
Matches are distributed among these distances:
65 5 0.05
66 6 0.06
67 22 0.22
68 13 0.13
69 15 0.15
70 29 0.28
71 6 0.06
72 6 0.06
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (69 bp):
ATTAAAATATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTATGATAATAATAA
TCTT
Found at i:30964568 original size:137 final size:138
Alignment explanation
Indices: 30964303--30964621 Score: 339
Period size: 137 Copynumber: 2.3 Consensus size: 138
30964293 TATATACCAA
* * * * * *
30964303 AATTATAATGTATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATTAAT
1 AATTAAAATATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAAT
* ** * *
30964368 AATCTTATTAAAATTTAAATAACAATAACAAATTTCTGCTAATTATAAGAATTTTATTAAATTAT
66 AATCTTATTAAAATTTAAATAACAATAACAAATATCT-CTAACCAAAACAATTTTATTAAATTAT
*
30964433 -A-TATTTT
130 AAGAATTTT
30964440 AATTAAAATATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAAT
1 AATTAAAATATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAAT
* * * *
30964505 AATCTTATTAAAATTTAAATAACATTGAC-AATAATCAT-TTACCAAAACAATTTTCTGCT-AAT
66 AATCTTATTAAAATTTAAATAACAATAACAAAT-ATC-TCTAACCAAAACAATTTTAT--TAAAT
30964567 TATAAGAATTTT
127 TATAAGAATTTT
* *
30964579 -ATTAAATTATATATTTTAATTAA-AA-TATATTTAATTATAATTA
1 AATTAAA--ATATA-TTTAA-TAATAATTATGTTTAAATATAATTA
30964622 TGTTTAAATA
Statistics
Matches: 154, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
136 15 0.10
137 94 0.61
138 9 0.06
139 5 0.03
140 21 0.14
141 7 0.05
142 3 0.02
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.45
Consensus pattern (138 bp):
AATTAAAATATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAAT
AATCTTATTAAAATTTAAATAACAATAACAAATATCTCTAACCAAAACAATTTTATTAAATTATA
AGAATTTT
Found at i:30964571 original size:156 final size:156
Alignment explanation
Indices: 30964394--30964721 Score: 602
Period size: 156 Copynumber: 2.1 Consensus size: 156
30964384 AAATAACAAT
*
30964394 AACAAATTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
30964459 ATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
* *
30964524 TAACATTGACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
*
30964550 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATT
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
*
30964615 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
30964680 TAACAATAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
*
30964706 AACAATTTTATGCTAA
1 AACAATTTTCTGCTAA
30964722 GGGTATTCTA
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 166 1.00
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (156 bp):
AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
ATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
TAACAATAACAATAATCATTTACCAA
Found at i:30964602 original size:18 final size:18
Alignment explanation
Indices: 30964574--30964622 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
30964564 AATTATAAGA
30964574 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
30964591 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
30964607 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
30964623 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:30964608 original size:16 final size:16
Alignment explanation
Indices: 30964574--30964628 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
30964564 AATTATAAGA
30964574 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
30964591 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
30964607 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
30964621 ATGTTTAA
1 AT-TTTAA
30964629 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:30964878 original size:16 final size:16
Alignment explanation
Indices: 30964842--30964896 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
30964832 TGGATTAGCT
*
30964842 AATACACTTCTAATCCC
1 AATACACCTCTAAT-CC
30964859 AATACACCTCTAATCC
1 AATACACCTCTAATCC
*
30964875 AATATACCTCTAATCC
1 AATACACCTCTAATCC
30964891 AATACA
1 AATACA
30964897 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
16 22 0.63
17 13 0.37
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (16 bp):
AATACACCTCTAATCC
Found at i:30967181 original size:18 final size:18
Alignment explanation
Indices: 30967158--30967200 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
30967148 GAATAGGTTT
30967158 TTAATTAAACAATTTT-AA
1 TTAATTAAA-AATTTTAAA
30967176 TTAATTAAAAATTTTAAA
1 TTAATTAAAAATTTTAAA
30967194 TTAATTA
1 TTAATTA
30967201 CACCTTGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAATTTTAAA
Found at i:30972854 original size:97 final size:100
Alignment explanation
Indices: 30972747--30972929 Score: 266
Period size: 97 Copynumber: 1.9 Consensus size: 100
30972737 CTAATAATTT
* *
30972747 TTTATTTATATAAATAAAATAATTAATATGTAATTATATAAT-AAAAA-TATAT-TTGATATAT-
1 TTTATTTATATAAAGAAAATAATAAATATGTAATTATATAATGAAAAATTATATATTGATATATA
*
30972808 TTCATTATGTAAAAATATTTTTAAATTAATAACTCC
66 TT-ATTATCTAAAAATATTTTTAAATTAATAACTCC
* *
30972844 TTTATTTATATAAAGAAAATAATAAATATGTAGTTATATAATGAAAAATTATATATTTATATATA
1 TTTATTTATATAAAGAAAATAATAAATATGTAATTATATAATGAAAAATTATATATTGATATATA
**
30972909 TTATTATCTTCAAATATTTTT
66 TTATTATCTAAAAATATTTTT
30972930 TTAAGAGTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
97 39 0.52
98 5 0.07
99 5 0.07
100 24 0.32
101 2 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (100 bp):
TTTATTTATATAAAGAAAATAATAAATATGTAATTATATAATGAAAAATTATATATTGATATATA
TTATTATCTAAAAATATTTTTAAATTAATAACTCC
Found at i:30973142 original size:116 final size:115
Alignment explanation
Indices: 30972999--30973335 Score: 554
Period size: 116 Copynumber: 2.9 Consensus size: 115
30972989 ATATTTATTT
* * * *
30972999 TTTTCACTTATATTATGAGTATGGTAAATTCTAATATTATAAAATTATAAAATTATTTAAAATAT
1 TTTTCACCTACATTGTGGGTATGGTAAATTCTAATATTATAAAATTAT-AAATTATTTAAAATAT
30973064 CATTATTTTATATGTGAAATATTTCAATTAATTATTTAAAATATCATTATA
65 CATTATTTTATATGTGAAATATTTCAATTAATTATTTAAAATATCATTATA
30973115 TTTTCACCTACATTGTGGGTATGGTAAATTCTAATATTATAAAATTATATAATTATTTAAAATAT
1 TTTTCACCTACATTGTGGGTATGGTAAATTCTAATATTATAAAATTATA-AATTATTTAAAATAT
30973180 CATTATTTTATATGTGAAATATTTCAATTAATTATTTAAAATATCATTATA
65 CATTATTTTATATGTGAAATATTTCAATTAATTATTTAAAATATCATTATA
*
30973231 TTTTCACCTACATTGTGGGTATGGTAAATTCTAATATTATAAAA--AT-AATTATTTCAAATATC
1 TTTTCACCTACATTGTGGGTATGGTAAATTCTAATATTATAAAATTATAAATTATTTAAAATATC
* * *
30973293 ATTATTTTTATATGTGAAATATTTGAAATAATTATTTGAAATA
66 ATTA-TTTTATATGTGAAATATTTCAATTAATTATTTAAAATA
30973336 CACATACAAA
Statistics
Matches: 211, Mismatches: 8, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
112 19 0.09
113 35 0.17
114 2 0.01
115 1 0.00
116 154 0.73
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.46
Consensus pattern (115 bp):
TTTTCACCTACATTGTGGGTATGGTAAATTCTAATATTATAAAATTATAAATTATTTAAAATATC
ATTATTTTATATGTGAAATATTTCAATTAATTATTTAAAATATCATTATA
Found at i:30975003 original size:12 final size:13
Alignment explanation
Indices: 30974980--30975039 Score: 63
Period size: 13 Copynumber: 4.7 Consensus size: 13
30974970 ATTTAGCCAT
*
30974980 TTTTAT-TTTTTA
1 TTTTATATTTATA
30974992 TTTTAATATTTATA
1 TTTT-ATATTTATA
30975006 -TTTATATTTATA
1 TTTTATATTTATA
*
30975018 TTTTTTATTTA-A
1 TTTTATATTTATA
30975030 TTTTTATATT
1 -TTTTATATT
30975040 CTAATTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
12 14 0.34
13 22 0.54
14 5 0.12
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTATATTTATA
Found at i:30975049 original size:26 final size:25
Alignment explanation
Indices: 30974981--30975049 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 25
30974971 TTTAGCCATT
* *
30974981 TTTAT-TTTTTATTTTAATATTTATA
1 TTTATATTTATATTTT-TTATTTATA
*
30975006 TTTATATTTATATTTTTTATTTAATT
1 TTTATATTTATATTTTTTATTT-ATA
30975032 TTTATATTCTA-ATTTTTT
1 TTTATATT-TATATTTTTT
30975050 CGTTTGTTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 10 0.26
26 26 0.68
27 2 0.05
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.72
Consensus pattern (25 bp):
TTTATATTTATATTTTTTATTTATA
Found at i:30977631 original size:13 final size:13
Alignment explanation
Indices: 30977609--30977638 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
30977599 TTTCAAAAGA
*
30977609 AGAAAGAAAATAG
1 AGAAAAAAAATAG
30977622 AGAAAAAAAATAG
1 AGAAAAAAAATAG
30977635 AGAA
1 AGAA
30977639 CGTGCCAAAA
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:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (13 bp):
AGAAAAAAAATAG
Found at i:30983809 original size:17 final size:17
Alignment explanation
Indices: 30983789--30983822 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30983779 AAATCTAAAT
*
30983789 AATAATTTTGATTATTA
1 AATAATTTTAATTATTA
*
30983806 AATATTTTTAATTATTA
1 AATAATTTTAATTATTA
30983823 TTTAAATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
AATAATTTTAATTATTA
Found at i:30985001 original size:37 final size:37
Alignment explanation
Indices: 30984957--30985094 Score: 177
Period size: 37 Copynumber: 3.5 Consensus size: 37
30984947 CACTTGTCCC
30984957 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
*
30984994 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
*
30985031 TGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 TGATCAGATAAGTGTAGC-----C-A-C-C-TATCACTTTGTTTCT
30985077 TGATCAGATAAGTGTAGC
1 TGATCAGATAAGTGTAGC
30985095 TAAAGCTATC
Statistics
Matches: 89, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
37 54 0.61
42 1 0.01
43 1 0.01
44 1 0.01
46 32 0.36
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
Found at i:30985079 original size:46 final size:46
Alignment explanation
Indices: 30985012--30985424 Score: 520
Period size: 46 Copynumber: 8.6 Consensus size: 46
30985002 TAAGTGTAGC
** **
30985012 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* **
30985058 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
30985104 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
30985150 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
30985202 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
30985254 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
30985300 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
30985346 TACTTATCACTTCCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC-T-----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
30985398 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
30985425 AGTACTCAAA
Statistics
Matches: 339, Mismatches: 15, Indels: 26
0.89 0.04 0.07
Matches are distributed among these distances:
46 202 0.60
47 1 0.00
49 1 0.00
50 1 0.00
51 4 0.01
52 130 0.38
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:30985210 original size:98 final size:92
Alignment explanation
Indices: 30985154--30985424 Score: 346
Period size: 98 Copynumber: 2.8 Consensus size: 92
30985144 AGCTATCACT
* *
30985154 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCA
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCAC--T---
* *
30985218 CTTGTCACTTGATCAGATAAGTGTAGCTGAAGC
61 -TTGTCACTTGATCAGATAAGTATAGCCGAAGC
* *
30985251 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTGTC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTC
30985316 ACTTGATCAGATAAGTATAGCCGAAGC
66 ACTTGATCAGATAAGTATAGCCGAAGC
* * *
30985343 TATTACTTATCACTTCCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TATCACTTATCAC-T-----TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCAC
30985408 TTTGTCACTTGATCAGA
60 TTTGTCACTTGATCAGA
30985425 AGTACTCAAA
Statistics
Matches: 158, Mismatches: 9, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
92 42 0.27
93 1 0.01
96 1 0.01
97 12 0.08
98 102 0.65
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (92 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTC
ACTTGATCAGATAAGTATAGCCGAAGC
Found at i:30985311 original size:196 final size:196
Alignment explanation
Indices: 30985029--30985410 Score: 656
Period size: 196 Copynumber: 1.9 Consensus size: 196
30985019 CACTTTGTTT
* *
30985029 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
30985094 CTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCA
66 CCAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCA
** * *
30985159 CTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTC
131 CTTCCCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTACCACTTATCACTTTCCACTTGTC
30985224 A
196 A
*
30985225 CTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
30985290 CCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCA
66 CCAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCA
*
30985355 CTTCCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
131 CTTCCCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTACCACTTATCACTTT
30985411 GTCACTTGAT
Statistics
Matches: 174, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
196 174 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (196 bp):
CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAG
CCAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCA
CTTCCCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTACCACTTATCACTTTCCACTTGTC
A
Found at i:30988198 original size:18 final size:16
Alignment explanation
Indices: 30988166--30988201 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 16
30988156 AAGTTTATTT
30988166 TTCATTTTTATTTTTA
1 TTCATTTTTATTTTTA
30988182 TTCATTTTTTATATTTTA
1 TTCA-TTTTTAT-TTTTA
30988200 TT
1 TT
30988202 ATTATCGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 7 0.39
18 7 0.39
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (16 bp):
TTCATTTTTATTTTTA
Found at i:30988198 original size:24 final size:23
Alignment explanation
Indices: 30988162--30988206 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
30988152 TTTAAAGTTT
*
30988162 ATTTTTCATTTTTATTTTTATTC
1 ATTTTTCATTTTTATTATTATTC
*
30988185 ATTTTTTATATTTTATTATTAT
1 ATTTTTCAT-TTTTATTATTAT
30988207 CGGTTTGCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (23 bp):
ATTTTTCATTTTTATTATTATTC
Found at i:30988231 original size:3 final size:3
Alignment explanation
Indices: 30988223--30988265 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
30988213 GCTTTTGTTA
30988223 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
30988266 CAACTTTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:30993340 original size:27 final size:25
Alignment explanation
Indices: 30993306--30993373 Score: 82
Period size: 27 Copynumber: 2.6 Consensus size: 25
30993296 TTAAATCCTG
30993306 AGATTTAGGGTTTGGGTTTGAAATTTA
1 AGATTTAGGGTTTGGGTTT--AATTTA
* *
30993333 AGATTTAGGGTTTAAGGTTTAATTTT
1 AGATTTAGGGTTT-GGGTTTAATTTA
30993359 AGAGTTTAGGGTTTG
1 AGA-TTTAGGGTTTG
30993374 TGATTATGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 8 0.22
27 23 0.64
28 5 0.14
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (25 bp):
AGATTTAGGGTTTGGGTTTAATTTA
Found at i:30993406 original size:20 final size:20
Alignment explanation
Indices: 30993335--30993412 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
30993325 GAAATTTAAG
30993335 ATTTAGGGTTTAAGG-TTTA
1 ATTTAGGGTTTAAGGTTTTA
* * *
30993354 ATTTTAGAGTTTAGGGTTTGTG
1 A-TTTAGGGTTTAAGGTTT-TA
*
30993376 A-TTATGGGTTTAGGGTTTTA
1 ATTTA-GGGTTTAAGGTTTTA
30993396 ATTTAGGGTTTAAGGTT
1 ATTTAGGGTTTAAGGTT
30993413 ATAGGTTCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
19 1 0.02
20 28 0.58
21 17 0.35
22 2 0.04
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (20 bp):
ATTTAGGGTTTAAGGTTTTA
Found at i:30994984 original size:21 final size:20
Alignment explanation
Indices: 30994955--30995000 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
30994945 GATATTTAGG
30994955 GTTT-GGGTTCAAGATTTAA
1 GTTTAGGGTTCAAGATTTAA
* *
30994974 GATTTAGGGTTTAAGGTTTAA
1 G-TTTAGGGTTCAAGATTTAA
30994995 GTTTAG
1 GTTTAG
30995001 AGTTTGGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 8 0.35
21 14 0.61
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.43
Consensus pattern (20 bp):
GTTTAGGGTTCAAGATTTAA
Found at i:30994999 original size:27 final size:27
Alignment explanation
Indices: 30994948--30994999 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
30994938 TACACCTGAT
*
30994948 ATTTAGGGTTTGGGTTCAAGATTTAAG
1 ATTTAGGGTTTAGGTTCAAGATTTAAG
*
30994975 ATTTAGGGTTTAAGGTTTAAG-TTTA
1 ATTTAGGGTTT-AGGTTCAAGATTTA
30995000 GAGTTTGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.44
Consensus pattern (27 bp):
ATTTAGGGTTTAGGTTCAAGATTTAAG
Found at i:30995062 original size:34 final size:35
Alignment explanation
Indices: 30994996--30995081 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 35
30994986 AAGGTTTAAG
* **
30994996 TTTAGAGTTTGGAGTTTGGGGTTTGCGATTATAGA-
1 TTTAGAGTTTTGA-TTTAAGGTTTGCGATTATAGAT
* *
30995031 TTTAGAGTTTTGATTTAAGGTTTGGGGTTATAGAT
1 TTTAGAGTTTTGATTTAAGGTTTGCGATTATAGAT
*
30995066 TTTAG-GTTTTGGTTTA
1 TTTAGAGTTTTGATTTA
30995082 GGATTCAAGG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
34 27 0.61
35 17 0.39
ACGTcount: A:0.20, C:0.01, G:0.30, T:0.49
Consensus pattern (35 bp):
TTTAGAGTTTTGATTTAAGGTTTGCGATTATAGAT
Found at i:30995149 original size:7 final size:7
Alignment explanation
Indices: 30995113--30995146 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
30995103 TAGGTTACGT
30995113 GTTCAAG
1 GTTCAAG
30995120 GTTCAAG
1 GTTCAAG
30995127 GTTCAAG
1 GTTCAAG
*
30995134 ATTCAAGG
1 GTTCAA-G
30995142 GTTCA
1 GTTCA
30995147 GGGGTTATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 19 0.79
8 5 0.21
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (7 bp):
GTTCAAG
Found at i:31000859 original size:4 final size:4
Alignment explanation
Indices: 31000850--31000877 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
31000840 GTTATTACAC
31000850 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
31000878 TGGTATTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:31001623 original size:16 final size:16
Alignment explanation
Indices: 31001602--31001633 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
31001592 TTTGTGTTTC
31001602 TAAGACTTTTACAACT
1 TAAGACTTTTACAACT
31001618 TAAGACTTTTACAACT
1 TAAGACTTTTACAACT
31001634 ACGTCCTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (16 bp):
TAAGACTTTTACAACT
Found at i:31005910 original size:10 final size:11
Alignment explanation
Indices: 31005895--31005927 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
31005885 CAATGCCTTT
31005895 TTTTCATTT-A
1 TTTTCATTTCA
31005905 TTTTCATTTCA
1 TTTTCATTTCA
31005916 -TTTCATTTCA
1 TTTTCATTTCA
31005926 TT
1 TT
31005928 ACATGAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 19 0.90
11 2 0.10
ACGTcount: A:0.18, C:0.15, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTCATTTCA
Found at i:31014049 original size:44 final size:43
Alignment explanation
Indices: 31013999--31014157 Score: 194
Period size: 44 Copynumber: 3.6 Consensus size: 43
31013989 TACCATAGGG
*
31013999 AATCTTATCTCTCTGAAGTTGCAGTGAAGCAAGATGAAGCTACA
1 AATCTTATCTC-CTGAAGTTGCAGTGGAGCAAGATGAAGCTACA
*
31014043 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGGATGAAGCTACA
1 AATCTTATCTCC-TGAAGTTGCAGTGGAGCAAGATGAAGCTACA
* *
31014087 AATCTTATCTCCCTAAAGTTGTAGTGGAGC-AGATTGAAGCTACA
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAAGA-TGAAGCTACA
* * * *
31014131 AATCCTATACCCCTAAAGTTACAGTGG
1 AATCTTAT-CTCCTGAAGTTGCAGTGG
31014158 GTTGGATTGA
Statistics
Matches: 102, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
43 3 0.03
44 96 0.94
45 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACA
Found at i:31014215 original size:94 final size:95
Alignment explanation
Indices: 31013945--31014322 Score: 309
Period size: 94 Copynumber: 4.1 Consensus size: 95
31013935 AATGAAACAA
* ** * *
31013945 TACAAATTCTATACCCCTAAAGTTGTAGTAGGTCAGATTGAAGT-TACCATAGGGAATCTTATCT
1 TACAAATCCTATACCCCTAAAGTTACAGTAGGTCGGATTGAA-TCTACCATAGCGAATCTTATCT
* * *
31014009 CTCTGAAGTTGC-AGTGAAGCAAGA-TGAAGC
65 CACTGAAGTTTCTAGTGGAGC-AGATTGAAGC
* * * * * *
31014039 TACAAATCTTAT-CTCCTTGAAGTTGCAGT-GGAGCAGGA-TGAAGCTA-C--A---AATCTTAT
1 TACAAATCCTATAC-CCCTAAAGTTACAGTAGG-TC-GGATTGAATCTACCATAGCGAATCTTAT
* * *
31014095 CTCCCTAAAG-TTGTAGTGGAGCAGATTGAAGC
63 CTCACTGAAGTTTCTAGTGGAGCAGATTGAAGC
* * * * *
31014127 TACAAATCCTATACCCCTAAAGTTACAGTGGGTTGGATTGATTCTACTATAGTGAATCTTATCTC
1 TACAAATCCTATACCCCTAAAGTTACAGTAGGTCGGATTGAATCTACCATAGCGAATCTTATCTC
*
31014192 ACTGAAGTTTCTA-TGGAGTAGATTGAAGC
66 ACTGAAGTTTCTAGTGGAGCAGATTGAAGC
* * * * *
31014221 TACAAATCCTATACCCCTGAATTTGCAGTAGGTCGGATTGAATCTACCATAGCGAATTTTATCTT
1 TACAAATCCTATACCCCTAAAGTTACAGTAGGTCGGATTGAATCTACCATAGCGAATCTTATCTC
* ** * *
31014286 ACTGAAGTTGC-AGTTAAACAGACTGAAGC
66 ACTGAAGTTTCTAGTGGAGCAGATTGAAGC
31014315 TACAAATC
1 TACAAATC
31014323 TTATTTCACT
Statistics
Matches: 225, Mismatches: 42, Indels: 34
0.75 0.14 0.11
Matches are distributed among these distances:
87 7 0.03
88 58 0.26
89 3 0.01
91 2 0.01
93 5 0.02
94 144 0.64
95 6 0.03
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (95 bp):
TACAAATCCTATACCCCTAAAGTTACAGTAGGTCGGATTGAATCTACCATAGCGAATCTTATCTC
ACTGAAGTTTCTAGTGGAGCAGATTGAAGC
Found at i:31014391 original size:232 final size:232
Alignment explanation
Indices: 31014043--31014516 Score: 560
Period size: 232 Copynumber: 2.0 Consensus size: 232
31014033 TGAAGCTACA
* ** * *
31014043 AATCTTATC-TCCTTGAAGTTGCAGTGGAGCAGGA-TGAAGCTACAAATCTTATCTCCCTAAAGT
1 AATCTTATCTTAC-TGAAGTTGCAGTTAAACA-GACTGAAGCTACAAATCTTATCTCACTAAAGT
* * * ** *
31014106 TGTAGTGGAGCAGATTGAAGCTACAAATCCTATACCCCTAAAGTTACAGTGGGTTGGATTGATTC
64 TATAATGGAGCAGATTGAAGCTACAAATCCTATACCCCTAAAGTGACAGTGGGTCAGATTGAATC
* * * * *
31014171 TACTATAGTGAATCTTATCTCAC-TGAAGTTTCTA-TGGAGTAGATTGAAGCTACAAATCCTATA
129 AACCATAGTGAATCTTATCTC-CTTGAA-ATTCTAGTGGAATAGATTGAAACTACAAATCCTATA
* * *
31014234 CCCCTGAATTTGCAGTAGGTCGGATTGAATCTACCATAGCG
192 CCCCTAAAGTTGCAATAGGTCGGATTGAATCTACCATAGCG
* * *
31014275 AATTTTATCTTACTGAAGTTGCAGTTAAACAGACTGAAGCTACAAATCTTATTTCACTGAAGTTA
1 AATCTTATCTTACTGAAGTTGCAGTTAAACAGACTGAAGCTACAAATCTTATCTCACTAAAGTTA
* * **
31014340 TAATGGAGCAGATTGAAGCTACAAATCCTATACCCTTGAAGTGGTAGTGGGTCAGATTGAATCAA
66 TAATGGAGCAGATTGAAGCTACAAATCCTATACCCCTAAAGTGACAGTGGGTCAGATTGAATCAA
* * * * *
31014405 CCATAGTGACTCTTATCTCCTTGAAATTGTAGTGGAATAGATTGAAACTATAAATCTTATACCTC
131 CCATAGTGAATCTTATCTCCTTGAAATTCTAGTGGAATAGATTGAAACTACAAATCCTATACCCC
* * * * *
31014470 TAAAGTTGCAATGGGTTGGATTGATTCTACTATAGTG
196 TAAAGTTGCAATAGGTCGGATTGAATCTACCATAGCG
31014507 AATCTTATCT
1 AATCTTATCT
31014517 CCCTTGTAAC
Statistics
Matches: 201, Mismatches: 37, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
231 7 0.03
232 192 0.96
233 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (232 bp):
AATCTTATCTTACTGAAGTTGCAGTTAAACAGACTGAAGCTACAAATCTTATCTCACTAAAGTTA
TAATGGAGCAGATTGAAGCTACAAATCCTATACCCCTAAAGTGACAGTGGGTCAGATTGAATCAA
CCATAGTGAATCTTATCTCCTTGAAATTCTAGTGGAATAGATTGAAACTACAAATCCTATACCCC
TAAAGTTGCAATAGGTCGGATTGAATCTACCATAGCG
Found at i:31014460 original size:138 final size:138
Alignment explanation
Indices: 31014181--31014464 Score: 338
Period size: 138 Copynumber: 2.1 Consensus size: 138
31014171 TACTATAGTG
* * * *
31014181 AATCTTATCTCACTGAAGTTTCTATGGAGTAGATTGAAGCTACAAATCCTATACCCCTGAATTTG
1 AATCTTATCTCACTGAAGTTTCAATGGAGCAGATTGAAGCTACAAATCCTATACCCCTGAAGTGG
* * * * *
31014246 CAGTAGGTCGGATTGAATCTACCATAGCGAATTTTATCTTACTGAAGTTGCAGTTAAACAGACTG
66 CAGTAGGTCAGATTGAATCAACCATAGCGAATCTTATCTTACTGAAATTGCAGTGAAACAGACTG
*
31014311 AAGCTACA
131 AAACTACA
* *
31014319 AATCTTATTTCACTGAAGTTAT-AATGGAGCAGATTGAAGCTACAAATCCTATACCCTTGAAGTG
1 AATCTTATCTCACTGAAGTT-TCAATGGAGCAGATTGAAGCTACAAATCCTATACCCCTGAAGTG
* * * * * * * * *
31014383 GTAGTGGGTCAGATTGAATCAACCATAGTGACTCTTATC-TCCTTGAAATTGTAGTGGAATAGAT
65 GCAGTAGGTCAGATTGAATCAACCATAGCGAATCTTATCTTAC-TGAAATTGCAGTGAAACAGAC
*
31014447 TGAAACTATA
129 TGAAACTACA
31014457 AATCTTAT
1 AATCTTAT
31014465 ACCTCTAAAG
Statistics
Matches: 122, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
137 2 0.02
138 119 0.98
139 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (138 bp):
AATCTTATCTCACTGAAGTTTCAATGGAGCAGATTGAAGCTACAAATCCTATACCCCTGAAGTGG
CAGTAGGTCAGATTGAATCAACCATAGCGAATCTTATCTTACTGAAATTGCAGTGAAACAGACTG
AAACTACA
Found at i:31015848 original size:24 final size:24
Alignment explanation
Indices: 31015820--31015890 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
31015810 TTGTTATTTG
*
31015820 GTAAAGGATGAATTGACAGAAAAT
1 GTAAAGGATGAATTGACGGAAAAT
*
31015844 GTAAAGGATGAATTGGCGGAAAAT
1 GTAAAGGATGAATTGACGGAAAAT
* *
31015868 GTAAATGACG-ATTGACGGAAAAT
1 GTAAAGGATGAATTGACGGAAAAT
31015891 TACCTAAGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 12 0.29
24 30 0.71
ACGTcount: A:0.45, C:0.06, G:0.28, T:0.21
Consensus pattern (24 bp):
GTAAAGGATGAATTGACGGAAAAT
Found at i:31018205 original size:6 final size:7
Alignment explanation
Indices: 31018180--31018204 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
31018170 TTTTTTACCG
31018180 AAAAATT
1 AAAAATT
31018187 AAAAATT
1 AAAAATT
31018194 AAAAATT
1 AAAAATT
31018201 AAAA
1 AAAA
31018205 TATCTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:31022344 original size:38 final size:38
Alignment explanation
Indices: 31022247--31022344 Score: 92
Period size: 38 Copynumber: 2.6 Consensus size: 38
31022237 GGGCCAGTGT
* ** * *
31022247 TGGGCACACATACATTTGTCAGATTCACCAACTAGTGC
1 TGGGCACACATACAATTGTTGGATTCACCAACCAATGC
** *
31022285 AAGGCACACATA-TATTCGTTGGATAT-ACCAACCAATGC
1 TGGGCACACATACAATT-GTTGGAT-TCACCAACCAATGC
31022323 TGGGCACACATACAATTGTTGG
1 TGGGCACACATACAATTGTTGG
31022345 TTTTACCGAC
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
37 2 0.04
38 40 0.87
39 4 0.09
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (38 bp):
TGGGCACACATACAATTGTTGGATTCACCAACCAATGC
Found at i:31024714 original size:16 final size:17
Alignment explanation
Indices: 31024693--31024725 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31024683 AACCTTTGTA
31024693 ATCATC-CATAATTCAT
1 ATCATCACATAATTCAT
*
31024709 ATCATCACATATTTCAT
1 ATCATCACATAATTCAT
31024726 TTACTTGTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.39
Consensus pattern (17 bp):
ATCATCACATAATTCAT
Found at i:31033200 original size:29 final size:31
Alignment explanation
Indices: 31033142--31033219 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 31
31033132 TTAGTTTAAT
* *
31033142 ATGCAATTTTATATA-TGAACTTTGATTTTG
1 ATGCAATTTTATAAATTAAACTTTGATTTTG
*
31033172 -TGCAATTTTATAAATTAAATTTTGA-TTTG
1 ATGCAATTTTATAAATTAAACTTTGATTTTG
* *
31033201 ATCCAATTTTCAAAAATTA
1 ATGCAATTTT-ATAAATTA
31033220 TTAACACAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 17 0.43
30 16 0.40
31 7 0.17
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (31 bp):
ATGCAATTTTATAAATTAAACTTTGATTTTG
Found at i:31033861 original size:22 final size:23
Alignment explanation
Indices: 31033818--31033870 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
31033808 TTAATTTAAA
31033818 AAAAAATACATTATTATAAATTC
1 AAAAAATACATTATTATAAATTC
*
31033841 AAAAAA-ACGATTTTTAT-AATTC
1 AAAAAATAC-ATTATTATAAATTC
31033863 AAAAAATA
1 AAAAAATA
31033871 AATAAAGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (23 bp):
AAAAAATACATTATTATAAATTC
Found at i:31037652 original size:21 final size:21
Alignment explanation
Indices: 31037628--31037674 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
31037618 AAGAAGGAAT
31037628 GAAATACATCAAATAAAAATA
1 GAAATACATCAAATAAAAATA
** *
31037649 GAAATACATGTATTAAAAATA
1 GAAATACATCAAATAAAAATA
31037670 -AAATA
1 GAAATA
31037675 AAAGTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.23
Consensus pattern (21 bp):
GAAATACATCAAATAAAAATA
Found at i:31037681 original size:20 final size:20
Alignment explanation
Indices: 31037640--31037685 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
31037630 AATACATCAA
* *
31037640 ATAAAAATAGAAATACATGT
1 ATAAAAATAGAAATAAAAGT
31037660 ATTAAAAATA-AAATAAAAGT
1 A-TAAAAATAGAAATAAAAGT
31037680 ATAAAA
1 ATAAAA
31037686 GTATGCATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.22
20 10 0.43
21 8 0.35
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (20 bp):
ATAAAAATAGAAATAAAAGT
Found at i:31038008 original size:2 final size:2
Alignment explanation
Indices: 31037965--31037990 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
31037955 AAAGCTTAGA
31037965 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
31037991 TAAAACATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31054288 original size:30 final size:30
Alignment explanation
Indices: 31054247--31054315 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
31054237 CTGAGAATTT
* *
31054247 CCACACAGGTTGGGCATACGCCTGTGTGAG
1 CCACACGGGTTGGGCATACGCCCGTGTGAG
*
31054277 CCACACGGGTTGGGCATATGCCCGTGTGAG
1 CCACACGGGTTGGGCATACGCCCGTGTGAG
31054307 CCACACGGG
1 CCACACGGG
31054316 CTAGCCACAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.19, C:0.29, G:0.35, T:0.17
Consensus pattern (30 bp):
CCACACGGGTTGGGCATACGCCCGTGTGAG
Found at i:31060317 original size:63 final size:64
Alignment explanation
Indices: 31060198--31060381 Score: 214
Period size: 63 Copynumber: 2.9 Consensus size: 64
31060188 GTGTGAGGTT
* * * * *
31060198 TCACAGGGGCGTGTGAGAAGCGAAGGAAAACACACACGACC-AAGCCAC-CAGACGTGTGGGATC
1 TCACATGGGCGTGAGAGAAGTGAAGGAAAACACACACGGCCTAA-CCACACGGACGTGTGGGATC
* * * *
31060261 TCATATGGGCGTGGGAGAAGTGAAAG-AAACACACACGGCCTAACCACACGGGCGTGTGGGATC
1 TCACATGGGCGTGAGAGAAGTGAAGGAAAACACACACGGCCTAACCACACGGACGTGTGGGATC
* * * *
31060324 TCACATGGACGTGAGAAAAGTGAAGGAAAACACACACGGCCTGA-CACACGGCCGTGTG
1 TCACATGGGCGTGAGAGAAGTGAAGGAAAACACACACGGCCTAACCACACGGACGTGTG
31060382 AGCCACATGG
Statistics
Matches: 103, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
62 17 0.17
63 70 0.68
64 16 0.16
ACGTcount: A:0.33, C:0.24, G:0.32, T:0.12
Consensus pattern (64 bp):
TCACATGGGCGTGAGAGAAGTGAAGGAAAACACACACGGCCTAACCACACGGACGTGTGGGATC
Found at i:31060644 original size:12 final size:12
Alignment explanation
Indices: 31060626--31060668 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
31060616 TTTGCTATTT
31060626 CTATTATTTTTA
1 CTATTATTTTTA
*
31060638 GTATTATTTTTTA
1 CTATTA-TTTTTA
*
31060651 CTATTATTCTTA
1 CTATTATTTTTA
*
31060663 CAATTA
1 CTATTA
31060669 CCTTTAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.60
Consensus pattern (12 bp):
CTATTATTTTTA
Found at i:31060650 original size:13 final size:13
Alignment explanation
Indices: 31060626--31060658 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
31060616 TTTGCTATTT
31060626 CTATTA-TTTTTA
1 CTATTATTTTTTA
*
31060638 GTATTATTTTTTA
1 CTATTATTTTTTA
31060651 CTATTATT
1 CTATTATT
31060659 CTTACAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (13 bp):
CTATTATTTTTTA
Found at i:31060724 original size:18 final size:18
Alignment explanation
Indices: 31060697--31060742 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
31060687 TCATTGAGTT
*
31060697 TTTTTCTTTTCTTTTTC-
1 TTTTTCTTTTCGTTTTCA
31060714 TTTTTCGTTTTCGTTTTCA
1 TTTTTC-TTTTCGTTTTCA
*
31060733 TTTTACTTTT
1 TTTTTCTTTT
31060743 GTTCTTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.24
18 14 0.56
19 5 0.20
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.76
Consensus pattern (18 bp):
TTTTTCTTTTCGTTTTCA
Found at i:31061767 original size:9 final size:10
Alignment explanation
Indices: 31061746--31061771 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
31061736 ATTGTTCAAC
31061746 AAAAATCGAA
1 AAAAATCGAA
31061756 AAAAATCGAA
1 AAAAATCGAA
31061766 AAAAAT
1 AAAAAT
31061772 ATTGATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.08, G:0.08, T:0.12
Consensus pattern (10 bp):
AAAAATCGAA
Found at i:31074065 original size:41 final size:41
Alignment explanation
Indices: 31074020--31074097 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
31074010 TGTACAACCC
*
31074020 AAATCGATTTTTGGGTTTTTGTTTGTCACATTTGCATACCT
1 AAATCGATTTTTGGGTTTTTGTTTCTCACATTTGCATACCT
31074061 AAATCGATTTTTGGGTTTTTGTTTCTCACATTTGCAT
1 AAATCGATTTTTGGGTTTTTGTTTCTCACATTTGCAT
31074098 GTTAGCCATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.19, C:0.14, G:0.17, T:0.50
Consensus pattern (41 bp):
AAATCGATTTTTGGGTTTTTGTTTCTCACATTTGCATACCT
Found at i:31077777 original size:14 final size:14
Alignment explanation
Indices: 31077758--31077784 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31077748 TTTGTTTGGT
31077758 GGAAAATATTTTCA
1 GGAAAATATTTTCA
31077772 GGAAAATATTTTC
1 GGAAAATATTTTC
31077785 CACCTTTTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (14 bp):
GGAAAATATTTTCA
Found at i:31080419 original size:32 final size:32
Alignment explanation
Indices: 31080383--31080458 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 32
31080373 ATTTTTTCGA
* *
31080383 AAAATATTTTCA-GGAAATC-TGCCAAACAGCAG
1 AAAATATTTTCACAG-AATCAT-CCAAACACCAG
*
31080415 AAAATATTTTACACAGATTCATCCAAACACCAG
1 AAAATATTTT-CACAGAATCATCCAAACACCAG
31080448 AAAATATTTTC
1 AAAATATTTTC
31080459 CAGTAAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
32 11 0.29
33 25 0.66
34 2 0.05
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.26
Consensus pattern (32 bp):
AAAATATTTTCACAGAATCATCCAAACACCAG
Found at i:31080506 original size:14 final size:14
Alignment explanation
Indices: 31080483--31080522 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
31080473 ACAGAAAAGT
*
31080483 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
31080497 AAATCATTTTACGG
1 AAAACATTTTACAG
31080511 AAAACATTTTAC
1 AAAACATTTTAC
31080523 TGGCAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:31080514 original size:34 final size:35
Alignment explanation
Indices: 31080448--31080514 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
31080438 CAAACACCAG
* *
31080448 AAAATATTTTCCAGTAAATTATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
31080483 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
31080515 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:31087641 original size:205 final size:205
Alignment explanation
Indices: 31087289--31087698 Score: 811
Period size: 205 Copynumber: 2.0 Consensus size: 205
31087279 AGTATAGCTA
31087289 TAGTGAGCAAAGATATCATTTCCACGAAGACTAAAAGTACTAGTAATTATTGTCTTTATATTATT
1 TAGTGAGCAAAGATATCATTTCCACGAAGACTAAAAGTACTAGTAATTATTGTCTTTATATTATT
31087354 TAATCGAATAATTCGAGTGATTAATTAAAAATTAAAAATAACTAATTTTATTAACTAACGAACAC
66 TAATCGAATAATTCGAGTGATTAATTAAAAATTAAAAATAACTAATTTTATTAACTAACGAACAC
*
31087419 GAAAAAGAACAAAAAACACGAAAATAATCGATTAACAACCAAGAAGCAAAACAATACATAAGAAA
131 GAAAAAGAACAAAAAACACAAAAATAATCGATTAACAACCAAGAAGCAAAACAATACATAAGAAA
31087484 GAATTCACCT
196 GAATTCACCT
31087494 TAGTGAGCAAAGATATCATTTCCACGAAGACTAAAAGTACTAGTAATTATTGTCTTTATATTATT
1 TAGTGAGCAAAGATATCATTTCCACGAAGACTAAAAGTACTAGTAATTATTGTCTTTATATTATT
31087559 TAATCGAATAATTCGAGTGATTAATTAAAAATTAAAAATAACTAATTTTATTAACTAACGAACAC
66 TAATCGAATAATTCGAGTGATTAATTAAAAATTAAAAATAACTAATTTTATTAACTAACGAACAC
31087624 GAAAAAGAACAAAAAACACAAAAATAATCGATTAACAACCAAGAAGCAAAACAATACATAAGAAA
131 GAAAAAGAACAAAAAACACAAAAATAATCGATTAACAACCAAGAAGCAAAACAATACATAAGAAA
31087689 GAATTCACCT
196 GAATTCACCT
31087699 AGATTTCATC
Statistics
Matches: 204, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
205 204 1.00
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.26
Consensus pattern (205 bp):
TAGTGAGCAAAGATATCATTTCCACGAAGACTAAAAGTACTAGTAATTATTGTCTTTATATTATT
TAATCGAATAATTCGAGTGATTAATTAAAAATTAAAAATAACTAATTTTATTAACTAACGAACAC
GAAAAAGAACAAAAAACACAAAAATAATCGATTAACAACCAAGAAGCAAAACAATACATAAGAAA
GAATTCACCT
Found at i:31091079 original size:56 final size:56
Alignment explanation
Indices: 31090988--31091121 Score: 243
Period size: 56 Copynumber: 2.4 Consensus size: 56
31090978 AATGATAGTA
*
31090988 TTATATAATTATGTTTAT-CATAAGTATGTAACTTTGCATGTGTGTGGAATGAATT
1 TTATATAATTATGTTTATACATAAGTATGTAACTTTGCATGTGTATGGAATGAATT
*
31091043 TTATATAATTATGTTTATACATAAGTATGTAACTTTGTATGTGTATGGAATGAATT
1 TTATATAATTATGTTTATACATAAGTATGTAACTTTGCATGTGTATGGAATGAATT
31091099 TTATATAATTATGTTTATACATA
1 TTATATAATTATGTTTATACATA
31091122 TGATACACTT
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
55 18 0.24
56 58 0.76
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (56 bp):
TTATATAATTATGTTTATACATAAGTATGTAACTTTGCATGTGTATGGAATGAATT
Found at i:31093777 original size:54 final size:54
Alignment explanation
Indices: 31093689--31093804 Score: 153
Period size: 54 Copynumber: 2.1 Consensus size: 54
31093679 CTACTTACTC
* * *
31093689 TTTTCAAATGAAAAATAATAAAAGAAATAGTTATTTTAATAA-CCATAATATGATG
1 TTTT-AAATGAAAAATAATAAAAGAAACAATTATTTTAA-AATCCATAATATGATA
* * *
31093744 TTTTAAATGAAAAATAGTGAAAGAAACAATTATTTTAAAATCCATAATGTGATA
1 TTTTAAATGAAAAATAATAAAAGAAACAATTATTTTAAAATCCATAATATGATA
31093798 TTTTAAA
1 TTTTAAA
31093805 AATAAGTAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
53 2 0.04
54 48 0.89
55 4 0.07
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.35
Consensus pattern (54 bp):
TTTTAAATGAAAAATAATAAAAGAAACAATTATTTTAAAATCCATAATATGATA
Found at i:31097264 original size:18 final size:18
Alignment explanation
Indices: 31097241--31097283 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
31097231 TTTGAAAACT
31097241 CACTTTCTATTTTTCTGA
1 CACTTTCTATTTTTCTGA
31097259 CACTTTCTATTTTTCTGA
1 CACTTTCTATTTTTCTGA
31097277 CACTTTC
1 CACTTTC
31097284 AGGTAATTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.26, G:0.05, T:0.53
Consensus pattern (18 bp):
CACTTTCTATTTTTCTGA
Done.