Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 106 of 204
Found at i:32372205 original size:120 final size:120
Alignment explanation
Indices: 32371983--32372475 Score: 779
Period size: 120 Copynumber: 4.1 Consensus size: 120
32371973 TTAATCATAT
* * *
32371983 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAAT
* * * *
32372048 TAATATTCTTATATGAATTTACTCAAATCATAGTATATGATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * * * *
32372103 TTTAACATAATTATTATTAAATACATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
32372168 CAATATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * * *
32372223 TTTAAAATAATAATTATTGAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAAT
32372288 AAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 -AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
32372344 TCTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAAT
32372409 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
32372464 TCTAAAATAATT
1 TTTAAAATAATT
32372476 GATTTTGTGG
Statistics
Matches: 348, Mismatches: 24, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
120 235 0.68
121 113 0.32
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:32372263 original size:18 final size:18
Alignment explanation
Indices: 32372242--32372276 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
32372232 ATAATTATTG
32372242 AATATAATTTAATAAAAA
1 AATATAATTTAATAAAAA
32372260 AATATAATTTAATAAAA
1 AATATAATTTAATAAAA
32372277 TTCTTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AATATAATTTAATAAAAA
Found at i:32372444 original size:241 final size:240
Alignment explanation
Indices: 32371983--32372474 Score: 779
Period size: 241 Copynumber: 2.0 Consensus size: 240
32371973 TTAATCATAT
* * * * *
32371983 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATAATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAAT
* * * * *
32372048 TAATATTCTTATATGAATTTACTCAAATCATAGTATATGATACTATAAAATATAATTTAACATAA
66 TAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATAA
* * * *
32372113 TTATTATTAAATACATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATATTCTT
131 TTATTATTAAATACAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTT
* *
32372178 ATATGAATTTACTAAAATTATAATATATAATAGTATAAAATATAA
196 ATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
32372223 TTTAAAATAATAATTATTGAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAAT-AT
1 TTTAAAATAATAATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAAT
32372287 TAAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAAT
66 T--AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAAT
* *
32372352 AATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTC
129 AATTATTATTAAATACAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATATTC
32372417 TTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
194 TTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
32372464 TCTAAAATAAT
1 TTTAAAATAAT
32372475 TGATTTTGTG
Statistics
Matches: 230, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
239 3 0.01
240 56 0.24
241 171 0.74
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (240 bp):
TTTAAAATAATAATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAAT
TAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATAA
TTATTATTAAATACAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTT
ATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:32374226 original size:13 final size:13
Alignment explanation
Indices: 32374210--32374239 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
32374200 TAGACCAAGC
32374210 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
*
32374223 TTTTCATAAGCAT
1 TTTTCAAAAGCAT
32374236 TTTT
1 TTTT
32374240 TTGCAGCACT
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:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:32377162 original size:9 final size:10
Alignment explanation
Indices: 32377145--32377177 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
32377135 ATAATTCAAA
32377145 TATAAAAAAT
1 TATAAAAAAT
32377155 TA-AAAAAAT
1 TATAAAAAAT
32377164 TATATAAAAAT
1 TATA-AAAAAT
32377175 TAT
1 TAT
32377178 TTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.43
10 3 0.14
11 9 0.43
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
TATAAAAAAT
Found at i:32377191 original size:23 final size:22
Alignment explanation
Indices: 32377160--32377209 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
32377150 AAAATTAAAA
32377160 AAATTATATAAAAATTATTTTT
1 AAATTATATAAAAATTATTTTT
** *
32377182 ATAATTATATCTACATTATTTTT
1 A-AATTATATAAAAATTATTTTT
32377205 AAATT
1 AAATT
32377210 TAAATTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (22 bp):
AAATTATATAAAAATTATTTTT
Found at i:32394976 original size:20 final size:21
Alignment explanation
Indices: 32394934--32394977 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
32394924 ATTTTCTAAC
* *
32394934 TTTTATATTTTATTAGAATTT
1 TTTTATATTATATTAGAAGTT
*
32394955 TTTTATATTAT-TTATAAGTT
1 TTTTATATTATATTAGAAGTT
32394975 TTT
1 TTT
32394978 ATGAATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTATATTATATTAGAAGTT
Found at i:32394988 original size:20 final size:19
Alignment explanation
Indices: 32394965--32395018 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
32394955 TTTTATATTA
* *
32394965 TTTATAAGTTTTTATGAATT
1 TTTA-AAGTTTTTATAAAAT
*
32394985 TTTAAAATTTTCTATAAAAT
1 TTTAAAGTTTT-TATAAAAT
32395005 TTTAAATGTTTTTA
1 TTTAAA-GTTTTTA
32395019 ATTTATTAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 6 0.21
20 18 0.64
21 4 0.14
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (19 bp):
TTTAAAGTTTTTATAAAAT
Found at i:32399800 original size:32 final size:32
Alignment explanation
Indices: 32399764--32399825 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
32399754 AGCTCTTGGT
32399764 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
32399796 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
32399826 AAATAGATGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:32401448 original size:12 final size:12
Alignment explanation
Indices: 32401431--32401479 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
32401421 TTTTAATAAC
32401431 ATTTAATATTAA
1 ATTTAATATTAA
32401443 ATTTAATGA-TAA
1 ATTTAAT-ATTAA
*
32401455 ATATT-AGATTAA
1 AT-TTAATATTAA
32401467 ATTTAATATTAA
1 ATTTAATATTAA
32401479 A
1 A
32401480 GTGATTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
11 3 0.10
12 25 0.81
13 3 0.10
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:32407955 original size:58 final size:58
Alignment explanation
Indices: 32407865--32407981 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
32407855 GGCCAGAAAG
32407865 CTTAAAGAGGTGCTCAATGTTTTCATACAAGCCATTTAGGCTGAATTGGAACAATCTA
1 CTTAAAGAGGTGCTCAATGTTTTCATACAAGCCATTTAGGCTGAATTGGAACAATCTA
32407923 CTTAAAGAGGTGCTCAATGTTTTCATACAAGCCATTTAGGCTGAATTGGAACAATCTA
1 CTTAAAGAGGTGCTCAATGTTTTCATACAAGCCATTTAGGCTGAATTGGAACAATCTA
32407981 C
1 C
32407982 ATTTCAATCT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (58 bp):
CTTAAAGAGGTGCTCAATGTTTTCATACAAGCCATTTAGGCTGAATTGGAACAATCTA
Found at i:32408082 original size:16 final size:16
Alignment explanation
Indices: 32408047--32408082 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
32408037 CAATAAGCAT
*
32408047 TTTAAGCATATTTACT
1 TTTAAGCATATTTACA
*
32408063 TTTAAGCATATTTGCA
1 TTTAAGCATATTTACA
32408079 TTTA
1 TTTA
32408083 TAAATAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (16 bp):
TTTAAGCATATTTACA
Found at i:32408172 original size:55 final size:55
Alignment explanation
Indices: 32408097--32408201 Score: 158
Period size: 55 Copynumber: 1.9 Consensus size: 55
32408087 TAAAGTTGTG
* **
32408097 TTTATGTTTCATTGAATGTTTTGTTGTATTCATAAATAAAGTTGTGTTTTCTTTA
1 TTTATGTTTCATTGAATGTTTTGTTGCATTCATAAATAAAGCGGTGTTTTCTTTA
*
32408152 TTTATGTTTTATT-AATTGTTTTGTTGCATTCATAAATAAAGCGGTGTTTT
1 TTTATGTTTCATTGAA-TGTTTTGTTGCATTCATAAATAAAGCGGTGTTTT
32408202 TAATTATGCT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 2 0.04
55 43 0.96
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.55
Consensus pattern (55 bp):
TTTATGTTTCATTGAATGTTTTGTTGCATTCATAAATAAAGCGGTGTTTTCTTTA
Found at i:32408219 original size:55 final size:52
Alignment explanation
Indices: 32408113--32408237 Score: 130
Period size: 55 Copynumber: 2.3 Consensus size: 52
32408103 TTTCATTGAA
* * * *
32408113 TGTTTTGTTGTATTCATAAATAAAGTTGTGTTTTCTTTATTTATGTTTTATTAAT
1 TGTTTTGTTGCATTCATAAATAAAGTCGTGTGTTCTTTAATTATGTTTTA-T--T
32408168 TGTTTTGTTGCATTCATAAATAAAG-CG-GTGTT-TTTAATTATGCTTCATTATT
1 TGTTTTGTTGCATTCATAAATAAAGTCGTGTGTTCTTTAATTATG-TT--TTATT
32408220 TGTTTTTGTTGCATTCAT
1 TG-TTTTGTTGCATTCAT
32408238 TTTTTTTTGG
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
52 12 0.19
53 21 0.34
54 2 0.03
55 27 0.44
ACGTcount: A:0.22, C:0.07, G:0.14, T:0.56
Consensus pattern (52 bp):
TGTTTTGTTGCATTCATAAATAAAGTCGTGTGTTCTTTAATTATGTTTTATT
Found at i:32408254 original size:22 final size:24
Alignment explanation
Indices: 32408205--32408256 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 24
32408195 GTGTTTTTAA
*
32408205 TTATGC-TTCATTATTTGTTTTTG
1 TTATGCATTCATTATTTGTTTTGG
32408228 -T-TGCATTCATT-TTT-TTTTGG
1 TTATGCATTCATTATTTGTTTTGG
32408248 TTATGCATT
1 TTATGCATT
32408257 TGTTTATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 5 0.20
21 7 0.28
22 13 0.52
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (24 bp):
TTATGCATTCATTATTTGTTTTGG
Found at i:32417590 original size:2 final size:2
Alignment explanation
Indices: 32417583--32417608 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32417573 GGCTATACCA
32417583 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
32417609 TAATTGTGAA
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:32418571 original size:2 final size:2
Alignment explanation
Indices: 32418564--32418588 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32418554 ATTAGATTAG
32418564 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
32418589 TATATATACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:32418878 original size:68 final size:68
Alignment explanation
Indices: 32418795--32418932 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
32418785 GTGGTGTTTA
32418795 TTTCCAAAACTGTTCAAGATTTCTTGAGATTACCATTGTTGAATGCTTGAAATTCTAGTGTTAAA
1 TTTCCAAAACTGTTCAAGATTTCTTGAGATTACCATTGTTGAATGCTTGAAATTCTAGTGTTAAA
32418860 TGT
66 TGT
32418863 TTTCCAAAACTGTTCAAGATTTCTTGAGATTACCATTGTTGAATGCTTGAAATTCTAGTGTTAAA
1 TTTCCAAAACTGTTCAAGATTTCTTGAGATTACCATTGTTGAATGCTTGAAATTCTAGTGTTAAA
32418928 TGT
66 TGT
32418931 TT
1 TT
32418933 AGATTATATG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (68 bp):
TTTCCAAAACTGTTCAAGATTTCTTGAGATTACCATTGTTGAATGCTTGAAATTCTAGTGTTAAA
TGT
Found at i:32420146 original size:21 final size:21
Alignment explanation
Indices: 32420121--32420167 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
32420111 TAATAAACAC
*
32420121 TGAAACTGATACAT-AAAATTT
1 TGAAACTG-TACATAAAAACTT
*
32420142 TGAAA-TGTAGATAAAAACTT
1 TGAAACTGTACATAAAAACTT
32420162 TGAAAC
1 TGAAAC
32420168 AATGAGCGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 4 0.18
20 13 0.59
21 5 0.23
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.30
Consensus pattern (21 bp):
TGAAACTGTACATAAAAACTT
Found at i:32425711 original size:17 final size:18
Alignment explanation
Indices: 32425689--32425722 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
32425679 CATTTTAGGC
32425689 GTGTGGGT-CACACGGGT
1 GTGTGGGTCCACACGGGT
32425706 GTGTGGGTCCACACGGG
1 GTGTGGGTCCACACGGG
32425723 CATATGGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.12, C:0.21, G:0.47, T:0.21
Consensus pattern (18 bp):
GTGTGGGTCCACACGGGT
Found at i:32429631 original size:21 final size:22
Alignment explanation
Indices: 32429590--32429633 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
32429580 CTTATTTTGT
*
32429590 GGAGAAATAAGAGGTGAGAGAA
1 GGAGAAATAAGAGGGGAGAGAA
32429612 GGAGAAATAA-AGGGGAGAGAA
1 GGAGAAATAAGAGGGGAGAGAA
32429633 G
1 G
32429634 TATGTTCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.50, C:0.00, G:0.43, T:0.07
Consensus pattern (22 bp):
GGAGAAATAAGAGGGGAGAGAA
Found at i:32431371 original size:24 final size:23
Alignment explanation
Indices: 32431314--32431373 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 23
32431304 TGTTTTGCTA
*
32431314 ATGAACCACCAGT-AATTTGTAG
1 ATGAACCACCAGTAAAATTGTAG
* ** *
32431336 ATAAACTGCCAGTAAAAATTGTGG
1 ATGAACCACCAGT-AAAATTGTAG
32431360 ATGAACCACCAGTA
1 ATGAACCACCAGTA
32431374 TTTTCAATTA
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
22 10 0.36
23 1 0.04
24 17 0.61
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23
Consensus pattern (23 bp):
ATGAACCACCAGTAAAATTGTAG
Found at i:32432741 original size:22 final size:21
Alignment explanation
Indices: 32432716--32432782 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 21
32432706 ACATATATAG
32432716 TCACAAAACATTTAAGCATCTA
1 TCACAAAACATTTAAGCAT-TA
* * *
32432738 TCACAATAC--TT-A-TATAA
1 TCACAAAACATTTAAGCATTA
32432755 TCACAAAACATTTAAGCATATA
1 TCACAAAACATTTAAGCAT-TA
32432777 TCACAA
1 TCACAA
32432783 TACTCATATA
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
17 9 0.26
18 2 0.06
19 3 0.09
20 3 0.09
21 2 0.06
22 15 0.44
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.28
Consensus pattern (21 bp):
TCACAAAACATTTAAGCATTA
Found at i:32432826 original size:39 final size:39
Alignment explanation
Indices: 32432687--32432827 Score: 203
Period size: 39 Copynumber: 3.6 Consensus size: 39
32432677 CATATTCACT
* * *
32432687 TTTAAGTATATATCACATTACAT-ATATAGTCACAAAACA
1 TTTAAGCATATATCACAATAC-TCATATAATCACAAAACA
* *
32432726 TTTAAGCATCTATCACAATACTTATATAATCACAAAACA
1 TTTAAGCATATATCACAATACTCATATAATCACAAAACA
* *
32432765 TTTAAGCATATATCACAATACTCATATAACCACAGAACA
1 TTTAAGCATATATCACAATACTCATATAATCACAAAACA
32432804 TTTAAGCATATATCACAATACTCA
1 TTTAAGCATATATCACAATACTCA
32432828 AAAACATGTT
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 1 0.01
39 92 0.99
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.30
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACAAAACA
Found at i:32434571 original size:32 final size:32
Alignment explanation
Indices: 32434535--32434626 Score: 184
Period size: 32 Copynumber: 2.9 Consensus size: 32
32434525 TTTTCTAAAA
32434535 ACCATAATCGAAAACATTACCAATAAACCATG
1 ACCATAATCGAAAACATTACCAATAAACCATG
32434567 ACCATAATCGAAAACATTACCAATAAACCATG
1 ACCATAATCGAAAACATTACCAATAAACCATG
32434599 ACCATAATCGAAAACATTACCAATAAAC
1 ACCATAATCGAAAACATTACCAATAAAC
32434627 TATGTCACAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 60 1.00
ACGTcount: A:0.51, C:0.25, G:0.05, T:0.18
Consensus pattern (32 bp):
ACCATAATCGAAAACATTACCAATAAACCATG
Found at i:32434624 original size:19 final size:18
Alignment explanation
Indices: 32434535--32434620 Score: 80
Period size: 18 Copynumber: 5.2 Consensus size: 18
32434525 TTTTCTAAAA
32434535 ACCATAATCGAAAACATT
1 ACCATAATCGAAAACATT
* *
32434553 ACC--AAT--AAACCATG
1 ACCATAATCGAAAACATT
32434567 ACCATAATCGAAAACATT
1 ACCATAATCGAAAACATT
* *
32434585 ACC--AAT--AAACCATG
1 ACCATAATCGAAAACATT
32434599 ACCATAATCGAAAACATT
1 ACCATAATCGAAAACATT
32434617 ACCA
1 ACCA
32434621 ATAAACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 16
0.68 0.11 0.21
Matches are distributed among these distances:
14 18 0.35
16 12 0.23
18 22 0.42
ACGTcount: A:0.50, C:0.26, G:0.06, T:0.19
Consensus pattern (18 bp):
ACCATAATCGAAAACATT
Found at i:32439607 original size:23 final size:23
Alignment explanation
Indices: 32439581--32439679 Score: 164
Period size: 23 Copynumber: 4.3 Consensus size: 23
32439571 ATAATTGCCA
32439581 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
32439604 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
32439627 CACTGA-ATTGTAGCCGAAGCTAC
1 CACTGATA-TGTAGCCGAAGCTAC
*
32439650 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
32439673 CACTGAT
1 CACTGAT
32439680 CAATAACACT
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
22 1 0.01
23 69 0.97
24 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:32439939 original size:17 final size:17
Alignment explanation
Indices: 32439905--32439942 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
32439895 ATTTTCATTA
*
32439905 CACATTCAATATTGATT
1 CACATTCAATATTAATT
32439922 CACATATCAATA-TAATT
1 CACAT-TCAATATTAATT
32439939 CACA
1 CACA
32439943 ATTTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (17 bp):
CACATTCAATATTAATT
Found at i:32448483 original size:125 final size:125
Alignment explanation
Indices: 32448261--32448549 Score: 472
Period size: 125 Copynumber: 2.3 Consensus size: 125
32448251 AAAATTTAAG
*
32448261 GAAATCACTCCCATGTGGACACGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
1 GAAATCACTCCCATGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
*
32448326 GTTTCTGAGCAAATAATGTCAAAAATGCTTTAAACAGGATGCATTGTCAGCAAAAGTACT
66 GTTTCTGAGCAAATAATGTCAAAAACGCTTTAAACAGGATGCATTGTCAGCAAAAGTACT
* * *
32448386 GAAATCGA-TCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGA
1 GAAATC-ACTCCCATGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGA
* * * *
32448450 CGTTTCTGAGCAAATAGTGTCAAAACCGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACT
65 CGTTTCTGAGCAAATAATGTCAAAAACGCTTTAAACAGGATGCATTGTCAGCAAAAGTACT
*
32448511 GAAATCACTCCCATGTGGATGCGCTTTTGCTACAGTAGC
1 GAAATCACTCCCATGTGGACGCGCTTTTGCTACAGTAGC
32448550 GCATGTTTGG
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
124 1 0.01
125 148 0.99
126 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (125 bp):
GAAATCACTCCCATGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAATGTCAAAAACGCTTTAAACAGGATGCATTGTCAGCAAAAGTACT
Found at i:32449663 original size:123 final size:124
Alignment explanation
Indices: 32449449--32449727 Score: 479
Period size: 123 Copynumber: 2.2 Consensus size: 124
32449439 AGGAAATCGC
* *
32449449 TCCCACGTAGACGCGTTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCGAGTAGACGTTTCTGA
1 TCCCACGTGGACGCGTTTTTGCTACAGTAGCTCCTG-AAAAATAATTTCGAGTAGACGTTTCTGA
32449514 GCAAATAGTGTCAAAAACACTGTAAACAGGATGCATTGTCAGCAAAAGTACTGAAATCAA
65 GCAAATAGTGTCAAAAACACTGTAAACAGGATGCATTGTCAGCAAAAGTACTGAAATCAA
*
32449574 TCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTG-AAAATAATTTCGAGTAGACGTTTCTGAG
1 TCCCACGTGGACGCGTTTTTGCTACAGTAGCTCCTGAAAAATAATTTCGAGTAGACGTTTCTGAG
* * *
32449638 CAAATAGTGTCAAAAACGCTTTAAACAGGATGCATTGTCAGCAAAAGTACTGAAATCGA
66 CAAATAGTGTCAAAAACACTGTAAACAGGATGCATTGTCAGCAAAAGTACTGAAATCAA
*
32449697 TCCCACATGGACGCGTTTTTGCTACAGTAGC
1 TCCCACGTGGACGCGTTTTTGCTACAGTAGC
32449728 GCATGTTTGG
Statistics
Matches: 146, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
123 113 0.77
125 33 0.23
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (124 bp):
TCCCACGTGGACGCGTTTTTGCTACAGTAGCTCCTGAAAAATAATTTCGAGTAGACGTTTCTGAG
CAAATAGTGTCAAAAACACTGTAAACAGGATGCATTGTCAGCAAAAGTACTGAAATCAA
Found at i:32450771 original size:123 final size:125
Alignment explanation
Indices: 32450544--32450830 Score: 443
Period size: 123 Copynumber: 2.3 Consensus size: 125
32450534 AAATTTTAAG
*
32450544 GAAATCACTCCCACGTGGACGCGCTTTTTCTACAGTAGCTCCTGAAAAAATAATTGCGAGTAGAC
1 GAAATCACTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTGCGAGTAGAC
* *
32450609 ATTTCTAAACAAATAGTGTCAAAAACGCTTTAAACAGGATGCATTCTCAGTAAAAGTACT
66 ATTTCTAAACAAATAGTGTCAAAAACACTTTAAACAGGATGCATTCTCAGCAAAAGTACT
* * *
32450669 GAAATCAATCCCACGTGGACGCGCTTTTGCTACTGTAGCTCCTG-AAAAA-AATTTCGAGTAGAC
1 GAAATCACTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTGCGAGTAGAC
* * * * * * *
32450732 GTTTCTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGTTAGCAAAAGTACT
66 ATTTCTAAACAAATAGTGTCAAAAACACTTTAAACAGGATGCATTCTCAGCAAAAGTACT
32450792 GAAATCACTCCCACGTGGACGCGCTTTTGCTACAGTAGC
1 GAAATCACTCCCACGTGGACGCGCTTTTGCTACAGTAGC
32450831 GCATGTTTGG
Statistics
Matches: 147, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
123 101 0.69
124 5 0.03
125 41 0.28
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (125 bp):
GAAATCACTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTGCGAGTAGAC
ATTTCTAAACAAATAGTGTCAAAAACACTTTAAACAGGATGCATTCTCAGCAAAAGTACT
Found at i:32454105 original size:49 final size:49
Alignment explanation
Indices: 32454045--32454176 Score: 255
Period size: 49 Copynumber: 2.7 Consensus size: 49
32454035 AATTTCTATA
*
32454045 TTATTATATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTATT
1 TTATTACATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTATT
32454094 TTATTACATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTATT
1 TTATTACATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTATT
32454143 TTATTACATCAAATAATATCAAAATATTCAAAAT
1 TTATTACATCAAATAATATCAAAATATTCAAAAT
32454177 GTTTATAAAA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 82 1.00
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.40
Consensus pattern (49 bp):
TTATTACATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTATT
Found at i:32464753 original size:43 final size:43
Alignment explanation
Indices: 32464688--32464853 Score: 226
Period size: 43 Copynumber: 3.9 Consensus size: 43
32464678 NNNNNNNCCT
* *
32464688 AAGCGCCTCTAAAGAACGTGTTCTTTAGCGGCGTTTTTTTTAC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
* *
32464731 AAGCGCCGCTAAAGAACATGTTCTTTTGCGGCG-TTTTTATAC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
* *
32464773 AAGCGCCGCTAAAGAACATGTTCTTTAGTGGCATTTTTTTTAC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
* * * * *
32464816 AAACACCGCGAAAGAACATGTTCTTTAGTGGCGCTTTT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT
32464854 ATACAAAAAC
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 38 0.35
43 71 0.65
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.34
Consensus pattern (43 bp):
AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
Found at i:32464831 original size:85 final size:85
Alignment explanation
Indices: 32464688--32464859 Score: 254
Period size: 85 Copynumber: 2.0 Consensus size: 85
32464678 NNNNNNNCCT
* * * * * *
32464688 AAGCGCCTCTAAAGAACGTGTTCTTTAGCGGCGTTTTTTTTACAAGCGCCGCTAAAGAACATGTT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCATTTTTTTTACAAACACCGCGAAAGAACATGTT
* *
32464753 CTTTTGCGGCGTTTTTATAC
66 CTTTAGCGGCGCTTTTATAC
*
32464773 AAGCGCCGCTAAAGAACATGTTCTTTAGTGGCATTTTTTTTACAAACACCGCGAAAGAACATGTT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCATTTTTTTTACAAACACCGCGAAAGAACATGTT
*
32464838 CTTTAGTGGCGCTTTTATAC
66 CTTTAGCGGCGCTTTTATAC
32464858 AA
1 AA
32464860 AAACGCCACT
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 77 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCATTTTTTTTACAAACACCGCGAAAGAACATGTT
CTTTAGCGGCGCTTTTATAC
Found at i:32464944 original size:14 final size:14
Alignment explanation
Indices: 32464921--32464954 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
32464911 GCCCTCCTAT
*
32464921 AGCAAAAATTCAAA
1 AGCAACAATTCAAA
32464935 AGCAACAATTCAAA
1 AGCAACAATTCAAA
32464949 AGCAAC
1 AGCAAC
32464955 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.59, C:0.21, G:0.09, T:0.12
Consensus pattern (14 bp):
AGCAACAATTCAAA
Found at i:32465246 original size:21 final size:21
Alignment explanation
Indices: 32465178--32465248 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
32465168 TTTTGCTCTG
* *
32465178 CTCTGCTTCTCTCACTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
32465199 CTCCGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
32465220 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
32465241 CTCTGCTT
1 CTCTGCTT
32465249 TAAGTTGTAG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.04, C:0.48, G:0.17, T:0.31
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:32470793 original size:84 final size:84
Alignment explanation
Indices: 32470682--32470961 Score: 506
Period size: 84 Copynumber: 3.3 Consensus size: 84
32470672 TTAACACCGT
** *
32470682 TTTGTGGCGTTTTTGGTACAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT
1 TTTGTGGCG-TTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT
32470747 CGTGGTCTGGAATTGCATTA
65 CGTGGTCTGGAATTGCATTA
* *
32470767 TTTGTGGCGTTTTCCTAAAAAAGCCACTAAATATTACAGCTGTGAACAGAAACGACACAGTTTTC
1 TTTGTGGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTC
32470832 GTGGTCTGGAATTGCATTA
66 GTGGTCTGGAATTGCATTA
32470851 TTTGTGGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTC
1 TTTGTGGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTC
32470916 GTGGTCTGGAATTGCATTA
66 GTGGTCTGGAATTGCATTA
32470935 TTTGTGGCGTTTTCCTAAAAACGCCAC
1 TTTGTGGCGTTTTCCTAAAAACGCCAC
32470962 CAAAAGTTTA
Statistics
Matches: 188, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
84 179 0.95
85 9 0.05
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (84 bp):
TTTGTGGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTC
GTGGTCTGGAATTGCATTA
Found at i:32471695 original size:60 final size:60
Alignment explanation
Indices: 32471623--32471752 Score: 235
Period size: 60 Copynumber: 2.2 Consensus size: 60
32471613 CCTACGTTCC
*
32471623 CTAA-CCCAACCCCTAGCTAAACCCTAAATCCTTAATTAACTCCTAATAAACCCTAAGTG
1 CTAACCCCAACCCCTAACTAAACCCTAAATCCTTAATTAACTCCTAATAAACCCTAAGTG
*
32471682 CTAACCCCAACCCCTAACTAAACCCTAAATCCTTAATTAACTCCTAATAACCCCTAAGTG
1 CTAACCCCAACCCCTAACTAAACCCTAAATCCTTAATTAACTCCTAATAAACCCTAAGTG
32471742 CTAACCCCAAC
1 CTAACCCCAAC
32471753 ACTAACCCCT
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
59 4 0.06
60 64 0.94
ACGTcount: A:0.37, C:0.37, G:0.04, T:0.22
Consensus pattern (60 bp):
CTAACCCCAACCCCTAACTAAACCCTAAATCCTTAATTAACTCCTAATAAACCCTAAGTG
Found at i:32472351 original size:113 final size:113
Alignment explanation
Indices: 32472171--32472419 Score: 392
Period size: 113 Copynumber: 2.2 Consensus size: 113
32472161 AACACCTAGA
* * *
32472171 TTAGCGGCGCTTTACAAAAAACGCCACTAATTCCCCCCCCAAAGGACACAAAACGGCACCGTCTG
1 TTAGCGACGCTTTACAATAAACACCACTAATTCCCCCCCCAAAGGACACAAAACGGCACCGTCTG
*
32472236 GGTATATTAGTTGCGGCGTTTTTTATAAACGCTGCTAATGTTCACTCT
66 GGTATATTACTTGCGGCGTTTTTTATAAACGCTGCTAATGTTCACTCT
* *
32472284 TTAGCGACGCTTTACAATAAACACCACTAATT-CCCCCCCAAAGGCCACAAAACGGCATCGTCGT
1 TTAGCGACGCTTTACAATAAACACCACTAATTCCCCCCCCAAAGGACACAAAACGGCACCGTC-T
* **
32472348 GGGTTTATTACTTTTGGCGTTTTTTATAAACGCTGCTAATGTTCACTCT
65 GGGTATATTACTTGCGGCGTTTTTTATAAACGCTGCTAATGTTCACTCT
32472397 TTAGCCGACGCTTTACAATAAAC
1 TTAG-CGACGCTTTACAATAAAC
32472420 GCCNNNNNNN
Statistics
Matches: 125, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
112 28 0.22
113 79 0.63
114 18 0.14
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (113 bp):
TTAGCGACGCTTTACAATAAACACCACTAATTCCCCCCCCAAAGGACACAAAACGGCACCGTCTG
GGTATATTACTTGCGGCGTTTTTTATAAACGCTGCTAATGTTCACTCT
Found at i:32473172 original size:25 final size:25
Alignment explanation
Indices: 32473141--32473316 Score: 163
Period size: 25 Copynumber: 6.5 Consensus size: 25
32473131 ACGTAAGTTA
32473141 TGTAAGTTAAATGTATTATGTAAGT
1 TGTAAGTTAAATGTATTATGTAAGT
32473166 TGTAAGTTAAATGTATTATGTAAGT
1 TGTAAGTTAAATGTATTATGTAAGT
*
32473191 TGTAAGTTATTATGTATTATGTAAGT
1 TGTAAGTTA-AATGTATTATGTAAGT
* *
32473217 TGGCAAGTTAAAATGTATTGGTGCTAAGT
1 T-GTAAGTT-AAATGTATT-ATG-TAAGT
* *
32473246 TGTAAGTTTATTATGGTACTAATGTAAAGCT
1 TGTAAG-TTA-AAT-GTA-TTATGT-AAG-T
* *
32473277 CGTAAGTTAAAATGTATTATGGTCAGT
1 TGTAAGTT-AAATGTATTAT-GTAAGT
32473304 TGTAAGTTTAAAT
1 TGTAAG-TTAAAT
32473317 NNNNNNNNNN
Statistics
Matches: 124, Mismatches: 13, Indels: 26
0.76 0.08 0.16
Matches are distributed among these distances:
25 34 0.27
26 16 0.13
27 23 0.19
28 15 0.12
29 16 0.13
30 12 0.10
31 8 0.06
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.42
Consensus pattern (25 bp):
TGTAAGTTAAATGTATTATGTAAGT
Found at i:32473292 original size:59 final size:54
Alignment explanation
Indices: 32473151--32473313 Score: 179
Period size: 59 Copynumber: 3.0 Consensus size: 54
32473141 TGTAAGTTAA
* *
32473151 ATGTATTATGTAAG-TTGTAAGTT-AAATGTATTATGTAAGTTGTAAG-TTATT
1 ATGTATAATGTAAGCTCGTAAGTTAAAATGTATTATGTAAGTTGTAAGTTTATT
* * * * *
32473202 ATGTATTATGTAAGTTGGCAAGTTAAAATGTATTGGTGCTAAGTTGTAAGTTTATT
1 ATGTATAATGTAAGCTCGTAAGTTAAAATGTATT-ATG-TAAGTTGTAAGTTTATT
*
32473258 ATGGTACTAATGTAAAGCTCGTAAGTTAAAATGTATTATGGTCAGTTGTAAGTTTA
1 AT-GTA-TAATGT-AAGCTCGTAAGTTAAAATGTATTAT-GTAAGTTGTAAGTTTA
32473314 AATNNNNNNN
Statistics
Matches: 94, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
51 14 0.15
52 7 0.07
53 9 0.10
54 2 0.02
55 11 0.12
56 7 0.07
57 3 0.03
58 20 0.21
59 21 0.22
ACGTcount: A:0.33, C:0.04, G:0.21, T:0.42
Consensus pattern (54 bp):
ATGTATAATGTAAGCTCGTAAGTTAAAATGTATTATGTAAGTTGTAAGTTTATT
Found at i:32473614 original size:112 final size:112
Alignment explanation
Indices: 32473417--32473853 Score: 716
Period size: 112 Copynumber: 3.9 Consensus size: 112
32473407 NNNNNNNNNN
32473417 TTGCGGCGTTTTTTATAAACGCTGCTAATGTTCGCTCTTTAGCGGCGCTTTACAAAAAACGCCAC
1 TTGCGGCGTTTTTTATAAACGCTGCTAATGTTCGCTCTTTAGCGGCGCTTTACAAAAAACGCCAC
**
32473482 TAATTCCCCCTTAAAGGCCACAAAACGGCACCGTCTGGGTGTATTAT
66 TAATTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTAT
* * *
32473529 TTGCGGCGTTTTTTATAAACGTTGCTAATGTTCAG-TCTTTAGCGGTGCTTTACAATAAACGCCA
1 TTGCGGCGTTTTTTATAAACGCTGCTAATGTTC-GCTCTTTAGCGGCGCTTTACAAAAAACGCCA
* * *
32473593 CTAACTCCCCCCAAAAGGCCACAAAACGGCACCGTCTGGGTGTATTAG
65 CTAATTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTAT
* * ***
32473641 TTGCGGCGTTTTTTATAAACGCTGCTAATGTTCACTCTTTAGCGGCGCTTTTCCTTAAACGCCAC
1 TTGCGGCGTTTTTTATAAACGCTGCTAATGTTCGCTCTTTAGCGGCGCTTTACAAAAAACGCCAC
32473706 TAATTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTAT
66 TAATTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTAT
32473753 TTGCGGCGTTTTTTATAAACGCTGCTAATGTTCGCTCTTTAGCGGCGCTTTACAAAAAACGCCAC
1 TTGCGGCGTTTTTTATAAACGCTGCTAATGTTCGCTCTTTAGCGGCGCTTTACAAAAAACGCCAC
*
32473818 TAATTCCCCCCCCAAGGGCCAC-AAACGGCACCGTCT
66 TAATT-CCCCCCCAAAGGCCACAAAACGGCACCGTCT
32473854 NNNNNNNNNN
Statistics
Matches: 300, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
112 284 0.95
113 16 0.05
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (112 bp):
TTGCGGCGTTTTTTATAAACGCTGCTAATGTTCGCTCTTTAGCGGCGCTTTACAAAAAACGCCAC
TAATTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTAT
Found at i:32474159 original size:112 final size:113
Alignment explanation
Indices: 32473954--32474210 Score: 435
Period size: 112 Copynumber: 2.3 Consensus size: 113
32473944 NNNNNNNNNN
*
32473954 TAGCTGCGCTTTACAAAAAACGCCACTAATTCCCCCCTCCCAAAGGCCACAAAACGGCACCGCCT
1 TAGCGGCGCTTTACAAAAAACGCCACTAATTCCCCCCT--CAAAGGCCACAAAACGGCACCGCCT
32474019 GGGTGTATTATTTGCGGCGTTTTTTATAAACGCTGCTAATGTTCGCTCTT
64 GGGTGTATTATTTGCGGCGTTTTTTATAAACGCTGCTAATGTTCGCTCTT
*
32474069 TAGCGGCGCTTTACAAAAAACGCCACTAATTCCCCCCT-AAAGGCCACAAAACGGCACCGTCTGG
1 TAGCGGCGCTTTACAAAAAACGCCACTAATTCCCCCCTCAAAGGCCACAAAACGGCACCGCCTGG
32474133 GTGTATTATTTGCGGCGTTTTTTATAAACGCTGCTAATGTTCGCTCTT
66 GTGTATTATTTGCGGCGTTTTTTATAAACGCTGCTAATGTTCGCTCTT
* ***
32474181 TAGCGGCGCTTTTCCTTAAACGCCACTAAT
1 TAGCGGCGCTTTACAAAAAACGCCACTAAT
32474211 GCTCACTCTT
Statistics
Matches: 136, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
112 99 0.73
115 37 0.27
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (113 bp):
TAGCGGCGCTTTACAAAAAACGCCACTAATTCCCCCCTCAAAGGCCACAAAACGGCACCGCCTGG
GTGTATTATTTGCGGCGTTTTTTATAAACGCTGCTAATGTTCGCTCTT
Found at i:32474202 original size:40 final size:40
Alignment explanation
Indices: 32474157--32474290 Score: 187
Period size: 40 Copynumber: 3.3 Consensus size: 40
32474147 GCGTTTTTTA
* * *
32474157 TAAACGCTGCTAATGTTCGCTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCGCTAATGCTCACTCTTTAGCGGCGCTTTTCCT
*
32474197 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCGCTAATGCTCACTCTTTAGCGGCGCTTTTCCT
* * *
32474237 TAAACGCCGCTAATGCTCACTCTTTAGCAGCGTTTTTGCT
1 TAAACGCCGCTAATGCTCACTCTTTAGCGGCGCTTTTCCT
*
32474277 CCAAACGCCGCTAA
1 -TAAACGCCGCTAA
32474291 AAGTGCCGCT
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 72 0.86
41 12 0.14
ACGTcount: A:0.20, C:0.31, G:0.17, T:0.32
Consensus pattern (40 bp):
TAAACGCCGCTAATGCTCACTCTTTAGCGGCGCTTTTCCT
Found at i:32483452 original size:14 final size:15
Alignment explanation
Indices: 32483425--32483459 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
32483415 TTGGGTGAGT
*
32483425 TTTTTATTTATTATA
1 TTTTAATTTATTATA
32483440 TTTTAATTT-TTATA
1 TTTTAATTTATTATA
32483454 TTTTAA
1 TTTTAA
32483460 ATGTGAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTAATTTATTATA
Found at i:32484243 original size:28 final size:29
Alignment explanation
Indices: 32484207--32484261 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
32484197 TTATAATTTA
* *
32484207 AAAACTAATTATTTTAAG-TAAATTAATT
1 AAAACTAATTAATTAAAGTTAAATTAATT
*
32484235 AAAATTAATTAATTAAAGTTAAATTAA
1 AAAACTAATTAATTAAAGTTAAATTAA
32484262 GTTAGAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.40
Consensus pattern (29 bp):
AAAACTAATTAATTAAAGTTAAATTAATT
Found at i:32484244 original size:14 final size:15
Alignment explanation
Indices: 32484225--32484261 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
32484215 TTATTTTAAG
32484225 TAAATTAATTAAAAT
1 TAAATTAATTAAAAT
*
32484240 T-AATTAATTAAAGT
1 TAAATTAATTAAAAT
32484254 TAAATTAA
1 TAAATTAA
32484262 GTTAGAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
TAAATTAATTAAAAT
Found at i:32485909 original size:38 final size:38
Alignment explanation
Indices: 32485858--32485941 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
32485848 AGAACATGAA
* ** *
32485858 TACATATTAAACATGTTTACTTTTAATGATGAATTGCG
1 TACATATTAAACATATTTACCATTAATGATGAATTGAG
* *
32485896 TACATGTTAAACATATTTACCATTAGTGATGAATTGAG
1 TACATATTAAACATATTTACCATTAATGATGAATTGAG
32485934 TACATATT
1 TACATATT
32485942 GTACATGTCT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (38 bp):
TACATATTAAACATATTTACCATTAATGATGAATTGAG
Found at i:32486177 original size:43 final size:43
Alignment explanation
Indices: 32486088--32486221 Score: 142
Period size: 43 Copynumber: 3.1 Consensus size: 43
32486078 GTATTTTTCC
* * * **
32486088 TTTAACTGCAAGTATGTTGTGCATCCAGAACCTAGTGGCAGCT
1 TTTAACTGCAATTATGTTGTGCATCCACAGCCTAGTGGCAAAT
* *
32486131 TTTACCTGCAATTATGTAGTGCATCCACAGCCTAGTGGCAAAT
1 TTTAACTGCAATTATGTTGTGCATCCACAGCCTAGTGGCAAAT
** * * * *
32486174 TTTATTTGCGAATTTTGTTGTGTACCCATAGCCTAGTGGCAAAT
1 TTTAACTGC-AATTATGTTGTGCATCCACAGCCTAGTGGCAAAT
32486218 TTTA
1 TTTA
32486222 TTTGCGAATT
Statistics
Matches: 76, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
43 43 0.57
44 33 0.43
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (43 bp):
TTTAACTGCAATTATGTTGTGCATCCACAGCCTAGTGGCAAAT
Found at i:32486312 original size:43 final size:44
Alignment explanation
Indices: 32486153--32486312 Score: 146
Period size: 44 Copynumber: 3.7 Consensus size: 44
32486143 TATGTAGTGC
* * * *
32486153 ATCCACAGCCTAGTGGCAAATTTTATTTGCGAATTTTGTTGTGT
1 ATCCACAGCCCAGTGGCAAATTTTATCTGCGAATTTTGCTATGT
* * * *
32486197 ACCCATAGCCTAGTGGCAAATTTTATTTGCGAATTTT-CTATGT
1 ATCCACAGCCCAGTGGCAAATTTTATCTGCGAATTTTGCTATGT
* * ** ***
32486240 ATTCATAGTTCA-TCGGTTGATTTTATCTGCGAATTTTGCTATGT
1 ATCCACAGCCCAGT-GGCAAATTTTATCTGCGAATTTTGCTATGT
*
32486284 ATCCACAGCCCAGTGGCGAATTTT-TCTGC
1 ATCCACAGCCCAGTGGCAAATTTTATCTGC
32486313 AAACCAGTGA
Statistics
Matches: 93, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 1 0.01
43 35 0.38
44 56 0.60
45 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (44 bp):
ATCCACAGCCCAGTGGCAAATTTTATCTGCGAATTTTGCTATGT
Found at i:32487379 original size:92 final size:89
Alignment explanation
Indices: 32487222--32487394 Score: 242
Period size: 92 Copynumber: 1.9 Consensus size: 89
32487212 CTCTGCTTTT
* * *
32487222 TTTTTTTTGCACTCATTTGGGTACTTGAACTTTCAAAATGCATCAGAAAGGCCCTTAAACCTTTT
1 TTTTTTTTGCACTCAATTCGGTACTTGAACTTTCAAAATGCATCAGAAAGGACCTTAAACCTTTT
32487287 CTAAAAAAAAAGCAATTAATCCCTTAC
66 C--AAAAAAAA-CAATTAATCCCTTAC
*
32487314 TTTTTTTTGCACTCAATTCGGTACTTGAACTTTCAAAATGCATCCA-AAA-GACCTTCAAACTTT
1 TTTTTTTTGCACTCAATTCGGTACTTGAACTTTCAAAATGCAT-CAGAAAGGACCTT-AAACCTT
*
32487377 TTCAGAAAAAACAATTAA
64 TTCAAAAAAAACAATTAA
32487395 GCCATTGCTT
Statistics
Matches: 74, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
89 7 0.09
90 7 0.09
91 5 0.07
92 53 0.72
93 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (89 bp):
TTTTTTTTGCACTCAATTCGGTACTTGAACTTTCAAAATGCATCAGAAAGGACCTTAAACCTTTT
CAAAAAAAACAATTAATCCCTTAC
Found at i:32487531 original size:27 final size:28
Alignment explanation
Indices: 32487491--32487567 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 28
32487481 TTCAAATATT
*
32487491 AAAAATTAGAAAAAAATATAAAAATCGTA
1 AAAAATTA-TAAAAAATATAAAAATCGTA
* * *
32487520 AAAAA-TAT-AAAATTTTATAAAGTCGTA
1 AAAAATTATAAAAAATATA-AAAATCGTA
*
32487547 AAAAATTATACAAAATATAAA
1 AAAAATTATAAAAAATATAAA
32487568 GAAATATAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
26 7 0.18
27 13 0.34
28 7 0.18
29 11 0.29
ACGTcount: A:0.65, C:0.04, G:0.05, T:0.26
Consensus pattern (28 bp):
AAAAATTATAAAAAATATAAAAATCGTA
Found at i:32487774 original size:28 final size:28
Alignment explanation
Indices: 32487729--32487782 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 28
32487719 CCAGGGGTCG
32487729 TTATTTTTTTATGATTTTTA-TAAAAAT
1 TTATTTTTTTATGATTTTTAGTAAAAAT
32487756 TTATTTTTTTATGATTTTTAGTAAAAA
1 TTATTTTTTTATGATTTTTAGTAAAAA
32487783 ATTTCTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (28 bp):
TTATTTTTTTATGATTTTTAGTAAAAAT
Found at i:32487794 original size:29 final size:27
Alignment explanation
Indices: 32487735--32487794 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
32487725 GTCGTTATTT
**
32487735 TTTTATGATTTTTATAAAAATTTATTT
1 TTTTATGATTTTTATAAAAATTTATAA
*
32487762 TTTTATGATTTTTAGTAAAAAATTTCTAA
1 TTTTATGATTTTTA-T-AAAAATTTATAA
32487791 TTTT
1 TTTT
32487795 TAATAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 14 0.50
28 1 0.04
29 13 0.46
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (27 bp):
TTTTATGATTTTTATAAAAATTTATAA
Found at i:32489722 original size:69 final size:69
Alignment explanation
Indices: 32489611--32489751 Score: 282
Period size: 69 Copynumber: 2.0 Consensus size: 69
32489601 AGACCCATTG
32489611 TTAAAATTTTGTGTTTATATATAAGGTATAATAACAAATTTAGCCCTAAATCTTTACACATTTAG
1 TTAAAATTTTGTGTTTATATATAAGGTATAATAACAAATTTAGCCCTAAATCTTTACACATTTAG
32489676 TCAA
66 TCAA
32489680 TTAAAATTTTGTGTTTATATATAAGGTATAATAACAAATTTAGCCCTAAATCTTTACACATTTAG
1 TTAAAATTTTGTGTTTATATATAAGGTATAATAACAAATTTAGCCCTAAATCTTTACACATTTAG
32489745 TCAA
66 TCAA
32489749 TTA
1 TTA
32489752 CTCTTTTATT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 72 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (69 bp):
TTAAAATTTTGTGTTTATATATAAGGTATAATAACAAATTTAGCCCTAAATCTTTACACATTTAG
TCAA
Found at i:32490542 original size:17 final size:17
Alignment explanation
Indices: 32490522--32490554 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32490512 AAAACAATTT
32490522 TAAAAAAAATTAAAATA
1 TAAAAAAAATTAAAATA
*
32490539 TAAAAAAGATTAAAAT
1 TAAAAAAAATTAAAAT
32490555 TGAATGCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (17 bp):
TAAAAAAAATTAAAATA
Found at i:32502934 original size:4 final size:4
Alignment explanation
Indices: 32502925--32502958 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
32502915 AGTATGCATA
32502925 AGTT AGTT AGTT AGTT AGTT AGTT AGTT AGTT AG
1 AGTT AGTT AGTT AGTT AGTT AGTT AGTT AGTT AG
32502959 CAGATAATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (4 bp):
AGTT
Found at i:32505032 original size:18 final size:18
Alignment explanation
Indices: 32505011--32505069 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 18
32505001 TTTTTATATT
32505011 TTTTAAATATTTTCTAAA
1 TTTTAAATATTTTCTAAA
32505029 TTTTATTAAT-TTTTC-AATA
1 TTTTA--AATATTTTCTAA-A
*
32505048 TTTT-AATATTTTTCTTAA
1 TTTTAAATA-TTTTCTAAA
32505066 TTTT
1 TTTT
32505070 TACAAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
16 3 0.09
18 17 0.50
19 11 0.32
20 3 0.09
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTAAATATTTTCTAAA
Found at i:32505060 original size:28 final size:27
Alignment explanation
Indices: 32504974--32505086 Score: 74
Period size: 28 Copynumber: 4.1 Consensus size: 27
32504964 AAAAAAATGG
* * *
32504974 TTTTTATAGTTTTTCATGTATTTT-TTA
1 TTTTTATAATTTTTCA-ATATTTTAATA
* *
32505001 TTTTTATATTTTTTAAATATTTTCTAA-A
1 TTTTTATAATTTTTCAATA-TTT-TAATA
32505029 -TTTTATTAATTTTTCAATATTTTAATA
1 TTTTTA-TAATTTTTCAATATTTTAATA
* *
32505056 TTTTTCTTAATTTTTACAA-AATTTAAT-
1 TTTTT-ATAATTTTT-CAATATTTTAATA
32505083 TTTT
1 TTTT
32505087 CTTAATATAT
Statistics
Matches: 70, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
26 5 0.07
27 30 0.43
28 32 0.46
29 3 0.04
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTTTATAATTTTTCAATATTTTAATA
Found at i:32505216 original size:19 final size:20
Alignment explanation
Indices: 32505194--32505236 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
32505184 GGTTTTTTTC
32505194 ATTTTTC-TAATTTTTAATG
1 ATTTTTCTTAATTTTTAATG
*
32505213 A-TTTTCTTAATTTTTTATG
1 ATTTTTCTTAATTTTTAATG
32505232 ATTTT
1 ATTTT
32505237 AATGAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 13 0.62
20 3 0.14
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (20 bp):
ATTTTTCTTAATTTTTAATG
Found at i:32506054 original size:19 final size:19
Alignment explanation
Indices: 32506030--32506068 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
32506020 TGGAAGCTTT
32506030 TCTAAAGATATAAGTTTTA
1 TCTAAAGATATAAGTTTTA
32506049 TCTAAAGATATAAGTTTTA
1 TCTAAAGATATAAGTTTTA
32506068 T
1 T
32506069 GTTATTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (19 bp):
TCTAAAGATATAAGTTTTA
Found at i:32506736 original size:43 final size:43
Alignment explanation
Indices: 32506674--32506880 Score: 315
Period size: 43 Copynumber: 4.8 Consensus size: 43
32506664 GCGTCGCTAA
* *
32506674 CTTTAGAGGCGCTTTTCCCACAAACGCCGCTAAAGGCCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
*
32506717 CTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
* * *
32506760 CTTTAGTGACACTTTTCCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
* * *
32506803 CTTTAGTGGTGCTTTTACCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
* *
32506846 CTTTAGCGGCGCTTTTCCCAAAAACGCCACTAAAG
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAG
32506881 GTCACGAAAA
Statistics
Matches: 148, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 148 1.00
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.20
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
Found at i:32507531 original size:23 final size:22
Alignment explanation
Indices: 32507496--32507663 Score: 119
Period size: 23 Copynumber: 7.4 Consensus size: 22
32507486 CAAGTTAAAT
*
32507496 TTAAACACTTCAATTTGCAGCAC
1 TTAAACA-TTCAATTTACAGCAC
* * * *
32507519 TTTAACATATCAATTAACAACAT
1 TTAAACAT-TCAATTTACAGCAC
32507542 TTATACACA-TCAA-TTACAGCGA-
1 TTA-A-ACATTCAATTTACAGC-AC
* *
32507564 TAAAACATCTCAATTTTCAGCAAC
1 TTAAACAT-TCAATTTACAGC-AC
*
32507588 -TAAACACTTCAATTTGCAGCAC
1 TTAAACA-TTCAATTTACAGCAC
*
32507610 TTAAACACTTCAATTTACAGCAT
1 TTAAACA-TTCAATTTACAGCAC
* *
32507633 TTAAACACTTAAATTTGCAGCAC
1 TTAAACA-TTCAATTTACAGCAC
32507656 TTAAACAT
1 TTAAACAT
32507664 ATTAATTAAC
Statistics
Matches: 117, Mismatches: 18, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
20 3 0.03
21 1 0.01
22 15 0.13
23 93 0.79
24 2 0.02
25 3 0.03
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (22 bp):
TTAAACATTCAATTTACAGCAC
Found at i:32507544 original size:46 final size:46
Alignment explanation
Indices: 32507494--32507681 Score: 202
Period size: 46 Copynumber: 4.1 Consensus size: 46
32507484 AACAAGTTAA
*
32507494 ATTTAAACACTTCAATTTGCAGCACTTTAACATATCAATTAACAAC
1 ATTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAAC
* * * * * ** *
32507540 ATTTATACACATCAA-TTACAGCGA-TAAAACATCTCAATTTTCAGC
1 ATTTAAACACTTCAATTTGCAGC-ACTTAAACATATCAATTAACAAC
** * *
32507585 AACTAAACACTTCAATTTGCAGCACTTAAACACT-TCAATTTACAGC
1 ATTTAAACACTTCAATTTGCAGCACTTAAACA-TATCAATTAACAAC
* *
32507631 ATTTAAACACTTAAATTTGCAGCACTTAAACATATTAATTAACAAC
1 ATTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAAC
32507677 ATTTA
1 ATTTA
32507682 TNNNNNNNNN
Statistics
Matches: 115, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
45 34 0.30
46 80 0.70
47 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.32
Consensus pattern (46 bp):
ATTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAAC
Found at i:32509586 original size:17 final size:17
Alignment explanation
Indices: 32509564--32509603 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
32509554 CTCTTCCTCC
32509564 GATTTCTTCTCATCTAG
1 GATTTCTTCTCATCTAG
32509581 GATTTCTTCTCATCTAG
1 GATTTCTTCTCATCTAG
*
32509598 GGTTTC
1 GATTTC
32509604 AGTGCAGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.47
Consensus pattern (17 bp):
GATTTCTTCTCATCTAG
Found at i:32509919 original size:19 final size:20
Alignment explanation
Indices: 32509892--32509933 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
32509882 ACGACGCCGT
32509892 TTTACTTTG-CTAAAAAAAA
1 TTTACTTTGTCTAAAAAAAA
* **
32509911 TTTATTTTGTCTACTAAAAA
1 TTTACTTTGTCTAAAAAAAA
32509931 TTT
1 TTT
32509934 TTAGTTAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.48
Consensus pattern (20 bp):
TTTACTTTGTCTAAAAAAAA
Found at i:32511716 original size:41 final size:41
Alignment explanation
Indices: 32511648--32511889 Score: 371
Period size: 41 Copynumber: 5.9 Consensus size: 41
32511638 TATGATAAAT
*
32511648 CTGAGCATTAGCGGCGCTTCTT-CAAAAACGCCGCTAAAGCC
1 CTGAGCATTAGCGGCGCTT-TTACAAAAACGCCGCTAAAGAC
* * * *
32511689 CTTAGCATTAGCGGTGCTTTTAAAAAAACGCAGCTAAAGAC
1 CTGAGCATTAGCGGCGCTTTTACAAAAACGCCGCTAAAGAC
*
32511730 CTGAGCATTAGCGACGCTTTTACAAAAACGCCGCTAAAGAC
1 CTGAGCATTAGCGGCGCTTTTACAAAAACGCCGCTAAAGAC
32511771 CTGAGCATTAGCGGCGCTTCTT-CAAAAACGCCGCTAAAGAC
1 CTGAGCATTAGCGGCGCTT-TTACAAAAACGCCGCTAAAGAC
* *
32511812 CTGAGCATTAGCAGCGCTTTTACAAAAACGCCGCTAAAGCC
1 CTGAGCATTAGCGGCGCTTTTACAAAAACGCCGCTAAAGAC
*
32511853 CTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAA
1 CTGAGCATTAGCGGCGCTTTTACAAAAACGCCGCTAA
32511890 TGCTCATTTT
Statistics
Matches: 183, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
40 4 0.02
41 177 0.97
42 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (41 bp):
CTGAGCATTAGCGGCGCTTTTACAAAAACGCCGCTAAAGAC
Found at i:32511959 original size:40 final size:40
Alignment explanation
Indices: 32511860--32511994 Score: 170
Period size: 40 Copynumber: 3.4 Consensus size: 40
32511850 GCCCTGAGCA
* *
32511860 TTAGCGGCGCTTTTTCAAAAA-CGCCGCTAATGCTC-ATTT
1 TTAGTGGCG-TTTTTTAAAAAGCGCCGCTAATGCTCTATTT
* *
32511899 TTAGTGGCGTTTTTTAAAAAGCGCCGCTAATACTCTATCT
1 TTAGTGGCGTTTTTTAAAAAGCGCCGCTAATGCTCTATTT
32511939 TTAGTGGCGTTTTATT-AAAAGCGCCGCTAATGCT-TGATTT
1 TTAGTGGCGTTTT-TTAAAAAGCGCCGCTAATGCTCT-ATTT
*
32511979 TTAGCGGCGTTTTTTA
1 TTAGTGGCGTTTTTTA
32511995 TCCAAACGCC
Statistics
Matches: 84, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
38 10 0.12
39 24 0.29
40 48 0.57
41 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (40 bp):
TTAGTGGCGTTTTTTAAAAAGCGCCGCTAATGCTCTATTT
Found at i:32518973 original size:3 final size:3
Alignment explanation
Indices: 32518965--32518996 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
32518955 TAAATAGATC
32518965 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
32518997 TAGGTGATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:32519290 original size:18 final size:18
Alignment explanation
Indices: 32519263--32519332 Score: 60
Period size: 16 Copynumber: 4.0 Consensus size: 18
32519253 TACCTACGAT
32519263 TAAT-ATAAAAATAATAA
1 TAATAATAAAAATAATAA
*
32519280 TAATAATAAAATTAAATATTA
1 TAATAATAAAAAT-AATA--A
*
32519301 TAATAAT-AATATAAT-A
1 TAATAATAAAAATAATAA
32519317 TAA-AATAAAAA-AATAA
1 TAATAATAAAAATAATAA
32519333 ACTAAACATC
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
15 6 0.14
16 8 0.19
17 4 0.09
18 7 0.16
19 7 0.16
20 3 0.07
21 8 0.19
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAATAATAAAAATAATAA
Found at i:32527675 original size:3 final size:3
Alignment explanation
Indices: 32527667--32527699 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
32527657 AATCTGAATT
32527667 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
32527700 GGTTAACACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:32530767 original size:42 final size:42
Alignment explanation
Indices: 32530696--32530903 Score: 235
Period size: 42 Copynumber: 5.0 Consensus size: 42
32530686 CCAAATACTG
* * * *
32530696 AACAGAAGCTCATGAGAGCTAAATAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTTAATGGAAACCCATAAGGGTTA
* *
32530738 AA-TGAAAGCTCGTAAGAGCTTAATGGAAACCCATAAGGGTTA
1 AACAG-AAGCTCATAAGAGCTTAATGGAAACCCATAAGGGTTA
32530780 AACAGAAGCTCATAAGAGC-TAGATGGAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTTA-ATGGAAACCCATAAGGGTTA
* *
32530822 AACAGAAGCTCAATAA-AGCTGAACGGAAACCCATAAGGGTTA
1 AACAGAAGCTC-ATAAGAGCTTAATGGAAACCCATAAGGGTTA
* * * * *
32530864 AACAAAAGCTCA-ATAGAGCTAAACGGAAACTCATATGGGT
1 AACAGAAGCTCATA-AGAGCTTAATGGAAACCCATAAGGGT
32530904 AATTTGCCAC
Statistics
Matches: 145, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
40 1 0.01
41 5 0.03
42 133 0.92
43 6 0.04
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTTAATGGAAACCCATAAGGGTTA
Found at i:32530774 original size:21 final size:21
Alignment explanation
Indices: 32530710--32530816 Score: 60
Period size: 21 Copynumber: 5.1 Consensus size: 21
32530700 GAAGCTCATG
*
32530710 AGAGCTAAATAGAAACCCATA
1 AGAGCTTAATAGAAACCCATA
* * *
32530731 AG-GGTTGAAT-GAAAGCTCGTA
1 AGAGCTT-AATAGAAA-CCCATA
*
32530752 AGAGCTTAATGGAAACCCATA
1 AGAGCTTAATAGAAACCCATA
* * * *
32530773 AG-GGTTAAACAGAAGCTCATA
1 AGAGCTT-AATAGAAACCCATA
*
32530794 AGAGC-TAGATGGAAACCCATA
1 AGAGCTTA-ATAGAAACCCATA
32530815 AG
1 AG
32530817 GGTTAAACAG
Statistics
Matches: 62, Mismatches: 17, Indels: 14
0.67 0.18 0.15
Matches are distributed among these distances:
20 10 0.16
21 44 0.71
22 8 0.13
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.18
Consensus pattern (21 bp):
AGAGCTTAATAGAAACCCATA
Found at i:32530850 original size:84 final size:84
Alignment explanation
Indices: 32530696--32530903 Score: 260
Period size: 84 Copynumber: 2.5 Consensus size: 84
32530686 CCAAATACTG
* * * * * *
32530696 AACAGAAGCTCATGAGAGCTAAATAGAAACCCATAAGGGTTGAATGAAAGCTCGTAAGAGCTTAA
1 AACAGAAGCTCATAAGAGCTAAATGGAAACCCATAAGGGTTAAAAGAAAGCTCATAAGAGCTGAA
*
32530761 TGGAAACCCATAAGGGTTA
66 CGGAAACCCATAAGGGTTA
*
32530780 AACAGAAGCTCATAAGAGCTAGATGGAAACCCATAAGGGTTAAACAG-AAGCTCAATAA-AGCTG
1 AACAGAAGCTCATAAGAGCTAAATGGAAACCCATAAGGGTTAAA-AGAAAGCTC-ATAAGAGCTG
32530843 AACGGAAACCCATAAGGGTTA
64 AACGGAAACCCATAAGGGTTA
* * * *
32530864 AACAAAAGCTCA-ATAGAGCTAAACGGAAACTCATATGGGT
1 AACAGAAGCTCATA-AGAGCTAAATGGAAACCCATAAGGGT
32530904 AATTTGCCAC
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
83 1 0.01
84 103 0.95
85 4 0.04
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (84 bp):
AACAGAAGCTCATAAGAGCTAAATGGAAACCCATAAGGGTTAAAAGAAAGCTCATAAGAGCTGAA
CGGAAACCCATAAGGGTTA
Found at i:32530896 original size:21 final size:21
Alignment explanation
Indices: 32530820--32530896 Score: 50
Period size: 21 Copynumber: 3.7 Consensus size: 21
32530810 CCATAAGGGT
* * *
32530820 TAAACAGAAGCTCAATAAAGC
1 TAAACGGAAACTCAATAGAGC
* * * *
32530841 TGAACGGAAAC-CCATAAGGGT
1 TAAACGGAAACTCAAT-AGAGC
*
32530862 TAAAC-AAAAGCTCAATAGAGC
1 TAAACGGAAA-CTCAATAGAGC
32530883 TAAACGGAAACTCA
1 TAAACGGAAACTCA
32530897 TATGGGTAAT
Statistics
Matches: 39, Mismatches: 13, Indels: 8
0.65 0.22 0.13
Matches are distributed among these distances:
20 6 0.15
21 27 0.69
22 6 0.15
ACGTcount: A:0.48, C:0.19, G:0.18, T:0.14
Consensus pattern (21 bp):
TAAACGGAAACTCAATAGAGC
Found at i:32532829 original size:2 final size:2
Alignment explanation
Indices: 32532818--32532874 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
32532808 ACCATTGTTT
32532818 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32532859 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
32532875 AGTAAAGCAA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:32544818 original size:18 final size:18
Alignment explanation
Indices: 32544787--32544831 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
32544777 TGTATTATAA
*
32544787 TATTAATTAATAAAATAT
1 TATTACTTAATAAAATAT
*
32544805 TATTACTTATTAAAATAT
1 TATTACTTAATAAAATAT
32544823 TATTACTTA
1 TATTACTTA
32544832 CCATTGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTACTTAATAAAATAT
Found at i:32567830 original size:37 final size:37
Alignment explanation
Indices: 32567780--32567889 Score: 166
Period size: 37 Copynumber: 3.0 Consensus size: 37
32567770 CCTGGAAGAC
32567780 AAAAGACGGAGATGAATAGTAATGATTCTCTACAAAG
1 AAAAGACGGAGATGAATAGTAATGATTCTCTACAAAG
* * *
32567817 AAAAGATGAAGATGAATAGTAATGATTATCTACAAAG
1 AAAAGACGGAGATGAATAGTAATGATTCTCTACAAAG
* * *
32567854 AAAAGACGGAGATGAACAATAACGATTCTCTACAAA
1 AAAAGACGGAGATGAATAGTAATGATTCTCTACAAA
32567890 AATTCTCCCA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (37 bp):
AAAAGACGGAGATGAATAGTAATGATTCTCTACAAAG
Found at i:32568324 original size:3 final size:3
Alignment explanation
Indices: 32568316--32568351 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
32568306 AAAGTTGTCG
32568316 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32568352 AAACTATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:32568743 original size:18 final size:16
Alignment explanation
Indices: 32568720--32568766 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 16
32568710 TCCTTTAAAG
32568720 AACTTAAAATGATTTAT
1 AACTTAAAATGATTT-T
32568737 CAACTTAAAA--A-TTT
1 -AACTTAAAATGATTTT
32568751 AACTTAAAATGATTTT
1 AACTTAAAATGATTTT
32568767 TTTTAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.35
14 1 0.04
15 3 0.12
16 4 0.15
18 9 0.35
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (16 bp):
AACTTAAAATGATTTT
Found at i:32568846 original size:13 final size:15
Alignment explanation
Indices: 32568821--32568859 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
32568811 TTGTTTCACT
32568821 AAAAATGACTTTC-G
1 AAAAATGACTTTCTG
32568835 AAAAATGA-TTTCTG
1 AAAAATGACTTTCTG
*
32568849 GAAAATGACTT
1 AAAAATGACTT
32568860 ACTTTTCTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 16 0.73
15 2 0.09
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (15 bp):
AAAAATGACTTTCTG
Found at i:32570082 original size:19 final size:19
Alignment explanation
Indices: 32570055--32570092 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
32570045 ATCGATTTCG
*
32570055 GATATTTCTATATTTATTC
1 GATAATTCTATATTTATTC
32570074 GATAATTCTATATTTATTC
1 GATAATTCTATATTTATTC
32570093 AACATGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.05, T:0.55
Consensus pattern (19 bp):
GATAATTCTATATTTATTC
Found at i:32578458 original size:42 final size:42
Alignment explanation
Indices: 32578355--32578544 Score: 233
Period size: 42 Copynumber: 4.5 Consensus size: 42
32578345 TTTAAACAGA
* * * *
32578355 TTCACCGGCACTT-AGCCTGCTAGGCTTAAAGCCTGAT-TCAG-
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATAT-TGT
* *
32578396 TACACCGGCATTAAGCCTGCTAGATGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
* * *
32578438 TTTACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTAT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
*
32578480 TTCACCGGCATTAAGCCTACTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
* *
32578522 TTCACTGGCAATAAGCCTGCTAG
1 TTCACCGGCATTAAGCCTGCTAG
32578545 GCGCTAAGCC
Statistics
Matches: 128, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
40 2 0.02
41 30 0.23
42 96 0.75
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (42 bp):
TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
Found at i:32579342 original size:2 final size:2
Alignment explanation
Indices: 32579335--32579367 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
32579325 ATTCGAACAT
*
32579335 TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32579368 GCCATTCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32581083 original size:19 final size:21
Alignment explanation
Indices: 32581055--32581101 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
32581045 CAAATACGCC
*
32581055 AACAGAAGCTTG-AA-AGCTG
1 AACAGAAGCTCGTAAGAGCTG
*
32581074 AACAGGAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
32581095 AACAGAA
1 AACAGAA
32581102 AGTAAAACAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 10 0.43
20 2 0.09
21 11 0.48
ACGTcount: A:0.43, C:0.17, G:0.28, T:0.13
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:32582283 original size:13 final size:12
Alignment explanation
Indices: 32582258--32582291 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
32582248 GGGTTCTATG
*
32582258 TCATTTTCAATT
1 TCATTTTCCATT
32582270 TCATCTTTCCATT
1 TCAT-TTTCCATT
32582283 TCATTTTCC
1 TCATTTTCC
32582292 CCCATTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (12 bp):
TCATTTTCCATT
Found at i:32583304 original size:18 final size:18
Alignment explanation
Indices: 32583273--32583307 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32583263 CAATGGCAAC
*
32583273 TTCCATAAACTTCAACAA
1 TTCCAAAAACTTCAACAA
*
32583291 TTCCAAAAATTTCAACA
1 TTCCAAAAACTTCAACA
32583308 TGGGTAAGCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.29
Consensus pattern (18 bp):
TTCCAAAAACTTCAACAA
Found at i:32586589 original size:102 final size:102
Alignment explanation
Indices: 32586413--32586619 Score: 396
Period size: 102 Copynumber: 2.0 Consensus size: 102
32586403 GTGCCTCTGA
32586413 TTGTTAATGTTTGAATTAAATTATCAAAGCCCGATTGAGCGTAGTAAATGGTTAGGATACAATTG
1 TTGTTAATGTTTGAATTAAATTATCAAAGCCCGATTGAGCGTAGTAAATGGTTAGGATACAATTG
32586478 GCATGCCAATAGAGTTTGTACGCGTGCTTGTACAAAT
66 GCATGCCAATAGAGTTTGTACGCGTGCTTGTACAAAT
*
32586515 TTGTTAATGTTTGAATTAAATTATCAAAGCCTGATTGAGCGTAGTAAATGGTTAGGATACAATTG
1 TTGTTAATGTTTGAATTAAATTATCAAAGCCCGATTGAGCGTAGTAAATGGTTAGGATACAATTG
*
32586580 GCATGCCAATAGAGTTTGTACGCGTGCTTGTACAAGT
66 GCATGCCAATAGAGTTTGTACGCGTGCTTGTACAAAT
32586617 TTG
1 TTG
32586620 CACGTCAATG
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.34
Consensus pattern (102 bp):
TTGTTAATGTTTGAATTAAATTATCAAAGCCCGATTGAGCGTAGTAAATGGTTAGGATACAATTG
GCATGCCAATAGAGTTTGTACGCGTGCTTGTACAAAT
Found at i:32587918 original size:11 final size:11
Alignment explanation
Indices: 32587902--32587931 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
32587892 CACATAGGTT
32587902 GCATGTTTTTG
1 GCATGTTTTTG
*
32587913 GTATGTTTTTG
1 GCATGTTTTTG
32587924 GCATGTTT
1 GCATGTTT
32587932 AGATGTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.10, C:0.07, G:0.27, T:0.57
Consensus pattern (11 bp):
GCATGTTTTTG
Found at i:32594897 original size:28 final size:28
Alignment explanation
Indices: 32594843--32594897 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
32594833 TATTAAATTC
* * *
32594843 ATTATAGTTTGAATATTAATATCAATAT
1 ATTATAATTTAAATAATAATATCAATAT
* *
32594871 ATTATAATTTAAATAATATTATTAATA
1 ATTATAATTTAAATAATAATATCAATA
32594898 ATTTCTTATG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (28 bp):
ATTATAATTTAAATAATAATATCAATAT
Found at i:32603404 original size:18 final size:18
Alignment explanation
Indices: 32603381--32603415 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
32603371 ATAAAAAAAC
32603381 TAGAATAATAA-TACATAG
1 TAGAATAA-AATTACATAG
32603399 TAGAATAAAATTACATA
1 TAGAATAAAATTACATA
32603416 TAAAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.29
Consensus pattern (18 bp):
TAGAATAAAATTACATAG
Found at i:32603467 original size:3 final size:3
Alignment explanation
Indices: 32603461--32603497 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
32603451 GTACTTACGC
*
32603461 TAA TAA TAA TAGA CAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
32603498 ATTAATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.94
4 2 0.06
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:32604708 original size:23 final size:23
Alignment explanation
Indices: 32604682--32604725 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
32604672 TGTAAATTTT
32604682 CAAAATTCCACCATATTGAATTC
1 CAAAATTCCACCATATTGAATTC
32604705 CAAAATTCCACCATATTGAAT
1 CAAAATTCCACCATATTGAAT
32604726 GCCTATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.25, G:0.05, T:0.30
Consensus pattern (23 bp):
CAAAATTCCACCATATTGAATTC
Found at i:32610299 original size:13 final size:13
Alignment explanation
Indices: 32610281--32610305 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32610271 GAATTAATAT
32610281 GTGTGAAAATTTC
1 GTGTGAAAATTTC
32610294 GTGTGAAAATTT
1 GTGTGAAAATTT
32610306 TATCGGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:32611552 original size:43 final size:42
Alignment explanation
Indices: 32611405--32611561 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 42
32611395 TGTGATTTCG
*
32611405 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATATT-AGATTTA
* * *
32611447 CGTGTAAGACCATGTCTGGGACATCGGCATCG-TA-TACGATTTCG
1 --TGTAAGACCATGTCTGGGACGTTGGCATCGATATTA-GATTT-A
* * *
32611491 TGTAAGACCCTATCTGGGACAG-TGGCATCGATATTTGATTATA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATCGATATTAGATT-TA
32611534 TGTAAGACCATGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
32611562 TGTAAGAGCT
Statistics
Matches: 93, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
42 27 0.29
43 37 0.40
44 29 0.31
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGATATTAGATTTA
Found at i:32617452 original size:40 final size:40
Alignment explanation
Indices: 32617257--32617457 Score: 251
Period size: 40 Copynumber: 5.0 Consensus size: 40
32617247 AACACACTAG
* * * * * *
32617257 ACAGAAGCTCATAAAAGCT-AGTCTAACCAAAACACACCAG
1 ACAGAAGCTCATAAGAGTTGA-TCCAACCGAAACACGCCAA
* * *
32617297 ACAAAAGCTCATAAGAGCTGATCCAACCGAAACACACCAA
1 ACAGAAGCTCATAAGAGTTGATCCAACCGAAACACGCCAA
* * *
32617337 GCAGAAGCTCATAAGATTTGATCCAATCGAAACACGCCAA
1 ACAGAAGCTCATAAGAGTTGATCCAACCGAAACACGCCAA
* * *
32617377 ATAGAAACTCATAAGAGTTGATCCAACAGAAACACGCCAA
1 ACAGAAGCTCATAAGAGTTGATCCAACCGAAACACGCCAA
32617417 ACAGAAGCTCATAAGAGTTGATCCAACCGAAACACGCCAA
1 ACAGAAGCTCATAAGAGTTGATCCAACCGAAACACGCCAA
32617457 A
1 A
32617458 TAGATAGTAT
Statistics
Matches: 140, Mismatches: 20, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
40 139 0.99
41 1 0.01
ACGTcount: A:0.45, C:0.26, G:0.15, T:0.13
Consensus pattern (40 bp):
ACAGAAGCTCATAAGAGTTGATCCAACCGAAACACGCCAA
Found at i:32617862 original size:14 final size:14
Alignment explanation
Indices: 32617843--32617880 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
32617833 GTTTGCCAGT
* *
32617843 AAAATGTTTTCTGG
1 AAAATGATTTCTAG
32617857 AAAATGATTTCTAG
1 AAAATGATTTCTAG
32617871 AAAATGATTT
1 AAAATGATTT
32617881 ACTTTTTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.39
Consensus pattern (14 bp):
AAAATGATTTCTAG
Found at i:32617914 original size:19 final size:20
Alignment explanation
Indices: 32617864--32617929 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
32617854 TGGAAAATGA
*
32617864 TTTCTAGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
*
32617884 TTTTTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
32617904 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
32617923 TTTCTGG
1 TTTCTGG
32617930 TGTTTGGATG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
19 19 0.44
20 24 0.56
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:32618062 original size:36 final size:35
Alignment explanation
Indices: 32617997--32618071 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 35
32617987 TTTTCCAAAA
*
32617997 AAATTATTTTTACATATATTAATAAATTTATATTTT
1 AAATTATTTTTACATATATTAATAAATTTAT-TTAT
*
32618033 AAATT-TTTTTACATATATTTCAAT-GATTTATTTAT
1 AAATTATTTTTACATATA-TT-AATAAATTTATTTAT
32618068 AAAT
1 AAAT
32618072 AAAATTGGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
35 19 0.54
36 13 0.37
37 3 0.09
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (35 bp):
AAATTATTTTTACATATATTAATAAATTTATTTAT
Found at i:32620246 original size:24 final size:24
Alignment explanation
Indices: 32620214--32620260 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
32620204 TAAAACATAC
32620214 AGGAGCAAAAACAACAGAGAAATG
1 AGGAGCAAAAACAACAGAGAAATG
*
32620238 AGGAGCAAAAATAACAGAGAAAT
1 AGGAGCAAAAACAACAGAGAAAT
32620261 TAACAAGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.60, C:0.11, G:0.23, T:0.06
Consensus pattern (24 bp):
AGGAGCAAAAACAACAGAGAAATG
Found at i:32626464 original size:11 final size:12
Alignment explanation
Indices: 32626443--32626476 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
32626433 TAATTTAGTA
32626443 AATATAAATTT-T
1 AATA-AAATTTGT
32626455 AATAAAATTTGT
1 AATAAAATTTGT
32626467 AATAAAATTT
1 AATAAAATTT
32626477 CGTCTCTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (12 bp):
AATAAAATTTGT
Found at i:32627532 original size:14 final size:15
Alignment explanation
Indices: 32627492--32627541 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
32627482 AATTTGAATT
*
32627492 TAAAATTTGAAAA-C
1 TAAATTTTGAAAAGC
* *
32627506 TTAA-TTTGAAAAGT
1 TAAATTTTGAAAAGC
32627520 TAAATTTTG-AAAGC
1 TAAATTTTGAAAAGC
32627534 TAAATTTT
1 TAAATTTT
32627542 AGATAAACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 8 0.27
14 18 0.60
15 4 0.13
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (15 bp):
TAAATTTTGAAAAGC
Found at i:32629423 original size:75 final size:75
Alignment explanation
Indices: 32629334--32629482 Score: 253
Period size: 75 Copynumber: 2.0 Consensus size: 75
32629324 GTTTAGTTTA
* * *
32629334 TATATTTTTTAGATTTCTCTCTCGAATTTTTATACTATTATATATATAATCTTTAATATTTTAAA
1 TATAATTTTTAGATTTCTCTCTCGAATTTTTATACTATTAAATATATAAGCTTTAATATTTTAAA
32629399 ATTATTTTTT
66 ATTATTTTTT
* *
32629409 TATAATTTTTAGATTTTTCTCTCGAATTTTTATACTATTAAATATATAAGCTTTTATATTTTAAA
1 TATAATTTTTAGATTTCTCTCTCGAATTTTTATACTATTAAATATATAAGCTTTAATATTTTAAA
32629474 ATTATTTTT
66 ATTATTTTT
32629483 ATAGGTTATA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 69 1.00
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (75 bp):
TATAATTTTTAGATTTCTCTCTCGAATTTTTATACTATTAAATATATAAGCTTTAATATTTTAAA
ATTATTTTTT
Found at i:32635231 original size:19 final size:19
Alignment explanation
Indices: 32635207--32635243 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32635197 TAATTTATTA
32635207 TTTTATTAAATAAATAAAT
1 TTTTATTAAATAAATAAAT
**
32635226 TTTTATTATTTAAATAAA
1 TTTTATTAAATAAATAAA
32635244 ATAACTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTATTAAATAAATAAAT
Found at i:32635752 original size:29 final size:28
Alignment explanation
Indices: 32635719--32635775 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
32635709 TTATTTGAAC
* *
32635719 TAATTAATTATATTATAAAAATATTAAAT
1 TAATTAATAACATTATAAAAATA-TAAAT
*
32635748 TAATTAATAACATTATAAGAATATAAAT
1 TAATTAATAACATTATAAAAATATAAAT
32635776 ACAAAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (28 bp):
TAATTAATAACATTATAAAAATATAAAT
Found at i:32638223 original size:22 final size:23
Alignment explanation
Indices: 32638180--32638230 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
32638170 TATGAATCCG
*
32638180 TAAAAATATAAATATAAATATAA
1 TAAAAATATAAATACAAATATAA
**
32638203 TAAAAA-ATAAATACATTTATAA
1 TAAAAATATAAATACAAATATAA
32638225 -AAAAAT
1 TAAAAAT
32638231 GCATGAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 5 0.21
22 13 0.54
23 6 0.25
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (23 bp):
TAAAAATATAAATACAAATATAA
Found at i:32638843 original size:2 final size:2
Alignment explanation
Indices: 32638836--32638875 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
32638826 TAAGTACTAC
32638836 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32638876 CTCTCGAGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32662069 original size:45 final size:44
Alignment explanation
Indices: 32661993--32662179 Score: 166
Period size: 44 Copynumber: 4.3 Consensus size: 44
32661983 ATATGTGGTT
* *
32661993 GAAGCCACCAA-ATTCGTAGACAAGCTACCATGTAGGTTGTGGA
1 GAAGCCACCAATATTCGCAAACAAGCTACCATGTAGGTTGTGGA
* * * *
32662036 CGAAGCCACAAATATTCGCAAACAAGTTGCCATGTAAGTTGTGGA
1 -GAAGCCACCAATATTCGCAAACAAGCTACCATGTAGGTTGTGGA
* * * * * *
32662081 TAAACCACCATTATTTG-AAGACAATCTACCATGTAGGTTGCGGA
1 GAAGCCACCAATATTCGCAA-ACAAGCTACCATGTAGGTTGTGGA
* * * * *
32662125 TAAACCACCAAT-TTTGCAAACAAGCTGCCATG-AGGTAGTGGA
1 GAAGCCACCAATATTCGCAAACAAGCTACCATGTAGGTTGTGGA
32662167 CGAAGCCACCAAT
1 -GAAGCCACCAAT
32662180 TCTTTCTCCT
Statistics
Matches: 116, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
42 8 0.07
43 27 0.23
44 54 0.47
45 27 0.23
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (44 bp):
GAAGCCACCAATATTCGCAAACAAGCTACCATGTAGGTTGTGGA
Found at i:32662134 original size:23 final size:22
Alignment explanation
Indices: 32662065--32662134 Score: 52
Period size: 23 Copynumber: 3.1 Consensus size: 22
32662055 AAACAAGTTG
*
32662065 CCATGTAAGTTGTGGATAAACCA
1 CCATGT-AGTTGAGGATAAACCA
* * * * *
32662088 CCAT-TATTTGAAGACAATCTA
1 CCATGTAGTTGAGGATAAACCA
*
32662109 CCATGTAGGTTGCGGATAAACCA
1 CCATGTA-GTTGAGGATAAACCA
32662132 CCA
1 CCA
32662135 ATTTTGCAAA
Statistics
Matches: 33, Mismatches: 12, Indels: 4
0.67 0.24 0.08
Matches are distributed among these distances:
21 14 0.42
22 3 0.09
23 16 0.48
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (22 bp):
CCATGTAGTTGAGGATAAACCA
Found at i:32664430 original size:28 final size:28
Alignment explanation
Indices: 32664390--32664446 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
32664380 ATGCCTTTAA
32664390 ATCAGATTCGCCAGATCTGGGGTGTGAC
1 ATCAGATTCGCCAGATCTGGGGTGTGAC
32664418 ATCAGATTCGCCAGATCTGGGGTGTGAC
1 ATCAGATTCGCCAGATCTGGGGTGTGAC
32664446 A
1 A
32664447 GCATAAACCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (28 bp):
ATCAGATTCGCCAGATCTGGGGTGTGAC
Found at i:32669261 original size:40 final size:40
Alignment explanation
Indices: 32669203--32669281 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
32669193 ACTAAAATAG
* *
32669203 GGGTACTGAAGTAAAAATAGGGGCACGTATGTGCATTCAA
1 GGGTACCGAAGTAAAAATAGGGGCACGAATGTGCATTCAA
*
32669243 GGGTACCGAAGTATAAATAGGGGCACGAATGTGCATTCA
1 GGGTACCGAAGTAAAAATAGGGGCACGAATGTGCATTCA
32669282 TACATTAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.22
Consensus pattern (40 bp):
GGGTACCGAAGTAAAAATAGGGGCACGAATGTGCATTCAA
Found at i:32671896 original size:7 final size:7
Alignment explanation
Indices: 32671886--32671921 Score: 54
Period size: 7 Copynumber: 4.9 Consensus size: 7
32671876 ACGAAAAACG
32671886 AAATGCA
1 AAATGCA
32671893 AAATGCA
1 AAATGCA
32671900 TGAAATGCA
1 --AAATGCA
32671909 AAATGCA
1 AAATGCA
32671916 AAATGC
1 AAATGC
32671922 GATCCGTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 20 0.74
9 7 0.26
ACGTcount: A:0.53, C:0.14, G:0.17, T:0.17
Consensus pattern (7 bp):
AAATGCA
Found at i:32671906 original size:16 final size:16
Alignment explanation
Indices: 32671885--32671915 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
32671875 AACGAAAAAC
32671885 GAAATGCAAAATGCAT
1 GAAATGCAAAATGCAT
32671901 GAAATGCAAAATGCA
1 GAAATGCAAAATGCA
32671916 AAATGCGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.13, G:0.19, T:0.16
Consensus pattern (16 bp):
GAAATGCAAAATGCAT
Found at i:32676608 original size:20 final size:20
Alignment explanation
Indices: 32676583--32676621 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32676573 TACTTTCTTC
32676583 TTTACTTACTCTCTTACTTG
1 TTTACTTACTCTCTTACTTG
* *
32676603 TTTACTTAGTTTCTTACTT
1 TTTACTTACTCTCTTACTT
32676622 AAATAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.21, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTACTTACTCTCTTACTTG
Found at i:32683828 original size:60 final size:59
Alignment explanation
Indices: 32683719--32683842 Score: 144
Period size: 60 Copynumber: 2.1 Consensus size: 59
32683709 CTCGGTCATC
* ** *
32683719 TATCACCCTACAAACATGAGGATTAGCGCCCTGACCATTCAACCTATCATTCATACCAGG
1 TATCACCCTACAAACAAGAGGATTAGAACCCTGACCATTCAA-CTATCATTCAGACCAGG
* * *
32683779 TATCACCCTACAAACAAGAGGATTAGAATCTTGACCATTCAGA-TAATCATTGAGACCAGG
1 TATCACCCTACAAACAAGAGGATTAGAACCCTGACCATTCA-ACT-ATCATTCAGACCAGG
32683839 -ATCA
1 TATCA
32683843 TTCCTATTTC
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
59 5 0.09
60 49 0.89
61 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (59 bp):
TATCACCCTACAAACAAGAGGATTAGAACCCTGACCATTCAACTATCATTCAGACCAGG
Found at i:32698484 original size:11 final size:11
Alignment explanation
Indices: 32698468--32698492 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32698458 CAATAATTGA
32698468 TATCTTACCTT
1 TATCTTACCTT
32698479 TATCTTACCTT
1 TATCTTACCTT
32698490 TAT
1 TAT
32698493 TTTTTTAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.24, G:0.00, T:0.56
Consensus pattern (11 bp):
TATCTTACCTT
Found at i:32704676 original size:14 final size:14
Alignment explanation
Indices: 32704642--32704676 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
32704632 CACAAGTTAT
*
32704642 AAAAATCTTATTAG
1 AAAAATGTTATTAG
32704656 AAAAATGTTATTAG
1 AAAAATGTTATTAG
32704670 AAAAATG
1 AAAAATG
32704677 GCTGGGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.54, C:0.03, G:0.11, T:0.31
Consensus pattern (14 bp):
AAAAATGTTATTAG
Found at i:32705400 original size:6 final size:6
Alignment explanation
Indices: 32705389--32705420 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
32705379 TGTGTATGTT
32705389 TACATA TACATA TACATA TACATA TACATA TA
1 TACATA TACATA TACATA TACATA TACATA TA
32705421 TGCCTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
TACATA
Found at i:32706657 original size:3 final size:3
Alignment explanation
Indices: 32706649--32706687 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
32706639 TTGTAGTGAG
32706649 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
32706688 GTAAAGATGC
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:32717559 original size:22 final size:23
Alignment explanation
Indices: 32717524--32717566 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
32717514 ATATGACATG
32717524 TAATATTAGAAGATATGATTTTA
1 TAATATTAGAAGATATGATTTTA
* *
32717547 TAATCTTAG-AGATTTGATTT
1 TAATATTAGAAGATATGATTT
32717567 GTAGATACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (23 bp):
TAATATTAGAAGATATGATTTTA
Done.