Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003159.1 Hibiscus syriacus cultivar Beakdansim tig00006650_pilon, whole genome shotgun sequence
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: 158569
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:963 original size:24 final size:25
Alignment explanation
Indices: 916--968 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
906 TTCATATATG
* *
916 AAACATTTTATTAGAAATCGAATT-
1 AAACATTATATTAGAAATCAAATTC
940 AAACATTATATTA-AAATCAAAATTC
1 AAACATTATATTAGAAATC-AAATTC
965 AAAC
1 AAAC
969 CAAACAGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.20
24 16 0.64
25 4 0.16
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.32
Consensus pattern (25 bp):
AAACATTATATTAGAAATCAAATTC
Found at i:9892 original size:26 final size:26
Alignment explanation
Indices: 9862--9954 Score: 105
Period size: 26 Copynumber: 3.4 Consensus size: 26
9852 GAGGTAATTG
9862 TTATTTATTTATTTCGAATAATTTAT
1 TTATTTATTTATTTCGAATAATTTAT
*
9888 TTATTTATTTAGTTCGAATAAATTAGTGAT
1 TTATTTATTTATTTCGAAT-AATT--T-AT
* ** *
9918 TTGTTTATTTATTTTAAATTATTTAT
1 TTATTTATTTATTTCGAATAATTTAT
9944 TTATTTATTTA
1 TTATTTATTTA
9955 AAGGGGTATG
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
26 30 0.54
27 5 0.09
29 4 0.07
30 17 0.30
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.61
Consensus pattern (26 bp):
TTATTTATTTATTTCGAATAATTTAT
Found at i:10411 original size:17 final size:17
Alignment explanation
Indices: 10389--10448 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 17
10379 GAAATCTATG
10389 TTTATTTATTTTAATTT
1 TTTATTTATTTTAATTT
10406 TTTATTTATAATATTAAAATTTT
1 TTTATTTAT--T-TT--AA-TTT
*
10429 TTTATTTATTGTAATTT
1 TTTATTTATTTTAATTT
10446 TTT
1 TTT
10449 GTCGATAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
17 15 0.42
18 2 0.06
19 1 0.03
20 3 0.08
21 1 0.03
22 2 0.06
23 12 0.33
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (17 bp):
TTTATTTATTTTAATTT
Found at i:13385 original size:13 final size:13
Alignment explanation
Indices: 13367--13393 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13357 TTACATACGC
13367 GCATATGAAGATT
1 GCATATGAAGATT
13380 GCATATGAAGATT
1 GCATATGAAGATT
13393 G
1 G
13394 TTCAACGATG
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:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (13 bp):
GCATATGAAGATT
Found at i:14097 original size:2 final size:2
Alignment explanation
Indices: 14086--14177 Score: 168
Period size: 2 Copynumber: 46.5 Consensus size: 2
14076 TTGAAACAAT
14086 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
*
14127 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG 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
14169 TA TA TA TA T
1 TA TA TA TA T
14178 GTATGATGAA
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
1 1 0.01
2 86 0.99
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14321 original size:11 final size:12
Alignment explanation
Indices: 14269--14326 Score: 50
Period size: 13 Copynumber: 4.9 Consensus size: 12
14259 CTTATAAAAG
*
14269 TATATAATATAAG
1 TATATAATAT-AC
*
14282 TATACAATATAC
1 TATATAATATAC
14294 T-TATAATATAC
1 TATATAATATAC
*
14305 GGATATAATATA-
1 -TATATAATATAC
14317 TATAT-ATATA
1 TATATAATATA
14327 AAGTGTATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
10 5 0.13
11 13 0.34
12 2 0.05
13 18 0.47
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (12 bp):
TATATAATATAC
Found at i:14322 original size:24 final size:25
Alignment explanation
Indices: 14269--14327 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 25
14259 CTTATAAAAG
*
14269 TATATAATATAAGTATACAATATAC
1 TATATAATATAAGGATACAATATAC
* *
14294 T-TATAATATACGGATATAATATA-
1 TATATAATATAAGGATACAATATAC
14317 TATAT-ATATAA
1 TATATAATATAA
14328 AGTGTATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 6 0.21
24 22 0.76
25 1 0.03
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (25 bp):
TATATAATATAAGGATACAATATAC
Found at i:14335 original size:17 final size:17
Alignment explanation
Indices: 14315--14347 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
14305 GGATATAATA
14315 TATATATATATAAAGTG
1 TATATATATATAAAGTG
14332 TATATATATATAAAGT
1 TATATATATATAAAGT
14348 ATAAATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATATATATAAAGTG
Found at i:14386 original size:12 final size:12
Alignment explanation
Indices: 14366--14410 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
14356 TATATGTGAT
*
14366 GTATGTACATAA
1 GTATATACATAA
14378 GTATATACATAA
1 GTATATACATAA
*
14390 GTGTATATATATAA
1 --GTATATACATAA
14404 GTATATA
1 GTATATA
14411 ATTAAACATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 18 0.62
14 11 0.38
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.38
Consensus pattern (12 bp):
GTATATACATAA
Found at i:14397 original size:14 final size:14
Alignment explanation
Indices: 14365--14410 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
14355 ATATATGTGA
*
14365 TGTATGTACATAA-
1 TGTATATACATAAG
14378 -GTATATACATAAG
1 TGTATATACATAAG
*
14391 TGTATATATATAAG
1 TGTATATACATAAG
*
14405 TATATA
1 TGTATA
14411 ATTAAACATG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.39
14 17 0.61
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.39
Consensus pattern (14 bp):
TGTATATACATAAG
Found at i:14876 original size:2 final size:2
Alignment explanation
Indices: 14869--14923 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
14859 CTCACTTTGA
14869 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
14911 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
14924 ATTCAATAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19402 original size:16 final size:16
Alignment explanation
Indices: 19381--19414 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19371 AATTATTTAA
*
19381 TTAAAAAATAAATTAT
1 TTAAAAAATAAAATAT
*
19397 TTAAAATATAAAATAT
1 TTAAAAAATAAAATAT
19413 TT
1 TT
19415 TGTTCATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TTAAAAAATAAAATAT
Found at i:20621 original size:19 final size:20
Alignment explanation
Indices: 20575--20617 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
20565 TTGGGCTACG
20575 ATTTGAAAGTAAAGTTATGA
1 ATTTGAAAGTAAAGTTATGA
*
20595 ATCTGAAA-TAAA-TTATGA
1 ATTTGAAAGTAAAGTTATGA
20613 ATTTG
1 ATTTG
20618 GAAAATTCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 10 0.48
19 4 0.19
20 7 0.33
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.37
Consensus pattern (20 bp):
ATTTGAAAGTAAAGTTATGA
Found at i:24830 original size:16 final size:15
Alignment explanation
Indices: 24795--24835 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
24785 CCGAAAGTTC
*
24795 CGGGTACCCAAAATT
1 CGGGTACCCAAAAAT
24810 CGGGTACCCAAAAAT
1 CGGGTACCCAAAAAT
24825 CTGGGTACCCA
1 C-GGGTACCCA
24836 GATTTGCACA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 15 0.62
16 9 0.38
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.17
Consensus pattern (15 bp):
CGGGTACCCAAAAAT
Found at i:25106 original size:12 final size:12
Alignment explanation
Indices: 25089--25113 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25079 GGATACCGAT
25089 AGTCTTGACCCA
1 AGTCTTGACCCA
25101 AGTCTTGACCCA
1 AGTCTTGACCCA
25113 A
1 A
25114 AATTTATCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (12 bp):
AGTCTTGACCCA
Found at i:38909 original size:36 final size:36
Alignment explanation
Indices: 38868--39056 Score: 236
Period size: 36 Copynumber: 5.3 Consensus size: 36
38858 AAAGATGAAC
**
38868 ACTTGAATCGGAAGTGTTGATGCTTCCTCCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTCCCGTTCG
* * *
38904 ACTTGAATCGGAAATGTCGATGCTTCCTCCCGTTCA
1 ACTTGAATCGGAAGTGCCGATGCTTCCTCCCGTTCG
* *
38940 ACTTGAATCGGAAGTGCCGATGCTTCCTTCTGTTC-
1 ACTTGAATCGGAAGTGCCGATGCTTCCTCCCGTTCG
* *
38975 ACTTGAATCAGAAGTGCCGATGCTTCCTTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTCCCGTTCG
* * * *
39011 ATTTGAATCGGAAGTGCCAATGCTTACTTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTCCCGTTCG
* *
39047 ATTTCAATCG
1 ACTTGAATCG
39057 ATGCAAACTT
Statistics
Matches: 138, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
35 33 0.24
36 105 0.76
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (36 bp):
ACTTGAATCGGAAGTGCCGATGCTTCCTCCCGTTCG
Found at i:39009 original size:71 final size:72
Alignment explanation
Indices: 38868--39047 Score: 245
Period size: 71 Copynumber: 2.5 Consensus size: 72
38858 AAAGATGAAC
** * * *
38868 ACTTGAATCGGAAGTGTTGATGCTTCCTCCCGTTCGACTTGAATCGGAAATGTCGATGCTTCCTC
1 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGACTTGAATCAGAAATGCCGATGCTTCCTC
38933 CCGTTCA
66 CCGTTCA
* * *
38940 ACTTGAATCGGAAGTGCCGATGCTTCCTTCTGTTC-ACTTGAATCAGAAGTGCCGATGCTTCCTT
1 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGACTTGAATCAGAAATGCCGATGCTTCCTC
*
39004 CCGTTCG
66 CCGTTCA
* * *
39011 ATTTGAATCGGAAGTGCCAATGCTTACTTCCGTTCGA
1 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGA
39048 TTTCAATCGA
Statistics
Matches: 94, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
71 62 0.66
72 32 0.34
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (72 bp):
ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGACTTGAATCAGAAATGCCGATGCTTCCTC
CCGTTCA
Found at i:40083 original size:23 final size:23
Alignment explanation
Indices: 40057--40101 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
40047 CACCACAGCT
*
40057 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
40080 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
40102 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:40339 original size:149 final size:149
Alignment explanation
Indices: 40069--40383 Score: 560
Period size: 149 Copynumber: 2.1 Consensus size: 149
40059 TATAAATGCA
*
40069 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATATAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
* *
40133 TTCCTTAAGGATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATATT
*
40198 CCAAAGAATATATATATATC
130 CCAAAGAATATACATATATC
40218 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
40283 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATATTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATATTC
*
40348 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
*
40367 CCGAATGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
40384 CCCTCTACCC
Statistics
Matches: 159, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
148 1 0.01
149 158 0.99
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATATTC
CAAAGAATATACATATATC
Found at i:47120 original size:23 final size:23
Alignment explanation
Indices: 47094--47138 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
47084 CACCACAGCT
*
47094 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
47117 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
47139 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:47376 original size:149 final size:149
Alignment explanation
Indices: 47106--47420 Score: 560
Period size: 149 Copynumber: 2.1 Consensus size: 149
47096 TATAAATGCA
*
47106 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATATAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
*
47170 TTCCTTAAGGATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
*
47235 CCAAAGAATATATATATATC
130 CCAAAGAATATACATATATC
*
47255 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCTATAAGGACCACATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
*
47320 TCCTTAAGAATCATATACATATACTAGGGATCATGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
*
47385 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
47404 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
47421 CCCTCTACCC
Statistics
Matches: 159, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
148 1 0.01
149 158 0.99
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:48008 original size:64 final size:63
Alignment explanation
Indices: 47875--48031 Score: 158
Period size: 64 Copynumber: 2.4 Consensus size: 63
47865 TAATGAGGGT
* * * ** *
47875 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATTACTGGG
1 ATGCATCGATGCA-TACTAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
* *
47939 ATGCATCGATGCATGACTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATT-TTAAA-A
1 ATGCATCGATGCAT-ACTAATGCATCGATGCA-TAAAATGCATTCGATG-TTCTATTATTAAAGA
48001 G
63 G
*
48002 AGTGCATCGATGCATTACCAATGCATCGAT
1 A-TGCATCGATGCA-TACTAATGCATCGAT
48032 ACACCTTTAA
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
63 3 0.04
64 68 0.86
65 8 0.10
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (63 bp):
ATGCATCGATGCATACTAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
Found at i:52009 original size:13 final size:13
Alignment explanation
Indices: 51991--52015 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51981 GTAGTTGAAG
51991 AACAATGGAGAAC
1 AACAATGGAGAAC
52004 AACAATGGAGAA
1 AACAATGGAGAA
52016 ATTACAGGAA
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:0.56, C:0.12, G:0.24, T:0.08
Consensus pattern (13 bp):
AACAATGGAGAAC
Found at i:60284 original size:12 final size:11
Alignment explanation
Indices: 60279--60320 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
60269 AAAAGAAGCA
60279 AAAAAACAAAGG
1 AAAAAA-AAAGG
60291 AAAAAACAAAGG
1 AAAAAA-AAAGG
*
60303 AAAAACAAAGG
1 AAAAAAAAAGG
60314 AAAAAAA
1 AAAAAAA
60321 GAAAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
11 11 0.39
12 17 0.61
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGG
Found at i:60294 original size:11 final size:11
Alignment explanation
Indices: 60280--60318 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
60270 AAAGAAGCAA
60280 AAAAACAAAGG
1 AAAAACAAAGG
60291 AAAAAACAAAGG
1 -AAAAACAAAGG
60303 AAAAACAAAGG
1 AAAAACAAAGG
60314 AAAAA
1 AAAAA
60319 AAGAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.77, C:0.08, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAACAAAGG
Found at i:60333 original size:23 final size:22
Alignment explanation
Indices: 60257--60333 Score: 75
Period size: 23 Copynumber: 3.4 Consensus size: 22
60247 AGGTGAGTAT
* * *
60257 AAAAGCAAAGAGAAAAGAAGCAA
1 AAAAACAAAG-GAAAAAAAGAAA
*
60280 AAAAACAAAGGAAAAAACA-AAGG
1 AAAAACAAAGGAAAAAA-AGAA-A
60303 AAAAACAAAGGAAAAAAAGAAA
1 AAAAACAAAGGAAAAAAAGAAA
60325 AAAATACAA
1 AAAA-ACAA
60334 TAAGCATATG
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
22 12 0.27
23 33 0.73
ACGTcount: A:0.75, C:0.08, G:0.16, T:0.01
Consensus pattern (22 bp):
AAAAACAAAGGAAAAAAAGAAA
Found at i:62930 original size:65 final size:66
Alignment explanation
Indices: 62757--62931 Score: 199
Period size: 66 Copynumber: 2.7 Consensus size: 66
62747 ATTGATAAAC
* * * * * *
62757 CATTGAGATTGTTTCCCTCGAAATAAGTTTTATCTCTCTTGAAACAATTTCTCTTGAAACACAAA
1 CATTGAGATTGTTTCCCTTGAAATAAATTTTATCTCTCTTGAGACAATTCCCCTTCAAACACAAA
62822 T
66 T
* * * * * *
62823 CCTTGTGATTGTTTCTCTTGAAATAATTTTTTTCTCTCTTGAGACAGTTCCCCTTCAAACACAAA
1 CATTGAGATTGTTTCCCTTGAAATAAATTTTATCTCTCTTGAGACAATTCCCCTTCAAACACAAA
62888 -
66 T
* * * *
62888 CATTGAGTTTGTTTCCCTTGAAACAAATTTTGTCTCGCTTGAGA
1 CATTGAGATTGTTTCCCTTGAAATAAATTTTATCTCTCTTGAGA
62932 ATGTTTCTCT
Statistics
Matches: 90, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
65 36 0.40
66 54 0.60
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.40
Consensus pattern (66 bp):
CATTGAGATTGTTTCCCTTGAAATAAATTTTATCTCTCTTGAGACAATTCCCCTTCAAACACAAA
T
Found at i:62937 original size:36 final size:37
Alignment explanation
Indices: 62897--62984 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 37
62887 ACATTGAGTT
* *
62897 TGTTTCCCTTGAAACAAATTTTGTCTCGCTTGAGA-A
1 TGTTTCTCTTGAAACAAATTTTATCTCGCTTGAGACA
* * *
62933 TGTTTCTCTTTAAACAAGTTTTATCTCTCTTGAGACA
1 TGTTTCTCTTGAAACAAATTTTATCTCGCTTGAGACA
62970 -GTTTCTCTTGAAACA
1 TGTTTCTCTTGAAACA
62985 TAAACAATTG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
36 44 0.98
37 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (37 bp):
TGTTTCTCTTGAAACAAATTTTATCTCGCTTGAGACA
Found at i:62960 original size:101 final size:101
Alignment explanation
Indices: 62832--63049 Score: 289
Period size: 101 Copynumber: 2.2 Consensus size: 101
62822 TCCTTGTGAT
* * * *
62832 TGTTTCTCTTGAAATAATTTTTTTCTCTCTTGAGACAGTTCCCCTTCAAACACAAAC-ATTGAGT
1 TGTTTCTCTTGAAACAAGTTTTATCTCTCTTGAGACAGTTCCCCTTCAAACACAAACAATTGAGA
*
62896 TTGTTTCCCTTGAAACAAATTTTGTCTCGCTTGAGA-A
66 TTGTTTCCCTTGAAA-AAA-ATTGTCTCGCTTGAGACA
* * * * *
62933 TGTTTCTCTTTAAACAAGTTTTATCTCTCTTGAGACAGTTTCTCTTGAAACATAAACAATTGAGA
1 TGTTTCTCTTGAAACAAGTTTTATCTCTCTTGAGACAGTTCCCCTTCAAACACAAACAATTGAGA
*
62998 TTGTTTCCCTTGAAAAAAATTGTCTCTCTTGAGACA
66 TTGTTTCCCTTGAAAAAAATTGTCTCGCTTGAGACA
*
63034 -GTTTCTCGTGAAACAA
1 TGTTTCTCTTGAAACAA
63050 ATTATCCCTA
Statistics
Matches: 102, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
100 28 0.27
101 53 0.52
102 21 0.21
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.39
Consensus pattern (101 bp):
TGTTTCTCTTGAAACAAGTTTTATCTCTCTTGAGACAGTTCCCCTTCAAACACAAACAATTGAGA
TTGTTTCCCTTGAAAAAAATTGTCTCGCTTGAGACA
Found at i:63303 original size:140 final size:140
Alignment explanation
Indices: 63047--63339 Score: 403
Period size: 140 Copynumber: 2.1 Consensus size: 140
63037 TCTCGTGAAA
* * *
63047 CAAATTATCCCT-AATGATGGCCAGACGTCCTCATCACGTAGGAATAATGTCATCCACCGACCAG
1 CAAATTATCCCTAAATGATGGCCAGACATCCTCATAACGTAGGAACAATGTCATCCACCGACCAG
* * * *
63111 ATCTCCTCATCACGTAGGAGCAGCATCAACATTAGATAACCTGACTTCCTCATCACGTAGGAACC
66 ATCTCCCCATCACGTAAGAGCAGCATCAACATTAGATAACCAGACTTACTCATCACGTAGGAACC
63176 GTGTTGTCTCC
131 GTGTTGTCT-C
* * *
63187 CAAATTATCCCTAAAT-ATGGCTAGACATCCTCATAAGGTAGGAACAATGTCATCCACCGACTAG
1 CAAATTATCCCTAAATGATGGCCAGACATCCTCATAACGTAGGAACAATGTCATCCACCGACCAG
** * * * *
63251 ATCTCCCCATCACGTAAGAGCAGTGTCACCCTTAGATAACCAGATTTACTCATCACGTCGGAACC
66 ATCTCCCCATCACGTAAGAGCAGCATCAACATTAGATAACCAGACTTACTCATCACGTAGGAACC
63316 GTGTTGTCTC
131 GTGTTGTCTC
*
63326 CAAATT-TACCTAAA
1 CAAATTATCCCTAAA
63340 AACTGCCAGA
Statistics
Matches: 135, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
138 7 0.05
139 7 0.05
140 118 0.87
141 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (140 bp):
CAAATTATCCCTAAATGATGGCCAGACATCCTCATAACGTAGGAACAATGTCATCCACCGACCAG
ATCTCCCCATCACGTAAGAGCAGCATCAACATTAGATAACCAGACTTACTCATCACGTAGGAACC
GTGTTGTCTC
Found at i:63586 original size:3 final size:3
Alignment explanation
Indices: 63580--63610 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
63570 TGTTCTACTT
63580 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
63611 CTTTTATTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:64276 original size:19 final size:17
Alignment explanation
Indices: 64252--64296 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
64242 AACTAGTTCG
64252 AAAAAAGAACAAAAACATA
1 AAAAAAGAACAAAAA-A-A
* *
64271 AAAAAAAAACCAAAAAA
1 AAAAAAGAACAAAAAAA
64288 AAAAAAGAA
1 AAAAAAGAA
64297 AATAACAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
19 13 0.57
ACGTcount: A:0.84, C:0.09, G:0.04, T:0.02
Consensus pattern (17 bp):
AAAAAAGAACAAAAAAA
Found at i:69092 original size:21 final size:21
Alignment explanation
Indices: 69063--69117 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 21
69053 CGTGGGGGGT
*
69063 ATCGATTCCCTC-AAGGAGGGA
1 ATCGGTTCCCTCAAAGGA-GGA
69084 ATCGGTTCCCATTCAAAGGAGGA
1 ATCGGTTCCC--TCAAAGGAGGA
69107 ATCGGTTCCCT
1 ATCGGTTCCCT
69118 TATGGGGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 10 0.33
23 15 0.50
24 5 0.17
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (21 bp):
ATCGGTTCCCTCAAAGGAGGA
Found at i:69135 original size:20 final size:20
Alignment explanation
Indices: 69057--69137 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 20
69047 AGAACCCGTG
* *
69057 GGGGGTATCGATTCCCTCAA
1 GGGGGAATCGATTCCCTTAA
*
69077 GGAGGGAATCGGTTCCCATTCAAA
1 GG-GGGAATCGATTCCC-TT--AA
* * *
69101 GGAGGAATCGGTTCCCTTAT
1 GGGGGAATCGATTCCCTTAA
*
69121 GGGGGTATCGATTCCCT
1 GGGGGAATCGATTCCCT
69138 CTGCCAAATG
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
20 17 0.35
21 12 0.24
22 3 0.06
23 13 0.27
24 4 0.08
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTTAA
Found at i:69268 original size:46 final size:46
Alignment explanation
Indices: 69201--69292 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
69191 TTAATCCTAG
*
69201 TGGTATTGACAACTCATATTTCGAAAATTAACTATGTTCAAACAAT
1 TGGTATTGACAACTCATATTTCAAAAATTAACTATGTTCAAACAAT
* *
69247 TGGTATTGGCAACTCATATTTCAAAAATTAACTATGTTTAAACAAT
1 TGGTATTGACAACTCATATTTCAAAAATTAACTATGTTCAAACAAT
69293 CAAATTTGTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (46 bp):
TGGTATTGACAACTCATATTTCAAAAATTAACTATGTTCAAACAAT
Found at i:72052 original size:16 final size:15
Alignment explanation
Indices: 72026--72055 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
72016 TTAGCACAAG
72026 CATTACAAATTTTAT
1 CATTACAAATTTTAT
72041 CATTATCAAATTTTA
1 CATTA-CAAATTTTA
72056 GTTTAGGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (15 bp):
CATTACAAATTTTAT
Found at i:72851 original size:70 final size:70
Alignment explanation
Indices: 72738--72876 Score: 269
Period size: 70 Copynumber: 2.0 Consensus size: 70
72728 TTAGAGGTTA
72738 CCCATTCCCTTTTTATGTGTGGCTAGAGCATCTTGAATATCATCATATTTATCACCATTGCTCTC
1 CCCATTCCCTTTTTATGTGTGGCTAGAGCATCTTGAATATCATCATATTTATCACCATTGCTCTC
72803 ACACG
66 ACACG
*
72808 CCCATTCCCTTTTTATGTGTGGCTAGAGCATCTTGAATATCATCATCTTTATCACCATTGCTCTC
1 CCCATTCCCTTTTTATGTGTGGCTAGAGCATCTTGAATATCATCATATTTATCACCATTGCTCTC
72873 ACAC
66 ACAC
72877 ACCTACAAGA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.37
Consensus pattern (70 bp):
CCCATTCCCTTTTTATGTGTGGCTAGAGCATCTTGAATATCATCATATTTATCACCATTGCTCTC
ACACG
Found at i:73221 original size:33 final size:34
Alignment explanation
Indices: 73151--73222 Score: 85
Period size: 33 Copynumber: 2.1 Consensus size: 34
73141 TTTTCAATAC
* *
73151 TTTCAAATTTCATTTTTGAGAGTTCTAAATCCTT
1 TTTCAAATTTCATTTTTGAGAGTTCAAAATCCAT
**
73185 TTTCAAGATTTCA-TTTTGA-TTTTCAAAATCCAT
1 TTTCAA-ATTTCATTTTTGAGAGTTCAAAATCCAT
73218 TTTCA
1 TTTCA
73223 TTTCTAGAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 15 0.45
34 12 0.36
35 6 0.18
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.50
Consensus pattern (34 bp):
TTTCAAATTTCATTTTTGAGAGTTCAAAATCCAT
Found at i:76298 original size:3 final size:3
Alignment explanation
Indices: 76290--76386 Score: 124
Period size: 3 Copynumber: 31.7 Consensus size: 3
76280 TTCATTTAAA
76290 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
76338 AAT TACT AAT T-T TAT TATT TAT TAC TAA TAT TAT TAT TAAT TAT TAT
1 TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T-AT TAT TAT
76385 TA
1 TA
76387 CAAACGGGCC
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
2 2 0.02
3 73 0.88
4 8 0.10
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:78436 original size:17 final size:17
Alignment explanation
Indices: 78414--78460 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
78404 CTTTTCAAAT
*
78414 TTTTTATTTATTTATTA
1 TTTTTATTTATTTAATA
*
78431 TTTTTA-TAATATTAATA
1 TTTTTATTTAT-TTAATA
*
78448 TTTTTTTTTATTT
1 TTTTTATTTATTT
78461 GCAAATATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
16 3 0.12
17 18 0.75
18 3 0.12
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTATTTATTTAATA
Found at i:82819 original size:72 final size:72
Alignment explanation
Indices: 82728--82862 Score: 234
Period size: 72 Copynumber: 1.9 Consensus size: 72
82718 ATACAATAAA
* *
82728 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCTGGCTTTATGGATAATATTCAGCTAGT
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGGCTTTATGGATAATAGTCAGCTAGT
82793 CTGTTAT
66 CTGTTAT
* *
82800 GCTTGAGTTGTCCCTCTAAAGCAATTGGTTAATAGCCCCGGCTTTATGGATAATAGTCAGCTA
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGGCTTTATGGATAATAGTCAGCTA
82863 ACCCATTATA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (72 bp):
GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGGCTTTATGGATAATAGTCAGCTAGT
CTGTTAT
Found at i:84710 original size:83 final size:83
Alignment explanation
Indices: 84609--85400 Score: 1421
Period size: 83 Copynumber: 9.6 Consensus size: 83
84599 GAATAAATGC
*
84609 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAGCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
84674 CATTGAATTTGGAAGAAT
66 CATTGAATTTGGAAGAAT
*
84692 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAGCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
84757 CATTGAATTTGGAAGAAT
66 CATTGAATTTGGAAGAAT
84775 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
*
84840 CATTTAATTTGGAAGAAT
66 CATTGAATTTGGAAGAAT
*
84858 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAGCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
84923 CATTGAATTTGGAAGAAT
66 CATTGAATTTGGAAGAAT
*
84941 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAGCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
*
85006 AATTGAATTTGGAAGAAT
66 CATTGAATTTGGAAGAAT
*
85024 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
85089 CATTGAATTTGGAAGAAT
66 CATTGAATTTGGAAGAAT
85107 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
85172 CATTGAATTTGGAAGAAT
66 CATTGAATTTGGAAGAAT
85190 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
**
85255 CATTGAATTT-G-AGAGG
66 CATTGAATTTGGAAGAAT
* *
85271 AATGTGTTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
**
85336 CATTGAATTT-G-AGAGG
66 CATTGAATTTGGAAGAAT
* *
85352 AATGTGTTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
85401 ATTCTGTATG
Statistics
Matches: 696, Mismatches: 13, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
81 131 0.19
82 1 0.00
83 564 0.81
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (83 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
CATTGAATTTGGAAGAAT
Found at i:88050 original size:22 final size:22
Alignment explanation
Indices: 88020--88098 Score: 106
Period size: 22 Copynumber: 3.6 Consensus size: 22
88010 ACATCTACAT
*
88020 TCTTCAAAGATGATAGATTCTC
1 TCTTTAAAGATGATAGATTCTC
*
88042 TCTTTAAAGATGATAGATTCCC
1 TCTTTAAAGATGATAGATTCTC
* *
88064 TTTTTAAAGATGACAGATTCTC
1 TCTTTAAAGATGATAGATTCTC
88086 T-TTTCAAAGATGA
1 TCTTT-AAAGATGA
88099 AAGCTTTATC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
21 3 0.06
22 48 0.94
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (22 bp):
TCTTTAAAGATGATAGATTCTC
Found at i:88748 original size:113 final size:113
Alignment explanation
Indices: 88568--92376 Score: 7460
Period size: 113 Copynumber: 33.7 Consensus size: 113
88558 ATCTGAAGGA
** * * * *
88568 AGAAGAATTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
88633 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
88681 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
*
88746 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCACAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
88794 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
88859 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
88907 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
88972 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
89020 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
89085 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
*
89133 AGAAGAATTTTTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
89198 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
89246 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
89311 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
89359 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
*
89424 TCATAATGAGAAAAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
89472 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
89537 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
89585 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
89650 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
*
89698 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGTATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
89763 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
89811 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
89876 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
89924 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
89989 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
90037 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
90102 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
90150 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
*
90215 TAATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
90263 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
90328 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
90376 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
90441 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
90489 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
90554 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
90602 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
90667 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
90715 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
90780 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
90828 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
90893 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
90941 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
91006 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
91054 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
91119 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
91167 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
91232 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
91280 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
*
91345 TAATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
*
91393 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCAAAT-CCAGAGAAGG
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATC-ATTGCCAGAGAAGG
91457 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
65 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
91506 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
91571 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
91619 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
91684 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
91732 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
91797 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
91845 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
91910 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
91958 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAG-AGAG
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAG-G
92022 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
65 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
92071 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
92136 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
92184 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
92249 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
*
92297 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAAGT
1 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
92362 TCATAATGAGAAGAA
66 TCATAATGAGAAGAA
92377 TTTGTTCAAC
Statistics
Matches: 3671, Mismatches: 21, Indels: 8
0.99 0.01 0.00
Matches are distributed among these distances:
112 4 0.00
113 3663 1.00
114 4 0.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.30
Consensus pattern (113 bp):
AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
Found at i:92375 original size:73 final size:73
Alignment explanation
Indices: 92283--92449 Score: 266
Period size: 73 Copynumber: 2.3 Consensus size: 73
92273 AGAAGGAAGA
* * *
92283 AGAAA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATC
1 AGAAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCAAC
92347 ATTGCCAG
66 ATTGCCAG
*
92355 AGAAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCATTTGATGGATCAAC
1 AGAAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCAAC
92420 ATTGCCAG
66 ATTGCCAG
*
92428 -GTAGAGTTCATAATGAGAAGAA
1 AG-AAAGTTCATAATGAGAAGAA
92450 CTCGTCATCT
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
72 6 0.07
73 82 0.93
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (73 bp):
AGAAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCAAC
ATTGCCAG
Found at i:92750 original size:3 final size:3
Alignment explanation
Indices: 92742--92841 Score: 112
Period size: 3 Copynumber: 32.7 Consensus size: 3
92732 TTCATTTAAA
* *
92742 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
92790 TAT AAT TACT AAT T-T TAT TATT TAT TAC TAA TAT TAT TAT TAAT TAT
1 TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T-AT TAT
92837 TAT TA
1 TAT TA
92842 CAAACGGGCC
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
2 2 0.02
3 72 0.88
4 8 0.10
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:97611 original size:16 final size:15
Alignment explanation
Indices: 97565--97612 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
97555 CCCTAAAAAG
*
97565 TTTAAATTTTTGTTT
1 TTTAAATATTTGTTT
*
97580 TTTAAATATTTATTT
1 TTTAAATATTTGTTT
97595 TATTAAA-ATTGTGTTT
1 T-TTAAATATT-TGTTT
97611 TT
1 TT
97613 ACTCTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 18 0.64
16 10 0.36
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTAAATATTTGTTT
Found at i:102660 original size:18 final size:18
Alignment explanation
Indices: 102639--102696 Score: 91
Period size: 18 Copynumber: 3.2 Consensus size: 18
102629 GATTTTAAAG
102639 TTTGGATTTATTTCAAAA
1 TTTGGATTTATTTCAAAA
*
102657 TTTGTG-TTTATTTCAAAG
1 TTTG-GATTTATTTCAAAA
102675 TTTGGATTTATTTCAAAA
1 TTTGGATTTATTTCAAAA
102693 TTTG
1 TTTG
102697 TGTCTTGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.03
18 34 0.94
19 1 0.03
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.53
Consensus pattern (18 bp):
TTTGGATTTATTTCAAAA
Found at i:102680 original size:36 final size:36
Alignment explanation
Indices: 102630--102699 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
102620 GAAATGAAGG
*
102630 ATTTTAAAGTTTGGATTTATTTCAAAATTTGTGTTT
1 ATTTCAAAGTTTGGATTTATTTCAAAATTTGTGTTT
102666 ATTTCAAAGTTTGGATTTATTTCAAAATTTGTGT
1 ATTTCAAAGTTTGGATTTATTTCAAAATTTGTGT
102700 CTTGTTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.29, C:0.04, G:0.14, T:0.53
Consensus pattern (36 bp):
ATTTCAAAGTTTGGATTTATTTCAAAATTTGTGTTT
Found at i:104664 original size:20 final size:21
Alignment explanation
Indices: 104622--104664 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
104612 AAAACAAGAG
*
104622 AAAAATAAAAATGTGATATAA
1 AAAAATAAAAATGTAATATAA
104643 AAAAAT-AAAATGATAATA-AA
1 AAAAATAAAAATG-TAATATAA
104663 AA
1 AA
104665 TTATGAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (21 bp):
AAAAATAAAAATGTAATATAA
Found at i:108199 original size:27 final size:26
Alignment explanation
Indices: 108146--108201 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
108136 TTATAATTTT
* *
108146 ATATATTTTTAATAAATAAAATTATA
1 ATATATTATTAATAAATAAAATGATA
**
108172 ATATATTATTAGATAAATTTAATGATA
1 ATATATTATTA-ATAAATAAAATGATA
108199 ATA
1 ATA
108202 CTTTATAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (26 bp):
ATATATTATTAATAAATAAAATGATA
Found at i:111557 original size:31 final size:31
Alignment explanation
Indices: 111493--111560 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
111483 TGATAACCAC
*
111493 ATCTTAAATAAATAAAAATAAAAGTGACAAT
1 ATCTTAAATAAATAAAAACAAAAGTGACAAT
* * *
111524 ATCTTAATTAAATAAAAACGAAGGTGATC-AT
1 ATCTTAAATAAATAAAAACAAAAGTGA-CAAT
111555 ATCTTA
1 ATCTTA
111561 TGTATTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.29
Consensus pattern (31 bp):
ATCTTAAATAAATAAAAACAAAAGTGACAAT
Found at i:114353 original size:22 final size:20
Alignment explanation
Indices: 114320--114361 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
114310 AACCGAAATC
114320 GGTTTTTTCGGTTCGGTTCG
1 GGTTTTTTCGGTTCGGTTCG
114340 GGTTTTTTAACGGTTCGGTTCG
1 GGTTTTTT--CGGTTCGGTTCG
114362 ATTTTTCAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 8 0.40
22 12 0.60
ACGTcount: A:0.05, C:0.14, G:0.33, T:0.48
Consensus pattern (20 bp):
GGTTTTTTCGGTTCGGTTCG
Found at i:118619 original size:31 final size:30
Alignment explanation
Indices: 118548--118668 Score: 109
Period size: 31 Copynumber: 3.9 Consensus size: 30
118538 AGTAAAGGGT
* * *
118548 TTACCTATGTTCTACAGAACATATGGACAGAA
1 TTACCTATGTTCTTCGGGACATATGGAC--AA
118580 TTACCTATG-TCTTTCGGGACATATGGACAA
1 TTACCTATGTTC-TTCGGGACATATGGACAA
** * *
118610 TGTACCTATGTTCTAAGGAACATAGGGACAA
1 T-TACCTATGTTCTTCGGGACATATGGACAA
* *
118641 TTTACCTAGGTTCTTCGGGACCTATGGA
1 -TTACCTATGTTCTTCGGGACATATGGA
118669 TATTTTGCCG
Statistics
Matches: 72, Mismatches: 13, Indels: 9
0.77 0.14 0.10
Matches are distributed among these distances:
30 3 0.04
31 44 0.61
32 25 0.35
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (30 bp):
TTACCTATGTTCTTCGGGACATATGGACAA
Found at i:123915 original size:55 final size:54
Alignment explanation
Indices: 123851--124368 Score: 480
Period size: 55 Copynumber: 9.4 Consensus size: 54
123841 TGACGGGTCT
* * * *** *
123851 GCTCCCTATTCTTCCAGGGAGTATAAAACTCGAACAATCTTCGGCAAACATGTCT
1 GCTCTCTATTCTT-CAGAGAGTATAGAACTCGAACAATCTTCAATAAACATGTCC
* * *
123906 GCTCCCTATTCATTCAGGGAGTATA-AGACTCGAACAATCTTCAATAAAC-GGATCC
1 GCTCTCTATTC-TTCAGAGAGTATAGA-ACTCGAACAATCTTCAATAAACATG-TCC
* * * * **
123961 GCTCCCTATCCGTTTAGGGAGTATAGAACTCGAACAATCTTC-ATAAAACGGGTCC
1 GCTCTCTATTC-TTCAGAGAGTATAGAACTCGAACAATCTTCAAT-AAACATGTCC
* * * *** *
124016 GCTCTCTATTCCTTCAGAGAGTATAGAACTTGAATAATCTTCAACAAATGGGTCT
1 GCTCTCTATT-CTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACATGTCC
124071 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTC-ATAAA-ATGGGTCC
1 GCTCTCTATT-CTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACAT--GTCC
* * * **
124126 GCTCTCTATTCCTCCAGAAAGTATAGAACTCGAATAATCTTC-ATAAAACGGGTCC
1 GCTCTCTATT-CTTCAGAGAGTATAGAACTCGAACAATCTTCAAT-AAACATGTCC
* *
124181 GCTCTCTATTCCTTTAGAGAGTATAGAACTCAAACAATCTTC-ATAAA-ATGAGTCC
1 GCTCTCTATT-CTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACAT--GTCC
124236 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTC-ATAAA-ATGGGTCC
1 GCTCTCTATT-CTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACAT--GTCC
* * **
124291 ACTCTCTATTTCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACATGTAT
1 GCTCTCTA-TTCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACATGTCC
124346 GCTCTCTATTCCTTCAGAGAGTA
1 GCTCTCTATT-CTTCAGAGAGTA
124369 CATGACTCAA
Statistics
Matches: 402, Mismatches: 43, Indels: 36
0.84 0.09 0.07
Matches are distributed among these distances:
54 13 0.03
55 371 0.92
56 16 0.04
57 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (54 bp):
GCTCTCTATTCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACATGTCC
Found at i:124025 original size:110 final size:110
Alignment explanation
Indices: 123843--124368 Score: 632
Period size: 110 Copynumber: 4.8 Consensus size: 110
123833 TCTTCAAATG
* * * * *** ** *
123843 ACGGGTCTGCTCCCTATT-CTTCCAGGGAGTATAAAACTCGAACAATCTTCGGCAAACATGTCTG
1 ACGGGTCCGCTCTCTATTCCTT-CAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCG
* * *
123907 CTCCCTATTCATTCAGGGAGTATA-AGACTCGAACAATCTTCA-ATAA
65 CTCTCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCATA-AA
* * * *
123953 ACGGATCCGCTCCCTA-TCCGTTTAGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCG
1 ACGGGTCCGCTCTCTATTCC-TTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCG
* *
124017 CTCTCTATTCCTTCAGAGAGTATAGAACTTGAATAATCTTCA-ACAA
65 CTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AA
* * *
124063 ATGGGTCTGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAATGGGTCCGC
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGC
* * *
124128 TCTCTATTCCTCCAGAAAGTATAGAACTCGAATAATCTTCATAAA
66 TCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAA
* * * *
124173 ACGGGTCCGCTCTCTATTCCTTTAGAGAGTATAGAACTCAAACAATCTTCATAAAATGAGTCCGC
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGC
124238 TCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAA
66 TCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAA
* * * ** **
124283 ATGGGTCCACTCTCTATTTCTTCAGAGAGTATAGAACTCGAACAATCTTCA-ACAAACATGTATG
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AAACGGGTCCG
124347 CTCTCTATTCCTTCAGAGAGTA
65 CTCTCTATTCCTTCAGAGAGTA
124369 CATGACTCAA
Statistics
Matches: 366, Mismatches: 44, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
109 2 0.01
110 357 0.98
111 7 0.02
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (110 bp):
ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGC
TCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAA
Found at i:124104 original size:165 final size:165
Alignment explanation
Indices: 123843--124368 Score: 670
Period size: 165 Copynumber: 3.2 Consensus size: 165
123833 TCTTCAAATG
* * * * ** *
123843 ACGGGTCTGCTCCCTATT-CTTCCAGGGAGTATAAAACTCGAACAATCTTCGGCAAA-CATGTCT
1 ACGGGTCCGCTCTCTATTCCTT-CAGAGAGTATAGAACTCGAACAATCTTCAACAAATGA-GTCT
* * * * * *
123906 GCTCCCTATTCATTCAGGGAGTATA-AGACTCGAACAATCTTCA-ATAAACGGATCCGCTCCCTA
64 GCTCTCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCATA-AAATGGGTCCGCTCTCTA
* *
123969 -TCCGTTTAGGGAGTATAGAACTCGAACAATCTTCATAAA
127 TTCC-TTCAGAGAGTATAGAACTCGAACAATCTTCATAAA
* * *
124008 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTTGAATAATCTTCAACAAATGGGTCTGC
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAATGAGTCTGC
124073 TCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAATGGGTCCGCTCTCTATTCC
66 TCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAATGGGTCCGCTCTCTATTCC
* * *
124138 TCCAGAAAGTATAGAACTCGAATAATCTTCATAAA
131 TTCAGAGAGTATAGAACTCGAACAATCTTCATAAA
* * *
124173 ACGGGTCCGCTCTCTATTCCTTTAGAGAGTATAGAACTCAAACAATCTTCATA-AAATGAGTCCG
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCA-ACAAATGAGTCTG
* *
124237 CTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAATGGGTCCACTCTCTATTT
65 CTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAATGGGTCCGCTCTCTATTC
124302 CTTCAGAGAGTATAGAACTCGAACAATCTTCA-ACAA
130 CTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AA
** **
124338 ACATGTATGCTCTCTATTCCTTCAGAGAGTA
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTA
124369 CATGACTCAA
Statistics
Matches: 317, Mismatches: 37, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
164 1 0.00
165 307 0.97
166 9 0.03
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (165 bp):
ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAATGAGTCTGC
TCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAATGGGTCCGCTCTCTATTCC
TTCAGAGAGTATAGAACTCGAACAATCTTCATAAA
Found at i:124444 original size:37 final size:37
Alignment explanation
Indices: 124394--124536 Score: 162
Period size: 37 Copynumber: 3.9 Consensus size: 37
124384 AACAAACGAG
* **
124394 TTTGCTTTACTACTCTTTTGTGAAGGCTTATAG-ATGA
1 TTTGCTTCACTACTCTTCCGTGAAGGCTTA-AGTATGA
*
124431 TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGTTTGA
1 TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGTATGA
* *
124468 ATTGCTTCACTACTCTTCCGTGAAGGCTTAAGTTTGA
1 TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGTATGA
* * ** * *
124505 ATTACTTCACCGCTCTTTCGTGAAGGTTTAAG
1 TTTGCTTCACTACTCTTCCGTGAAGGCTTAAG
124537 ATTAACTTGT
Statistics
Matches: 95, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
36 2 0.02
37 93 0.98
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.41
Consensus pattern (37 bp):
TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGTATGA
Found at i:125845 original size:7 final size:7
Alignment explanation
Indices: 125833--125913 Score: 72
Period size: 7 Copynumber: 10.7 Consensus size: 7
125823 TTTTCTCTAT
125833 TTTTTCA
1 TTTTTCA
125840 TTTTTCA
1 TTTTTCA
*
125847 TTTTTCTC
1 TTTTTC-A
*
125855 TTTCTTCT
1 TTT-TTCA
125863 TTTTTCA
1 TTTTTCA
125870 TTTTTTCA
1 -TTTTTCA
*
125878 TTTTTTA
1 TTTTTCA
*
125885 TTTTCAACA
1 TTTT--TCA
125894 TTTTTCA
1 TTTTTCA
125901 TTTTTTCA
1 -TTTTTCA
125909 TTTTT
1 TTTTT
125914 TTTCATTTCT
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
7 33 0.54
8 20 0.33
9 8 0.13
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:125859 original size:31 final size:31
Alignment explanation
Indices: 125824--125914 Score: 107
Period size: 31 Copynumber: 3.0 Consensus size: 31
125814 CCCTTTTATT
*
125824 TTTCTCTATTTTTTCA-TTTTTCATTTTTCTC
1 TTTCTCTATTTTTTCATTTTTTCATTTTT-TA
*
125855 TTTCT-TCTTTTTTCATTTTTTCATTTTTTA
1 TTTCTCTATTTTTTCATTTTTTCATTTTTTA
* *
125885 TTT-TCAACATTTTTCATTTTTTCATTTTTT
1 TTTCTCTA-TTTTTTCATTTTTTCATTTTTT
125915 TTCATTTCTT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
29 1 0.02
30 13 0.25
31 38 0.73
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (31 bp):
TTTCTCTATTTTTTCATTTTTTCATTTTTTA
Found at i:125870 original size:23 final size:24
Alignment explanation
Indices: 125817--125913 Score: 80
Period size: 23 Copynumber: 4.2 Consensus size: 24
125807 TGAACCCCCC
*
125817 TTTT-ATTTTTCTCTATTTTTTCAT
1 TTTTCATTTTTCTC-ATTTCTTCAT
*
125841 TTTTCATTTTTCTC-TTTCTTCTT
1 TTTTCATTTTTCTCATTTCTTCAT
*
125864 TTTTCATTTTT-TCATTT-TTTA-
1 TTTTCATTTTTCTCATTTCTTCAT
* *
125885 TTTTCAACATTTT-TCATTTTTTCAT
1 TTTTC-A-TTTTTCTCATTTCTTCAT
125910 TTTT
1 TTTT
125914 TTTCATTTCT
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
21 5 0.08
22 5 0.08
23 31 0.51
24 7 0.11
25 13 0.21
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTCATTTTTCTCATTTCTTCAT
Found at i:129419 original size:6 final size:6
Alignment explanation
Indices: 129408--131196 Score: 3134
Period size: 6 Copynumber: 302.7 Consensus size: 6
129398 GAGGAGATAT
129408 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
129456 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
* *
129504 ATATAC ATATAC ATATAC ATACATAC ATATAC ATATAC ATACAT ATATAC
1 ATATAC ATATAC ATATAC AT--ATAC ATATAC ATATAC ATATAC ATATAC
129554 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATA-AC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
129601 --ATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
129647 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
129695 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
129743 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
129791 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
129839 --ATAC ATATAC ATATAC ATATAC ATATAC ATAT-C ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
129884 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
129932 --ATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
129978 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC --ATAC -TATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
130023 ATATAC ATATAC ATATAC --ATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
130069 ATATAC --ATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
130115 ATATAC ATATAC ATATAC ATATATAC ATATAC --ATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC --ATATAC ATATAC ATATAC ATATAC ATATAC
130163 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
130211 ATATAC ATAT-- ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
130257 ATATAC ATATAC ATATAC --ATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
130303 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC --ATATAC
130353 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
130401 ATATAC ATATAC ATATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC --ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
130451 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
130499 ATATATAC ATATAC ATATAC ATATAC ATATAC --ATAC ATATAC ATATAC
1 --ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
*
130547 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC CTATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
130595 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
130643 ATATAC ATATATAC ATATAC ATATAC ATATAC --ATAC ATATAC ATATAC
1 ATATAC --ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
130691 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC --ATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
* *
130737 ATATAC ATATAT ACATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
130785 ATATAC ATATAC ATATAC --ATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
130831 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
130879 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
130927 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
130975 ATATAC ATATAC ATAT-- ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
131021 ATATAC --ATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
131067 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC --ATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
131113 ATATAC ATATAC ATATAC --ATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
* *
131159 --ATAC ATATAC ATATAC ATATAC ATATAT ATATAT ATAT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
131197 GGGAGGATCT
Statistics
Matches: 1722, Mismatches: 11, Indels: 100
0.94 0.01 0.05
Matches are distributed among these distances:
4 72 0.04
5 14 0.01
6 1600 0.93
8 36 0.02
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:141679 original size:23 final size:23
Alignment explanation
Indices: 141628--141698 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
141618 TAGAACCTCC
* *
141628 AGGGGGTATCGATTCCCC-T-AC
1 AGGGGGAATCGATTCCCCTTCAA
141649 AGGGGGAATCGATTCCCCTTCAA
1 AGGGGGAATCGATTCCCCTTCAA
* *
141672 AGGGGGAATCGGTTCCCATTC-A
1 AGGGGGAATCGATTCCCCTTCAA
141694 AGGGG
1 AGGGG
141699 TATCGACTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
21 17 0.39
22 7 0.16
23 20 0.45
ACGTcount: A:0.23, C:0.24, G:0.32, T:0.21
Consensus pattern (23 bp):
AGGGGGAATCGATTCCCCTTCAA
Found at i:141703 original size:21 final size:21
Alignment explanation
Indices: 141630--141709 Score: 79
Period size: 21 Copynumber: 3.7 Consensus size: 21
141620 GAACCTCCAG
* * *
141630 GGGGTATCGATTCCCCTACAG
1 GGGGAATCGATTCCCCTTCAA
141651 GGGGAATCGATTCCCCTTCAAA
1 GGGGAATCGATTCCCCTTC-AA
* *
141673 GGGGGAATCGGTTCCCATTCAA
1 -GGGGAATCGATTCCCCTTCAA
* *
141695 GGGGTATCGACTCCC
1 GGGGAATCGATTCCC
141710 TTTGCACCAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
21 29 0.59
22 3 0.06
23 17 0.35
ACGTcount: A:0.21, C:0.28, G:0.29, T:0.23
Consensus pattern (21 bp):
GGGGAATCGATTCCCCTTCAA
Found at i:151398 original size:22 final size:22
Alignment explanation
Indices: 151368--151416 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
151358 TTCGGTATTA
* * *
151368 TTCACTATTGTTCATGATACTG
1 TTCATTATTATTCACGATACTG
*
151390 TTCATTATTATTCACGGTACTG
1 TTCATTATTATTCACGATACTG
151412 TTCAT
1 TTCAT
151417 ACCGTATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.47
Consensus pattern (22 bp):
TTCATTATTATTCACGATACTG
Found at i:158135 original size:2 final size:2
Alignment explanation
Indices: 158128--158157 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
158118 ATGTATATGC
158128 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
158158 GTTAATGTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.