Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 96 of 113
Found at i:19543583 original size:10 final size:10
Alignment explanation
Indices: 19543559--19543588 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
19543549 ATTTTTATCA
19543559 ATTAAAATA-
1 ATTAAAATAT
19543568 ATTAAAATAT
1 ATTAAAATAT
19543578 ATTAAAATAT
1 ATTAAAATAT
19543588 A
1 A
19543589 AAAATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:19543600 original size:19 final size:20
Alignment explanation
Indices: 19543558--19543601 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
19543548 GATTTTTATC
*
19543558 AATTAAAATAATTAAAATAT
1 AATTAAAATAATAAAAATAT
*
19543578 -ATTAAAAT-ATAAAAATTT
1 AATTAAAATAATAAAAATAT
19543596 AATTAA
1 AATTAA
19543602 GTTCGTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTAAAATAATAAAAATAT
Found at i:19554609 original size:2 final size:2
Alignment explanation
Indices: 19554604--19554630 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19554594 TGTGTGTATG
19554604 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
19554631 TATTTATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19557379 original size:211 final size:211
Alignment explanation
Indices: 19557001--19557425 Score: 762
Period size: 211 Copynumber: 2.0 Consensus size: 211
19556991 CAATGGTTTA
* *
19557001 TAAAAAACAGGGGTAAGCTCACTGATGTTTCATGGCTTCAATATATTACTAAAATGCAATCTCGT
1 TAAAAAACAAGGGTAAGCTCACTAATGTTTCATGGCTTCAATATATTACTAAAATGCAATCTCGT
19557066 TTTGATAAAAATGAGTTTTCTAATCCTATATTTGAATTAGTGAGTCTGAAGCAAAATCATAGCGT
66 TTTGATAAAAATGAGTTTTCTAATCCTATATTTGAATTAGTGAGTCTGAAGCAAAATCATAGCGT
19557131 TGATGATTATTATGATGAATTTGAAGGACTATTAAACATGATTGATATATCTGATGAGCATGCCC
131 TGATGATTATTATGATGAATTTGAAGGACTATTAAACATGATTGATATATCTGATGAGCATGCCC
19557196 TTAGCATCTTTATTAG
196 TTAGCATCTTTATTAG
* *
19557212 TAAAGAACAAGGGTAAGCTCACTAATGTTTCATGGCTTCAATATATTGCTAAAATGCAATCTCGT
1 TAAAAAACAAGGGTAAGCTCACTAATGTTTCATGGCTTCAATATATTACTAAAATGCAATCTCGT
* *
19557277 TTTGATAAAAATGAGTTTTCTGATCCTATGTTTGAATTAGTGAGTCTGAAGCAAAATCATA-CTG
66 TTTGATAAAAATGAGTTTTCTAATCCTATATTTGAATTAGTGAGTCTGAAGCAAAATCATAGC-G
* *
19557341 TTGATGATTATTATGATGAATTTGAAGGACTGTTAAACATGATTGATATATCTTATGAGCATGCC
130 TTGATGATTATTATGATGAATTTGAAGGACTATTAAACATGATTGATATATCTGATGAGCATGCC
19557406 CTTAGCATCTTTATTAG
195 CTTAGCATCTTTATTAG
19557423 TAA
1 TAA
19557426 TCTGAATCCA
Statistics
Matches: 205, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
210 1 0.00
211 204 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.36
Consensus pattern (211 bp):
TAAAAAACAAGGGTAAGCTCACTAATGTTTCATGGCTTCAATATATTACTAAAATGCAATCTCGT
TTTGATAAAAATGAGTTTTCTAATCCTATATTTGAATTAGTGAGTCTGAAGCAAAATCATAGCGT
TGATGATTATTATGATGAATTTGAAGGACTATTAAACATGATTGATATATCTGATGAGCATGCCC
TTAGCATCTTTATTAG
Found at i:19557796 original size:20 final size:19
Alignment explanation
Indices: 19557771--19557820 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 19
19557761 CCCATTTCTT
*
19557771 TTTTTATTTTGTATTTTTCA
1 TTTTTATTTTGTA-TTTACA
19557791 TTTTTA-TTT-TATTTACA
1 TTTTTATTTTGTATTTACA
19557808 TTTTTATTATTGT
1 TTTTTATT-TTGT
19557821 TATTGTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 11 0.42
18 3 0.12
19 5 0.19
20 7 0.27
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.74
Consensus pattern (19 bp):
TTTTTATTTTGTATTTACA
Found at i:19557852 original size:6 final size:6
Alignment explanation
Indices: 19557771--19557876 Score: 56
Period size: 7 Copynumber: 16.5 Consensus size: 6
19557761 CCCATTTCTT
**
19557771 TTTTTA TTTTGTA TTTTTCA TTTTTA -TTTTA TTTACA TTTTTA TTATTGTTA
1 TTTTTA TTTT-TA TTTTT-A TTTTTA TTTTTA TTTTTA TTTTTA -T-TT-TTA
* * *
19557823 TTGTTT- TTTATA TTTTTT TCTTTTA TTTTTA -TCTTA TGTATTTA TTATTTA
1 TT-TTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA T-T-TTTA TT-TTTA
19557874 TTT
1 TTT
19557877 ATTACTACTA
Statistics
Matches: 78, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
5 11 0.14
6 26 0.33
7 30 0.38
8 8 0.10
9 3 0.04
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:19557901 original size:11 final size:11
Alignment explanation
Indices: 19557856--19557902 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
19557846 TATTTTTATC
*
19557856 TTATGTATTTA
1 TTATATATTTA
*
19557867 TTATTTATTTA
1 TTATATATTTA
19557878 TTACTACTATTTA
1 TTA-TA-TATTTA
19557891 TTATATATTTA
1 TTATATATTTA
19557902 T
1 T
19557903 CCTTATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 20 0.62
12 3 0.09
13 9 0.28
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (11 bp):
TTATATATTTA
Found at i:19557912 original size:24 final size:23
Alignment explanation
Indices: 19557850--19557976 Score: 90
Period size: 24 Copynumber: 5.7 Consensus size: 23
19557840 TTCTTTTATT
*
19557850 TTTATCTTATGTATTTATTATTTA
1 TTTATCTTAT-TATTTATTATATA
*
19557874 TTTAT-TACTACTATTTATTATATA
1 TTTATCT--TATTATTTATTATATA
19557898 TTTATCCTTATTA-TTATT-T-T-
1 TTTAT-CTTATTATTTATTATATA
* * *
19557918 TTTCTGTTAATATTTA-TATATA
1 TTTATCTTATTATTTATTATATA
* * *
19557940 TTTATCTGATTATATGTTATA-A
1 TTTATCTTATTATTTATTATATA
19557962 TTTATC-TATTATTTA
1 TTTATCTTATTATTTA
19557977 ATTTTAATTT
Statistics
Matches: 79, Mismatches: 15, Indels: 21
0.69 0.13 0.18
Matches are distributed among these distances:
19 6 0.08
20 8 0.10
21 8 0.10
22 18 0.23
23 10 0.13
24 26 0.33
25 2 0.03
26 1 0.01
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.62
Consensus pattern (23 bp):
TTTATCTTATTATTTATTATATA
Found at i:19558041 original size:16 final size:15
Alignment explanation
Indices: 19558012--19558059 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
19558002 GGTTTATCTG
*
19558012 ATTTATTTTCATTTAT
1 ATTT-TTTTGATTTAT
*
19558028 ATTTTATTTGATTTTTT
1 ATTTT-TTTGA-TTTAT
19558045 ATTTTTTTGATTTAT
1 ATTTTTTTGATTTAT
19558060 TCGACTGAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 5 0.19
16 13 0.48
17 9 0.33
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (15 bp):
ATTTTTTTGATTTAT
Found at i:19558880 original size:15 final size:15
Alignment explanation
Indices: 19558860--19558919 Score: 50
Period size: 15 Copynumber: 3.8 Consensus size: 15
19558850 CATTCCCAGG
*
19558860 TTTTTTTTTTTTTCA
1 TTTTTTTTTATTTCA
19558875 TTTTTTTTTATTTCTA
1 TTTTTTTTTATTTC-A
*
19558891 TTATTTATATTATTT-A
1 TT-TTT-TTTTATTTCA
*
19558907 TTTATTATTTATT
1 TTT-TTTTTTATT
19558920 ATTATATTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 19 0.51
16 8 0.22
17 3 0.08
18 7 0.19
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTTTTATTTCA
Found at i:19558894 original size:9 final size:9
Alignment explanation
Indices: 19558882--19558928 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
19558872 TCATTTTTTT
*
19558882 TTATTTCTA
1 TTATTTATA
19558891 TTATTTATA
1 TTATTTATA
19558900 TTATTTAT-
1 TTATTTATA
*
19558908 TTATTATTTA
1 TTATT-TATA
19558918 TTA-TTATA
1 TTATTTATA
19558926 TTA
1 TTA
19558929 GGATTGTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
8 11 0.33
9 19 0.58
10 3 0.09
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (9 bp):
TTATTTATA
Found at i:19559276 original size:117 final size:118
Alignment explanation
Indices: 19559118--19559334 Score: 359
Period size: 117 Copynumber: 1.8 Consensus size: 118
19559108 TTTCAAAAAA
* *
19559118 AAAAAGAGTTTTTTTTTTAGGAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTC-AAA
1 AAAAAGAGTTTTTTTTTTAGGAAAATTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAAAA
**
19559182 AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAATTTTC
66 AAATA-TTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAATTTTC
19559236 AAAAAG-G-TTTTTTTTTAGGAAAAATTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAAA
1 AAAAAGAGTTTTTTTTTTAGG-AAAATTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAAA
19559299 AAAATATTTTGAAGAAAAGTTGAAAGTATCAATTTT
65 AAAATATTTTGAAGAAAAGTTGAAAGTATCAATTTT
19559335 CCCTACACAA
Statistics
Matches: 93, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
116 12 0.13
117 67 0.72
118 14 0.15
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.39
Consensus pattern (118 bp):
AAAAAGAGTTTTTTTTTTAGGAAAATTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAAAA
AAATATTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAATTTTC
Found at i:19559278 original size:59 final size:58
Alignment explanation
Indices: 19559128--19559334 Score: 274
Period size: 58 Copynumber: 3.6 Consensus size: 58
19559118 AAAAAGAGTT
*
19559128 TTTTTTTTAGG-AAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTCAAAAAA
1 TTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTCAAAAAA
* * * * *
19559185 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAA-TTTTCAAAAAGGT
1 TTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTCAAAAA--A
* * *
19559244 TTTTTTTTAGGAAAAATTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAA
1 TTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTCAAAAAA
* * *
19559302 ATATTTTGAAGAAAAGTTGAAAGTATCAATTTT
1 TTTTTTTGAGGAAAAGTTGAAAGTATCAATTTT
19559335 CCCTACACAA
Statistics
Matches: 127, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
57 18 0.14
58 60 0.47
59 40 0.31
60 9 0.07
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.40
Consensus pattern (58 bp):
TTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTCAAAAAA
Found at i:19564854 original size:18 final size:15
Alignment explanation
Indices: 19564819--19564848 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19564809 TAGAAATGTT
19564819 AGAGAAGGCTAGAAG
1 AGAGAAGGCTAGAAG
19564834 AGAGAAGGCTA-AAG
1 AGAGAAGGCTAGAAG
19564848 A
1 A
19564849 AAGAGAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.50, C:0.07, G:0.37, T:0.07
Consensus pattern (15 bp):
AGAGAAGGCTAGAAG
Found at i:19569749 original size:17 final size:18
Alignment explanation
Indices: 19569729--19569762 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
19569719 ATACTATGCT
19569729 TAAAAAAT-AAAAAAAAA
1 TAAAAAATGAAAAAAAAA
19569746 TAAAAAATGAAAAAAAA
1 TAAAAAATGAAAAAAAA
19569763 GTGAATGAAA
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:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (18 bp):
TAAAAAATGAAAAAAAAA
Found at i:19570851 original size:41 final size:42
Alignment explanation
Indices: 19570745--19571003 Score: 384
Period size: 41 Copynumber: 6.1 Consensus size: 42
19570735 ATGATTGTCA
19570745 AGGAGCCATTTTATTTTTCTAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCCA-TTTATTTTTCTAAAGTCGTTGAGCCTCTGATTAG
19570788 AGGAGCCATTTTATTTTT-TAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCCA-TTTATTTTTCTAAAGTCGTTGAGCCTCTGATTAG
*
19570830 A-GAGCCATTTATTTTTCTAAAGTCATTGAGCCTCTGATTAG
1 AGGAGCCATTTATTTTTCTAAAGTCGTTGAGCCTCTGATTAG
* *
19570871 AGGAGCCATTTA-TTTTCTAAAGTCGTTAAGCCTTTGATTAG
1 AGGAGCCATTTATTTTTCTAAAGTCGTTGAGCCTCTGATTAG
19570912 AGGAGCCATTTATTTTTTCTAAAAGTCGTTGAGCC-CTGATTAG
1 AGGAGCCATTTA-TTTTTCT-AAAGTCGTTGAGCCTCTGATTAG
* *
19570955 AAGAGCCATTTATGTTTT-TCAAAGTCGTTGAGCCTCTGCTTAG
1 AGGAGCCATTTAT-TTTTCT-AAAGTCGTTGAGCCTCTGATTAG
19570998 AGGAGC
1 AGGAGC
19571004 TTTGATCAAA
Statistics
Matches: 199, Mismatches: 10, Indels: 14
0.89 0.04 0.06
Matches are distributed among these distances:
40 9 0.05
41 68 0.34
42 51 0.26
43 58 0.29
44 13 0.07
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (42 bp):
AGGAGCCATTTATTTTTCTAAAGTCGTTGAGCCTCTGATTAG
Found at i:19570918 original size:83 final size:83
Alignment explanation
Indices: 19570745--19571003 Score: 396
Period size: 83 Copynumber: 3.1 Consensus size: 83
19570735 ATGATTGTCA
19570745 AGGAGCCATTTTATTTTTCTAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTTATTTTTTAAA
1 AGGAGCCA-TTTATTTTTCTAAAGTCGTTGAGCCTCTGATTAGAGGAGCCA-TTTATTTTTTAAA
19570810 GTCGTTGAGCCTCTGATTAG
64 GTCGTTGAGCCTCTGATTAG
* *
19570830 A-GAGCCATTTATTTTTCTAAAGTCATTGAGCCTCTGATTAGAGGAGCCATTTATTTTCTAAAGT
1 AGGAGCCATTTATTTTTCTAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTTAAAGT
* *
19570894 CGTTAAGCCTTTGATTAG
66 CGTTGAGCCTCTGATTAG
*
19570912 AGGAGCCATTTATTTTTTCTAAAAGTCGTTGAGCC-CTGATTAGAAGAGCCATTTATGTTTTTCA
1 AGGAGCCATTTA-TTTTTCT-AAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAT-TTTTT-A
*
19570976 AAGTCGTTGAGCCTCTGCTTAG
62 AAGTCGTTGAGCCTCTGATTAG
19570998 AGGAGC
1 AGGAGC
19571004 TTTGATCAAA
Statistics
Matches: 159, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
82 31 0.19
83 51 0.32
84 33 0.21
85 18 0.11
86 26 0.16
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (83 bp):
AGGAGCCATTTATTTTTCTAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTTAAAGT
CGTTGAGCCTCTGATTAG
Found at i:19571024 original size:8 final size:8
Alignment explanation
Indices: 19571011--19571046 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
19571001 AGCTTTGATC
19571011 AAATAAAA
1 AAATAAAA
19571019 AAATAAAA
1 AAATAAAA
*
19571027 AAAAATAAA
1 AAATA-AAA
19571036 AAATAAAA
1 AAATAAAA
19571044 AAA
1 AAA
19571047 ATTACCTCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAATAAAA
Found at i:19571030 original size:10 final size:10
Alignment explanation
Indices: 19571015--19571047 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
19571005 TTGATCAAAT
19571015 AAAAAAATAA
1 AAAAAAATAA
19571025 AAAAAAATAA
1 AAAAAAATAA
19571035 AAAATAAA-AA
1 AAAA-AAATAA
19571045 AAA
1 AAA
19571048 TTACCTCTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 19 0.86
11 3 0.14
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:19571038 original size:17 final size:18
Alignment explanation
Indices: 19571011--19571047 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
19571001 AGCTTTGATC
19571011 AAATAAAAAAATAAAAAA
1 AAATAAAAAAATAAAAAA
19571029 AAAT-AAAAAATAAAAAA
1 AAATAAAAAAATAAAAAA
19571046 AA
1 AA
19571048 TTACCTCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (18 bp):
AAATAAAAAAATAAAAAA
Found at i:19571112 original size:43 final size:43
Alignment explanation
Indices: 19571059--19571157 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 43
19571049 TACCTCTGTT
* *
19571059 TAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGAG
1 TAGAGGAGCTTTGTTTATTTTTCAAACTCGTTGAGCATCTGAG
* * *
19571102 TAGAAGAGCTTTATTTATTTTTCAAACTCGTTGAGCATCTGAT
1 TAGAGGAGCTTTGTTTATTTTTCAAACTCGTTGAGCATCTGAG
*
19571145 TAGAGGAGTTTTG
1 TAGAGGAGCTTTG
19571158 ATCAAATCTT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.40
Consensus pattern (43 bp):
TAGAGGAGCTTTGTTTATTTTTCAAACTCGTTGAGCATCTGAG
Found at i:19571352 original size:6 final size:6
Alignment explanation
Indices: 19571341--19571444 Score: 72
Period size: 6 Copynumber: 17.3 Consensus size: 6
19571331 GGGTAAGCCC
19571341 ATTTTT ATTTTT -TTTTGT ATTTTT CATTTTT A-TTTT ATTTTT A-TTTT
1 ATTTTT ATTTTT ATTTT-T ATTTTT -ATTTTT ATTTTT ATTTTT ATTTTT
** * * * * * *
19571388 ATTTAC ATTTTT ATTATT GTTATTA ATTTTTT ATATAT ATTTTT -CTTTT
1 ATTTTT ATTTTT ATTTTT ATT-TTT A-TTTTT ATTTTT ATTTTT ATTTTT
19571437 ATTTTT AT
1 ATTTTT AT
19571445 CTTATGTATT
Statistics
Matches: 74, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
5 18 0.24
6 40 0.54
7 14 0.19
8 2 0.03
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (6 bp):
ATTTTT
Found at i:19571363 original size:11 final size:10
Alignment explanation
Indices: 19571342--19571442 Score: 51
Period size: 11 Copynumber: 9.1 Consensus size: 10
19571332 GGTAAGCCCA
19571342 TTTTTATTTT
1 TTTTTATTTT
* *
19571352 TTTTT-GTAT
1 TTTTTATTTT
*
19571361 TTTTCATTTT
1 TTTTTATTTT
19571371 TATTTTATTTT
1 T-TTTTATTTT
*
19571382 TATTTTATTTACA
1 T-TTTTATTT--T
19571395 TTTTTATTATT
1 TTTTTATT-TT
*
19571406 GTTATTAATTTT
1 -TT-TTTATTTT
19571418 TTATATATATTTT
1 TT-T-T-TATTTT
19571431 TCTTTTATTTT
1 T-TTTTATTTT
19571442 T
1 T
19571443 ATCTTATGTA
Statistics
Matches: 71, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
9 6 0.08
10 8 0.11
11 29 0.41
12 13 0.18
13 14 0.20
14 1 0.01
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:19571364 original size:18 final size:17
Alignment explanation
Indices: 19571341--19571465 Score: 83
Period size: 17 Copynumber: 6.9 Consensus size: 17
19571331 GGGTAAGCCC
*
19571341 ATTTTTATTTTTTTTTGT
1 ATTTTTATTTTTATTT-T
19571359 ATTTTTCATTTTTATTTT
1 ATTTTT-ATTTTTATTTT
*
19571377 ATTTTTA-TTTTATTTAC
1 ATTTTTATTTTTATTT-T
* *
19571394 ATTTTTATTATTGTTATT
1 ATTTTTATTTTTATT-TT
* *
19571412 AATTTTTTATATATATTTT
1 -A-TTTTTATTTTTATTTT
*
19571431 -TCTTTTATTTTTATCTT
1 AT-TTTTATTTTTATTTT
19571448 ATGTATTTATTATTTATT
1 AT-T-TTTATT-TTTATT
19571466 ACTACTATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
16 9 0.11
17 20 0.24
18 20 0.24
19 19 0.23
20 15 0.18
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (17 bp):
ATTTTTATTTTTATTTT
Found at i:19571421 original size:17 final size:19
Alignment explanation
Indices: 19571378--19571419 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
19571368 TTTTATTTTA
19571378 TTTTTATTTTATTTACATT
1 TTTTTATTTTATTTACATT
19571397 TTTATTATTGTTA-TTA-ATT
1 TTT-TTATT-TTATTTACATT
19571416 TTTT
1 TTTT
19571420 ATATATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.05
19 9 0.43
20 8 0.38
21 3 0.14
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTTATTTTATTTACATT
Found at i:19571978 original size:19 final size:19
Alignment explanation
Indices: 19571956--19571992 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
19571946 CACAGATTCT
19571956 GGTTGAATTGTTT-GACGAA
1 GGTTGAATT-TTTCGACGAA
19571975 GGTTGAATTTTTCGACGA
1 GGTTGAATTTTTCGACGA
19571993 TAATTCCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.24, C:0.08, G:0.30, T:0.38
Consensus pattern (19 bp):
GGTTGAATTTTTCGACGAA
Found at i:19572173 original size:16 final size:18
Alignment explanation
Indices: 19572152--19572190 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
19572142 TCGGGTTTCT
*
19572152 AGAAAGAAGTG-AGAGA-
1 AGAAAGAAGGGAAGAGAG
19572168 AGAAAGAAGGGAAGAGAG
1 AGAAAGAAGGGAAGAGAG
19572186 AGAAA
1 AGAAA
19572191 AGAAAAAGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 5 0.25
18 5 0.25
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (18 bp):
AGAAAGAAGGGAAGAGAG
Found at i:19572486 original size:6 final size:6
Alignment explanation
Indices: 19572475--19572567 Score: 64
Period size: 6 Copynumber: 15.0 Consensus size: 6
19572465 TTTCTTTTTA
* * ** *
19572475 TTATTT TTATTT TTATTT ATTA-TT ATATTA GGATTGT TTATTT TTTTTT
1 TTATTT TTATTT TTATTT -TTATTT TTATTT TTATT-T TTATTT TTATTT
* *
19572524 CTTTTTAT TTATTT TTATTCT TT-TAT TTATTT TTATTT TTATTT
1 -TTATT-T TTATTT TTATT-T TTATTT TTATTT TTATTT TTATTT
19572568 ATTTTATTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
5 5 0.07
6 45 0.65
7 18 0.26
8 1 0.01
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:19572549 original size:34 final size:35
Alignment explanation
Indices: 19572470--19572581 Score: 120
Period size: 34 Copynumber: 3.1 Consensus size: 35
19572460 TTTCATTTCT
*
19572470 TTTTA-TTATTTTTATTTTTATTTATTATTATATTAGGAT
1 TTTTATTTATTTTTATTTTTATTTATT-TTATATT----C
* *
19572509 TGTTTATTTTTTTTTCTTTTTATTTATTTT-TATTC
1 T-TTTATTTATTTTTATTTTTATTTATTTTATATTC
*
19572544 TTTTATTTATTTTTATTTTTATTTATTTTATTTTC
1 TTTTATTTATTTTTATTTTTATTTATTTTATATTC
19572579 TTT
1 TTT
19572582 AAATAAAATT
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
34 26 0.41
35 8 0.12
39 5 0.08
40 6 0.09
41 19 0.30
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.77
Consensus pattern (35 bp):
TTTTATTTATTTTTATTTTTATTTATTTTATATTC
Found at i:19572582 original size:9 final size:9
Alignment explanation
Indices: 19572526--19572576 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
19572516 TTTTTTTTCT
19572526 TTTTATTTA
1 TTTTATTTA
*
19572535 TTTT-TATTC
1 TTTTAT-TTA
19572544 TTTTATTTA
1 TTTTATTTA
*
19572553 TTTT-TAT-
1 TTTTATTTA
19572560 TTTTATTTA
1 TTTTATTTA
19572569 TTTTATTT
1 TTTTATTT
19572577 TCTTTAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
7 4 0.12
8 5 0.15
9 24 0.71
10 1 0.03
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTATTTA
Found at i:19572699 original size:30 final size:30
Alignment explanation
Indices: 19572609--19572700 Score: 80
Period size: 30 Copynumber: 3.1 Consensus size: 30
19572599 ACAAAAAATA
* *
19572609 TTTTTGAGGAAAAGTTGAAAGTATTAATTT
1 TTTTTGAGAAAAAGTTGAAAGTATAAATTT
* * * * *
19572639 TTCTTAAGAATAAATTTTAAA--AAAAGATTT
1 TTTTTGAGAA-AAAGTTGAAAGTATAA-ATTT
*
19572669 TTTTTGAGAAAAAGTTGAAAGTATCAATTT
1 TTTTTGAGAAAAAGTTGAAAGTATAAATTT
19572699 TT
1 TT
19572701 CTCGAAATTA
Statistics
Matches: 45, Mismatches: 13, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
29 10 0.22
30 25 0.56
31 10 0.22
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.42
Consensus pattern (30 bp):
TTTTTGAGAAAAAGTTGAAAGTATAAATTT
Found at i:19572752 original size:58 final size:58
Alignment explanation
Indices: 19572601--19572757 Score: 208
Period size: 60 Copynumber: 2.7 Consensus size: 58
19572591 TTAAAAAAAC
* * *
19572601 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTTAAGAATAAATTTTAA
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTGAAGAATAAAGTTTAA
* * * **
19572659 AAAAAGATTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAA-ATTAAAGTTTCT
1 AAAAA-A-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT-GAAGAATAAAGTTTAA
19572719 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
19572758 CTCTACACAA
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
58 36 0.42
59 2 0.02
60 46 0.53
61 2 0.02
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.39
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTGAAGAATAAAGTTTAA
Found at i:19576748 original size:92 final size:92
Alignment explanation
Indices: 19576641--19576819 Score: 295
Period size: 92 Copynumber: 1.9 Consensus size: 92
19576631 TTTTAATAAT
* * * *
19576641 TTATTAGAATATAAAATATTCAAAATGACCTTACAAAAATAAAGTAAAAAATTTAATACTTATTG
1 TTATTAGAATATAAAATATTCAAAATAACCTTACAAAAAGAAAATAAAAAAATTAATACTTATTG
**
19576706 AATTTATAATTTATAAAATAATATTTG
66 AATCAATAATTTATAAAATAATATTTG
*
19576733 TTATTAGAATATAAAATATTCAAAATAACTTTACAAAAAGAAAATAAAAAAATTAATACTTATTG
1 TTATTAGAATATAAAATATTCAAAATAACCTTACAAAAAGAAAATAAAAAAATTAATACTTATTG
19576798 AATCAATAATTTATAAAATAAT
66 AATCAATAATTTATAAAATAAT
19576820 TAAATATTAT
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 80 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (92 bp):
TTATTAGAATATAAAATATTCAAAATAACCTTACAAAAAGAAAATAAAAAAATTAATACTTATTG
AATCAATAATTTATAAAATAATATTTG
Found at i:19577693 original size:16 final size:16
Alignment explanation
Indices: 19577672--19577705 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19577662 ACTGTGAATG
* *
19577672 AATTTATTTAATATTT
1 AATTTAATTAAAATTT
19577688 AATTTAATTAAAATTT
1 AATTTAATTAAAATTT
19577704 AA
1 AA
19577706 CATATTTATT
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTTAATTAAAATTT
Found at i:19578538 original size:11 final size:10
Alignment explanation
Indices: 19578521--19578560 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 10
19578511 ATATCATGAT
19578521 ATAATATAAA
1 ATAATATAAA
*
19578531 TTTAATATAAA
1 -ATAATATAAA
19578542 ATAATATAAA
1 ATAATATAAA
19578552 AGTAATATA
1 A-TAATATA
19578561 TTTAAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (10 bp):
ATAATATAAA
Found at i:19578547 original size:21 final size:21
Alignment explanation
Indices: 19578521--19578560 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19578511 ATATCATGAT
**
19578521 ATAATATAAATTTAATATAAA
1 ATAATATAAAAGTAATATAAA
19578542 ATAATATAAAAGTAATATA
1 ATAATATAAAAGTAATATA
19578561 TTTAAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
ATAATATAAAAGTAATATAAA
Found at i:19580169 original size:23 final size:23
Alignment explanation
Indices: 19580124--19580170 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
19580114 AATTCATACA
* *
19580124 ATTATTTTTAAAAAATAATATTT
1 ATTATATTTAAAAAATAAAATTT
**
19580147 ATTATATTTAAAATTTAAAATTT
1 ATTATATTTAAAAAATAAAATTT
19580170 A
1 A
19580171 ATATTAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
ATTATATTTAAAAAATAAAATTT
Found at i:19581070 original size:20 final size:22
Alignment explanation
Indices: 19581034--19581074 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
19581024 TTCATCTTCA
19581034 TTTTTTTAAAAAGTATATTTAG
1 TTTTTTTAAAAAGTATATTTAG
19581056 TTTTTTT-AAAA-TATATTTA
1 TTTTTTTAAAAAGTATATTTA
19581075 ATGATTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 4 0.21
22 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (22 bp):
TTTTTTTAAAAAGTATATTTAG
Found at i:19582901 original size:35 final size:34
Alignment explanation
Indices: 19582862--19582945 Score: 116
Period size: 35 Copynumber: 2.4 Consensus size: 34
19582852 CAAATGCTAT
19582862 TAAATTTAACAATGTTTTTTTAGCACAAATGTTGC
1 TAAATTTAACAATGTTTTTTTA-CACAAATGTTGC
*
19582897 TAAATTTAACAACAT-TTTTTTTATACAAATGTTGC
1 TAAATTTAAC-A-ATGTTTTTTTACACAAATGTTGC
*
19582932 TAAATTGAACAATG
1 TAAATTTAACAATG
19582946 ATACGGAGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 30 0.68
36 9 0.20
37 2 0.05
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.42
Consensus pattern (34 bp):
TAAATTTAACAATGTTTTTTTACACAAATGTTGC
Found at i:19583660 original size:17 final size:17
Alignment explanation
Indices: 19583638--19583671 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
19583628 ATTTGCTCGA
19583638 TACGTAGTTGCATAGTT
1 TACGTAGTTGCATAGTT
*
19583655 TACGTAGTTGTATAGTT
1 TACGTAGTTGCATAGTT
19583672 CATAAAGACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.44
Consensus pattern (17 bp):
TACGTAGTTGCATAGTT
Found at i:19586648 original size:13 final size:13
Alignment explanation
Indices: 19586630--19586659 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
19586620 CATTTTTTTA
19586630 TTTTAATTTAATT
1 TTTTAATTTAATT
19586643 TTTTAATTTAATT
1 TTTTAATTTAATT
19586656 TTTT
1 TTTT
19586660 TTCATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTAATTTAATT
Found at i:19586669 original size:3 final size:3
Alignment explanation
Indices: 19586663--19586698 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
19586653 ATTTTTTTTC
*
19586663 ATT ATT ATT ATG ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19586699 TTTGTTGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:19586744 original size:21 final size:21
Alignment explanation
Indices: 19586718--19586788 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
19586708 GTTGTTGTTG
19586718 TTATTTATCTATTAATATTTT
1 TTATTTATCTATTAATATTTT
*
19586739 TTATTTATCTAATT-ATTTTCTT
1 TTATTTATCT-ATTAATATT-TT
* *
19586761 TTAGTTATCTATTAATATATT
1 TTATTTATCTATTAATATTTT
19586782 TT-TTTAT
1 TTATTTAT
19586789 TTTTTTTCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
20 4 0.10
21 21 0.50
22 17 0.40
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.66
Consensus pattern (21 bp):
TTATTTATCTATTAATATTTT
Found at i:19587496 original size:3 final size:3
Alignment explanation
Indices: 19587490--19587604 Score: 72
Period size: 3 Copynumber: 40.7 Consensus size: 3
19587480 TTTTTCTTAT
* *
19587490 TTA TTA TTG TTA TTA TTTC TTA TT- TT- TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** *
19587534 TTA TTTA TTTA TTA -TA TTA GAA TTA TTTA GTA TT- TT- TTA TT- TTA
1 TTA -TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
19587578 TT- TTA TT- TTA TT- TTA TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
19587605 CTATTTTTAA
Statistics
Matches: 90, Mismatches: 10, Indels: 24
0.73 0.08 0.19
Matches are distributed among these distances:
2 22 0.24
3 56 0.62
4 12 0.13
ACGTcount: A:0.25, C:0.01, G:0.03, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:19587502 original size:9 final size:9
Alignment explanation
Indices: 19587490--19587604 Score: 72
Period size: 8 Copynumber: 13.6 Consensus size: 9
19587480 TTTTTCTTAT
*
19587490 TTATTATTG
1 TTATTATTA
*
19587499 TTATTATTTC
1 TTATTA-TTA
19587509 TTATT-TT-
1 TTATTATTA
19587516 TTATTATTA
1 TTATTATTA
19587525 TTATTATTA
1 TTATTATTA
19587534 TTATTTATTTA
1 TTA-TTA-TTA
19587545 TTA-TATTA
1 TTATTATTA
**
19587553 GAATTATTTA
1 TTATTA-TTA
*
19587563 GTATT-TT-
1 TTATTATTA
19587570 TTATT-TTA
1 TTATTATTA
19587578 TT-TTATT-
1 TTATTATTA
19587585 TTATT-TTA
1 TTATTATTA
19587593 TT-TTATT-
1 TTATTATTA
19587600 TTATT
1 TTATT
19587605 CTATTTTTAA
Statistics
Matches: 88, Mismatches: 5, Indels: 27
0.73 0.04 0.22
Matches are distributed among these distances:
7 21 0.24
8 22 0.25
9 22 0.25
10 17 0.19
11 6 0.07
ACGTcount: A:0.25, C:0.01, G:0.03, T:0.71
Consensus pattern (9 bp):
TTATTATTA
Found at i:19587512 original size:23 final size:23
Alignment explanation
Indices: 19587482--19587552 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 23
19587472 TTTCCTTTTT
*
19587482 TTTCTTATTTATTATTGTTATTA
1 TTTCTTATTTATTATTATTATTA
*
19587505 TTTCTTATTTTTTATTATTATTA
1 TTTCTTATTTATTATTATTATTA
*
19587528 TTATTATTATTTATTTATTA-TATTA
1 -T-TTCTTATTTA-TTATTATTATTA
19587553 GAATTATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
23 21 0.51
24 1 0.02
25 13 0.32
26 6 0.15
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.70
Consensus pattern (23 bp):
TTTCTTATTTATTATTATTATTA
Found at i:19587522 original size:10 final size:10
Alignment explanation
Indices: 19587489--19587604 Score: 57
Period size: 10 Copynumber: 11.6 Consensus size: 10
19587479 TTTTTTCTTA
19587489 TTTATTA-TT
1 TTTATTATTT
*
19587498 GTTATTATTT
1 TTTATTATTT
*
19587508 CTTATT-TTT
1 TTTATTATTT
19587517 TATTATTATTAT
1 T-TTATTATT-T
19587529 TATTATTATTT
1 T-TTATTATTT
19587540 ATTTATTA--T
1 -TTTATTATTT
* ** *
19587549 ATTAGAATTA
1 TTTATTATTT
*
19587559 TTTAGTATTT
1 TTTATTATTT
19587569 TTTATT-TTAT
1 TTTATTATT-T
19587579 TTTATT-TTAT
1 TTTATTATT-T
19587589 TTTATT-TTAT
1 TTTATTATT-T
19587599 TTTATT
1 TTTATT
19587605 CTATTTTTAA
Statistics
Matches: 88, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
8 4 0.05
9 12 0.14
10 51 0.58
11 9 0.10
12 12 0.14
ACGTcount: A:0.25, C:0.01, G:0.03, T:0.72
Consensus pattern (10 bp):
TTTATTATTT
Found at i:19587532 original size:29 final size:29
Alignment explanation
Indices: 19587477--19587604 Score: 101
Period size: 29 Copynumber: 4.4 Consensus size: 29
19587467 AGGCTTTTCC
* *
19587477 TTTT-TTTTCTTATTTATTATTGTTATTAT
1 TTTTATTTTATTA-TTATTATTATTATTAT
19587506 TTCTTATTTT-TTATTATTATTATTATTAT
1 TT-TTATTTTATTATTATTATTATTATTAT
*
19587535 TATTTA-TTTATTA-TATTAGAATTATTTAGTATT
1 T-TTTATTTTATTATTATT---ATTA-TTATTA-T
19587568 TTTTATTTTATT-TTATT-TTATT-TTA-
1 TTTTATTTTATTATTATTATTATTATTAT
19587593 TTTTATTTTATT
1 TTTTATTTTATT
19587605 CTATTTTTAA
Statistics
Matches: 85, Mismatches: 3, Indels: 26
0.75 0.03 0.23
Matches are distributed among these distances:
25 12 0.14
27 2 0.02
28 9 0.11
29 27 0.32
30 6 0.07
31 8 0.09
32 9 0.11
33 12 0.14
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (29 bp):
TTTTATTTTATTATTATTATTATTATTAT
Found at i:19587551 original size:25 final size:24
Alignment explanation
Indices: 19587486--19587610 Score: 72
Period size: 25 Copynumber: 5.2 Consensus size: 24
19587476 CTTTTTTTTC
*
19587486 TTATTTA-TTATTGTTATTATT-T
1 TTATTTATTTATTATTATTATTAT
19587508 CTTATTT-TTTATTATTATTATTATT
1 -TTATTTATTTATTATTATTATTA-T
* *
19587533 ATTATTTATTTATTA-TATTA-GAA
1 -TTATTTATTTATTATTATTATTAT
19587556 TTATTTAGTATT-TT-TTATT-TTATT
1 TTATTTA-T-TTATTATTATTATTA-T
19587580 TTATTTTATTTTATT-TTATT-TTAT
1 TTA-TTTA-TTTATTATTATTATTAT
19587604 TCTATTT
1 T-TATTT
19587611 TTAATGATTT
Statistics
Matches: 83, Mismatches: 7, Indels: 23
0.73 0.06 0.20
Matches are distributed among these distances:
22 7 0.08
23 27 0.33
24 13 0.16
25 29 0.35
26 7 0.08
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (24 bp):
TTATTTATTTATTATTATTATTAT
Found at i:19587578 original size:5 final size:5
Alignment explanation
Indices: 19587568--19587611 Score: 79
Period size: 5 Copynumber: 8.8 Consensus size: 5
19587558 ATTTAGTATT
*
19587568 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTCTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
19587612 TAATGATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:19591032 original size:15 final size:15
Alignment explanation
Indices: 19591012--19591042 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19591002 TTTGTATACA
*
19591012 TGCATTTTCATTCAT
1 TGCATTCTCATTCAT
19591027 TGCATTCTCATTCAT
1 TGCATTCTCATTCAT
19591042 T
1 T
19591043 ACACTTAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.23, G:0.06, T:0.52
Consensus pattern (15 bp):
TGCATTCTCATTCAT
Found at i:19599503 original size:43 final size:43
Alignment explanation
Indices: 19599447--19599634 Score: 236
Period size: 43 Copynumber: 4.4 Consensus size: 43
19599437 TCATGGTTGT
* *
19599447 CTCTGTTTAGAAGAGCTTCATCTATTTTTTAAAGTCGTTGAGC
1 CTCTGTTTAGAAGAGCTTCATTTATTTTTCAAAGTCGTTGAGC
* * *
19599490 CTCTGTTTTGAAGAGTTTTATTTATTTTTCAAAGTCGTTGAGC
1 CTCTGTTTAGAAGAGCTTCATTTATTTTTCAAAGTCGTTGAGC
* * * *
19599533 CTCTGATTAGATGAGC--CATTTATTTTCCAAAGTCATTGAGC
1 CTCTGTTTAGAAGAGCTTCATTTATTTTTCAAAGTCGTTGAGC
* *
19599574 CTCTATTTAGAGGAGCTTCATTTATTTTTCAAAGTCGTTGAGC
1 CTCTGTTTAGAAGAGCTTCATTTATTTTTCAAAGTCGTTGAGC
* * *
19599617 CTTTGCTTAGAGGAGCTT
1 CTCTGTTTAGAAGAGCTT
19599635 TGACCAAAAT
Statistics
Matches: 123, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
41 35 0.28
43 88 0.72
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (43 bp):
CTCTGTTTAGAAGAGCTTCATTTATTTTTCAAAGTCGTTGAGC
Found at i:19599572 original size:84 final size:84
Alignment explanation
Indices: 19599477--19599632 Score: 231
Period size: 84 Copynumber: 1.9 Consensus size: 84
19599467 TCTATTTTTT
* * * * *
19599477 AAAGTCGTTGAGCCTCTGTTTTGAAGAGTTTTATTTATTTTTCAAAGTCGTTGAGCCTCTGATTA
1 AAAGTCATTGAGCCTCTATTTAGAAGAGCTTCATTTATTTTTCAAAGTCGTTGAGCCTCTGATTA
*
19599542 GATGAGCCATTTATTTTCC
66 GAGGAGCCATTTATTTTCC
* * *
19599561 AAAGTCATTGAGCCTCTATTTAGAGGAGCTTCATTTATTTTTCAAAGTCGTTGAGCCTTTGCTTA
1 AAAGTCATTGAGCCTCTATTTAGAAGAGCTTCATTTATTTTTCAAAGTCGTTGAGCCTCTGATTA
19599626 GAGGAGC
66 GAGGAGC
19599633 TTTGACCAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 63 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.40
Consensus pattern (84 bp):
AAAGTCATTGAGCCTCTATTTAGAAGAGCTTCATTTATTTTTCAAAGTCGTTGAGCCTCTGATTA
GAGGAGCCATTTATTTTCC
Found at i:19599889 original size:3 final size:3
Alignment explanation
Indices: 19599871--19600007 Score: 86
Period size: 3 Copynumber: 44.7 Consensus size: 3
19599861 TAATTTAATT
*
19599871 TTA TTA TTT TTCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
19599917 TTA TTGT TTA TCTA TTA ATA TT- TT- TTA TTTA TCTAA TTA TT- TTC
1 TTA TT-A TTA T-TA TTA TTA TTA TTA TTA -TTA T-T-A TTA TTA TTA
* * * * *
19599961 CT- TTA GTTA TCTA TTA ATA -TA TTA TTT TTA TTT TTA TTA TTT TTA
1 TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19600006 TT
1 TT
19600008 TTTTTATGTT
Statistics
Matches: 107, Mismatches: 15, Indels: 24
0.73 0.10 0.16
Matches are distributed among these distances:
2 9 0.08
3 78 0.73
4 18 0.17
5 2 0.02
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:19600791 original size:31 final size:29
Alignment explanation
Indices: 19600739--19600798 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 29
19600729 TTCAAAGTGT
* *
19600739 TTTCTTTTTTTTTCTTATTTATTATTATTA
1 TTTCTTTTTTATTATTATTTATTA-TATTA
19600769 TTTCTTTTATTATTATTATTTATTATATTA
1 TTTCTTTT-TTATTATTATTTATTATATTA
19600799 GAATTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (29 bp):
TTTCTTTTTTATTATTATTTATTATATTA
Found at i:19600797 original size:18 final size:17
Alignment explanation
Indices: 19600753--19600848 Score: 70
Period size: 18 Copynumber: 5.4 Consensus size: 17
19600743 TTTTTTTTTC
19600753 TTATTTATTATTATTAT
1 TTATTTATTATTATTAT
*
19600770 TTCTTTTATTATTATTAT
1 TT-ATTTATTATTATTAT
**
19600788 TTATTATATTAGAATTAT
1 TTATT-TATTATTATTAT
*
19600806 TTAGTATTCCTTATT-TTATT
1 TTA-T-TT-ATTATTATTA-T
*
19600826 TTATTT-TTATTTTTATT
1 TTATTTATTATTATTA-T
19600843 TTATTT
1 TTATTT
19600849 TTTTAATGAT
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
16 5 0.08
17 15 0.23
18 31 0.48
19 6 0.09
20 8 0.12
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.70
Consensus pattern (17 bp):
TTATTTATTATTATTAT
Found at i:19600826 original size:5 final size:5
Alignment explanation
Indices: 19600816--19600849 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
19600806 TTAGTATTCC
19600816 TTATT TTATT TTATTT TTATTT TTATT TTATT TT
1 TTATT TTATT TTA-TT TTA-TT TTATT TTATT TT
19600850 TTTAATGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 17 0.61
6 11 0.39
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:19600835 original size:11 final size:11
Alignment explanation
Indices: 19600816--19600850 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
19600806 TTAGTATTCC
19600816 TTATTTTA-TT
1 TTATTTTATTT
19600826 TTATTTTTATTT
1 TTA-TTTTATTT
19600838 TTATTTTATTT
1 TTATTTTATTT
19600849 TT
1 TT
19600851 TTAATGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.13
11 15 0.65
12 5 0.22
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:19600850 original size:6 final size:6
Alignment explanation
Indices: 19600819--19600850 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
19600809 GTATTCCTTA
19600819 TTTTA- TTTTAT TTTTAT TTTTA- TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
19600851 TTAATGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:19603825 original size:12 final size:11
Alignment explanation
Indices: 19603795--19603870 Score: 70
Period size: 12 Copynumber: 6.9 Consensus size: 11
19603785 TTATAAAAAA
*
19603795 TTATTTTTAAT
1 TTATATTTAAT
*
19603806 TATTTATTTAAGT
1 T-TATATTTAA-T
19603819 TTATATTT-A-
1 TTATATTTAAT
19603828 -TATATTT-AT
1 TTATATTTAAT
19603837 TTATATTTATAT
1 TTATATTTA-AT
19603849 TTATATTTATAT
1 TTATATTTA-AT
19603861 TTATATTTAA
1 TTATATTTAA
19603871 AAAATAATAT
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
8 8 0.14
10 7 0.12
11 3 0.05
12 36 0.64
13 2 0.04
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (11 bp):
TTATATTTAAT
Found at i:19603827 original size:6 final size:6
Alignment explanation
Indices: 19603818--19603869 Score: 88
Period size: 6 Copynumber: 8.7 Consensus size: 6
19603808 TTTATTTAAG
19603818 TTTATA TTTATA TATT-TA TTTATA TTTATA TTTATA TTTATA TTTATA
1 TTTATA TTTATA T-TTATA TTTATA TTTATA TTTATA TTTATA TTTATA
19603866 TTTA
1 TTTA
19603870 AAAAATAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
5 2 0.05
6 40 0.91
7 2 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTATA
Found at i:19603845 original size:24 final size:24
Alignment explanation
Indices: 19603806--19603869 Score: 96
Period size: 24 Copynumber: 2.7 Consensus size: 24
19603796 TATTTTTAAT
19603806 TATTTATTTA-AGTTTATATTTATA
1 TATTTATTTATA-TTTATATTTATA
19603830 TATTTATTTATATTTATATTTATA
1 TATTTATTTATATTTATATTTATA
19603854 T-TTATATTTATATTTA
1 TATT-TATTTATATTTA
19603870 AAAAATAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
23 2 0.05
24 35 0.92
25 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (24 bp):
TATTTATTTATATTTATATTTATA
Found at i:19604216 original size:11 final size:11
Alignment explanation
Indices: 19604202--19604294 Score: 77
Period size: 10 Copynumber: 8.6 Consensus size: 11
19604192 TTTTAAATTT
*
19604202 AATAAATTAAA
1 AATAAAATAAA
19604213 AATAAAATAAA
1 AATAAAATAAA
*
19604224 AATAAAA-CAA
1 AATAAAATAAA
19604234 AATAAAAT-AA
1 AATAAAATAAA
**
19604244 AATAAAAT-GC
1 AATAAAATAAA
19604254 AATAAAATAAA
1 AATAAAATAAA
**
19604265 ATATTCAA-AAA
1 A-ATAAAATAAA
*
19604276 CATAAAATAAA
1 AATAAAATAAA
19604287 ACATAAAA
1 A-ATAAAA
19604295 ACGATACCAA
Statistics
Matches: 65, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
10 31 0.48
11 24 0.37
12 10 0.15
ACGTcount: A:0.74, C:0.05, G:0.01, T:0.19
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:19604287 original size:5 final size:5
Alignment explanation
Indices: 19604211--19604267 Score: 78
Period size: 5 Copynumber: 11.2 Consensus size: 5
19604201 TAATAAATTA
* **
19604211 AAAAT AAAAT AAAAAT AAAAC AAAAT AAAAT AAAAT AAAAT GCAAT AAAAT
1 AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
19604262 AAAAT A
1 AAAAT A
19604268 TTCAAAAACA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
5 40 0.89
6 5 0.11
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:19604963 original size:17 final size:17
Alignment explanation
Indices: 19604941--19604975 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
19604931 AATCTTTTAT
*
19604941 TTTAATTTAATTAAATC
1 TTTAATTTAATGAAATC
*
19604958 TTTAATTTGATGAAATC
1 TTTAATTTAATGAAATC
19604975 T
1 T
19604976 AATTACATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (17 bp):
TTTAATTTAATGAAATC
Found at i:19613458 original size:64 final size:65
Alignment explanation
Indices: 19613382--19613509 Score: 179
Period size: 65 Copynumber: 2.0 Consensus size: 65
19613372 TTTTAATTTT
* *
19613382 GAATTTTATAAAT-AAAAAAAATAAA-TGTAAAGAGAATTTATCTTTTTATGACTTTAAATTAAT
1 GAATTTTATAAATAAAAAAAAATAAACGGT-AAGAGAATTTATCTTTTTATGACTTCAAATTAAT
19613445 C
65 C
* * **
19613446 GAATTTTGTAAATAAAAAAAAATAAACGGTGAGAGTGTTTATCTTTTTATGACTTCAAATTAAT
1 GAATTTTATAAATAAAAAAAAATAAACGGTAAGAGAATTTATCTTTTTATGACTTCAAATTAAT
19613510 TAAAATTTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
64 12 0.21
65 42 0.75
66 2 0.04
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.38
Consensus pattern (65 bp):
GAATTTTATAAATAAAAAAAAATAAACGGTAAGAGAATTTATCTTTTTATGACTTCAAATTAATC
Found at i:19615426 original size:19 final size:21
Alignment explanation
Indices: 19615402--19615440 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
19615392 TTTTTATGAA
19615402 AAATCA-AAAAATT-AATAAT
1 AAATCACAAAAATTCAATAAT
*
19615421 AAATCACCAAAATTCAATAA
1 AAATCACAAAAATTCAATAA
19615441 AATTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 6 0.35
21 5 0.29
ACGTcount: A:0.64, C:0.13, G:0.00, T:0.23
Consensus pattern (21 bp):
AAATCACAAAAATTCAATAAT
Found at i:19615643 original size:18 final size:19
Alignment explanation
Indices: 19615610--19615646 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
19615600 TTAATCGAAT
19615610 TATATTTTTTAAAATTTTTA
1 TATATTTTTT-AAATTTTTA
19615630 TATATTTTTT-AATTTTT
1 TATATTTTTTAAATTTTT
19615647 CATAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TATATTTTTTAAATTTTTA
Found at i:19616426 original size:21 final size:21
Alignment explanation
Indices: 19616402--19616444 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
19616392 TTATATTGTT
**
19616402 TTTAATTCACATTAATTTTTA
1 TTTAATTCACACCAATTTTTA
*
19616423 TTTAATTTACACCAATTTTTA
1 TTTAATTCACACCAATTTTTA
19616444 T
1 T
19616445 ATTCTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTAATTCACACCAATTTTTA
Found at i:19617569 original size:24 final size:24
Alignment explanation
Indices: 19617525--19617584 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
19617515 TTAAATCTAT
19617525 TTATAATT-TTTTTAAAATTTTAAA
1 TTAT-ATTATTTTTAAAATTTTAAA
* * * *
19617549 TTATATTATTTTTATATTTTTTAT
1 TTATATTATTTTTAAAATTTTAAA
19617573 TTATATTATTTT
1 TTATATTATTTT
19617585 CGTATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 3 0.10
24 28 0.90
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
TTATATTATTTTTAAAATTTTAAA
Found at i:19618718 original size:24 final size:23
Alignment explanation
Indices: 19618691--19618735 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
19618681 TTTTGGAAAA
19618691 TAAAAAACTGAAAAATATTTGTAT
1 TAAAAAA-TGAAAAATATTTGTAT
**
19618715 TAAAAAATTTAAAATATTTGT
1 TAAAAAATGAAAAATATTTGT
19618736 TGATTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (23 bp):
TAAAAAATGAAAAATATTTGTAT
Found at i:19633293 original size:12 final size:12
Alignment explanation
Indices: 19633272--19633301 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
19633262 AAGAGCACAC
19633272 TTGAGGTTGAGT
1 TTGAGGTTGAGT
*
19633284 TTGAGTTTGAGT
1 TTGAGGTTGAGT
19633296 TTGAGG
1 TTGAGG
19633302 CTTTGGTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (12 bp):
TTGAGGTTGAGT
Found at i:19637214 original size:18 final size:18
Alignment explanation
Indices: 19637191--19637257 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
19637181 GTAATTAAAT
*
19637191 ATTAATAATTAGTATTAA
1 ATTAATAATTAATATTAA
19637209 ATTAATAATATTATATATTAA
1 ATTAAT-A-ATTA-ATATTAA
*
19637230 TATT-TTAATTAATATTAA
1 -ATTAATAATTAATATTAA
*
19637248 TTTAATAATT
1 ATTAATAATT
19637258 TTAAATATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
17 2 0.05
18 18 0.45
19 5 0.12
20 5 0.12
21 7 0.17
22 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (18 bp):
ATTAATAATTAATATTAA
Found at i:19637266 original size:21 final size:21
Alignment explanation
Indices: 19637203--19637349 Score: 126
Period size: 21 Copynumber: 7.2 Consensus size: 21
19637193 TAATAATTAG
* *
19637203 TATTAAATTAATAATATTATA
1 TATTAATTTAATAATATTAAA
*
19637224 TATTAATATT--TTA-ATT-AA
1 TATTAAT-TTAATAATATTAAA
*
19637242 TATTAATTTAATAATTTTAAA
1 TATTAATTTAATAATATTAAA
*
19637263 TATTAATTTAA-AAGTATTAAC
1 TATTAATTTAATAA-TATTAAA
* *
19637284 TAAT-ATTTCATAATATTAAA
1 TATTAATTTAATAATATTAAA
* * * * *
19637304 TATTAACTCAATAACATTGAG
1 TATTAATTTAATAATATTAAA
19637325 TATTAATTTAATAATATTAAA
1 TATTAATTTAATAATATTAAA
19637346 TATT
1 TATT
19637350 TTAAAATTGT
Statistics
Matches: 96, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
17 2 0.02
18 8 0.08
19 5 0.05
20 20 0.21
21 59 0.61
22 2 0.02
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (21 bp):
TATTAATTTAATAATATTAAA
Found at i:19637402 original size:11 final size:11
Alignment explanation
Indices: 19637386--19637634 Score: 108
Period size: 11 Copynumber: 22.9 Consensus size: 11
19637376 TATTTCATCT
19637386 TATTTTAATAA
1 TATTTTAATAA
* *
19637397 TATTTTCATTA
1 TATTTTAATAA
**
19637408 TA-TTT-ATTT
1 TATTTTAATAA
19637417 TATTTTAATAA
1 TATTTTAATAA
*
19637428 TATTTTAATAT
1 TATTTTAATAA
*
19637439 TAATTTAATAA
1 TATTTTAATAA
19637450 TA-TTT--TAA
1 TATTTTAATAA
* * *
19637458 CATTTTGATAT
1 TATTTTAATAA
*
19637469 TATTTCAATAA
1 TATTTTAATAA
*
19637480 AATTTTATATGAA
1 TATTTTA-AT-AA
*
19637493 -ATATTAATAA
1 TATTTTAATAA
* *
19637503 AATATTT--TAG
1 TAT-TTTAATAA
* *
19637513 TA-TTAAATAT
1 TATTTTAATAA
19637523 TATTTTAATAA
1 TATTTTAATAA
19637534 TATTTTAATATTA
1 TATTTTAATA--A
*
19637547 AATTTTAAGTGATA
1 TATTTTAA-T-A-A
19637561 TTATTTTAA-AA
1 -TATTTTAATAA
*
19637572 TAATTTAAT--
1 TATTTTAATAA
*
19637581 TAATTTAATAA
1 TATTTTAATAA
* *
19637592 TATTTTCATAT
1 TATTTTAATAA
*
19637603 TATTTAAATAA
1 TATTTTAATAA
* * *
19637614 TGTTTTATTAT
1 TATTTTAATAA
19637625 TATTTTAATA
1 TATTTTAATA
19637635 TCATATTAAT
Statistics
Matches: 179, Mismatches: 39, Indels: 40
0.69 0.15 0.16
Matches are distributed among these distances:
8 6 0.03
9 17 0.09
10 25 0.14
11 100 0.56
12 10 0.06
13 10 0.06
14 3 0.02
15 8 0.04
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (11 bp):
TATTTTAATAA
Found at i:19637423 original size:31 final size:30
Alignment explanation
Indices: 19637359--19637439 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 30
19637349 TTTAAAATTG
*
19637359 TTTTAATAATA-TTTGAATATTTCATCTTA
1 TTTTAATAATATTTTCAATATTTCATCTTA
*
19637388 TTTTAATAATATTTTCATTATATTT-ATTTTA
1 TTTTAATAATATTTTCA--ATATTTCATCTTA
19637419 TTTTAATAATATTTT-AATATT
1 TTTTAATAATATTTTCAATATT
19637440 AATTTAATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
28 5 0.11
29 11 0.23
30 5 0.11
31 20 0.43
32 6 0.13
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (30 bp):
TTTTAATAATATTTTCAATATTTCATCTTA
Found at i:19637469 original size:30 final size:30
Alignment explanation
Indices: 19637429--19637486 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
19637419 TTTTAATAAT
*
19637429 ATTTTAATATTAATTT-AATAATATTTTAAC
1 ATTTTAATATT-ATTTCAATAAAATTTTAAC
*
19637459 ATTTTGATATTATTTCAATAAAATTTTA
1 ATTTTAATATTATTTCAATAAAATTTTA
19637487 TATGAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (30 bp):
ATTTTAATATTATTTCAATAAAATTTTAAC
Found at i:19637497 original size:25 final size:27
Alignment explanation
Indices: 19637469--19637554 Score: 65
Period size: 29 Copynumber: 3.3 Consensus size: 27
19637459 ATTTTGATAT
19637469 TATTTCAAT-AAA-ATTTTA-TATGAAA
1 TATTT-AATAAAATATTTTAGTATGAAA
*
19637494 TA-TTAATAAAATATTTTAGTATTAAA
1 TATTTAATAAAATATTTTAGTATGAAA
** * *
19637520 TATTATTTTAATAATATTTTAATATTAAA
1 TATT-TAATAA-AATATTTTAGTATGAAA
19637549 T-TTTAA
1 TATTTAA
19637555 GTGATATTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
23 3 0.06
24 5 0.10
25 8 0.16
26 8 0.16
27 2 0.04
28 6 0.12
29 17 0.35
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (27 bp):
TATTTAATAAAATATTTTAGTATGAAA
Found at i:19637562 original size:54 final size:54
Alignment explanation
Indices: 19637416--19637554 Score: 160
Period size: 55 Copynumber: 2.6 Consensus size: 54
19637406 TATATTTATT
**
19637416 TTATTTTAATAATATTTTAATATT-AA-TTTAATAATATTTTAACATTTTGATA
1 TTATTTTAATAATATTTTAATATTAAATTTTAATAATATTTTAACATTTAAATA
* * * * **
19637468 TTATTTCAATAAAATTTT-ATATGAAATATTAATAAAATATTTTAGTA-TTAAATA
1 TTATTTTAATAATATTTTAATATTAAATTTTAAT--AATATTTTAACATTTAAATA
19637522 TTATTTTAATAATATTTTAATATTAAATTTTAA
1 TTATTTTAATAATATTTTAATATTAAATTTTAA
19637555 GTGATATTAT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
51 4 0.06
52 18 0.26
53 5 0.07
54 21 0.30
55 22 0.31
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (54 bp):
TTATTTTAATAATATTTTAATATTAAATTTTAATAATATTTTAACATTTAAATA
Found at i:19637587 original size:19 final size:21
Alignment explanation
Indices: 19637558--19637614 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 21
19637548 ATTTTAAGTG
*
19637558 ATATTATTTTAAAATAATTT-
1 ATATTAATTTAAAATAATTTC
*
19637578 A-ATTAATTTAATAATATTTTC
1 ATATTAATTTAA-AATAATTTC
19637599 ATATT-ATTT-AAATAAT
1 ATATTAATTTAAAATAAT
19637615 GTTTTATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 14 0.45
20 9 0.29
21 5 0.16
22 3 0.10
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
ATATTAATTTAAAATAATTTC
Found at i:19637702 original size:22 final size:22
Alignment explanation
Indices: 19637676--19637727 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
19637666 AAAATTGTTC
** *
19637676 TAATAATACTTATGTATGATTT
1 TAATAATAAATATGAATGATTT
* *
19637698 TAATATTAAATATGAATTATTT
1 TAATAATAAATATGAATGATTT
19637720 TAATAATA
1 TAATAATA
19637728 TTTAATATTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (22 bp):
TAATAATAAATATGAATGATTT
Found at i:19637755 original size:28 final size:29
Alignment explanation
Indices: 19637713--19637823 Score: 140
Period size: 28 Copynumber: 3.9 Consensus size: 29
19637703 TTAAATATGA
* *
19637713 ATTATTTTAATAATA-TTTAATATTAAGT
1 ATTAATTTAAGAATATTTTAATATTAAGT
*
19637741 ATTAATTTAGGAATATTTTAATATTTAA-T
1 ATTAATTTAAGAATATTTTAATA-TTAAGT
*
19637770 A-TAATTTAAATAATA-TTTAATATTAAGT
1 ATTAATTT-AAGAATATTTTAATATTAAGT
19637798 ATTAATTTAAGAATATTTTAATATTA
1 ATTAATTTAAGAATATTTTAATATTA
19637824 TTTATTTATT
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
27 4 0.06
28 33 0.46
29 30 0.42
30 4 0.06
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (29 bp):
ATTAATTTAAGAATATTTTAATATTAAGT
Found at i:19637761 original size:29 final size:28
Alignment explanation
Indices: 19637724--19637823 Score: 127
Period size: 29 Copynumber: 3.5 Consensus size: 28
19637714 TTATTTTAAT
19637724 AATA-TTTAATATTAAGTATTAATTTAGG
1 AATATTTTAATATTAAGTATTAATTTA-G
19637752 AATATTTTAATATTTAA-TA-TAATTTA-
1 AATATTTTAATA-TTAAGTATTAATTTAG
19637778 AATAATATTTAATATTAAGTATTAATTTAAG
1 AAT-AT-TTTAATATTAAGTATTAATTT-AG
19637809 AATATTTTAATATTA
1 AATATTTTAATATTA
19637824 TTTATTTATT
Statistics
Matches: 64, Mismatches: 0, Indels: 15
0.81 0.00 0.19
Matches are distributed among these distances:
26 3 0.05
27 6 0.09
28 20 0.31
29 25 0.39
30 7 0.11
31 3 0.05
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (28 bp):
AATATTTTAATATTAAGTATTAATTTAG
Found at i:19637838 original size:19 final size:19
Alignment explanation
Indices: 19637811--19637848 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
19637801 AATTTAAGAA
*
19637811 TATTTTAATATTA-TTTATT
1 TATTATAAT-TTACTTTATT
19637830 TATTATAATTTACTTTATT
1 TATTATAATTTACTTTATT
19637849 AAAATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
TATTATAATTTACTTTATT
Found at i:19638192 original size:2 final size:2
Alignment explanation
Indices: 19638185--19638216 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
19638175 CATCTAGAAT
19638185 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19638217 TTATTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:19652660 original size:15 final size:14
Alignment explanation
Indices: 19652640--19652669 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
19652630 TTTGGTAATA
19652640 TTATTTATGATGTTT
1 TTATTTATGAT-TTT
19652655 TTATTTATGATTTT
1 TTATTTATGATTTT
19652669 T
1 T
19652670 AATTGCATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (14 bp):
TTATTTATGATTTT
Found at i:19652753 original size:18 final size:18
Alignment explanation
Indices: 19652726--19652763 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
19652716 TTTTCTTTTT
* *
19652726 TTGCATGATATATTATTA
1 TTGCACGATATAATATTA
19652744 TTGCACGATATAATATTA
1 TTGCACGATATAATATTA
19652762 TT
1 TT
19652764 TTGCGAGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (18 bp):
TTGCACGATATAATATTA
Found at i:19655968 original size:25 final size:25
Alignment explanation
Indices: 19655930--19655983 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
19655920 GACAAAAAAG
19655930 AAAGGTTAGAAAGGTAAAGGTACAT
1 AAAGGTTAGAAAGGTAAAGGTACAT
19655955 AAAGGTTA-AGAAGGTAAAGGTACAT
1 AAAGGTTAGA-AAGGTAAAGGTACAT
19655980 AAAG
1 AAAG
19655984 ATCTTATAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.50, C:0.04, G:0.28, T:0.19
Consensus pattern (25 bp):
AAAGGTTAGAAAGGTAAAGGTACAT
Found at i:19656706 original size:20 final size:21
Alignment explanation
Indices: 19656670--19656721 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
19656660 CCCAAAATTA
19656670 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
19656692 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
19656713 AT-AAATATT
1 ATAAAATATT
19656722 TAAAAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:19656712 original size:21 final size:22
Alignment explanation
Indices: 19656670--19656721 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
19656660 CCCAAAATTA
19656670 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
19656692 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
19656713 AT-AAATATT
1 ATAAAATATT
19656722 TAAAAATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:19659665 original size:18 final size:18
Alignment explanation
Indices: 19659639--19659763 Score: 96
Period size: 18 Copynumber: 6.9 Consensus size: 18
19659629 CTTTGTTCTT
19659639 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
* *
19659657 GATATATTTGA---GGAT
1 GATACATTTGAGGTGGAG
* *
19659672 GATATATTTGTGGTGGAG
1 GATACATTTGAGGTGGAG
* * * *
19659690 GGTACATTTGTGGT-AACT
1 GATACATTTGAGGTGGA-G
*
19659708 GATACATTTGAGGTGAAG
1 GATACATTTGAGGTGGAG
*
19659726 GATATATTTGAGGAGGTGGAG
1 GATACATTT---GAGGTGGAG
19659747 GATACATTTGAGGTGGA
1 GATACATTTGAGGTGGA
19659764 TAATAACCAT
Statistics
Matches: 85, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
15 13 0.15
17 1 0.01
18 53 0.62
19 2 0.02
21 16 0.19
ACGTcount: A:0.28, C:0.04, G:0.35, T:0.33
Consensus pattern (18 bp):
GATACATTTGAGGTGGAG
Found at i:19659743 original size:21 final size:21
Alignment explanation
Indices: 19659717--19659759 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
19659707 TGATACATTT
*
19659717 GAGGTGAAGGATATATTTGAG
1 GAGGTGAAGGATACATTTGAG
*
19659738 GAGGTGGAGGATACATTTGAG
1 GAGGTGAAGGATACATTTGAG
19659759 G
1 G
19659760 TGGATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.42, T:0.26
Consensus pattern (21 bp):
GAGGTGAAGGATACATTTGAG
Found at i:19663595 original size:26 final size:26
Alignment explanation
Indices: 19663546--19663594 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
19663536 TTTCAAAAAT
*
19663546 TAAAAGTTTTCAAACTTATATTTTAA
1 TAAAAGTTTTCAAACCTATATTTTAA
19663572 TAAAA-TTTTCAAACCTATATTTT
1 TAAAAGTTTTCAAACCTATATTTT
19663595 TTATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (26 bp):
TAAAAGTTTTCAAACCTATATTTTAA
Found at i:19663842 original size:20 final size:20
Alignment explanation
Indices: 19663820--19663856 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19663810 AACAACAAAA
*
19663820 AAAATTA-AAATTCATATGC
1 AAAATTATAAATTAATATGC
19663839 AAAATTATAAATTAATAT
1 AAAATTATAAATTAATAT
19663857 ATAACACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (20 bp):
AAAATTATAAATTAATATGC
Found at i:19664144 original size:40 final size:40
Alignment explanation
Indices: 19664090--19664179 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 40
19664080 CCCACCCCAT
** * *
19664090 CAATCCCTATCCACCTTCCCTTCC-AACATCCCACCACACC
1 CAATCCCTCCCCACCTTCCC-CCCTAACACCCCACCACACC
*
19664130 CAATCCCTCCCCACCTTCCCCCCTAACGCCCCACCACACC
1 CAATCCCTCCCCACCTTCCCCCCTAACACCCCACCACACC
19664170 CAAT-CCTCCC
1 CAATCCCTCCC
19664180 ACCCCCTCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
39 8 0.18
40 36 0.82
ACGTcount: A:0.22, C:0.60, G:0.01, T:0.17
Consensus pattern (40 bp):
CAATCCCTCCCCACCTTCCCCCCTAACACCCCACCACACC
Found at i:19670641 original size:85 final size:86
Alignment explanation
Indices: 19670534--19670740 Score: 249
Period size: 85 Copynumber: 2.4 Consensus size: 86
19670524 GTTAGAGGAT
* * * *
19670534 TATTTTAAAGTTGTTTAACCTCTAAATAGAAGAGCCAATTTC-CTA-TTTCAAAGTTGTTTAGCC
1 TATTTTAAAGTTGTTTAGCCTCTGAATAGAGGAGCCAATTTCTC-AGTTT-AAAATTGTTTAGCC
*
19670597 TTTGAAAAAATGAGCCCATTTCC
64 TCTGAAAAAATGAGCCCATTTCC
** * *
19670620 TA-TTTAAAGTTGTTTAGCCTCTGTTTAGAGGAACCCATTTCTCAGTTTAAAATTGTTTAGCCTC
1 TATTTTAAAGTTGTTTAGCCTCTGAATAGAGGAGCCAATTTCTCAGTTTAAAATTGTTTAGCCTC
* **
19670684 TGAATAAATGAGCTTATTTCC
66 TGAAAAAATGAGCCCATTTCC
* *
19670705 TATTTTAAAATTGTTTAGCCTTTGAATAGAGGAGCC
1 TATTTTAAAGTTGTTTAGCCTCTGAATAGAGGAGCC
19670741 CAGTTTATAT
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
85 67 0.66
86 34 0.34
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (86 bp):
TATTTTAAAGTTGTTTAGCCTCTGAATAGAGGAGCCAATTTCTCAGTTTAAAATTGTTTAGCCTC
TGAAAAAATGAGCCCATTTCC
Found at i:19670753 original size:43 final size:43
Alignment explanation
Indices: 19670534--19670742 Score: 215
Period size: 43 Copynumber: 4.9 Consensus size: 43
19670524 GTTAGAGGAT
* * * *
19670534 TATTTTAAAGTTGTTTAACCTCTAAATAGAAGAGCCAATTTCC
1 TATTTTAAAGTTGTTTAGCCTCTGAATAGAGGAGCCCATTTCC
* * * * *
19670577 TATTTCAAAGTTGTTTAGCCTTTGAAAAAATGAGCCCATTTCC
1 TATTTTAAAGTTGTTTAGCCTCTGAATAGAGGAGCCCATTTCC
** *
19670620 TA-TTTAAAGTTGTTTAGCCTCTGTTTAGAGGAACCCATTT-C
1 TATTTTAAAGTTGTTTAGCCTCTGAATAGAGGAGCCCATTTCC
* * * * **
19670661 TCAGTTTAAAATTGTTTAGCCTCTGAATAAATGAGCTTATTTCC
1 T-ATTTTAAAGTTGTTTAGCCTCTGAATAGAGGAGCCCATTTCC
* *
19670705 TATTTTAAAATTGTTTAGCCTTTGAATAGAGGAGCCCA
1 TATTTTAAAGTTGTTTAGCCTCTGAATAGAGGAGCCCA
19670743 GTTTATATTT
Statistics
Matches: 133, Mismatches: 30, Indels: 6
0.79 0.18 0.04
Matches are distributed among these distances:
41 2 0.02
42 31 0.23
43 98 0.74
44 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (43 bp):
TATTTTAAAGTTGTTTAGCCTCTGAATAGAGGAGCCCATTTCC
Found at i:19672145 original size:25 final size:25
Alignment explanation
Indices: 19672095--19672145 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
19672085 TAGGTTTTCC
* *
19672095 TTTTCTATTTTCTTTTTATTTTCAT
1 TTTTCTATTTTCTTTTTATCTCCAT
*
19672120 TTTTC-ATTTTTTATTTTATCTCCAT
1 TTTTCTATTTTCT-TTTTATCTCCAT
19672145 T
1 T
19672146 GTTTTGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTTCTATTTTCTTTTTATCTCCAT
Found at i:19672163 original size:4 final size:4
Alignment explanation
Indices: 19672154--19672196 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
19672144 TTGTTTTGAT
19672154 TTTA TTTA TTTA TTTA TTTA -TTA -TTA -TTA -TTA TTTA TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
19672197 AAAAAGTGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 15 0.41
4 22 0.59
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:19672175 original size:16 final size:16
Alignment explanation
Indices: 19672154--19672196 Score: 51
Period size: 14 Copynumber: 3.0 Consensus size: 16
19672144 TTGTTTTGAT
19672154 TTTATTTATTTATTTA
1 TTTATTTATTTATTTA
19672170 TTTA-TTA-TTA-TTA
1 TTTATTTATTTATTTA
19672183 -TTATTTATTT-TTTA
1 TTTATTTATTTATTTA
19672197 AAAAAGTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
12 3 0.12
13 6 0.25
14 8 0.33
15 3 0.12
16 4 0.17
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTATTTATTTATTTA
Found at i:19672266 original size:21 final size:21
Alignment explanation
Indices: 19672222--19672266 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
19672212 TATTTATGAT
*
19672222 TATTAATTGCATGATATTTCA
1 TATTAATTGCATGATATATCA
19672243 TATTAATTGCATGATAATAT-A
1 TATTAATTGCATGAT-ATATCA
19672264 TAT
1 TAT
19672267 ATTTTGGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.47
Consensus pattern (21 bp):
TATTAATTGCATGATATATCA
Found at i:19672574 original size:134 final size:133
Alignment explanation
Indices: 19672401--19672693 Score: 444
Period size: 134 Copynumber: 2.2 Consensus size: 133
19672391 AATTTTTTTT
* * *
19672401 AATCCTACCAAATTATTAGAAGATTTGTATCTAAAATTAAATCTTACCAAATTATTGAAAGATTT
1 AATCTTACCAAATTATTAGAAGATTTGCATCTAAAATTAAATCTTACCAAACTATTGAAAGATTT
19672466 AATACATCTTTTAAAAATAATTTTTCAAATAAAATCTCACCAAACTATTGAGAAA-CTTGCATCA
66 AATACATCTTTTAAAAATAA-TTTTCAAATAAAATCTCACCAAACTATTGAGAAATC-TGCATCA
19672530 AAGTA
129 AAGTA
* *
19672535 AATCTTACCAAACTATTAGAGGATTTGCATCTAAAATTAAATCTTACCAAACTATTGAAAGATTT
1 AATCTTACCAAATTATTAGAAGATTTGCATCTAAAATTAAATCTTACCAAACTATTGAAAGATTT
* * * * * *
19672600 AATGCATCTTTTAAAAATGATTTTCAAATAAAATCTCAGCAAATTATTGGGAGATCTGCATCAAA
66 AATACATCTTTTAAAAATAATTTTCAAATAAAATCTCACCAAACTATTGAGAAATCTGCATCAAA
19672665 GTA
131 GTA
* *
19672668 AATCTCACCAAATTATTTGAAGATTT
1 AATCTTACCAAATTATTAGAAGATTT
19672694 TACTAATTAT
Statistics
Matches: 143, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
133 64 0.45
134 79 0.55
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (133 bp):
AATCTTACCAAATTATTAGAAGATTTGCATCTAAAATTAAATCTTACCAAACTATTGAAAGATTT
AATACATCTTTTAAAAATAATTTTCAAATAAAATCTCACCAAACTATTGAGAAATCTGCATCAAA
GTA
Found at i:19672599 original size:39 final size:38
Alignment explanation
Indices: 19672490--19672599 Score: 136
Period size: 37 Copynumber: 2.9 Consensus size: 38
19672480 AAATAATTTT
* * *
19672490 TCAAATAAAATCTCACCAAACTATTGAGAA-ACTTGCA
1 TCAAATTAAATCTTACCAAACTATTGAGAAGATTTGCA
* *
19672527 TCAAAGTAAATCTTACCAAACTATT-AGAGGATTTGCA
1 TCAAATTAAATCTTACCAAACTATTGAGAAGATTTGCA
19672564 TCTAAAATTAAATCTTACCAAACTATTGA-AAGATTT
1 TC--AAATTAAATCTTACCAAACTATTGAGAAGATTT
19672600 AATGCATCTT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
36 3 0.05
37 30 0.48
39 28 0.45
40 1 0.02
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (38 bp):
TCAAATTAAATCTTACCAAACTATTGAGAAGATTTGCA
Found at i:19674064 original size:31 final size:31
Alignment explanation
Indices: 19674029--19674100 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
19674019 ACGAAAATGA
*
19674029 AAATTTAGTCCCTGTACTCATATGAAAATTT-
1 AAATTTAGTCCCTGTACTCATA-CAAAATTTG
* * **
19674060 AAATTTAGTTCTTGTACTTTTACAAAATTTG
1 AAATTTAGTCCCTGTACTCATACAAAATTTG
19674091 AAATTTAGTC
1 AAATTTAGTC
19674101 ATTTTAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 7 0.21
31 27 0.79
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (31 bp):
AAATTTAGTCCCTGTACTCATACAAAATTTG
Found at i:19674824 original size:58 final size:58
Alignment explanation
Indices: 19674689--19674832 Score: 177
Period size: 57 Copynumber: 2.5 Consensus size: 58
19674679 AAACCATTGG
* * ** **
19674689 TAATAGTGTTTTAAAATTTTTTTATTACCAATGAAATTTCTATAGTTAAAATTGTCAA
1 TAATAGTGTTTCAAAAATTTTTTATTACCAACAAAATTTCTATAGTTAAAATCATCAA
*
19674747 TAATAGTGTTTC-AAAATTTTTTATTACCAACAAAATATT-TGTCAG-TAAAATCATCAA
1 TAATAGTGTTTCAAAAATTTTTTATTACCAACAAAAT-TTCTAT-AGTTAAAATCATCAA
*
19674804 TAATAGTATTTCAAAAATTTTTTATTACC
1 TAATAGTGTTTCAAAAATTTTTTATTACC
19674833 TATAGAATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
57 44 0.59
58 31 0.41
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.44
Consensus pattern (58 bp):
TAATAGTGTTTCAAAAATTTTTTATTACCAACAAAATTTCTATAGTTAAAATCATCAA
Found at i:19674851 original size:58 final size:57
Alignment explanation
Indices: 19674689--19674853 Score: 172
Period size: 58 Copynumber: 2.9 Consensus size: 57
19674679 AAACCATTGG
* * * * **
19674689 TAATAGTGTTTTAAAATTTTTTTATTACCAAT-GAAATTTCTATAGTTAAAATTGTCAA
1 TAATAGTGTTTCAAAAATTTTTTATTACCAATAGAATTTTC-ACAG-TAAAATCATCAA
* * **
19674747 TAATAGTGTTTC-AAAATTTTTTATTACCAACAAAATATTTGTCAGTAAAATCATCAA
1 TAATAGTGTTTCAAAAATTTTTTATTACCAATAGAAT-TTTCACAGTAAAATCATCAA
* *
19674804 TAATAGTATTTCAAAAATTTTTTATTACCTATAGAATTTTCACCAGTAAA
1 TAATAGTGTTTCAAAAATTTTTTATTACCAATAGAATTTTCA-CAGTAAA
19674854 TTATTGGTAA
Statistics
Matches: 87, Mismatches: 16, Indels: 8
0.78 0.14 0.07
Matches are distributed among these distances:
57 41 0.47
58 43 0.49
59 3 0.03
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.42
Consensus pattern (57 bp):
TAATAGTGTTTCAAAAATTTTTTATTACCAATAGAATTTTCACAGTAAAATCATCAA
Found at i:19675277 original size:36 final size:33
Alignment explanation
Indices: 19675235--19675311 Score: 91
Period size: 33 Copynumber: 2.2 Consensus size: 33
19675225 TTTAGTTACC
* *
19675235 AATTTGTTGAGTTTTTGTTCGTTTTATATTTGTTGA
1 AATTTGTTGAGGTTTTG---GTTATATATTTGTTGA
*
19675271 AATTTGTTGTGGTTTTGGTTATATATTTGTTGA
1 AATTTGTTGAGGTTTTGGTTATATATTTGTTGA
*
19675304 AAATTGTT
1 AATTTGTT
19675312 TGTTATATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 22 0.59
36 15 0.41
ACGTcount: A:0.19, C:0.01, G:0.21, T:0.58
Consensus pattern (33 bp):
AATTTGTTGAGGTTTTGGTTATATATTTGTTGA
Found at i:19675303 original size:59 final size:58
Alignment explanation
Indices: 19675144--19675291 Score: 172
Period size: 59 Copynumber: 2.5 Consensus size: 58
19675134 TTTGTTAGAA
* *
19675144 ATTTGGTGAATTTTGTTTGTGTTTTGGTTACCAATTTGTTGAGTTTTTATTAGTTATTT
1 ATTTGTTGAAATTTGTTTG-GTTTTGGTTACCAATTTGTTGAGTTTTTATTAGTTATTT
* * * * * * *
19675203 AATTGTTAAAATTTATTTACGTTTTAGTTACCAATTTGTTGAGTTTTTGTTCGTT-TTAT
1 ATTTGTTGAAATTTGTTT-GGTTTTGGTTACCAATTTGTTGAGTTTTTATTAGTTATT-T
19675262 ATTTGTTGAAATTTGTTGTGGTTTTGGTTA
1 ATTTGTTGAAATTTGTT-TGGTTTTGGTTA
19675292 TATATTTGTT
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
58 2 0.03
59 69 0.96
60 1 0.01
ACGTcount: A:0.20, C:0.04, G:0.19, T:0.57
Consensus pattern (58 bp):
ATTTGTTGAAATTTGTTTGGTTTTGGTTACCAATTTGTTGAGTTTTTATTAGTTATTT
Found at i:19675376 original size:44 final size:44
Alignment explanation
Indices: 19675307--19675390 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 44
19675297 TTGTTGAAAA
*
19675307 TTGTTTGTTATATTTTTTTATTGGATTT-TTTGTTGAGTATTAATG
1 TTGTTTGTTATATTTTTGTATTGGATTTATTT-TT-AGTATTAATG
19675352 TTGTATTGTTA-ATTTTTGT-TTGGATTTATTTTTAGTATT
1 TTGT-TTGTTATATTTTTGTATTGGATTTATTTTTAGTATT
19675391 GTTGGAGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
43 6 0.17
44 10 0.28
45 14 0.39
46 6 0.17
ACGTcount: A:0.18, C:0.00, G:0.17, T:0.65
Consensus pattern (44 bp):
TTGTTTGTTATATTTTTGTATTGGATTTATTTTTAGTATTAATG
Found at i:19678508 original size:11 final size:11
Alignment explanation
Indices: 19678494--19678525 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
19678484 AAAATAAATT
19678494 TAAAATTATAA
1 TAAAATTATAA
19678505 TAAAATTATAA
1 TAAAATTATAA
19678516 -AAAATTATAA
1 TAAAATTATAA
19678526 AATAATAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAAAATTATAA
Found at i:19678521 original size:10 final size:10
Alignment explanation
Indices: 19678495--19678527 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
19678485 AAATAAATTT
19678495 AAAATTATAA
1 AAAATTATAA
19678505 TAAAATTATAA
1 -AAAATTATAA
19678516 AAAATTATAA
1 AAAATTATAA
19678526 AA
1 AA
19678528 TAATAGTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAATTATAA
Found at i:19678960 original size:24 final size:23
Alignment explanation
Indices: 19678916--19678960 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
19678906 ACAAAAAAAA
*
19678916 ATGATTATGTTAAATTAAATAAT
1 ATGATTATGTTAAAATAAATAAT
* *
19678939 ATGATTAATTTTAAAATCAATA
1 ATGATT-ATGTTAAAATAAATA
19678961 CACATTAAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 6 0.33
24 12 0.67
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (23 bp):
ATGATTATGTTAAAATAAATAAT
Found at i:19681707 original size:18 final size:18
Alignment explanation
Indices: 19681674--19681711 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
19681664 TTAGAAATTA
19681674 TAAAAAATATACTACTTT
1 TAAAAAATATACTACTTT
19681692 TAAAATAATATA-TACTTT
1 TAAAA-AATATACTACTTT
19681710 TA
1 TA
19681712 GAGAATTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAAAATATACTACTTT
Found at i:19682346 original size:5 final size:5
Alignment explanation
Indices: 19682336--19682360 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19682326 ATAAGCAAGA
19682336 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
19682361 TTGTCACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:19683343 original size:2 final size:2
Alignment explanation
Indices: 19683336--19683361 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19683326 TTACTCCCTT
19683336 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
19683362 GATCGACGGA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:19687600 original size:18 final size:18
Alignment explanation
Indices: 19687564--19687618 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
19687554 AATTAATTAA
*
19687564 TTATTTATATATATTTAT
1 TTATTTATATATATATAT
19687582 TTATTTATATA-ATGATA-
1 TTATTTATATATAT-ATAT
* *
19687599 TT-TTTAAATATTTATAT
1 TTATTTATATATATATAT
19687616 TTA
1 TTA
19687619 AAAAATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
16 10 0.33
17 7 0.23
18 13 0.43
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTATTTATATATATATAT
Found at i:19687635 original size:21 final size:22
Alignment explanation
Indices: 19687605--19687656 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
19687595 GATATTTTTA
19687605 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
19687625 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
19687647 AATATTTTAT
1 AATATTTTAT
19687657 TAATTTAGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:19697250 original size:17 final size:17
Alignment explanation
Indices: 19697209--19697251 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
19697199 TCATACTGCA
19697209 AAACTTTCTCATTTGAG
1 AAACTTTCTCATTTGAG
*
19697226 AGAACTTTC-CAATTTGGG
1 A-AACTTTCTC-ATTTGAG
19697244 AAACTTTC
1 AAACTTTC
19697252 ATGCATCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (17 bp):
AAACTTTCTCATTTGAG
Found at i:19700893 original size:27 final size:27
Alignment explanation
Indices: 19700863--19700925 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
19700853 TTGGACAATA
19700863 TTTTTCACATATTTCAATCTCATAATG
1 TTTTTCACATATTTCAATCTCATAATG
19700890 TTTTTCACATATTTCAATCTCATAATG
1 TTTTTCACATATTTCAATCTCATAATG
19700917 TTTTTCACA
1 TTTTTCACA
19700926 AGGATTAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.29, C:0.19, G:0.03, T:0.49
Consensus pattern (27 bp):
TTTTTCACATATTTCAATCTCATAATG
Found at i:19701631 original size:16 final size:16
Alignment explanation
Indices: 19701605--19701638 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
19701595 AGAGAGGAAC
19701605 AAGAAGAAAT-AGAAA
1 AAGAAGAAATAAGAAA
19701620 AAGAATGAAATAAGAAA
1 AAGAA-GAAATAAGAAA
19701637 AA
1 AA
19701639 AAAAGGACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 5 0.29
17 7 0.41
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.09
Consensus pattern (16 bp):
AAGAAGAAATAAGAAA
Done.