Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002239.1 Hibiscus syriacus cultivar Beakdansim tig00004553_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: 175568
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:1820 original size:14 final size:14
Alignment explanation
Indices: 1801--1827 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1791 TCGGTTTTGG
1801 CTGTTTTCTACAGT
1 CTGTTTTCTACAGT
1815 CTGTTTTCTACAG
1 CTGTTTTCTACAG
1828 AATTACTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.48
Consensus pattern (14 bp):
CTGTTTTCTACAGT
Found at i:2941 original size:17 final size:17
Alignment explanation
Indices: 2919--2951 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
2909 TGGAGTCTGG
2919 AGGATGTTCAGGCGCAA
1 AGGATGTTCAGGCGCAA
2936 AGGATGTTCAGGCGCA
1 AGGATGTTCAGGCGCA
2952 GCATGGAGGT
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:0.27, C:0.18, G:0.36, T:0.18
Consensus pattern (17 bp):
AGGATGTTCAGGCGCAA
Found at i:7154 original size:13 final size:13
Alignment explanation
Indices: 7136--7161 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7126 GCTATTGTTG
7136 ATGTTGCTTGCCC
1 ATGTTGCTTGCCC
7149 ATGTTGCTTGCCC
1 ATGTTGCTTGCCC
7162 TTTGTGTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.31, G:0.23, T:0.38
Consensus pattern (13 bp):
ATGTTGCTTGCCC
Found at i:9018 original size:123 final size:120
Alignment explanation
Indices: 8786--9020 Score: 294
Period size: 123 Copynumber: 1.9 Consensus size: 120
8776 TTAAACGCCA
* *
8786 GATCACTGAAATTACTTTGTACTTGTTTAATTAGTGGTTAAGTATTTATAGTAGATCGATTCACT
1 GATCACTGAAATTACTTTGTACTTGTGTAATTAGTGGTTAAGTACTTATAGTAGATCGATTCACT
* ** *
8851 TATTTTGTTATCTGCAGCCTCGTGGGATCATGTAGTAAAGTTCCTCTGTTGCTGG
66 TATTTTGTTATCCGCAGCCTCGTGGGATCATGTAACAAAATTCCTCTGTTGCTGG
* * * *
8906 GATCACTGAAGTTACTTTGTACTTTGTGTAATTAGTGGTTAAAAGTACTTATTGTAGGTGGATTC
1 GATCACTGAAATTACTTTGTAC-TTGTGTAATTAGTGGTT--AAGTACTTATAGTAGATCGATTC
* * *
8971 ACTTATTTTGTTTTCCGTAGCCTCGTAGGG-TCGCTG-AACAAAATTCCTCT
63 ACTTATTTTGTTATCCGCAGCCTCGT-GGGATC-ATGTAACAAAATTCCTCT
9021 CTCTATAGCC
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
120 21 0.22
121 16 0.16
123 55 0.57
124 5 0.05
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (120 bp):
GATCACTGAAATTACTTTGTACTTGTGTAATTAGTGGTTAAGTACTTATAGTAGATCGATTCACT
TATTTTGTTATCCGCAGCCTCGTGGGATCATGTAACAAAATTCCTCTGTTGCTGG
Found at i:19978 original size:24 final size:24
Alignment explanation
Indices: 19951--20041 Score: 93
Period size: 23 Copynumber: 3.9 Consensus size: 24
19941 GCTTAAAATT
*
19951 TGCACCGAAGTGCCACGTAGAATA
1 TGCACCGAAGTGCCACATAGAATA
19975 TGCACCGAAGTGCCACATAGAAT-
1 TGCACCGAAGTGCCACATAGAATA
**
19998 TGTC-CCGAAACGCCACATAGAAT-
1 TG-CACCGAAGTGCCACATAGAATA
20021 TGTC-CCGAAG-GACCACATAGA
1 TG-CACCGAAGTG-CCACATAGA
20042 TTTTTCCCGA
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
22 1 0.02
23 37 0.61
24 23 0.38
ACGTcount: A:0.34, C:0.27, G:0.22, T:0.16
Consensus pattern (24 bp):
TGCACCGAAGTGCCACATAGAATA
Found at i:20050 original size:46 final size:46
Alignment explanation
Indices: 19962--20098 Score: 163
Period size: 46 Copynumber: 3.0 Consensus size: 46
19952 GCACCGAAGT
19962 GCCACGTAGAATATG-CACCGAAGTG-CCACATAGAATTGTCCCGAAAC
1 GCCACGTAGAAT-TGTC-CCGAAG-GACCACATAGAATTGTCCCGAAAC
* * * *
20009 GCCACATAGAATTGTCCCGAAGGACCACATAGATTTTTCCCG-AAG
1 GCCACGTAGAATTGTCCCGAAGGACCACATAGAATTGTCCCGAAAC
* *
20054 GACCGCGTAGAATTGTCCCAAAGGACCACATAGAATTGTCCCGAA
1 G-CCACGTAGAATTGTCCCGAAGGACCACATAGAATTGTCCCGAA
20099 GGACTGCGTA
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
45 4 0.05
46 60 0.78
47 13 0.17
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (46 bp):
GCCACGTAGAATTGTCCCGAAGGACCACATAGAATTGTCCCGAAAC
Found at i:20111 original size:23 final size:23
Alignment explanation
Indices: 19979--20102 Score: 162
Period size: 23 Copynumber: 5.4 Consensus size: 23
19969 AGAATATGCA
19979 CCGAAGTG-CCACATAGAATTGTC
1 CCGAAG-GACCACATAGAATTGTC
*
20002 CCGAAACG-CCACATAGAATTGTC
1 CCG-AAGGACCACATAGAATTGTC
* *
20025 CCGAAGGACCACATAGATTTTTC
1 CCGAAGGACCACATAGAATTGTC
* *
20048 CCGAAGGACCGCGTAGAATTGTC
1 CCGAAGGACCACATAGAATTGTC
*
20071 CCAAAGGACCACATAGAATTGTC
1 CCGAAGGACCACATAGAATTGTC
20094 CCGAAGGAC
1 CCGAAGGAC
20103 TGCGTAGAAC
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
22 3 0.03
23 82 0.94
24 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (23 bp):
CCGAAGGACCACATAGAATTGTC
Found at i:20292 original size:19 final size:19
Alignment explanation
Indices: 20265--20305 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
20255 AGGCTTATGA
* *
20265 AATACAATTTAAGAAAAAT
1 AATAAAATTTAACAAAAAT
*
20284 AATAAAATTTAACATAAAT
1 AATAAAATTTAACAAAAAT
20303 AAT
1 AAT
20306 TCAAATAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (19 bp):
AATAAAATTTAACAAAAAT
Found at i:24222 original size:10 final size:10
Alignment explanation
Indices: 24207--24236 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
24197 AACCAGACTC
24207 AAAACATCAA
1 AAAACATCAA
24217 AAAACATCAA
1 AAAACATCAA
24227 AAAACATCAA
1 AAAACATCAA
24237 GAGGAGGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.70, C:0.20, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAACATCAA
Found at i:25192 original size:3 final size:3
Alignment explanation
Indices: 25184--25208 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
25174 AAGTGAGTTA
25184 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
25209 TTGTTTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:28777 original size:17 final size:19
Alignment explanation
Indices: 28751--28790 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
28741 GACCCGAAAT
28751 AATATATTTATT-AA-AAA
1 AATATATTTATTCAATAAA
*
28768 AATATTTTTATTCAATAAA
1 AATATATTTATTCAATAAA
28787 AATA
1 AATA
28791 AAGATTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 2 0.10
19 7 0.35
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AATATATTTATTCAATAAA
Found at i:30049 original size:17 final size:17
Alignment explanation
Indices: 30023--30061 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
30013 CCAACTATAG
30023 TAAT-GTGTAATGAATT
1 TAATGGTGTAATGAATT
30039 TAATGGTGTAATGAATT
1 TAATGGTGTAATGAATT
30056 TAATGG
1 TAATGG
30062 CATAATGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (17 bp):
TAATGGTGTAATGAATT
Found at i:30067 original size:17 final size:17
Alignment explanation
Indices: 30030--30068 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
30020 TAGTAATGTG
**
30030 TAATGAATTTAATGGTG
1 TAATGAATTTAATGGCA
30047 TAATGAATTTAATGGCA
1 TAATGAATTTAATGGCA
30064 TAATG
1 TAATG
30069 GGAAATCCGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (17 bp):
TAATGAATTTAATGGCA
Found at i:32739 original size:38 final size:38
Alignment explanation
Indices: 32696--32778 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
32686 TAAAATTCAG
* * *
32696 TAAATAATAAACTTATTCACTTCAATTAGGTAATAAACA
1 TAAATAATAAAATCATTCACTTCAATTAAGTAATAAA-A
* *
32735 -AAATACTAAAATCATTCACTTGAATTAAGTAATAAAA
1 TAAATAATAAAATCATTCACTTCAATTAAGTAATAAAA
32772 TAAATAA
1 TAAATAA
32779 ATTAAGTCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
37 1 0.03
38 36 0.97
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.31
Consensus pattern (38 bp):
TAAATAATAAAATCATTCACTTCAATTAAGTAATAAAA
Found at i:32783 original size:21 final size:21
Alignment explanation
Indices: 32757--32805 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
32747 CATTCACTTG
32757 AATTAAGTAATAAAA-TAAAT
1 AATTAAGTAATAAAAGTAAAT
*
32777 AAATTAAGTCATAAAAGGTAAAT
1 -AATTAAGTAATAAAA-GTAAAT
32800 AATTAA
1 AATTAA
32806 TAAACAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 14 0.56
22 6 0.24
23 5 0.20
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (21 bp):
AATTAAGTAATAAAAGTAAAT
Found at i:33100 original size:3 final size:3
Alignment explanation
Indices: 33055--33087 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
33045 CCTCACTCTT
*
33055 ATC ATC ATC ATC ATC ACC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
33088 GTTGCCATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.30
Consensus pattern (3 bp):
ATC
Found at i:36765 original size:104 final size:105
Alignment explanation
Indices: 36585--36811 Score: 336
Period size: 104 Copynumber: 2.2 Consensus size: 105
36575 TATATCCATT
** **
36585 AATCAATGTATTATACATCACAGTATCAGGTGCAATGCCCCTAGTCTTCATATCTTCATAAAATC
1 AATCAATGTATTATATGTCACAACATCAGGTGCAATGCCCCTAGTCTTCATATCTTCATAAAATC
*
36650 GATTAGCAGTGTCGAGTCTCATCGACAAAAAAAATCCCC-
66 GATTAGCAGTGTCGAGTCTCAACGACAAAAAAAATCCCCA
36689 AATCAATGTATTATATGTCACAACATCAGGTGCAATGCCCCTAGTCTTCATATCTAT-ATAAAA-
1 AATCAATGTATTATATGTCACAACATCAGGTGCAATGCCCCTAGTCTTCATATCT-TCATAAAAT
*
36752 CTGATTAGCAGTGTCGAGTCTCAACGACAAAAAGAATCCCCA
65 C-GATTAGCAGTGTCGAGTCTCAACGACAAAAAAAATCCCCA
*
36794 AAGC-ATGATATTATATGT
1 AATCAATG-TATTATATGT
36812 ATGACGAGTA
Statistics
Matches: 112, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
103 1 0.01
104 97 0.87
105 14 0.12
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (105 bp):
AATCAATGTATTATATGTCACAACATCAGGTGCAATGCCCCTAGTCTTCATATCTTCATAAAATC
GATTAGCAGTGTCGAGTCTCAACGACAAAAAAAATCCCCA
Found at i:45386 original size:15 final size:15
Alignment explanation
Indices: 45366--45396 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45356 ATAGTTCAAC
45366 AATTAATTTATTATA
1 AATTAATTTATTATA
45381 AATTAATTTATTATA
1 AATTAATTTATTATA
45396 A
1 A
45397 TATAGTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AATTAATTTATTATA
Found at i:55053 original size:10 final size:11
Alignment explanation
Indices: 55022--55054 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
55012 GTTAAGGATA
55022 TATTGAATGAG
1 TATTGAATGAG
55033 TATTGAATGAG
1 TATTGAATGAG
55044 TATT-AATGAG
1 TATTGAATGAG
55054 T
1 T
55055 TCAAGTATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 7 0.32
11 15 0.68
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.39
Consensus pattern (11 bp):
TATTGAATGAG
Found at i:55273 original size:65 final size:65
Alignment explanation
Indices: 55158--55293 Score: 170
Period size: 65 Copynumber: 2.1 Consensus size: 65
55148 TTCTGGGCAG
* * * **
55158 AGGGTATCGGTACCCTATGAGGTGTATCGATACCCCTTTTAAATGAAAAATTAT-AGAATGTCAG
1 AGGGTACCGATACCCTATGAGGGGTATCGATACCCCCCTTAAATGAAAAATT-TCAGAATGTCAG
55222 T
65 T
55223 AGGGTACCGATACCCTAT-AGGGGGTATCGATACCCCCCTTAACATG-AAAATTTCAGAATGTCA
1 AGGGTACCGATACCCTATGA-GGGGTATCGATACCCCCCTTAA-ATGAAAAATTTCAGAATGTCA
*
55286 TT
64 GT
55288 AGGGTA
1 AGGGTA
55294 TATATACCCT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
64 2 0.03
65 57 0.92
66 3 0.05
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (65 bp):
AGGGTACCGATACCCTATGAGGGGTATCGATACCCCCCTTAAATGAAAAATTTCAGAATGTCAGT
Found at i:55301 original size:65 final size:65
Alignment explanation
Indices: 55168--55321 Score: 163
Period size: 65 Copynumber: 2.4 Consensus size: 65
55158 AGGGTATCGG
* ** *
55168 TACCCTATGAGGTGTATCGATACCCCTTTTAAATGAAAAATTATAGAATGTCAGTAGGGTACCGA
1 TACCCTATGAGGGGTATCGATACCCCCCTTAAATGAAAAATTATAGAATGTCAGTAGGGTACAGA
* *
55233 TACCCTAT-AGGGGGTATCGATACCCCCCTTAACATG-AAAATT-TCAGAATGTCATTAGGGTAT
1 TACCCTATGA-GGGGTATCGATACCCCCCTTAA-ATGAAAAATTAT-AGAATGTCAGTAGGGTAC
*
55295 ATA
63 AGA
* *
55298 TACCCTA-GACAGGGTATAGATACC
1 TACCCTATGA-GGGGTATCGATACC
55322 TCAGTTAGGG
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
64 2 0.03
65 70 0.93
66 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (65 bp):
TACCCTATGAGGGGTATCGATACCCCCCTTAAATGAAAAATTATAGAATGTCAGTAGGGTACAGA
Found at i:55974 original size:22 final size:18
Alignment explanation
Indices: 55930--56002 Score: 101
Period size: 18 Copynumber: 3.8 Consensus size: 18
55920 AGGGATTATC
55930 AGTGGTCCTTCGGGATAT
1 AGTGGTCCTTCGGGATAT
55948 AGTGGTCCTTCGGGACATAT
1 AGTGGTCCTTCGGG--ATAT
55968 ACAGTGGTCCTTCGGGATAT
1 --AGTGGTCCTTCGGGATAT
*
55988 AGTGGTCTTTCGGGA
1 AGTGGTCCTTCGGGA
56003 CAAATATTCA
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
18 28 0.56
20 8 0.16
22 14 0.28
ACGTcount: A:0.18, C:0.18, G:0.33, T:0.32
Consensus pattern (18 bp):
AGTGGTCCTTCGGGATAT
Found at i:55984 original size:40 final size:40
Alignment explanation
Indices: 55929--56004 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
55919 AAGGGATTAT
55929 CAGTGGTCCTTCGGGATATAGTGGTCCTTCGGGACATATA
1 CAGTGGTCCTTCGGGATATAGTGGTCCTTCGGGACATATA
*
55969 CAGTGGTCCTTCGGGATATAGTGGTCTTTCGGGACA
1 CAGTGGTCCTTCGGGATATAGTGGTCCTTCGGGACA
56005 AATATTCAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.30
Consensus pattern (40 bp):
CAGTGGTCCTTCGGGATATAGTGGTCCTTCGGGACATATA
Found at i:56264 original size:2 final size:2
Alignment explanation
Indices: 56257--56317 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
56247 AATGTATTGT
56257 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56299 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
56318 TATTATGCCT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:62192 original size:20 final size:20
Alignment explanation
Indices: 62167--62217 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
62157 GTCAGTAGGG
*
62167 TACCGATAGCCTATAGGGGT
1 TACCGATACCCTATAGGGGT
*
62187 TACCGATACCCTATAGGGGG
1 TACCGATACCCTATAGGGGT
*
62207 TATCGATACCC
1 TACCGATACCC
62218 CCCTTAACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (20 bp):
TACCGATACCCTATAGGGGT
Found at i:62280 original size:85 final size:86
Alignment explanation
Indices: 62096--62281 Score: 184
Period size: 85 Copynumber: 2.2 Consensus size: 86
62086 TTTTGGGCAG
* * * *
62096 AGGGTATCGATACCCTATGAAGGTGTATCGATGCCCCCTTTTGAACGAAAAATTACAGAATGTCA
1 AGGGTATAGATACCCTATGAAGGGGTATCGATACCCCCTCTTGAACGAAAAATTACAGAATGTCA
* *
62161 GTAGGGTACCGATAGCCTATA
66 GTAGGGTACCGATACCCTAGA
* * *
62182 GGGGT-TACCGATACCCTAT-AGGGGGTATCGATACCCCC-CTT-AAC-ATGAAAATTTCAGAAT
1 AGGGTATA--GATACCCTATGAAGGGGTATCGATACCCCCTCTTGAACGA--AAAATTACAGAAT
* * *
62242 GTCATTAGGGTATCTATACCCTAGA
62 GTCAGTAGGGTACCGATACCCTAGA
62267 CAGGGTATAGATACC
1 -AGGGTATAGATACC
62282 TCAGTTAGGG
Statistics
Matches: 81, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
83 1 0.01
84 3 0.04
85 41 0.51
86 24 0.30
87 12 0.15
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (86 bp):
AGGGTATAGATACCCTATGAAGGGGTATCGATACCCCCTCTTGAACGAAAAATTACAGAATGTCA
GTAGGGTACCGATACCCTAGA
Found at i:62380 original size:21 final size:23
Alignment explanation
Indices: 62347--62389 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
62337 TTAGTTTAAG
62347 AATTGGAAGATT-ATA-GTATAC
1 AATTGGAAGATTAATATGTATAC
**
62368 AATTGGATTATTAATATGTATA
1 AATTGGAAGATTAATATGTATA
62390 AATGTATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.56
22 3 0.17
23 5 0.28
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (23 bp):
AATTGGAAGATTAATATGTATAC
Found at i:62876 original size:18 final size:18
Alignment explanation
Indices: 62853--62925 Score: 78
Period size: 18 Copynumber: 3.9 Consensus size: 18
62843 ATGGATCATC
62853 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
62871 AGTGGTCCTTCGGGACATAT
1 AGTGGTCCTTCGGGAC--AT
*
62891 ACAGTGGTCTTTCGGGAC--
1 --AGTGGTCCTTCGGGACAT
*
62909 AGTGGTCATTCGGGACA
1 AGTGGTCCTTCGGGACA
62926 AATATTCAGT
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
16 15 0.31
18 16 0.33
20 2 0.04
22 15 0.31
ACGTcount: A:0.19, C:0.21, G:0.33, T:0.27
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:62899 original size:22 final size:20
Alignment explanation
Indices: 62850--62909 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 20
62840 TCGATGGATC
62850 ATCAGTGGTCCTTCGGGAC-
1 ATCAGTGGTCCTTCGGGACA
62869 AT-AGTGGTCCTTCGGGACA
1 ATCAGTGGTCCTTCGGGACA
*
62888 TATACAGTGGTCTTTCGGGACA
1 -AT-CAGTGGTCCTTCGGGACA
62910 GTGGTCATTC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 16 0.44
19 2 0.06
20 2 0.06
22 16 0.44
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (20 bp):
ATCAGTGGTCCTTCGGGACA
Found at i:62912 original size:16 final size:16
Alignment explanation
Indices: 62891--62925 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
62881 CGGGACATAT
*
62891 ACAGTGGTCTTTCGGG
1 ACAGTGGTCATTCGGG
62907 ACAGTGGTCATTCGGG
1 ACAGTGGTCATTCGGG
62923 ACA
1 ACA
62926 AATATTCAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (16 bp):
ACAGTGGTCATTCGGG
Found at i:62936 original size:40 final size:39
Alignment explanation
Indices: 62851--62936 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 39
62841 CGATGGATCA
*
62851 TCAGTGGTCCTTCGGGACATAGTGGTCCTTCGGGACATAT
1 TCAGTGGTCCTTCGGGACA-AGTGGTCATTCGGGACATAT
* *
62891 ACAGTGGTCTTTCGGGAC-AGTGGTCATTCGGGACAAATAT
1 TCAGTGGTCCTTCGGGACAAGTGGTCATTCGGGAC--ATAT
62931 TCAGTG
1 TCAGTG
62937 TCCCTAGTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
38 15 0.38
40 25 0.62
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (39 bp):
TCAGTGGTCCTTCGGGACAAGTGGTCATTCGGGACATAT
Found at i:63500 original size:16 final size:16
Alignment explanation
Indices: 63472--63511 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
63462 GATTTTCTTT
63472 AAGAGTC-AAAGTTTG
1 AAGAGTCAAAAGTTTG
63487 AAGAGTCAAAAGTTTG
1 AAGAGTCAAAAGTTTG
*
63503 AAAAGTCAA
1 AAGAGTCAA
63512 TGTGACCCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.47, C:0.07, G:0.23, T:0.23
Consensus pattern (16 bp):
AAGAGTCAAAAGTTTG
Found at i:69060 original size:18 final size:18
Alignment explanation
Indices: 69037--69107 Score: 106
Period size: 18 Copynumber: 3.9 Consensus size: 18
69027 AGGAATTATC
* *
69037 AGTGGTTCTTCGGGATAT
1 AGTGGTCCTTCGGGACAT
69055 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
69073 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
69091 AGTGATCATTCGGGACA
1 AGTGGTCCTTCGGGACA
69108 AATATTCAGT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:73006 original size:23 final size:23
Alignment explanation
Indices: 72962--73006 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
72952 GAGTAAATTT
* **
72962 ATTTAATTTTATTTGTTTTTATA
1 ATTTAATTTTATTTATACTTATA
*
72985 ATTTAATTTTGTTTATACTTAT
1 ATTTAATTTTATTTATACTTAT
73007 TATTAAAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (23 bp):
ATTTAATTTTATTTATACTTATA
Found at i:73546 original size:30 final size:32
Alignment explanation
Indices: 73512--73614 Score: 97
Period size: 33 Copynumber: 3.2 Consensus size: 32
73502 GGTAAGAATT
* *
73512 TTTTTTATGTTAGTAT-TTT-T-TAAATAGTTA
1 TTTTTTATATTAATATATTTATGTAAATA-TTA
73542 TTTTTTATATTAATATATTTATGTAAATATTA
1 TTTTTTATATTAATATATTTATGTAAATATTA
* * *
73574 TTTTTTAT-TAAAATAATATTTATATAATTATTA
1 TTTTTTATAT-TAAT-ATATTTATGTAAATATTA
73607 TTTATTTA
1 TTT-TTTA
73615 GAATTATTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
30 14 0.23
31 4 0.06
32 15 0.24
33 25 0.40
34 4 0.06
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (32 bp):
TTTTTTATATTAATATATTTATGTAAATATTA
Found at i:75359 original size:21 final size:21
Alignment explanation
Indices: 75329--75376 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
75319 GCAGGGGTAC
* *
75329 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
75350 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
75371 ATGCCA
1 ATGCCA
75377 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:75406 original size:21 final size:21
Alignment explanation
Indices: 75380--75452 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
75370 TATGCCATCT
*
75380 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
75401 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
75422 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
*
75443 CCACAGGGTT
1 CCGCAGGGTT
75453 TTATACCATA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
20 2 0.04
21 43 0.91
22 2 0.04
ACGTcount: A:0.19, C:0.34, G:0.26, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:76033 original size:33 final size:34
Alignment explanation
Indices: 75974--76070 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
75964 AAATGTTTTT
*
75974 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
76008 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
76041 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
76071 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:76077 original size:34 final size:33
Alignment explanation
Indices: 75972--76077 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
75962 ATAAATGTTT
*
75972 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
76006 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
76038 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
76073 TTAAA
1 TTAAA
76078 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:76705 original size:128 final size:128
Alignment explanation
Indices: 76470--77224 Score: 1424
Period size: 128 Copynumber: 5.9 Consensus size: 128
76460 TTACCTGATT
*
76470 TACTGATATATCTAGTGTCCCCGAGTGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
76535 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCTTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
76598 TAATGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
76663 TGACGAAATAATGGAAGGCACGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
76726 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
76791 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
76854 TACTGATATA--TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
76917 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
76980 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAAGATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
77045 TGACGAAATAATGGAAGGCGCGTCCCCGGGAACGTGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
77108 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
77173 TGACGAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGT
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
77225 ACTCCGATTA
Statistics
Matches: 612, Mismatches: 13, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
126 126 0.21
128 486 0.79
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:77000 original size:254 final size:255
Alignment explanation
Indices: 76470--77224 Score: 1413
Period size: 254 Copynumber: 3.0 Consensus size: 255
76460 TTACCTGATT
*
76470 TACTGATATATCTAGTGTCCCCGAGTGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
76535 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCTTTCATGTGAATAGTGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
*
76600 ATGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
131 CTGATATA-CTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
*
76665 ACGAAATAATGGAAGGCACGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
195 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
76726 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
76791 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
76856 CTGATATA-TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
131 CTGATATACTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
76920 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
196 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
76980 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAAGATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
77045 TGACGAAATAATGGAAGGCGCGTCCCCGGGAACGTGCCTTCATGTGAATAGTGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
77110 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
131 CTGATATA-CTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
*
77175 ACGAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGT
195 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
77225 ACTCCGATTA
Statistics
Matches: 489, Mismatches: 8, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
254 250 0.51
256 239 0.49
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (255 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
CTGATATACTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:77188 original size:382 final size:383
Alignment explanation
Indices: 76470--77224 Score: 1422
Period size: 382 Copynumber: 2.0 Consensus size: 383
76460 TTACCTGATT
*
76470 TACTGATATATCTAGTGTCCCCGAGTGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATA-CTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
76535 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCTTTCATGTGAATAGTGAAATAATAGGTA
65 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
76600 ATGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
130 ATGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
76665 ACGAAATAATGGAAGGCACGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACT
195 ACGAAATAATGGAAGGCACGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACT
76730 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
260 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
*
76795 GAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
325 GAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
76854 TACTGATATA-TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 TACTGATATACTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
*
76918 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAA
*
76983 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAAGATATTCTCTGA
131 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
* * *
77048 CGAAATAATGGAAGGCGCGTCCCCGGGAACGTGCCTTCATGTGAATAGTGAAATAATAGGTACTG
196 CGAAATAATGGAAGGCACGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTG
77113 ATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACG
261 ATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACG
77178 AAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGT
326 AAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGT
77225 ACTCCGATTA
Statistics
Matches: 363, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
382 353 0.97
384 10 0.03
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (383 bp):
TACTGATATACTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAA
TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
CGAAATAATGGAAGGCACGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTG
ATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACG
AAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:77308 original size:8 final size:8
Alignment explanation
Indices: 77295--77335 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
77285 TCACAATCTT
77295 TCAAATTC
1 TCAAATTC
77303 TCAAATTC
1 TCAAATTC
* *
77311 CCAAACTC
1 TCAAATTC
77319 T-AAATTC
1 TCAAATTC
77326 TCAAATTC
1 TCAAATTC
77334 TC
1 TC
77336 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:84038 original size:17 final size:17
Alignment explanation
Indices: 84004--84055 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
83994 ACTGGACAAA
* *
84004 TTTATTATTTTAGAGAG
1 TTTATTAATTTACAGAG
*
84021 TTTATTAATTTACCGAG
1 TTTATTAATTTACAGAG
*
84038 --TATTAATTTAAAGAG
1 TTTATTAATTTACAGAG
84053 TTT
1 TTT
84056 CTACTGTACA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (17 bp):
TTTATTAATTTACAGAG
Found at i:84566 original size:7 final size:7
Alignment explanation
Indices: 84554--84590 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
84544 TGCCGCTCAA
84554 CTTCACT
1 CTTCACT
84561 CTTCACT
1 CTTCACT
84568 CTTCACT
1 CTTCACT
84575 CTTCACT
1 CTTCACT
84582 CTTCACT
1 CTTCACT
84589 CT
1 CT
84591 CCCCCCTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.14, C:0.43, G:0.00, T:0.43
Consensus pattern (7 bp):
CTTCACT
Found at i:84599 original size:21 final size:21
Alignment explanation
Indices: 84554--84599 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
84544 TGCCGCTCAA
* *
84554 CTTCACTCTTCACTCTTCACT
1 CTTCACTCTTCACTCTCCACC
*
84575 CTTCACTCTTCACTCTCCCCC
1 CTTCACTCTTCACTCTCCACC
84596 CTTC
1 CTTC
84600 TTCACTTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.11, C:0.50, G:0.00, T:0.39
Consensus pattern (21 bp):
CTTCACTCTTCACTCTCCACC
Found at i:85514 original size:3 final size:3
Alignment explanation
Indices: 85499--85605 Score: 78
Period size: 3 Copynumber: 37.0 Consensus size: 3
85489 AAAAACATAT
* * * * * * *
85499 ATA ATA TTA ATA ATA ATA CTA ATA ATA ATT ATT ATA AT- TTT ATT ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
85546 ATA ATT ATT ACA ATA ATA ATA ATA AT- ATA ATA AT- ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
85592 ATT ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA
85606 TTTTATAATC
Statistics
Matches: 83, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
2 7 0.08
3 76 0.92
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (3 bp):
ATA
Found at i:85549 original size:14 final size:14
Alignment explanation
Indices: 85497--85605 Score: 89
Period size: 15 Copynumber: 7.6 Consensus size: 14
85487 ATAAAAACAT
85497 ATATAAT-ATTAATA
1 ATATAATAATT-ATA
* *
85511 ATAATACTAATAATA
1 AT-ATAATAATTATA
* *
85526 ATTATTATAATTTTA
1 A-TATAATAATTATA
*
85541 TTATAATAATTATTA
1 ATATAATAATTA-TA
*
85556 CA-ATAATAATAATA
1 -ATATAATAATTATA
85570 ATATAATAA-TATA
1 ATATAATAATTATA
85583 ATAGTAATAATTATA
1 ATA-TAATAATTATA
85598 ATATAATA
1 ATATAATA
85606 TTTTATAATC
Statistics
Matches: 75, Mismatches: 12, Indels: 16
0.73 0.12 0.16
Matches are distributed among these distances:
13 7 0.09
14 31 0.41
15 34 0.45
16 3 0.04
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (14 bp):
ATATAATAATTATA
Found at i:89117 original size:20 final size:19
Alignment explanation
Indices: 89065--89119 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
89055 AGGGGGGAAA
* *
89065 TTAAAATTTTTA-GAAAGT
1 TTAAAATGTTTATGTAAGT
*
89083 TTAAAGATGTATATGTAAGCT
1 TTAAA-ATGTTTATGTAAG-T
89104 TTAAAATGTTTATGTA
1 TTAAAATGTTTATGTA
89120 GAAGAATTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 5 0.17
19 5 0.17
20 14 0.47
21 6 0.20
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.44
Consensus pattern (19 bp):
TTAAAATGTTTATGTAAGT
Found at i:89652 original size:60 final size:59
Alignment explanation
Indices: 89462--89652 Score: 177
Period size: 60 Copynumber: 3.2 Consensus size: 59
89452 TAATGGCATG
** * * * * * * *
89462 TCCCCAAATTATAATTCTCATTTTTAAATCGGTTCCTAAATTTTTTAATATTTTAATTTCA
1 TCCCCAAATTATAACCCTC-TTTCTAAATTGGTCCCCAAACTTTTGAAT-TTTCAATTTCA
* * * * * *
89523 TCCACAAACTATAACTCCT-ATTCTAAATTAGTCCTCAAACTTTTGAACATTTCAATTTCA
1 TCCCCAAATTATAAC-CCTCTTTCTAAATTGGTCCCCAAACTTTTGAA-TTTTCAATTTCA
* *
89583 TCCCTAAATTATAACCCTCTTTCTAAATTGGTCCCCAAACTTTTGAATTTTCCAATTTTA
1 TCCCCAAATTATAACCCTCTTTCTAAATTGGTCCCCAAACTTTTGAATTTT-CAATTTCA
89643 TCCCCAAATT
1 TCCCCAAATT
89653 TATCCAAATA
Statistics
Matches: 102, Mismatches: 24, Indels: 9
0.76 0.18 0.07
Matches are distributed among these distances:
59 6 0.06
60 82 0.80
61 12 0.12
62 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.04, T:0.42
Consensus pattern (59 bp):
TCCCCAAATTATAACCCTCTTTCTAAATTGGTCCCCAAACTTTTGAATTTTCAATTTCA
Found at i:90448 original size:17 final size:17
Alignment explanation
Indices: 90426--90463 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
90416 ACATTAAGAC
90426 AAAAA-GATAAAGAAAAT
1 AAAAAGGATAAA-AAAAT
90443 AAAAAGGATAAAAAAAT
1 AAAAAGGATAAAAAAAT
90460 AAAA
1 AAAA
90464 TAAAAATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAAAGGATAAAAAAAT
Found at i:92692 original size:37 final size:35
Alignment explanation
Indices: 92638--93110 Score: 148
Period size: 37 Copynumber: 13.6 Consensus size: 35
92628 GGGAAAATGT
92638 CTCAAGAGAGACAAAATTTGGTTCCAAAAGAAACTGC
1 CTCAAGAGAGACAAAATTT-GTTCC-AAAGAAACTGC
* * *
92675 CTCAAGGGAGACGAAATTTGTTTCAAAGAAA----
1 CTCAAGAGAGACAAAATTTGTTCCAAAGAAACTGC
*** * * * * *
92706 C-CAA-ATTCAGAGATTTTGTTTCAAGAGAAACTGT
1 CTCAAGAGAGACAAAATTTGTTCCAA-AGAAACTGC
* ** * * *
92740 CTCAATAGAGACAAAATTTGTTTTACGAGAAAATGT
1 CTCAAGAGAGACAAAATTTGTTCCA-AAGAAACTGC
* * *
92776 CTCAAGAGAGATAAAATTTAGTTCTAAAAGAAACTGT
1 CTCAAGAGAGACAAAATTT-GTTC-CAAAGAAACTGC
* * * *
92813 CTCAAGAGATACAAAATTTGTT-TAAAGGAAAACAGA
1 CTCAAGAGAGACAAAATTTGTTCCAAA-G-AAACTGC
* * * * *
92849 TTC-A-A-AG----ATTTTGTTTCAAGGGAAACTGT
1 CTCAAGAGAGACAAAATTTGTTCCAA-AGAAACTGC
** * * *
92878 CTCAAGAGAGACAAAATTTGTTTTACGAGAAAATGT
1 CTCAAGAGAGACAAAATTTGTTCCA-AAGAAACTGC
* *
92914 CTCAAGAGAGACAAAATTTAGTTCTAAAAGAAACTGT
1 CTCAAGAGAGACAAAATTT-GTTC-CAAAGAAACTGC
*
92951 CTCAAGAGAGACAAAATTTGTT-TAAAGGAAA----
1 CTCAAGAGAGACAAAATTTGTTCCAAA-GAAACTGC
* ** * * * *
92982 -AC-A-A-ATTCAAAGATTTTGTTTCAAGGGAAATTGT
1 CTCAAGAGAGACAAA-A-TTTGTTCCAA-AGAAACTGC
* * * *
93016 CTCAAGAGAGACAAAATTTGTT-TAATATAAATTGT
1 CTCAAGAGAGACAAAATTTGTTCCAA-AGAAACTGC
* *
93051 CTCAAGAGAGACAAAATTTAGTTCTAAAAGAAACTGT
1 CTCAAGAGAGACAAAATTT-GTTC-CAAAGAAACTGC
93088 CTCAAGAGAGACAAAACTTTGTT
1 CTCAAGAGAGACAAAA-TTTGTT
93111 TTGAGTAAAT
Statistics
Matches: 331, Mismatches: 64, Indels: 82
0.69 0.13 0.17
Matches are distributed among these distances:
27 5 0.02
28 2 0.01
29 33 0.10
30 19 0.06
31 2 0.01
32 2 0.01
33 1 0.00
34 8 0.02
35 45 0.14
36 99 0.30
37 103 0.31
38 12 0.04
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.27
Consensus pattern (35 bp):
CTCAAGAGAGACAAAATTTGTTCCAAAGAAACTGC
Found at i:92741 original size:102 final size:102
Alignment explanation
Indices: 92560--92759 Score: 276
Period size: 102 Copynumber: 2.0 Consensus size: 102
92550 GAAACTGTCT
* * * * * * *
92560 CAAAAGAAATTGTCTCGAGTGAGGCGAAATTTGTTTAATGGAAAACATATTCAAAGATTTTGTTT
1 CAAAAGAAACTGCCTCAAGGGAGACGAAATTTGTTTAATAGAAAACAAATTCAAAGATTTTGTTT
*
92625 CAAGGGAAAATGTCTCAAGAGAGACAAAATTTGGTTC
66 CAAGAGAAAATGTCTCAAGAGAGACAAAATTTGGTTC
* *
92662 CAAAAGAAACTGCCTCAAGGGAGACGAAATTTGTTTCAA-AGAAACCAAATTCAGAGATTTTGTT
1 CAAAAGAAACTGCCTCAAGGGAGACGAAATTTGTTT-AATAGAAAACAAATTCAAAGATTTTGTT
* *
92726 TCAAGAGAAACTGTCTCAATAGAGACAAAATTTG
65 TCAAGAGAAAATGTCTCAAGAGAGACAAAATTTG
92760 TTTTACGAGA
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
102 83 0.98
103 2 0.02
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (102 bp):
CAAAAGAAACTGCCTCAAGGGAGACGAAATTTGTTTAATAGAAAACAAATTCAAAGATTTTGTTT
CAAGAGAAAATGTCTCAAGAGAGACAAAATTTGGTTC
Found at i:92760 original size:36 final size:36
Alignment explanation
Indices: 92720--93111 Score: 306
Period size: 36 Copynumber: 11.2 Consensus size: 36
92710 ATTCAGAGAT
*
92720 TTTGTTTCAAGAGAAACTGTCTCAATAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
92756 TTTGTTTTACGAGAAAATGTCTCAAGAGAGATAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
92792 TTTAG-TTCTAAAAGAAACTGTCTCAAGAGATACAAAA
1 TTT-GTTTC-AAGAGAAACTGTCTCAAGAGAGACAAAA
* * *
92829 TTTGTTTAAAG-GAAAACAGAT-TC-A-A-AG----AT
1 TTTGTTTCAAGAG-AAACTG-TCTCAAGAGAGACAAAA
*
92858 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * *
92894 TTTGTTTTACGAGAAAATGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
92930 TTTAG-TTCTAAAAGAAACTGTCTCAAGAGAGACAAAA
1 TTT-GTTTC-AAGAGAAACTGTCTCAAGAGAGACAAAA
* ** *
92967 TTTGTTTAAAG-GAAAACAAAT-TC-A-A-AG----AT
1 TTTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAA
* *
92996 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * *
93032 TTTGTTT-AATATAAATTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
93067 TTTAG-TTCTAAAAGAAACTGTCTCAAGAGAGACAAAA
1 TTT-GTTTC-AAGAGAAACTGTCTCAAGAGAGACAAAA
93104 CTTTGTTT
1 -TTTGTTT
93112 TGAGTAAATT
Statistics
Matches: 280, Mismatches: 43, Indels: 64
0.72 0.11 0.17
Matches are distributed among these distances:
28 2 0.01
29 34 0.12
30 4 0.01
31 2 0.01
32 4 0.01
33 3 0.01
34 2 0.01
35 34 0.12
36 102 0.36
37 88 0.31
38 5 0.02
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:92807 original size:138 final size:138
Alignment explanation
Indices: 92630--93111 Score: 779
Period size: 138 Copynumber: 3.5 Consensus size: 138
92620 TGTTTCAAGG
* * * * *
92630 GAAAATGTCTCAAGAGAGACAAAATTTGGTTCCAAAAGAAACTGCCTCAAGGGAGACGAAATTTG
1 GAAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAAAGAAACTGTCTCAAGAGAGACAAAATTTG
* * * *
92695 TTTCAAA-GAAACCAAATTCAGAGATTTTGTTTCAAGAGAAACTGTCTCAATAGAGACAAAATTT
66 TTT-AAAGGAAAACAAATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
92759 GTTTTACGA
130 GTTTTACGA
* *
92768 GAAAATGTCTCAAGAGAGATAAAATTTAGTTCTAAAAGAAACTGTCTCAAGAGATACAAAATTTG
1 GAAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAAAGAAACTGTCTCAAGAGAGACAAAATTTG
*
92833 TTTAAAGGAAAACAGATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTG
66 TTTAAAGGAAAACAAATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTG
92898 TTTTACGA
131 TTTTACGA
92906 GAAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAAAGAAACTGTCTCAAGAGAGACAAAATTTG
1 GAAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAAAGAAACTGTCTCAAGAGAGACAAAATTTG
*
92971 TTTAAAGGAAAACAAATTCAAAGATTTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATTTG
66 TTTAAAGGAAAACAAATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTG
**
93036 -TTTAATA
131 TTTTACGA
* *
93043 TAAATTGTCTCAAGAGAGACAAAATTTAGTTCTAAAAGAAACTGTCTCAAGAGAGACAAAACTTT
1 GAAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAAAGAAACTGTCTCAAGAGAGACAAAA-TTT
93108 GTTT
65 GTTT
93112 TGAGTAAATT
Statistics
Matches: 322, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
137 67 0.21
138 255 0.79
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.28
Consensus pattern (138 bp):
GAAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAAAGAAACTGTCTCAAGAGAGACAAAATTTG
TTTAAAGGAAAACAAATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTG
TTTTACGA
Found at i:93132 original size:37 final size:35
Alignment explanation
Indices: 93009--93136 Score: 145
Period size: 37 Copynumber: 3.5 Consensus size: 35
92999 GTTTCAAGGG
93009 AAATTGTCTCAAGAGAGACAAAATTTGTTTAATA-T
1 AAATTGTCTCAAGAGAGACAAAATTTGTTT-ATAGT
*
93044 AAATTGTCTCAAGAGAGACAAAATTTAGTTCTAAAAG-
1 AAATTGTCTCAAGAGAGACAAAATTT-GTT-T-ATAGT
*
93081 AAACTGTCTCAAGAGAGACAAAACTTTGTTT-TGAGT
1 AAATTGTCTCAAGAGAGACAAAA-TTTGTTTAT-AGT
*
93117 AAATTAGTCTTAAGAGAGAC
1 AAATT-GTCTCAAGAGAGAC
93137 GACCCCTTGT
Statistics
Matches: 81, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
35 28 0.35
36 8 0.10
37 42 0.52
38 3 0.04
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (35 bp):
AAATTGTCTCAAGAGAGACAAAATTTGTTTATAGT
Found at i:95468 original size:95 final size:95
Alignment explanation
Indices: 95284--95469 Score: 266
Period size: 95 Copynumber: 2.0 Consensus size: 95
95274 CGTAAACACT
* * * * *
95284 TTTATCAGGTTAGCTGAATCTTATCCATAAAGTCGGGGAATTTAACCAATTGCTTTAGAGGGACA
1 TTTATCAGGTTAGCCGAATATTATCCATAAAGCCGGGGAATTTAACCAATTACTCTAGAGGGACA
* *
95349 GCTCAAGCTTTATTGTATAGTATAATCACC
66 ACTCAAGCTTTATTGTATAATATAATCACC
* **
95379 TTTATCAGGTTAGCCGAATATTATCCATAAGGCCGGGGCGTTTAACCAATTACTCTAGAGGGACA
1 TTTATCAGGTTAGCCGAATATTATCCATAAAGCCGGGGAATTTAACCAATTACTCTAGAGGGACA
95444 AC-CAAGCTTTATTGTATATATATAAT
66 ACTCAAGCTTTATTGTATA-ATATAAT
95470 ATTATAATCT
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 16 0.20
95 64 0.80
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (95 bp):
TTTATCAGGTTAGCCGAATATTATCCATAAAGCCGGGGAATTTAACCAATTACTCTAGAGGGACA
ACTCAAGCTTTATTGTATAATATAATCACC
Found at i:99591 original size:2 final size:2
Alignment explanation
Indices: 99584--99631 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
99574 TATAATAGTG
99584 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
99626 AT AT AT
1 AT AT AT
99632 TAAATTAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102623 original size:16 final size:17
Alignment explanation
Indices: 102590--102625 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
102580 TAAAATAAGA
102590 TTATAAAAATTAATATT
1 TTATAAAAATTAATATT
*
102607 TTATAAATATT-ATATT
1 TTATAAAAATTAATATT
102623 TTA
1 TTA
102626 ATTAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATAAAAATTAATATT
Found at i:106450 original size:2 final size:2
Alignment explanation
Indices: 106439--106475 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
106429 ATGCTTTAAT
106439 TA TA -A 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
106476 AAGCAACAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:111864 original size:28 final size:28
Alignment explanation
Indices: 111831--111886 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
111821 ATTTTACTTC
* *
111831 ATCTTTTACGATGTACCTTTACTGGAAT
1 ATCTTTTACAATCTACCTTTACTGGAAT
*
111859 ATCTTTTATAATCTACCTTTACTGGAAT
1 ATCTTTTACAATCTACCTTTACTGGAAT
111887 GGTTTGGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.45
Consensus pattern (28 bp):
ATCTTTTACAATCTACCTTTACTGGAAT
Found at i:113183 original size:15 final size:15
Alignment explanation
Indices: 113163--113214 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
113153 AGACAACACA
113163 TGCTCCACCAGCATC
1 TGCTCCACCAGCATC
* * * *
113178 TGCTCCATCAACGTG
1 TGCTCCACCAGCATC
113193 TGCTCCACCAGCATC
1 TGCTCCACCAGCATC
113208 TGCTCCA
1 TGCTCCA
113215 TCAATGTGTG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.19, C:0.42, G:0.15, T:0.23
Consensus pattern (15 bp):
TGCTCCACCAGCATC
Found at i:113199 original size:30 final size:30
Alignment explanation
Indices: 113163--113234 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
113153 AGACAACACA
113163 TGCTCCACCAGCATCTGCTCCATCAACGTG
1 TGCTCCACCAGCATCTGCTCCATCAACGTG
*
113193 TGCTCCACCAGCATCTGCTCCATCAATGTG
1 TGCTCCACCAGCATCTGCTCCATCAACGTG
*
113223 TGTTCCACCAGC
1 TGCTCCACCAGC
113235 TTTGTCTATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.19, C:0.39, G:0.17, T:0.25
Consensus pattern (30 bp):
TGCTCCACCAGCATCTGCTCCATCAACGTG
Found at i:113420 original size:15 final size:15
Alignment explanation
Indices: 113400--113433 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
113390 CAACGTGTGG
*
113400 TCCACCAGTTCATAC
1 TCCACCAGTACATAC
113415 TCCACCAGTACATAC
1 TCCACCAGTACATAC
113430 TCCA
1 TCCA
113434 TCTGTGCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.41, G:0.06, T:0.24
Consensus pattern (15 bp):
TCCACCAGTACATAC
Found at i:115747 original size:18 final size:19
Alignment explanation
Indices: 115719--115759 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
115709 TGTGGATATG
115719 TTGTGAGTTCTAGAATAGT
1 TTGTGAGTTCTAGAATAGT
115738 TTGT-AGTTCTAGAATAGT
1 TTGTGAGTTCTAGAATAGT
115756 TTGT
1 TTGT
115760 TATCTTGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.46
Consensus pattern (19 bp):
TTGTGAGTTCTAGAATAGT
Found at i:122659 original size:29 final size:29
Alignment explanation
Indices: 122617--122691 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
122607 ACGAACCACC
*
122617 ATAGGTCGCCATGCACGCCCGGCGTCTTT
1 ATAGGTCGCCATGCACGCCCGGCGTCCTT
*
122646 ATAGGTCGCCATGCACGCCCGGCTTCCTT
1 ATAGGTCGCCATGCACGCCCGGCGTCCTT
122675 ATAGGTCGCCATGCACG
1 ATAGGTCGCCATGCACG
122692 GCCATGCATG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.16, C:0.35, G:0.27, T:0.23
Consensus pattern (29 bp):
ATAGGTCGCCATGCACGCCCGGCGTCCTT
Found at i:122792 original size:33 final size:33
Alignment explanation
Indices: 122742--122805 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 33
122732 CCAAGCTCTG
*
122742 GCATCGCGACCAAGCTTTAACCTTATCCCTCAT
1 GCATCGCGACCAAGCTTTAACCCTATCCCTCAT
122775 GCAT-GCGTACCAAGCTTTAACCCTATCCCTC
1 GCATCGCG-ACCAAGCTTTAACCCTATCCCTC
122806 CATGGCGACC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 3 0.10
33 26 0.90
ACGTcount: A:0.23, C:0.38, G:0.12, T:0.27
Consensus pattern (33 bp):
GCATCGCGACCAAGCTTTAACCCTATCCCTCAT
Found at i:122939 original size:29 final size:29
Alignment explanation
Indices: 122893--122998 Score: 178
Period size: 29 Copynumber: 3.7 Consensus size: 29
122883 AGCAAAGACC
122893 GGCGTGCATGGCGACCTATAAGGACGCTG
1 GGCGTGCATGGCGACCTATAAGGACGCTG
* *
122922 GGCTTGCATGGCGACCTATAAGGACGCCG
1 GGCGTGCATGGCGACCTATAAGGACGCTG
122951 GGCGTGCATGGCGACCTATAAGGACG-TCG
1 GGCGTGCATGGCGACCTATAAGGACGCT-G
122980 GGCGTGCATGGCGACCTAT
1 GGCGTGCATGGCGACCTAT
122999 GGTGGTTCGT
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.20, C:0.25, G:0.37, T:0.18
Consensus pattern (29 bp):
GGCGTGCATGGCGACCTATAAGGACGCTG
Found at i:123411 original size:21 final size:21
Alignment explanation
Indices: 123386--123429 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
123376 GAAAATGTTA
* * *
123386 AAAAATATTAATGTTTTAGGT
1 AAAAATACTAATATTTTAAGT
123407 AAAAATACTAATATTTTAAGT
1 AAAAATACTAATATTTTAAGT
123428 AA
1 AA
123430 TTTTTTTACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (21 bp):
AAAAATACTAATATTTTAAGT
Found at i:126379 original size:22 final size:22
Alignment explanation
Indices: 126354--126397 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
126344 ATAATAATTT
126354 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
126376 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
126398 CTGAATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:129474 original size:5 final size:5
Alignment explanation
Indices: 129461--129531 Score: 56
Period size: 5 Copynumber: 13.8 Consensus size: 5
129451 AACGGTCAAC
* * * *
129461 GGTCC GGTCG GGTCG GGTCAAC GGTCC GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
129510 GGTCG GGTC- GGTC- GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTC
129532 AGACCGGTTC
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
4 8 0.14
5 40 0.71
7 8 0.14
ACGTcount: A:0.06, C:0.25, G:0.49, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:129480 original size:22 final size:22
Alignment explanation
Indices: 129454--129520 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
129444 AGCGGTCAAC
129454 GGTCAACGGTCCGGTCGGGTCG
1 GGTCAACGGTCCGGTCGGGTCG
129476 GGTCAACGGTCCGGTCGGGTCG
1 GGTCAACGGTCCGGTCGGGTCG
*
129498 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCCGGTCGGGTCG
129520 G
1 G
129521 TCGGTCGGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.09, C:0.25, G:0.48, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCCGGTCGGGTCG
Found at i:129485 original size:17 final size:18
Alignment explanation
Indices: 129465--129531 Score: 66
Period size: 22 Copynumber: 3.6 Consensus size: 18
129455 GTCAACGGTC
129465 CGGTCGGGTCGGGTCAACGG
1 CGGTCGGGTCGGGTCAA--G
129485 TCCGGTCGGGTCGGGTCAA-
1 --CGGTCGGGTCGGGTCAAG
*
129504 CGGTCGGGTCGGGTC-GG
1 CGGTCGGGTCGGGTCAAG
129521 TCGGTCGGGTC
1 -CGGTCGGGTC
129532 AGACCGGTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
17 15 0.36
18 10 0.24
22 17 0.40
ACGTcount: A:0.06, C:0.25, G:0.49, T:0.19
Consensus pattern (18 bp):
CGGTCGGGTCGGGTCAAG
Found at i:136806 original size:17 final size:17
Alignment explanation
Indices: 136784--136822 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
136774 AACAGTCAAC
136784 GGTCAACGGTCCGGTCG
1 GGTCAACGGTCCGGTCG
*
136801 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCCGGTCG
136818 GGTCA
1 GGTCA
136823 GACCGGTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.13, C:0.26, G:0.44, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCCGGTCG
Found at i:136842 original size:19 final size:19
Alignment explanation
Indices: 136820--136859 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
136810 TCGGGTCGGG
136820 TCAGACCGGTCAAACTGGT
1 TCAGACCGGTCAAACTGGT
136839 TCAGACCGGTCAAACTGGT
1 TCAGACCGGTCAAACTGGT
136858 TC
1 TC
136860 GAACCAGTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.23
Consensus pattern (19 bp):
TCAGACCGGTCAAACTGGT
Found at i:137796 original size:28 final size:28
Alignment explanation
Indices: 137763--137818 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
137753 ATTTTACTTC
* *
137763 ATCTTTTACGATGTACCTTTACTGGAAT
1 ATCTTTTACAATCTACCTTTACTGGAAT
*
137791 ATCTTTTATAATCTACCTTTACTGGAAT
1 ATCTTTTACAATCTACCTTTACTGGAAT
137819 GGTTTGGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.45
Consensus pattern (28 bp):
ATCTTTTACAATCTACCTTTACTGGAAT
Found at i:140496 original size:30 final size:30
Alignment explanation
Indices: 140460--140518 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
140450 TATGGACAGT
140460 TACCGAGGATCTTTATAACCTCTGGATAGC
1 TACCGAGGATCTTTATAACCTCTGGATAGC
*
140490 TACCGAGGATCTTTATGACCTCTGGATAG
1 TACCGAGGATCTTTATAACCTCTGGATAG
140519 GTCCTTCGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (30 bp):
TACCGAGGATCTTTATAACCTCTGGATAGC
Found at i:144451 original size:64 final size:65
Alignment explanation
Indices: 144383--144539 Score: 171
Period size: 64 Copynumber: 2.5 Consensus size: 65
144373 TTAAAGGTGT
* ** *
144383 ATCGATGCAT-AGGTAGTGCATCGATGCA-CTCTTTTAAAATAGAAACATCGAATGCA-ATTAGT
1 ATCGATGCATAAGGTAGTGCATCGATGCATCCCAGTGAAAATA-AAACATCGAATGCATATTA-T
144445 GC
64 GC
* * * *
144447 ATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTGATAATACAACATCGAATGCATTTTATGC
1 ATCGATGCATAAGGTAGTGCATCGATGCATCCCAGTGAAAATAAAACATCGAATGCATATTATGC
* *
144511 ACCGATGCATCA-GTAGTGCATCGATGCAT
1 ATCGATGCATAAGGTAGTGCATCGATGCAT
144540 ACTTTCATTG
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
63 2 0.03
64 61 0.78
65 15 0.19
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (65 bp):
ATCGATGCATAAGGTAGTGCATCGATGCATCCCAGTGAAAATAAAACATCGAATGCATATTATGC
Found at i:145433 original size:30 final size:30
Alignment explanation
Indices: 145397--145455 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
145387 TATGGACAGT
145397 TACCGAGGATCTTTATAACCTCTGGATAGC
1 TACCGAGGATCTTTATAACCTCTGGATAGC
*
145427 TACCGAGGATCTTTATGACCTCTGGATAG
1 TACCGAGGATCTTTATAACCTCTGGATAG
145456 GTCCTTCGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (30 bp):
TACCGAGGATCTTTATAACCTCTGGATAGC
Found at i:146387 original size:15 final size:15
Alignment explanation
Indices: 146367--146418 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
146357 AGGCAACACA
146367 TGCTCCACCAGCATC
1 TGCTCCACCAGCATC
* * * *
146382 TGCTCCATCAACGTG
1 TGCTCCACCAGCATC
146397 TGCTCCACCAGCATC
1 TGCTCCACCAGCATC
146412 TGCTCCA
1 TGCTCCA
146419 TCAATGTGTG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.19, C:0.42, G:0.15, T:0.23
Consensus pattern (15 bp):
TGCTCCACCAGCATC
Found at i:146403 original size:30 final size:30
Alignment explanation
Indices: 146367--146438 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
146357 AGGCAACACA
146367 TGCTCCACCAGCATCTGCTCCATCAACGTG
1 TGCTCCACCAGCATCTGCTCCATCAACGTG
*
146397 TGCTCCACCAGCATCTGCTCCATCAATGTG
1 TGCTCCACCAGCATCTGCTCCATCAACGTG
*
146427 TGTTCCACCAGC
1 TGCTCCACCAGC
146439 TTTGTCTATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.19, C:0.39, G:0.17, T:0.25
Consensus pattern (30 bp):
TGCTCCACCAGCATCTGCTCCATCAACGTG
Found at i:148999 original size:18 final size:19
Alignment explanation
Indices: 148971--149011 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
148961 TGTGGATATG
148971 TTGTGAGTTCTAGAATAGT
1 TTGTGAGTTCTAGAATAGT
148990 TTGT-AGTTCTAGAATAGT
1 TTGTGAGTTCTAGAATAGT
149008 TTGT
1 TTGT
149012 TATCTTGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.46
Consensus pattern (19 bp):
TTGTGAGTTCTAGAATAGT
Found at i:150672 original size:32 final size:32
Alignment explanation
Indices: 150631--150727 Score: 194
Period size: 32 Copynumber: 3.0 Consensus size: 32
150621 CAATTGGAAG
150631 TTAGTTTGGAAACTTGAGGTTCCACAAAGGCT
1 TTAGTTTGGAAACTTGAGGTTCCACAAAGGCT
150663 TTAGTTTGGAAACTTGAGGTTCCACAAAGGCT
1 TTAGTTTGGAAACTTGAGGTTCCACAAAGGCT
150695 TTAGTTTGGAAACTTGAGGTTCCACAAAGGCT
1 TTAGTTTGGAAACTTGAGGTTCCACAAAGGCT
150727 T
1 T
150728 CGAATCTTCT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (32 bp):
TTAGTTTGGAAACTTGAGGTTCCACAAAGGCT
Found at i:154703 original size:2 final size:2
Alignment explanation
Indices: 154696--154720 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
154686 TCTCATAAAG
154696 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
154721 ACCCTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:156293 original size:29 final size:29
Alignment explanation
Indices: 156251--156325 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
156241 ACGAACCACC
*
156251 ATAGGTCGCCATGCACGCCCGGCGTCTTT
1 ATAGGTCGCCATGCACGCCCGGCGTCCTT
*
156280 ATAGGTCGCCATGCAAGCCCGGCGTCCTT
1 ATAGGTCGCCATGCACGCCCGGCGTCCTT
156309 ATAGGTCGCCATGCACG
1 ATAGGTCGCCATGCACG
156326 GCCATGCACG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.17, C:0.33, G:0.28, T:0.21
Consensus pattern (29 bp):
ATAGGTCGCCATGCACGCCCGGCGTCCTT
Found at i:156986 original size:21 final size:21
Alignment explanation
Indices: 156961--157004 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
156951 GAAAATATTA
* * *
156961 AAAAATATTAATGTTTTAGGT
1 AAAAATACTAATATTTTAAGT
156982 AAAAATACTAATATTTTAAGT
1 AAAAATACTAATATTTTAAGT
157003 AA
1 AA
157005 TTTTTTTACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (21 bp):
AAAAATACTAATATTTTAAGT
Found at i:159956 original size:21 final size:22
Alignment explanation
Indices: 159931--159973 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
159921 ATAATAATTT
159931 TTTTAAAAT-AATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
159952 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
159974 CTGAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:161000 original size:20 final size:20
Alignment explanation
Indices: 160977--161023 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
160967 AACTTAAATC
160977 AAAATAATTAAAATAA-ATAT
1 AAAATAATT-AAATAATATAT
*
160997 AAAAT--TTTAATAATATAT
1 AAAATAATTAAATAATATAT
161015 AAAATAATT
1 AAAATAATT
161024 TATATGATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 5 0.22
18 11 0.48
20 7 0.30
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAATAATTAAATAATATAT
Found at i:161025 original size:20 final size:20
Alignment explanation
Indices: 160977--161039 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
160967 AACTTAAATC
*
160977 AAAATAATTAAAATAA-ATAT
1 AAAATAATT-TAATAATATAT
160997 AAAAT--TTTAATAATATAT
1 AAAATAATTTAATAATATAT
*
161015 AAAATAATTTATATGATATA-
1 AAAATAATTTA-ATAATATAT
161035 AAAAT
1 AAAAT
161040 TTAATTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 5 0.14
18 11 0.30
20 14 0.38
21 7 0.19
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAATAATTTAATAATATAT
Found at i:161033 original size:21 final size:18
Alignment explanation
Indices: 160988--161041 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
160978 AAATAATTAA
160988 AATAA-ATATAAAATTTT
1 AATAATATATAAAATTTT
161005 AATAATATATAAAATAATTT
1 AATAATATATAAAAT--TTT
*
161025 ATATGATATA-AAAATTT
1 A-ATAATATATAAAATTT
161042 AATTTTTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
17 5 0.16
18 11 0.34
20 9 0.28
21 7 0.22
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
AATAATATATAAAATTTT
Found at i:161990 original size:21 final size:22
Alignment explanation
Indices: 161964--162010 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
161954 GTGTATGCAT
** *
161964 TTAATTATGTTTATAT-TTTTA
1 TTAATTATCATTATATAATTTA
161985 TTAATTATCATTATATAATTTA
1 TTAATTATCATTATATAATTTA
162007 TTAA
1 TTAA
162011 CTAATTAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTAATTATCATTATATAATTTA
Found at i:162469 original size:20 final size:20
Alignment explanation
Indices: 162417--162469 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 20
162407 AACTTTATAT
162417 TATTATTTTTAAAATATTAAAA
1 TATTATTTTT--AATATTAAAA
*
162439 TAATT-TATTTAATATTAAAA
1 T-ATTATTTTTAATATTAAAA
162459 TATTATTTTTA
1 TATTATTTTTA
162470 TAATTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 3 0.11
20 16 0.59
22 5 0.19
23 3 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTATTTTTAATATTAAAA
Found at i:162609 original size:23 final size:20
Alignment explanation
Indices: 162562--162609 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 20
162552 AATAGTGTTA
162562 TATTATATTTTTAAAATATT
1 TATTATATTTTTAAAATATT
* *
162582 AATTAGTATATTTTAAATATCTT
1 TATTA-TAT-TTTTAAA-ATATT
162605 TATTA
1 TATTA
162610 AAATATTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 4 0.18
21 3 0.14
22 7 0.32
23 8 0.36
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TATTATATTTTTAAAATATT
Found at i:162672 original size:19 final size:19
Alignment explanation
Indices: 162604--162684 Score: 64
Period size: 19 Copynumber: 4.3 Consensus size: 19
162594 TTAAATATCT
162604 TTATTAA-AATATTATTAGA
1 TTATTAATAATATTATTA-A
162623 TTATTAGATTAATATTA--AA
1 TTATTA-A-TAATATTATTAA
* *
162642 TATATAAATAATATTATTCA
1 T-TATTAATAATATTATTAA
*
162662 TTATTAATAAT-TTAATAA
1 TTATTAATAATATTATTAA
162680 -TATTA
1 TTATTA
162685 TTTCTATGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
17 5 0.10
18 13 0.25
19 18 0.35
20 8 0.16
22 7 0.14
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (19 bp):
TTATTAATAATATTATTAA
Found at i:162816 original size:22 final size:23
Alignment explanation
Indices: 162789--162835 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
162779 TTGATTATTT
162789 TATTATAATATCAAAAATA-TAA
1 TATTATAATATCAAAAATATTAA
* * *
162811 TATTATATTATTAGAAATATTAA
1 TATTATAATATCAAAAATATTAA
162834 TA
1 TA
162836 AATATATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
TATTATAATATCAAAAATATTAA
Found at i:162822 original size:30 final size:34
Alignment explanation
Indices: 162772--162841 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 34
162762 ATATTATTAG
* *
162772 AATATAATTGATTATTTTATTA-TAATATCAA-A
1 AATATAATTGATTATATTATTAGAAATATCAATA
*
162804 AATATAA-T-ATTATATTATTAGAAATATTAATA
1 AATATAATTGATTATATTATTAGAAATATCAATA
162836 AATATA
1 AATATA
162842 TTTTAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 11 0.33
31 8 0.24
32 14 0.42
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (34 bp):
AATATAATTGATTATATTATTAGAAATATCAATA
Found at i:164732 original size:39 final size:39
Alignment explanation
Indices: 164676--164765 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 39
164666 TCTAGGACTT
* * *
164676 GTAAGACCTTACTGCATGCTC-TTCTACTTTGTGCACGTG
1 GTAAGTCCTTACCGCATGCTCATT-TACTTTGTGCACATG
* * *
164715 GTAAGTCCTTACCGCATGGTCATTTTCTTTGTGCTCATG
1 GTAAGTCCTTACCGCATGCTCATTTACTTTGTGCACATG
164754 GTAAGTCCTTAC
1 GTAAGTCCTTAC
164766 TGCTGGTCCT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
39 42 0.95
40 2 0.05
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (39 bp):
GTAAGTCCTTACCGCATGCTCATTTACTTTGTGCACATG
Found at i:169544 original size:23 final size:24
Alignment explanation
Indices: 169510--169589 Score: 76
Period size: 24 Copynumber: 3.3 Consensus size: 24
169500 AGAAAATGCA
*
169510 CCGAAGTG-CCACATAG-ATTTGTC
1 CCGAAG-GACCACGTAGAATTTGTC
169533 CCGAAGGACCACGTAGAAATTTGT-
1 CCGAAGGACCACGTAG-AATTTGTC
* **
169557 CCTAAATACCACGTAGAAATTTGTC
1 CCGAAGGACCACGTAG-AATTTGTC
169582 CCGAAGGA
1 CCGAAGGA
169590 TCGGGTAGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
22 1 0.02
23 13 0.28
24 21 0.46
25 11 0.24
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.23
Consensus pattern (24 bp):
CCGAAGGACCACGTAGAATTTGTC
Found at i:171383 original size:19 final size:19
Alignment explanation
Indices: 171343--171386 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
171333 AACTTGTCTC
*
171343 TTTATGTCATCTTTATGCT
1 TTTATGTCATCTTTATCCT
*
171362 TTTATGTCAT-TTTTTCCAT
1 TTTATGTCATCTTTATCC-T
171381 TTTATG
1 TTTATG
171387 ATTTGTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.16, C:0.14, G:0.09, T:0.61
Consensus pattern (19 bp):
TTTATGTCATCTTTATCCT
Found at i:172718 original size:2 final size:2
Alignment explanation
Indices: 172711--172747 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
172701 ACCAATCTCT
172711 TA TA TA TA TA 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 TA TA TA TA TA T
172748 CTTAGTGTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.