Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008465.1 Hibiscus syriacus cultivar Beakdansim tig00111278_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: 924357
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 5
Found at i:8 original size:3 final size:3
Alignment explanation
Indices: 1--67 Score: 93
Period size: 3 Copynumber: 22.3 Consensus size: 3
*
1 ATT ATT ATT CTT ATT A-T ATT ATT AATT ATT A-T ATT ATT ATT ATAT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT AT-T
46 ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT A
68 AATATATATT
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
2 4 0.07
3 48 0.83
4 6 0.10
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:87 original size:42 final size:42
Alignment explanation
Indices: 3--88 Score: 104
Period size: 42 Copynumber: 2.0 Consensus size: 42
1 AT
* * * *
3 TATTATTCTTATTATATTATTAATTATTATATTATTATTATA
1 TATTATTATTATTATATTATTAAATATTATATTATAAATATA
45 TATTATTATTATTATTATTATTAAATA-TATATTA-AACATATA
1 TATTATTATTATTA-TATTATTAAATATTATATTATAA-ATATA
87 TA
1 TA
89 ATAATAATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 1 0.03
42 26 0.68
43 11 0.29
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (42 bp):
TATTATTATTATTATATTATTAAATATTATATTATAAATATA
Found at i:12517 original size:8 final size:8
Alignment explanation
Indices: 12504--12548 Score: 72
Period size: 8 Copynumber: 5.4 Consensus size: 8
12494 ATGCTTGAAG
12504 AAAAAGAA
1 AAAAAGAA
12512 AAAAAGAA
1 AAAAAGAA
12520 AAAAAGAAA
1 AAAAAG-AA
12529 AAAAAGAGA
1 AAAAAGA-A
12538 AAAAAGAA
1 AAAAAGAA
12546 AAA
1 AAA
12549 GGGGGTCAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
8 19 0.54
9 16 0.46
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:12522 original size:9 final size:9
Alignment explanation
Indices: 12504--12548 Score: 67
Period size: 9 Copynumber: 5.2 Consensus size: 9
12494 ATGCTTGAAG
12504 AAAAAG-AA
1 AAAAAGAAA
12512 AAAAAG-AA
1 AAAAAGAAA
12520 AAAAAGAAA
1 AAAAAGAAA
*
12529 AAAAAGAGA
1 AAAAAGAAA
12538 AAAAAGAAA
1 AAAAAGAAA
12547 AA
1 AA
12549 GGGGGTCAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
8 14 0.41
9 20 0.59
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:12533 original size:18 final size:18
Alignment explanation
Indices: 12504--12548 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
12494 ATGCTTGAAG
12504 AAAAAG-AAAAAAAGA-A
1 AAAAAGAAAAAAAAGAGA
12520 AAAAAGAAAAAAAAGAGA
1 AAAAAGAAAAAAAAGAGA
12538 AAAAAGAAAAA
1 AAAAAGAAAAA
12549 GGGGGTCAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 6 0.22
17 9 0.33
18 12 0.44
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAAAAGAGA
Found at i:12879 original size:16 final size:16
Alignment explanation
Indices: 12858--12897 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
12848 GAATACAATT
12858 ATTTATTTCAAG-TTCA
1 ATTTATTT-AAGATTCA
*
12874 ATTTATTTGAGATTCA
1 ATTTATTTAAGATTCA
12890 ATTTATTT
1 ATTTATTT
12898 TTGAAAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (16 bp):
ATTTATTTAAGATTCA
Found at i:13697 original size:82 final size:82
Alignment explanation
Indices: 13559--13941 Score: 618
Period size: 82 Copynumber: 4.7 Consensus size: 82
13549 AACATTAAAT
*
13559 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
1 GAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GACAG
13624 AACCAATCATTGAATTTA
65 AACCAATCATTGAATTTA
*
13642 GAAGATGAATTTG-TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAG
1 GAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGA-CAG
13706 AACCAATCATTGAATTTA
65 AACCAATCATTGAATTTA
* *
13724 GAAGATGAATTTGTTAATA--ATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTACAGA
1 GAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGACAGA
*
13787 ACCAATCATTGAA-TTG
66 ACCAATCATTGAATTTA
* *
13803 GAAGATGAA-TTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAG
1 GAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGACAG
*
13867 AACCAATCATTGAATTTG
65 AACCAATCATTGAATTTA
13885 GAAGATG-ATTTGCTAATAGCATCTTCTGGAAGT-TTCTTTGAGTTATCTGATCTGGTT
1 GAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
13942 TGGTAGAACT
Statistics
Matches: 285, Mismatches: 8, Indels: 17
0.92 0.03 0.05
Matches are distributed among these distances:
78 7 0.02
79 11 0.04
80 55 0.19
81 83 0.29
82 111 0.39
83 18 0.06
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (82 bp):
GAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGACAGA
ACCAATCATTGAATTTA
Found at i:13844 original size:161 final size:163
Alignment explanation
Indices: 13559--13942 Score: 634
Period size: 161 Copynumber: 2.4 Consensus size: 163
13549 AACATTAAAT
* *
13559 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
1 GAAGATGAATTTGCTAATA-CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-TACAG
13624 AACCAATCATTGAATTTAGAAGATGAATTTGTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
64 AACCAATCATTGAATTTAGAAGATGAATTTGTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
13689 CTGATCTGGTTTAGCAGAACCAATCATTGAATTTA
129 CTGATCTGGTTTAGCAGAACCAATCATTGAATTTA
*
13724 GAAGATGAATTTGTTAATA-ATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTACAGAA
1 GAAGATGAATTTGCTAATACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTACAGAA
* *
13788 CCAATCATTGAA-TTGGAAGATGAA-TTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
66 CCAATCATTGAATTTAGAAGATGAATTTG-TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
* *
13851 TGATCTGGTTTGGCAGAACCAATCATTGAATTTG
130 TGATCTGGTTTAGCAGAACCAATCATTGAATTTA
13885 GAAGATG-ATTTGCTAATAGCATCTTCTGGAAGT-TTCTTTGAGTTATCTGATCTGGTTT
1 GAAGATGAATTTGCTAATA-CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
13943 GGTAGAACTA
Statistics
Matches: 208, Mismatches: 8, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
160 13 0.06
161 109 0.52
162 31 0.15
163 38 0.18
165 17 0.08
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (163 bp):
GAAGATGAATTTGCTAATACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTACAGAA
CCAATCATTGAATTTAGAAGATGAATTTGTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
GATCTGGTTTAGCAGAACCAATCATTGAATTTA
Found at i:14804 original size:112 final size:113
Alignment explanation
Indices: 14374--15233 Score: 1278
Period size: 112 Copynumber: 7.8 Consensus size: 113
14364 TGAAGATTAG
14374 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-A-AAGAAGTTCATAATGA
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* *
14437 -AA-AATTTGTTCAACCTTTTA-CTGAATTCATCAATTGATGGATTAT
66 GAAGAATTTGTTCAACCTTTTACCTGAATTCATCATTTGATGGATCAT
*
14482 CTTTTCCAGAGAAAGTTCATAAT--G-AGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGA
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
** * *
14544 GAAGAA-TTGTTCAACCTTTTTTCTGAATTCATCAAGTTGATGGATTAT
66 GAAGAATTTGTTCAACCTTTTACCTGAATTCATC-ATTTGATGGATCAT
* *
14592 CTTTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCAT-
1 CTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATA
* * * * *
14655 ATGA-AAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGATGGATCAG
62 ATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCATTTGATGGATCAT
14706 CTTTTCCAGAGAAAGTTCATAATGAGAAG-ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
*
14770 GAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGA-GGATCAT
66 GAAGAATTTGTTCAACCTTTTACCTGAATTCATCATTTGATGGATCAT
14817 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA-G--GAAGAAGTTCATAAT--
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* * *
14877 GAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGAGGGATCAA
66 GAAGAATTTGTTCAACCTTTTACCTGAATTCATCATTTGATGGATCAT
14925 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
*
14990 GAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGA-GGATCAT
66 GAAGAATTTGTTCAACCTTTTACCTGAATTCATCATTTGATGGATCAT
*
15037 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATTA
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* *
15102 GAAGAA-TTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATTAT
66 GAAGAATTTGTTCAACCTTTTACCTGAATTCATCATTTGATGGATCAT
* * *
15149 CTTTTCCGGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAA
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* *
15213 GAAGAACTTGTTCAACTTTTT
66 GAAGAATTTGTTCAACCTTTT
15234 GCATAATTCT
Statistics
Matches: 695, Mismatches: 31, Indels: 48
0.90 0.04 0.06
Matches are distributed among these distances:
105 18 0.03
106 2 0.00
107 56 0.08
108 89 0.13
109 30 0.04
110 60 0.09
111 144 0.21
112 154 0.22
113 45 0.06
114 41 0.06
115 29 0.04
116 27 0.04
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (113 bp):
CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
GAAGAATTTGTTCAACCTTTTACCTGAATTCATCATTTGATGGATCAT
Found at i:15015 original size:220 final size:222
Alignment explanation
Indices: 14374--15233 Score: 1296
Period size: 220 Copynumber: 3.9 Consensus size: 222
14364 TGAAGATTAG
14374 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA-AAGAAGTTCATAATGAA
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAATGAA
* *
14438 AAATTTGTTCAACCTTTTA-CTGAATTCATCAATTGATGGATTATCTTTTCCAGAGAAAGTTCAT
66 GAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATCATCTTTTCCAGAGAAAGTTCAT
*
14502 AAT--G-AGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA-TTGTTCAACCTTT
131 AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTT
** * * *
14563 TTTCTGAATTCATCAAGTTGATGGATTAT
196 TACCTGAATCCATC-ATTTGA-GGATCAT
* *
14592 CTTTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCAT-
1 CTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGG-AGAAGAAGTTCATA
* * * * * *
14655 ATGAAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGATGGATCAGCTTTTCCAGAGAAA
61 ATG-AAGAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATCATCTTTTCCAGAGAAA
14720 GTTCATAATGAGAAG-ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
125 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
14784 ACCTTTTACCTGAATCCATCATTTGAGGATCAT
190 ACCTTTTACCTGAATCCATCATTTGAGGATCAT
14817 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA-G-GAAGAAGTTCATAATGAA
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAATGAA
* * * *
14880 GAATTTGTTCAACCTTTTACCTGAATCCATCATTTGAGGGATCAACTTTTCCAGAGAAAGTTCAT
66 GAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATCATCTTTTCCAGAGAAAGTTCAT
14945 AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTT
131 AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTT
15010 TACCTGAATCCATCATTTGAGGATCAT
196 TACCTGAATCCATCATTTGAGGATCAT
15037 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATTA
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAGTTCATAA-T-
* *
15102 GAAGAA-TTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATTATCTTTTCCGGAG-AAGTT
63 GAAGAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATCATCTTTTCCAGAGAAAGTT
* * * *
15165 CATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACT
128 CATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACC
15230 TTTT
193 TTTT
15234 GCATAATTCT
Statistics
Matches: 587, Mismatches: 35, Indels: 35
0.89 0.05 0.05
Matches are distributed among these distances:
217 1 0.00
218 27 0.05
219 81 0.14
220 130 0.22
221 16 0.03
222 16 0.03
223 113 0.19
224 91 0.16
225 39 0.07
226 47 0.08
227 26 0.04
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (222 bp):
CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAATGAA
GAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATCATCTTTTCCAGAGAAAGTTCAT
AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTT
TACCTGAATCCATCATTTGAGGATCAT
Found at i:15200 original size:443 final size:442
Alignment explanation
Indices: 14374--15233 Score: 1340
Period size: 443 Copynumber: 1.9 Consensus size: 442
14364 TGAAGATTAG
14374 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAGAAGTTCATAATGAAA
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAGAAGTTCATAATGAAA
* * * *
14439 AATTTGTTCAACCTTTTACTGAATTCATCAATTGATGGATTATCTTTTCCAGAGAAAGTTCATAA
66 AATTTGTTCAACCTTTTACTGAATCCATCAATTGAGGGATCAACTTTTCCAGAGAAAGTTCATAA
* **
14504 TGAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTGTTCAACCTTTTTTCTG
131 TGAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTGTTCAACCTTTTACCTG
* * *
14569 AATTCATCAAGTTGATGGATTATCTTTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
196 AATCCATCAAGTTGATGGATCATCTTTGCCAGGTAAAGTTCATAATGAGAAGAAC-CGTCATCTG
* * * *
14634 AAGAAGGAAGAAGAAGTTCATATGAAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGAT
260 AAGAAGGAAGAAGAAGTTCATATGAAAGAACTTGTTCAACCTTTTACCTGAATTCATCAATTGAT
*
14699 GGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGACTCATCTGAAGAAGGAAGAAGAAGTTCA
325 GGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGACTCATCTGAAGAAGAAAGAAGAAGTTCA
* *
14764 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGAGGATCAT
390 TAATAAGAAGAACTTGTTCAACCTTTTACCTGAATCCATCATTTGAGGATCAT
*
14817 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AAGAAGTTCATAATGAAG
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAGAAGTTCATAATGAAA
*
14881 AATTTGTTCAACCTTTTACCTGAATCCATCATTTGAGGGATCAACTTTTCCAGAGAAAGTTCATA
66 AATTTGTTCAACCTTTTA-CTGAATCCATCAATTGAGGGATCAACTTTTCCAGAGAAAGTTCATA
14946 ATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
130 AT--G-AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA-TTGTTCAACCTTTT
* *
15011 ACCTGAATCCATC-ATTTGA-GGATCATCTTTTCCAGAG-AAAGTTCATAATGAGAAGAA-C-TC
191 ACCTGAATCCATCAAGTTGATGGATCATCTTTGCCAG-GTAAAGTTCATAATGAGAAGAACCGTC
*
15071 ATCTGAAGAAGGAAGAAGAAGTTCATAATTAGAAGAA-TTGTTCAACCTTTTACCTGAATTCATC
255 ATCTGAAGAAGGAAGAAGAAGTTCAT-ATGA-AAGAACTTGTTCAACCTTTTACCTGAATTCATC
* * *
15135 AATTGATGGATTATCTTTTCCGGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAA
318 AATTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAG-ACTCATCTGAAGAAGAAAGAA
*
15199 GAAGTTCATAATAAGAAGAACTTGTTCAACTTTTT
382 GAAGTTCATAATAAGAAGAACTTGTTCAACCTTTT
15234 GCATAATTCT
Statistics
Matches: 382, Mismatches: 26, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
442 80 0.21
443 190 0.50
444 5 0.01
445 34 0.09
446 49 0.13
447 24 0.06
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (442 bp):
CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAGAAGTTCATAATGAAA
AATTTGTTCAACCTTTTACTGAATCCATCAATTGAGGGATCAACTTTTCCAGAGAAAGTTCATAA
TGAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTGTTCAACCTTTTACCTG
AATCCATCAAGTTGATGGATCATCTTTGCCAGGTAAAGTTCATAATGAGAAGAACCGTCATCTGA
AGAAGGAAGAAGAAGTTCATATGAAAGAACTTGTTCAACCTTTTACCTGAATTCATCAATTGATG
GATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGACTCATCTGAAGAAGAAAGAAGAAGTTCAT
AATAAGAAGAACTTGTTCAACCTTTTACCTGAATCCATCATTTGAGGATCAT
Found at i:15559 original size:3 final size:3
Alignment explanation
Indices: 15551--15655 Score: 144
Period size: 3 Copynumber: 35.0 Consensus size: 3
15541 TTTTATCCAT
*
15551 TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA CTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15597 TTA -TA TATA TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
*
15643 TTA ATA TATA TTA
1 TTA TTA T-TA TTA
15656 ACATATATAT
Statistics
Matches: 93, Mismatches: 3, Indels: 12
0.86 0.03 0.11
Matches are distributed among these distances:
2 6 0.06
3 78 0.84
4 9 0.10
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:19761 original size:20 final size:20
Alignment explanation
Indices: 19712--19825 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
19702 TTGAAATTCA
* *
19712 GCATTGCGACAGTCAGAATC
1 GCATTGCGATAGTCATAATC
*
19732 GCGTTGCGATAGTCATAATC
1 GCATTGCGATAGTCATAATC
* *
19752 GCATTGCGAT-TTACATATTC
1 GCATTGCGATAGT-CATAATC
* *
19772 GCTTTGCGATAGTCATACTC
1 GCATTGCGATAGTCATAATC
* *
19792 GCATTGCGAT-TTACATATTC
1 GCATTGCGATAGT-CATAATC
19812 GCATTGCGATAGTC
1 GCATTGCGATAGTC
19826 GGAAATCGCA
Statistics
Matches: 77, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
19 2 0.03
20 73 0.95
21 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (20 bp):
GCATTGCGATAGTCATAATC
Found at i:19841 original size:21 final size:22
Alignment explanation
Indices: 19817--19865 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
19807 TATTCGCATT
19817 GCGATAGTCGG-AAATCGCAAC
1 GCGATAGTCGGAAAATCGCAAC
* * *
19838 GCGA-ATTTGGAAAATCGCAAT
1 GCGATAGTCGGAAAATCGCAAC
19859 GCGATAG
1 GCGATAG
19866 GTAGAATCGC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 4 0.18
21 17 0.77
22 1 0.05
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (22 bp):
GCGATAGTCGGAAAATCGCAAC
Found at i:23687 original size:65 final size:64
Alignment explanation
Indices: 23608--23797 Score: 308
Period size: 65 Copynumber: 2.9 Consensus size: 64
23598 TTGCGTTGAG
* * *
23608 CTGAATGCTTAAAAAAACTTGAGTTTGAACTTGACTTGAACAAACATAACACACAAACCATCGAA
1 CTGAATGCTTAAAAAAGCTTGAGCTTGAACTTGACTCGAACAAACATAACACAC-AACCATCGAA
* *
23673 CTGAATGCTTAAAAAAGCTTGAACTTGAACTTGACTCGAACAAACATAACACATGAACCATCGAA
1 CTGAATGCTTAAAAAAGCTTGAGCTTGAACTTGACTCGAACAAACATAACACA-CAACCATCGAA
*
23738 CTGAATGCTTAAAAAAGCTTGAGCTTGAACTTGACTCGAACAAGCATAACACACAACCAT
1 CTGAATGCTTAAAAAAGCTTGAGCTTGAACTTGACTCGAACAAACATAACACACAACCAT
23798 AACATATTTC
Statistics
Matches: 116, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
64 6 0.05
65 110 0.95
ACGTcount: A:0.43, C:0.22, G:0.14, T:0.22
Consensus pattern (64 bp):
CTGAATGCTTAAAAAAGCTTGAGCTTGAACTTGACTCGAACAAACATAACACACAACCATCGAA
Found at i:26342 original size:47 final size:47
Alignment explanation
Indices: 26286--26384 Score: 189
Period size: 47 Copynumber: 2.1 Consensus size: 47
26276 TATATTTAAT
26286 TATTTATAGATAATCTCTAATCAAGTATGATTAAATTGTCACGTTAG
1 TATTTATAGATAATCTCTAATCAAGTATGATTAAATTGTCACGTTAG
26333 TATTTATAGATAATCTCTAATCAAGTATGATTAAATTGTCACGTTAG
1 TATTTATAGATAATCTCTAATCAAGTATGATTAAATTGTCACGTTAG
*
26380 CATTT
1 TATTT
26385 TTATTTTCTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.41
Consensus pattern (47 bp):
TATTTATAGATAATCTCTAATCAAGTATGATTAAATTGTCACGTTAG
Found at i:27500 original size:2 final size:2
Alignment explanation
Indices: 27493--27651 Score: 98
Period size: 2 Copynumber: 78.0 Consensus size: 2
27483 GAAACAATTA
*
27493 AT AT AT AT AT AT AT AT AT AT AT AT A- AC AT AGT -T CAT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT -AT AT AT AT
* * * * *
27534 AT TT AT AT AT AGT AT AT AA AT AT AA ACT AT AT AGT TT AT AT TT
1 AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT
* *
27577 A- AT AT -T AT -T AT AT ACT AT AT AT AT AA ACT AT AT AGT CT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT A-T AT AT
*
27617 AT AT GA- ACC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
27652 GGTTTAGAAT
Statistics
Matches: 124, Mismatches: 16, Indels: 34
0.71 0.09 0.20
Matches are distributed among these distances:
1 7 0.06
2 105 0.85
3 12 0.10
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:27602 original size:44 final size:43
Alignment explanation
Indices: 27490--27706 Score: 153
Period size: 44 Copynumber: 4.9 Consensus size: 43
27480 ATTGAAACAA
*
27490 TTAATA-TATATATATATATATATATATAAC---ATAGTTCATAT
1 TTAATATTAT-TATATATATATATATA-AACTATATAGTTTATAT
* *
27531 ATAAT-TTATATATAGTATATAAATATAAACTATATAGTTTATAT
1 TTAATATTAT-TATA-TATATATATATAAACTATATAGTTTATAT
*
27575 TTAATATTATTATATACTATATATATAAACTATATAGTCTATAT
1 TTAATATTATTATATA-TATATATATAAACTATATAGTTTATAT
* * * * * *
27619 ATGAACCA-TA-TATATATATATATATATA-TATATGGTTTAGAA
1 -TTAA-TATTATTATATATATATATATAAACTATATAGTTTATAT
*
27661 TTAATTTATGTAATTTTATATAATTTATATATAAACTATATAGTTT
1 TTAA--TAT-T-A--TTATAT-ATATATATATAAACTATATAGTTT
27707 GTACATAGTA
Statistics
Matches: 139, Mismatches: 19, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
41 18 0.13
42 22 0.16
43 13 0.09
44 50 0.36
45 10 0.07
46 1 0.01
48 5 0.04
49 11 0.08
50 9 0.06
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (43 bp):
TTAATATTATTATATATATATATATAAACTATATAGTTTATAT
Found at i:27769 original size:24 final size:24
Alignment explanation
Indices: 27717--27789 Score: 94
Period size: 24 Copynumber: 3.0 Consensus size: 24
27707 GTACATAGTA
27717 ATATATAAACTATATAAACCATATAT
1 ATATATAAACTATATAAA-C-TATAT
* *
27743 ATATGTAAACTATATAAACTATTT
1 ATATATAAACTATATAAACTATAT
27767 ATATATAATA-TATATAAACTATA
1 ATATATAA-ACTATATAAACTATA
27790 AACTATAGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
24 23 0.55
25 2 0.05
26 17 0.40
ACGTcount: A:0.52, C:0.08, G:0.01, T:0.38
Consensus pattern (24 bp):
ATATATAAACTATATAAACTATAT
Found at i:27822 original size:26 final size:27
Alignment explanation
Indices: 27774--27844 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 27
27764 TTTATATATA
* * * *
27774 ATATATATAAACTATAAACTATAGTTT
1 ATATTTATATACTATATACTATAGTTG
27801 ATATTTATATA-TATATACTATAGTTG
1 ATATTTATATACTATATACTATAGTTG
27827 ATATTTATATACTATATA
1 ATATTTATATACTATATA
27845 AATTATATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 24 0.62
27 15 0.38
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (27 bp):
ATATTTATATACTATATACTATAGTTG
Found at i:27869 original size:9 final size:9
Alignment explanation
Indices: 27718--27862 Score: 65
Period size: 9 Copynumber: 16.7 Consensus size: 9
27708 TACATAGTAA
*
27718 TATATAAAC
1 TATATATAC
*
27727 TATATAAAC
1 TATATATAC
*
27736 CATATATA-
1 TATATATAC
* *
27744 TATGTAAAC
1 TATATATAC
*
27753 TATATAAAC
1 TATATATAC
*
27762 TATTTATA-
1 TATATATAC
27770 TATA-ATA-
1 TATATATAC
*
27777 TATATAAAC
1 TATATATAC
27786 TATA-A-AC
1 TATATATAC
*
27793 TATAGTTTA-
1 TATA-TATAC
*
27802 TATTTATA-
1 TATATATAC
27810 TATATATAC
1 TATATATAC
27819 TATAGTTGATA-
1 TATA--T-ATAC
*
27830 TTTATATAC
1 TATATATAC
* *
27839 TATATAAAT
1 TATATATAC
*
27848 TATATAAAC
1 TATATATAC
27857 TATATA
1 TATATA
27863 CTATATAGTT
Statistics
Matches: 106, Mismatches: 19, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
7 13 0.12
8 24 0.23
9 61 0.58
10 1 0.01
11 4 0.04
12 3 0.03
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.43
Consensus pattern (9 bp):
TATATATAC
Found at i:27916 original size:2 final size:2
Alignment explanation
Indices: 27911--28084 Score: 76
Period size: 2 Copynumber: 83.0 Consensus size: 2
27901 TCTCTCTCTC
27911 TA TA TA TA TA GT- TA TA TA TA TA -A CTA TA TA CTA TA GT- TGA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA -TA TA -TA T-A TA
* * *
27953 TT TA TA TA CTA TA TA CTA TA TA TA -A AA CTA TA TA CTA TA GTT TA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA -TA TA
* *
27997 TA TA TA TA T- TA TA TA GTA TA TA AA TA TA TA AA CTA TA TA CTA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA -TA
* * *
28039 T- TG T- TA -A TA TT TA TA TA CTA TA TA TA TA AA CTA TA TA TA CTA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA -TA
28081 TA TA
1 TA TA
28085 GTTTACCTAT
Statistics
Matches: 135, Mismatches: 13, Indels: 48
0.69 0.07 0.24
Matches are distributed among these distances:
1 8 0.06
2 103 0.76
3 24 0.18
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:27945 original size:7 final size:7
Alignment explanation
Indices: 27923--28194 Score: 90
Period size: 7 Copynumber: 40.6 Consensus size: 7
27913 TATATATAGT
27923 TATATA-
1 TATATAC
27929 TATA-AC
1 TATATAC
27935 TATATAC
1 TATATAC
27942 TATAGT--
1 TATA-TAC
*
27948 TGATAT-T
1 T-ATATAC
27955 TATATAC
1 TATATAC
27962 TATATAC
1 TATATAC
27969 TATATA-
1 TATATAC
*
27975 TA-AAAC
1 TATATAC
27981 TATATAC
1 TATATAC
27988 TATAGT--
1 TATA-TAC
27994 T-TATA-
1 TATATAC
*
27999 TATATAT
1 TATATAC
*
28006 TATATAG
1 TATATAC
*
28013 TATATAAA
1 TATAT-AC
28021 TATATAAAC
1 TATAT--AC
28030 TATATAC
1 TATATAC
**
28037 TAT-TGT
1 TATATAC
*
28043 TA-ATATT
1 TATATA-C
28050 TATATAC
1 TATATAC
28057 TATATA-
1 TATATAC
*
28063 TATAAAC
1 TATATAC
28070 TATATA-
1 TATATAC
28076 TACTATA-
1 TA-TATAC
*
28083 TAGTTTACC
1 TA-TATA-C
28092 TATGA-AC
1 TAT-ATAC
28099 TATATA-
1 TATATAC
* *
28105 TAAAAAC
1 TATATAC
28112 TATATA-
1 TATATAC
*
28118 TATAAAC
1 TATATAC
28125 TATA-A-
1 TATATAC
*
28130 TTTATA-
1 TATATAC
*
28136 TATAAAC
1 TATATAC
28143 TATATAC
1 TATATAC
28150 TATAGT--
1 TATA-TAC
*
28156 TGATAT-T
1 T-ATATAC
28163 TATATAC
1 TATATAC
28170 TATATAC
1 TATATAC
*
28177 TATAAAC
1 TATATAC
*
28184 TATACAC
1 TATATAC
28191 TATA
1 TATA
28195 GTTGATATTT
Statistics
Matches: 208, Mismatches: 27, Indels: 61
0.70 0.09 0.21
Matches are distributed among these distances:
4 1 0.00
5 9 0.04
6 56 0.27
7 119 0.57
8 14 0.07
9 9 0.04
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.43
Consensus pattern (7 bp):
TATATAC
Found at i:27973 original size:20 final size:20
Alignment explanation
Indices: 27950--28215 Score: 74
Period size: 20 Copynumber: 13.2 Consensus size: 20
27940 ACTATAGTTG
27950 ATATTTATATACTATATACT
1 ATATTTATATACTATATACT
* *
27970 ATATATA-AAACTATATACT
1 ATATTTATATACTATATACT
27989 ATAGTTTATATA-TATAT--T
1 ATA-TTTATATACTATATACT
* *
28007 ATATAGTATATA-AATATA-T
1 ATAT-TTATATACTATATACT
** **
28026 A-AACTATATACTAT-TGTT
1 ATATTTATATACTATATACT
28044 AATATTTATATACTATATA-T
1 -ATATTTATATACTATATACT
* *
28064 ATAAACTATATATACTATATAGT
1 AT--A-TTTATATACTATATACT
* **
28087 TTACCTATGA-ACTATATA-T
1 ATATTTAT-ATACTATATACT
* ** *
28106 AAAAACTATATA-TATAAACT
1 -ATATTTATATACTATATACT
28126 ATAATTTATATATAAACTATATACT
1 AT-A-TT-TATAT--ACTATATACT
* *
28151 ATAGTTGATAT-TTATATACT
1 ATA-TTTATATACTATATACT
* * *
28171 ATATACTATAAACTATACACT
1 ATAT-TTATATACTATATACT
* *
28192 ATAGTTGATAT-TTATATACT
1 ATA-TTTATATACTATATACT
28212 ATAT
1 ATAT
28216 AATATAGTTT
Statistics
Matches: 182, Mismatches: 38, Indels: 53
0.67 0.14 0.19
Matches are distributed among these distances:
17 8 0.04
18 18 0.10
19 29 0.16
20 69 0.38
21 19 0.10
22 20 0.11
23 6 0.03
24 4 0.02
25 9 0.05
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (20 bp):
ATATTTATATACTATATACT
Found at i:27973 original size:44 final size:44
Alignment explanation
Indices: 27923--28066 Score: 182
Period size: 44 Copynumber: 3.1 Consensus size: 44
27913 TATATATAGT
*
27923 TATATATAT-AACTATATACTATAGTTGATATTTATATACTATA
1 TATATATATAAACTATATACTATAGTTAATATTTATATACTATA
*
27966 TACTATATATAAAACTATATACTATAGTTTATATATATATTATATAGTATA
1 TA-TATATAT-AAACTATATACTATAG--T-TA-ATAT-TTATATACTATA
* *
28017 TAAATATATAAACTATATACTATTGTTAATATTTATATACTATA
1 TATATATATAAACTATATACTATAGTTAATATTTATATACTATA
28061 TATATA
1 TATATA
28067 AACTATATAT
Statistics
Matches: 87, Mismatches: 6, Indels: 15
0.81 0.06 0.14
Matches are distributed among these distances:
43 2 0.02
44 23 0.26
45 4 0.05
46 17 0.20
47 1 0.01
48 1 0.01
49 16 0.18
50 10 0.11
51 13 0.15
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.46
Consensus pattern (44 bp):
TATATATATAAACTATATACTATAGTTAATATTTATATACTATA
Found at i:27984 original size:46 final size:45
Alignment explanation
Indices: 27911--28066 Score: 183
Period size: 46 Copynumber: 3.4 Consensus size: 45
27901 TCTCTCTCTC
* *
27911 TATATA-TATAGT-TATATATATAACTATATACTATAGTTGATATT
1 TATATACTATA-TATATATATAAAACTATATACTATAGTTAATATT
*
27955 TATATACTATATACTATATATAAAACTATATACTATAGTTTATATATA
1 TATATACTATATA-TATATATAAAACTATATACTATAG-TTA-ATATT
* *
28003 TATTATA-TAGTATATAAATATATAAACTATATACTATTGTTAATATT
1 TA-TATACTA-TATATATATATA-AAACTATATACTATAGTTAATATT
28050 TATATACTATATATATA
1 TATATACTATATATATA
28067 AACTATATAT
Statistics
Matches: 96, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
44 7 0.07
45 4 0.04
46 34 0.35
47 10 0.10
48 18 0.19
49 23 0.24
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (45 bp):
TATATACTATATATATATATAAAACTATATACTATAGTTAATATT
Found at i:28193 original size:41 final size:40
Alignment explanation
Indices: 28132--28221 Score: 153
Period size: 41 Copynumber: 2.2 Consensus size: 40
28122 AACTATAATT
*
28132 TATATATAAACTATATACTATAGTTGATATTTATATACTA
1 TATATATAAACTATACACTATAGTTGATATTTATATACTA
28172 TATACTATAAACTATACACTATAGTTGATATTTATATACTA
1 TATA-TATAAACTATACACTATAGTTGATATTTATATACTA
28213 TATAATATA
1 TAT-ATATA
28222 GTTTATATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
40 4 0.09
41 42 0.89
42 1 0.02
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (40 bp):
TATATATAAACTATACACTATAGTTGATATTTATATACTA
Found at i:28212 original size:27 final size:27
Alignment explanation
Indices: 28177--28236 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
28167 TACTATATAC
* *
28177 TATAAACTATACACTATAGTTGATATT
1 TATATACTATACAATATAGTTGATATT
* *
28204 TATATACTATATAATATAGTTTATATT
1 TATATACTATACAATATAGTTGATATT
28231 TATATA
1 TATATA
28237 ATTTATACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (27 bp):
TATATACTATACAATATAGTTGATATT
Found at i:28243 original size:27 final size:27
Alignment explanation
Indices: 28191--28248 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
28181 AACTATACAC
*
28191 TATAGTTGATATTTATATACTATATAA
1 TATAGTTGATATTTATATAATATATAA
* * *
28218 TATAGTTTATATTTATATAATTTATAC
1 TATAGTTGATATTTATATAATATATAA
28245 TATA
1 TATA
28249 TAAATTCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (27 bp):
TATAGTTGATATTTATATAATATATAA
Found at i:29535 original size:23 final size:23
Alignment explanation
Indices: 29506--29661 Score: 276
Period size: 23 Copynumber: 6.8 Consensus size: 23
29496 CACATATTTA
*
29506 TCCCGAAGGACCACATAGGTTTG
1 TCCCGAATGACCACATAGGTTTG
29529 TCCCGAATGACCACATAGGTTTG
1 TCCCGAATGACCACATAGGTTTG
*
29552 TCTCGAATGACCACATAGGTTTG
1 TCCCGAATGACCACATAGGTTTG
29575 TCCCGAATGACCACATAGGTTTG
1 TCCCGAATGACCACATAGGTTTG
*
29598 TCTCGAATGACCACATAGGTTTG
1 TCCCGAATGACCACATAGGTTTG
*
29621 TCCCGAAGGACCACATAGGTTTG
1 TCCCGAATGACCACATAGGTTTG
29644 TCCCGAATGACCACATAG
1 TCCCGAATGACCACATAG
29662 AACCCTGGAC
Statistics
Matches: 126, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 126 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (23 bp):
TCCCGAATGACCACATAGGTTTG
Found at i:41133 original size:2 final size:2
Alignment explanation
Indices: 41126--41164 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
41116 CTTGAATTCT
41126 TA 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 TA T
41165 TTGGTTTTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:43052 original size:15 final size:15
Alignment explanation
Indices: 42978--43095 Score: 69
Period size: 15 Copynumber: 7.9 Consensus size: 15
42968 GTGTATCTTA
*
42978 TTCACATAGAACATG
1 TTCACATAGAACATT
* ***
42993 TTCACGTAGGGTATT
1 TTCACATAGAACATT
* * *
43008 TGCACGTAGAACGTT
1 TTCACATAGAACATT
**
43023 TTCAGTTA-ACACATT
1 TTCACATAGA-ACATT
*
43038 TTCACATAGAGCATT
1 TTCACATAGAACATT
* * *
43053 TTCATATAAAATATT
1 TTCACATAGAACATT
43068 TTCACAT-GTAACATT
1 TTCACATAG-AACATT
*
43083 TGCACATAGAACA
1 TTCACATAGAACA
43096 CATTCATATG
Statistics
Matches: 74, Mismatches: 25, Indels: 8
0.69 0.23 0.07
Matches are distributed among these distances:
14 1 0.01
15 71 0.96
16 2 0.03
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.34
Consensus pattern (15 bp):
TTCACATAGAACATT
Found at i:43549 original size:20 final size:20
Alignment explanation
Indices: 43524--43572 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
43514 CTTACTCTTG
*
43524 GTATCGATAGTCCCATTTCA
1 GTATCGATAGTCACATTTCA
43544 GTATCGATAGTCACATTTCA
1 GTATCGATAGTCACATTTCA
43564 GTATCGATA
1 GTATCGATA
43573 CTACTTCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (20 bp):
GTATCGATAGTCACATTTCA
Found at i:44228 original size:19 final size:20
Alignment explanation
Indices: 44189--44228 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
44179 ATCAGATTGT
44189 CCAGGGGGAATAGATTCCCC
1 CCAGGGGGAATAGATTCCCC
* *
44209 CCAGGGGGTATCGATTCCCC
1 CCAGGGGGAATAGATTCCCC
44229 GGGAACAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.33, G:0.30, T:0.17
Consensus pattern (20 bp):
CCAGGGGGAATAGATTCCCC
Found at i:44251 original size:34 final size:35
Alignment explanation
Indices: 44194--44277 Score: 134
Period size: 34 Copynumber: 2.4 Consensus size: 35
44184 ATTGTCCAGG
*
44194 GGGAATAGATTCCCCCCAGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
44229 GGGAACAGATTCCCCCCA-GGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
* *
44263 AGGTACAGATTCCCC
1 GGGAACAGATTCCCC
44278 TGTGCATGGT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
34 29 0.63
35 17 0.37
ACGTcount: A:0.21, C:0.33, G:0.26, T:0.19
Consensus pattern (35 bp):
GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
Found at i:44262 original size:17 final size:17
Alignment explanation
Indices: 44207--44265 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
44197 AATAGATTCC
44207 CCCCAGGGGGTATCGATT
1 CCCCA-GGGGTATCGATT
*
44225 CCCC--GGG-AACAGATT
1 CCCCAGGGGTATC-GATT
44240 CCCCCCAGGGGTATCGATT
1 --CCCCAGGGGTATCGATT
44259 CCCCAGG
1 CCCCAGG
44266 TACAGATTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 13
0.69 0.04 0.27
Matches are distributed among these distances:
14 2 0.06
15 7 0.21
17 11 0.33
18 4 0.12
19 7 0.21
20 2 0.06
ACGTcount: A:0.19, C:0.36, G:0.29, T:0.17
Consensus pattern (17 bp):
CCCCAGGGGTATCGATT
Found at i:44422 original size:21 final size:21
Alignment explanation
Indices: 44392--44433 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
44382 ATTTGAATAT
*
44392 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
*
44413 TATGACGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
44434 CCATTCTGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:45869 original size:20 final size:20
Alignment explanation
Indices: 45844--45891 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
45834 TTTGAAAGTA
45844 TTGAAAAAGAAAATTTCAAT
1 TTGAAAAAGAAAATTTCAAT
*
45864 TTGAAAGAGAAAATTTCAAT
1 TTGAAAAAGAAAATTTCAAT
45884 TTGAAAAA
1 TTGAAAAA
45892 TAAACTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.29
Consensus pattern (20 bp):
TTGAAAAAGAAAATTTCAAT
Found at i:46985 original size:28 final size:28
Alignment explanation
Indices: 46954--47012 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
46944 TCAAACTTGA
46954 TTTCAAAATCTTAAAATTACTCAAATGT
1 TTTCAAAATCTTAAAATTACTCAAATGT
46982 TTTCAAAATCTTAAAATTACTCAAATGT
1 TTTCAAAATCTTAAAATTACTCAAATGT
47010 TTT
1 TTT
47013 GTTATATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.42
Consensus pattern (28 bp):
TTTCAAAATCTTAAAATTACTCAAATGT
Found at i:47356 original size:33 final size:34
Alignment explanation
Indices: 47296--47378 Score: 132
Period size: 33 Copynumber: 2.4 Consensus size: 34
47286 TTATCCAGGG
47296 GGAACAGATTCCCCCCAGGGGGTATCGATTCCCCA
1 GGAACAGATT-CCCCCAGGGGGTATCGATTCCCCA
*
47331 GGAACAGATTCCCCCA-GGGGTATCGATTCCCCG
1 GGAACAGATTCCCCCAGGGGGTATCGATTCCCCA
*
47364 GGTACAGATTCCCCC
1 GGAACAGATTCCCCC
47379 TGCATGGTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
33 30 0.65
34 6 0.13
35 10 0.22
ACGTcount: A:0.22, C:0.35, G:0.25, T:0.18
Consensus pattern (34 bp):
GGAACAGATTCCCCCAGGGGGTATCGATTCCCCA
Found at i:47360 original size:18 final size:18
Alignment explanation
Indices: 47302--47362 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
47292 AGGGGGAACA
47302 GATTCCCCCCAGGGGGTATC
1 GATT-CCCCCA-GGGGTATC
*
47322 GATT-CCCCA--GG-AAC
1 GATTCCCCCAGGGGTATC
47336 AGATTCCCCCAGGGGTATC
1 -GATTCCCCCAGGGGTATC
47355 GATTCCCC
1 GATTCCCC
47363 GGGTACAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
14 2 0.06
15 6 0.18
16 5 0.15
18 15 0.44
19 2 0.06
20 4 0.12
ACGTcount: A:0.20, C:0.36, G:0.25, T:0.20
Consensus pattern (18 bp):
GATTCCCCCAGGGGTATC
Found at i:47373 original size:15 final size:15
Alignment explanation
Indices: 47322--47377 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
47312 AGGGGGTATC
* *
47322 GATTCCCCAGGAACA
1 GATTCCCCGGGTACA
47337 GATTCCCCCAGGGGTATC-
1 GATT-CCCC--GGGTA-CA
47355 GATTCCCCGGGTACA
1 GATTCCCCGGGTACA
47370 GATTCCCC
1 GATTCCCC
47378 CTGCATGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 1 0.03
15 17 0.50
16 4 0.12
17 4 0.12
18 7 0.21
19 1 0.03
ACGTcount: A:0.21, C:0.36, G:0.23, T:0.20
Consensus pattern (15 bp):
GATTCCCCGGGTACA
Found at i:47517 original size:21 final size:21
Alignment explanation
Indices: 47491--47553 Score: 108
Period size: 21 Copynumber: 3.0 Consensus size: 21
47481 ATTTGAAAAT
* *
47491 TATGAAAGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
47512 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
47533 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
47554 CCCATTCTGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:54210 original size:15 final size:15
Alignment explanation
Indices: 54191--54253 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
54181 TTCAGTTAAC
54191 ACATTTTCACATAGA
1 ACATTTTCACATAGA
* * *
54206 GCATTTTCATATAAA
1 ACATTTTCACATAGA
*
54221 ACATTTTCATAT-GTA
1 ACATTTTCACATAG-A
*
54236 ACATTTTCACATAAA
1 ACATTTTCACATAGA
54251 ACA
1 ACA
54254 CATTCATATG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (15 bp):
ACATTTTCACATAGA
Found at i:54225 original size:30 final size:30
Alignment explanation
Indices: 54191--54253 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
54181 TTCAGTTAAC
* *
54191 ACATTTTCACATAG-AGCATTTTCATATAAA
1 ACATTTTCACAT-GTAACATTTTCACATAAA
*
54221 ACATTTTCATATGTAACATTTTCACATAAA
1 ACATTTTCACATGTAACATTTTCACATAAA
54251 ACA
1 ACA
54254 CATTCATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (30 bp):
ACATTTTCACATGTAACATTTTCACATAAA
Found at i:54260 original size:30 final size:30
Alignment explanation
Indices: 54207--54264 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
54197 TCACATAGAG
* **
54207 CATTTTCATATAAAACATTTTCATATGTAA
1 CATTTTCACATAAAACACATTCATATGTAA
54237 CATTTTCACATAAAACACATTCATATGT
1 CATTTTCACATAAAACACATTCATATGT
54265 TAATAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (30 bp):
CATTTTCACATAAAACACATTCATATGTAA
Found at i:54626 original size:40 final size:40
Alignment explanation
Indices: 54577--54712 Score: 105
Period size: 40 Copynumber: 3.3 Consensus size: 40
54567 CCCCTCCTAC
*
54577 AGTACCGATACTTCTCTTTTATGGTATCGATACCCACTTT
1 AGTATCGATACTTCTCTTTTATGGTATCGATACCCACTTT
* * * ** * * * *
54617 AGTATCGATACCATTTTGGCATTCTGTAATTTC-AT-CCTTAATAAT
1 AGTATCGATA-C-TTCT--C-TTTTATGGTATCGATACC-CACT-TT
54662 AGTATCGATACTTCTCTTTTATGGTATCGATACCCACTTT
1 AGTATCGATACTTCTCTTTTATGGTATCGATACCCACTTT
54702 AGTATCGATAC
1 AGTATCGATAC
54713 CATTTTGGCA
Statistics
Matches: 68, Mismatches: 19, Indels: 18
0.65 0.18 0.17
Matches are distributed among these distances:
40 28 0.41
41 6 0.09
42 5 0.07
43 5 0.07
44 6 0.09
45 18 0.26
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (40 bp):
AGTATCGATACTTCTCTTTTATGGTATCGATACCCACTTT
Found at i:54725 original size:85 final size:85
Alignment explanation
Indices: 54577--54766 Score: 353
Period size: 85 Copynumber: 2.2 Consensus size: 85
54567 CCCCTCCTAC
*
54577 AGTACCGATACTTCTCTTTTATGGTATCGATACCCACTTTAGTATCGATACCATTTTGGCATTCT
1 AGTATCGATACTTCTCTTTTATGGTATCGATACCCACTTTAGTATCGATACCATTTTGGCATTCT
54642 GTAATTTCATCCTTAATAAT
66 GTAATTTCATCCTTAATAAT
54662 AGTATCGATACTTCTCTTTTATGGTATCGATACCCACTTTAGTATCGATACCATTTTGGCATTCT
1 AGTATCGATACTTCTCTTTTATGGTATCGATACCCACTTTAGTATCGATACCATTTTGGCATTCT
54727 GTAATTTCATCCTTAATAAT
66 GTAATTTCATCCTTAATAAT
54747 AGTATCGATACCTTACTCTT
1 AGTATCGATA-CTT-CTCTT
54767 GGTATCAATT
Statistics
Matches: 102, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
85 94 0.92
86 3 0.03
87 5 0.05
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.42
Consensus pattern (85 bp):
AGTATCGATACTTCTCTTTTATGGTATCGATACCCACTTTAGTATCGATACCATTTTGGCATTCT
GTAATTTCATCCTTAATAAT
Found at i:57317 original size:56 final size:56
Alignment explanation
Indices: 57198--57311 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 56
57188 AATATTTAAG
* * *
57198 TTAATTAAATTAATCATGTTCAATAAATAAATTATTTTAACTTTTAAAGATTATAA
1 TTAATTTAATTAATCATATTCAATAAATAAATTATTTTAACTTGTAAAGATTATAA
* *
57254 TTAATTTAATTATTCATATTCAATAAA-AAA-TATTTTAACTTGTAATGATTATAA
1 TTAATTTAATTAATCATATTCAATAAATAAATTATTTTAACTTGTAAAGATTATAA
57308 TTAA
1 TTAA
57312 GATTTATAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 26 0.49
55 3 0.06
56 24 0.45
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (56 bp):
TTAATTTAATTAATCATATTCAATAAATAAATTATTTTAACTTGTAAAGATTATAA
Found at i:61833 original size:31 final size:31
Alignment explanation
Indices: 61798--61866 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
61788 TTAACTTTTA
* *
61798 ATAGTCGAGTGACTCAACA-AAGCAACGCCCT
1 ATAGTCGAGGGACTCAACAGAA-CAACACCCT
*
61829 ATAGTCGAGGGACTCAACAGAACAACATCCT
1 ATAGTCGAGGGACTCAACAGAACAACACCCT
61860 ATAGTCG
1 ATAGTCG
61867 GAGGACCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 32 0.94
32 2 0.06
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.17
Consensus pattern (31 bp):
ATAGTCGAGGGACTCAACAGAACAACACCCT
Found at i:65078 original size:22 final size:22
Alignment explanation
Indices: 65050--65096 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
65040 TAGTGGTTGG
*
65050 AATATAAATTCGACTATTTATA
1 AATATAAATTCGACTAGTTATA
65072 AATATAAATTCGACTAGTTATA
1 AATATAAATTCGACTAGTTATA
65094 AAT
1 AAT
65097 TTGATTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (22 bp):
AATATAAATTCGACTAGTTATA
Found at i:65141 original size:11 final size:11
Alignment explanation
Indices: 65127--65186 Score: 59
Period size: 11 Copynumber: 5.4 Consensus size: 11
65117 TCTATTTAAA
65127 TATTTAATCAT
1 TATTTAATCAT
* *
65138 TATTAAATAAT
1 TATTTAATCAT
65149 TATTAGTAATCAT
1 TATT--TAATCAT
*
65162 TATTAAATCAT
1 TATTTAATCAT
*
65173 TA-TTAGTCAT
1 TATTTAATCAT
65183 TATT
1 TATT
65187 ATGATTTCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
10 8 0.21
11 22 0.56
13 9 0.23
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (11 bp):
TATTTAATCAT
Found at i:65220 original size:24 final size:24
Alignment explanation
Indices: 65131--65222 Score: 103
Period size: 24 Copynumber: 3.8 Consensus size: 24
65121 TTTAAATATT
*
65131 TAATCATTATTAAATAATTATTAG
1 TAATCATTATTAAATCATTATTAG
65155 TAATCATTATTAAATCATTATTAG
1 TAATCATTATTAAATCATTATTAG
* * * ** *
65179 TCATTATTATGATTTCATTATTAT
1 TAATCATTATTAAATCATTATTAG
* *
65203 TAATTATTACTAAATCATTA
1 TAATCATTATTAAATCATTA
65223 GTATCAAATC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (24 bp):
TAATCATTATTAAATCATTATTAG
Found at i:65252 original size:21 final size:21
Alignment explanation
Indices: 65228--65318 Score: 73
Period size: 21 Copynumber: 4.4 Consensus size: 21
65218 CATTAGTATC
65228 AAATCATTAAATATTAATAAT
1 AAATCATTAAATATTAATAAT
* * *
65249 AAATCATT-ATTAGTAATCATT
1 AAATCATTAAATATTAAT-AAT
* * * *
65270 ACAA--AAT-CATATTATTACT
1 A-AATCATTAAATATTAATAAT
65289 AAATCATTAAATATTAATAAT
1 AAATCATTAAATATTAATAAT
65310 AAATCATTA
1 AAATCATTA
65319 GTAATATCGG
Statistics
Matches: 52, Mismatches: 13, Indels: 10
0.69 0.17 0.13
Matches are distributed among these distances:
18 2 0.04
19 3 0.06
20 16 0.31
21 29 0.56
22 2 0.04
ACGTcount: A:0.52, C:0.09, G:0.01, T:0.38
Consensus pattern (21 bp):
AAATCATTAAATATTAATAAT
Found at i:65309 original size:61 final size:59
Alignment explanation
Indices: 65193--65318 Score: 182
Period size: 61 Copynumber: 2.1 Consensus size: 59
65183 TATTATGATT
* * *
65193 TCATTATTATTAATTATTACTAAATCATTAGTATCAAATCATTAAATATTAATAATAAA
1 TCATTATTAGTAATCATTACAAAATCATTAGTATCAAATCATTAAATATTAATAATAAA
*
65252 TCATTATTAGTAATCATTACAAAATCA-TATTATTACTAAATCATTAAATATTAATAATAAA
1 TCATTATTAGTAATCATTACAAAATCATTAGTA-T-C-AAATCATTAAATATTAATAATAAA
65313 TCATTA
1 TCATTA
65319 GTAATATCGG
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
58 4 0.07
59 25 0.42
60 1 0.02
61 30 0.50
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.41
Consensus pattern (59 bp):
TCATTATTAGTAATCATTACAAAATCATTAGTATCAAATCATTAAATATTAATAATAAA
Found at i:68414 original size:13 final size:13
Alignment explanation
Indices: 68370--68416 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
68360 CTGTTCTTTG
*
68370 ATATTGAAAACTAA
1 ATATTTAAAA-TAA
68384 ATA-TTAAAATAA
1 ATATTTAAAATAA
*
68396 TTTATTTAAAATAA
1 -ATATTTAAAATAA
68410 ATATTTA
1 ATATTTA
68417 TTTATTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATTTAAAATAA
Found at i:69883 original size:3 final size:3
Alignment explanation
Indices: 69875--69932 Score: 93
Period size: 3 Copynumber: 20.0 Consensus size: 3
69865 TATTTATATT
*
69875 ATA ATA ATA ATA ATA AT- ATG ATA ATA ATA ATA ATA AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
69921 ATA ATA ATA ATA
1 ATA ATA ATA ATA
69933 TGGATAAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
2 4 0.08
3 48 0.92
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:69893 original size:20 final size:20
Alignment explanation
Indices: 69870--69933 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
69860 ATATATATTT
*
69870 ATATTATAATAATAATAATA
1 ATATAATAATAATAATAATA
*
69890 ATATGATAATAATAATAATA
1 ATATAATAATAATAATAATA
69910 ATATAATAATAATAATAATA
1 ATATAATAATAATAATAATA
69930 ATAT
1 ATAT
69934 GGATAAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
ATATAATAATAATAATAATA
Found at i:69900 original size:17 final size:16
Alignment explanation
Indices: 69878--69932 Score: 85
Period size: 17 Copynumber: 3.4 Consensus size: 16
69868 TTATATTATA
69878 ATAATAATAATAATAT
1 ATAATAATAATAATAT
69894 GATAATAATAATAATAAT
1 -ATAATAATAATAAT-AT
69912 ATAATAATAATAATA-
1 ATAATAATAATAATAT
69927 ATAATA
1 ATAATA
69933 TGGATAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.16
16 1 0.03
17 28 0.76
18 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
ATAATAATAATAATAT
Found at i:70503 original size:109 final size:112
Alignment explanation
Indices: 70245--70769 Score: 627
Period size: 109 Copynumber: 4.7 Consensus size: 112
70235 TAGAATTATG
* * *
70245 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAAATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTC-TATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
70310 TTATGAACTCTTC-CTGGCAATGTTGATCCATCAATGATGAATTCAAAC
65 TTATGAACT-TTCTCTGGCAATGTTGATCCATCAATGATGAATTCAAAC
*
70358 CAAAAAGTTGAACAAGTTCTTC-ATTATGAACTTCTTCTTCCTTCTTCAGAT-AGTTCTTCTCAT
1 CAAAAGGTTGAACAAGTTCTTCTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *** * * * *
70421 TATG-ACTTTCTCTGGAAAAAAT-AACCCTCCAGTGATGAATTCAGA-
66 TATGAACTTTCTCTGGCAATGTTGATCCAT-CAATGATGAATTCAAAC
* * *
70466 TAAAAGGTTGAACAAATTCTTCTCTTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCT
1 CAAAAGGTTGAACAAGTTCTTCTATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCT
70531 CATTATGAACTCTTC-CTGGCAATGTTGATCCATCAA--ATG-ATTC-AAC
63 CATTATGAACT-TTCTCTGGCAATGTTGATCCATCAATGATGAATTCAAAC
*
70577 CAAAAGG-TGAACAAGTT-TT-TCTTATTGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
1 CAAAAGGTTGAACAAGTTCTTCTATTA-TGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTC
70639 TCATTATGAAC--TCTACTGGCAATGTTGATCCATCAATGATGAATTCAAAC
62 TCATTATGAACTTTCT-CTGGCAATGTTGATCCATCAATGATGAATTCAAAC
* *
70689 CAAAAGGTTGAACAAATTCTTATTATTATGAAC-TCTTCTTCCTTCTTCAGATGAGTTTCTTCTC
1 CAAAAGGTTGAACAAGTTCTT-CTATTATGAACTTCTTCTTCCTTCTTCAGATGAG-TTCTTCTC
*
70753 ATTATGACCTTT-TCTGG
64 ATTATGAACTTTCTCTGG
70770 AAAAGCTAAT
Statistics
Matches: 357, Mismatches: 27, Indels: 57
0.81 0.06 0.13
Matches are distributed among these distances:
106 2 0.01
108 52 0.15
109 95 0.27
110 29 0.08
111 48 0.13
112 37 0.10
113 48 0.13
114 30 0.08
115 12 0.03
116 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (112 bp):
CAAAAGGTTGAACAAGTTCTTCTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGCAATGTTGATCCATCAATGATGAATTCAAAC
Found at i:70531 original size:223 final size:221
Alignment explanation
Indices: 70245--70759 Score: 667
Period size: 223 Copynumber: 2.3 Consensus size: 221
70235 TAGAATTATG
* * * *
70245 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAAAT--GAGTTCTTCT
1 CAAAAGGTTGAACAAATTCTTC-TATTATGAACTTCTTCTTCCTTCTTCAGATGAGAGTTCTTCT
*
70308 CATTATGAACTCTTCCTGGCAATGTTGATCCATCAATGATGAATTCAAACCAAAAAGTTGAACAA
65 CATTATGAACTCTTCCTGGCAATGTTGATCCATCAA--ATG-ATTC-AACC-AAAAGGTGAACAA
70373 GTTCTTCATTA-TGAACTTCTTCTTCCTTCTTC-A-GAT-AGTTCTTCTCATTATG-ACTTTCT-
125 GTTCTTC-TTATTGAACTTCTTCTTCCTTCTTCAATGATGAGTTCTTCTCATTATGAAC--TCTA
* * *
70432 CTGGAAAAAAT-AACCCTCCAGTGATGAATTCAGA-
187 CTGGAAAAAATGAACCAT-CAATGATGAATTCAAAC
* *
70466 TAAAAGGTTGAACAAATTCTTCTCTTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCT
1 CAAAAGGTTGAACAAATTCTTCTATTATGAACTTCTTCTTCCTTCTTCAGATGA-GAGTTCTTCT
*
70531 CATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATTCAACCAAAAGGTGAACAAGTTTT
65 CATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATTCAACCAAAAGGTGAACAAGTTCT
*
70596 TCTTATTGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCTACTGGCAA
130 TCTTATTGAACTTCTTCTTCCTTCTTCA-ATGATGAGTTCTTCTCATTATGAACTCTACTGGAAA
*** *
70661 TGTTGATCCATCAATGATGAATTCAAAC
194 AAATGAACCATCAATGATGAATTCAAAC
* *
70689 CAAAAGGTTGAACAAATTCTTATTATTATGAAC-TCTTCTTCCTTCTTCAGATGAG-TTTCTTCT
1 CAAAAGGTTGAACAAATTCTT-CTATTATGAACTTCTTCTTCCTTCTTCAGATGAGAGTTCTTCT
70752 CATTATGA
65 CATTATGA
70760 CCTTTTCTGG
Statistics
Matches: 261, Mismatches: 20, Indels: 26
0.85 0.07 0.08
Matches are distributed among these distances:
217 3 0.01
218 39 0.15
219 4 0.02
220 32 0.12
221 43 0.16
222 38 0.15
223 93 0.36
224 9 0.03
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (221 bp):
CAAAAGGTTGAACAAATTCTTCTATTATGAACTTCTTCTTCCTTCTTCAGATGAGAGTTCTTCTC
ATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATTCAACCAAAAGGTGAACAAGTTCTT
CTTATTGAACTTCTTCTTCCTTCTTCAATGATGAGTTCTTCTCATTATGAACTCTACTGGAAAAA
ATGAACCATCAATGATGAATTCAAAC
Found at i:71525 original size:84 final size:84
Alignment explanation
Indices: 71343--71735 Score: 657
Period size: 84 Copynumber: 4.7 Consensus size: 84
71333 GTAATTCCTA
* * *
71343 CCAACCCAGATCAGATAACTTAAAGAACACTTCCAGAAGATGCTAGTG-GCAAATTCA-TCTTCC
1 CCAA-CCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT-ATTCTTCC
71406 AAATTCAATGATTGGTTCTG-
64 AAATTCAATGATTGGTTCTGT
*
71426 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAACACATTATTCTTCCA
1 CC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCA
71491 AATTCAATGATTGGTTCTGT
65 AATTCAATGATTGGTTCTGT
* * * *
71511 CCAACCAGATCAGATAACTCAAAGAACACTTCTAAAAGATGCTATTGAACATATTATTCTTCCAA
1 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAA
71576 ATTCAATGATTGGTTCTGT
66 ATTCAATGATTGGTTCTGT
71595 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAA
1 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAA
71660 ATTCAATGATTGGTTCTGT
66 ATTCAATGATTGGTTCTGT
*
71679 CCAACCAGATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTAT
1 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTAT
71736 ATTTGTTCCA
Statistics
Matches: 294, Mismatches: 12, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
83 44 0.15
84 248 0.84
85 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (84 bp):
CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAA
ATTCAATGATTGGTTCTGT
Found at i:72877 original size:1 final size:1
Alignment explanation
Indices: 72873--72945 Score: 65
Period size: 1 Copynumber: 73.0 Consensus size: 1
72863 CTTGCCCCCC
* * * * * * * **
72873 TTTTTCTTTTTTTTTCTTTCTTTTTTTTTTCTTTTTTTTTCTTTCTTTTTTTTTTCTTTTTTTCA
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
72938 TTTTTTTT
1 TTTTTTTT
72946 CTTCAAGCAT
Statistics
Matches: 55, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.01, C:0.11, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:72888 original size:10 final size:10
Alignment explanation
Indices: 72873--72948 Score: 86
Period size: 10 Copynumber: 7.8 Consensus size: 10
72863 CTTGCCCCCC
72873 TTTTTCTTTT
1 TTTTTCTTTT
72883 TTTTTCTTTCT
1 TTTTTCTTT-T
72894 TTTTT-TTTT
1 TTTTTCTTTT
*
72903 CTTTT-TTTT
1 TTTTTCTTTT
*
72912 TCTTTCTTTT
1 TTTTTCTTTT
*
72922 TTTTT-TCTT
1 TTTTTCTTTT
*
72931 TTTTTCATTT
1 TTTTTCTTTT
72941 TTTTTCTT
1 TTTTTCTT
72949 CAAGCATAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
9 20 0.36
10 29 0.53
11 6 0.11
ACGTcount: A:0.01, C:0.12, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:72894 original size:14 final size:14
Alignment explanation
Indices: 72875--72948 Score: 87
Period size: 15 Copynumber: 5.1 Consensus size: 14
72865 TGCCCCCCTT
72875 TTTCTTTTTTTTTC
1 TTTCTTTTTTTTTC
72889 TTTCTTTTTTTTTTC
1 TTTC-TTTTTTTTTC
72904 TTT-TTTTTTCTTTC
1 TTTCTTTTTT-TTTC
* *
72918 TTTTTTTTTTCTTTT
1 TTTCTTTTTT-TTTC
*
72933 TTTCATTTTTTTTC
1 TTTCTTTTTTTTTC
72947 TT
1 TT
72949 CAAGCATAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
13 6 0.11
14 16 0.30
15 31 0.58
ACGTcount: A:0.01, C:0.12, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTCTTTTTTTTTC
Found at i:72901 original size:25 final size:25
Alignment explanation
Indices: 72873--72935 Score: 126
Period size: 25 Copynumber: 2.5 Consensus size: 25
72863 CTTGCCCCCC
72873 TTTTTCTTTTTTTTTCTTTCTTTTT
1 TTTTTCTTTTTTTTTCTTTCTTTTT
72898 TTTTTCTTTTTTTTTCTTTCTTTTT
1 TTTTTCTTTTTTTTTCTTTCTTTTT
72923 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
72936 CATTTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (25 bp):
TTTTTCTTTTTTTTTCTTTCTTTTT
Found at i:83530 original size:22 final size:22
Alignment explanation
Indices: 83505--83546 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
83495 AAATATTATA
*
83505 AAAATAAATAATAAAAAATTTG
1 AAAAGAAATAATAAAAAATTTG
*
83527 AAAAGAAATAATTAAAAATT
1 AAAAGAAATAATAAAAAATT
83547 AAATATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAAGAAATAATAAAAAATTTG
Found at i:85157 original size:25 final size:25
Alignment explanation
Indices: 85129--85192 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
85119 TTTTTTTTTT
85129 TCTCTATTTTTTTTTCTCGGT-TCTG
1 TCTCT-TTTTTTTTTCTCGGTCTCTG
* * *
85154 TCTCTCTCTTTTTTCTCTGTCTCTG
1 TCTCTTTTTTTTTTCTCGGTCTCTG
*
85179 TGTCTTTTTTTTTT
1 TCTCTTTTTTTTTT
85193 TTTTCAGGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 12 0.38
25 20 0.62
ACGTcount: A:0.02, C:0.22, G:0.09, T:0.67
Consensus pattern (25 bp):
TCTCTTTTTTTTTTCTCGGTCTCTG
Found at i:85189 original size:24 final size:23
Alignment explanation
Indices: 85135--85191 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
85125 TTTTTCTCTA
85135 TTTTTTTTTCTCGGTTCTGTCTC
1 TTTTTTTTTCTCGGTTCTGTCTC
* * *
85158 TCTCTTTTTTCTCTGTCTCTGTGTC
1 T-TTTTTTTTCTCGGT-TCTGTCTC
85183 TTTTTTTTT
1 TTTTTTTTT
85192 TTTTTCAGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 1 0.04
24 19 0.68
25 8 0.29
ACGTcount: A:0.00, C:0.21, G:0.11, T:0.68
Consensus pattern (23 bp):
TTTTTTTTTCTCGGTTCTGTCTC
Found at i:85645 original size:11 final size:11
Alignment explanation
Indices: 85629--85653 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
85619 TTAATTTATT
85629 ATATATATTTA
1 ATATATATTTA
85640 ATATATATTTA
1 ATATATATTTA
85651 ATA
1 ATA
85654 ATAAATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATATATATTTA
Found at i:85657 original size:3 final size:3
Alignment explanation
Indices: 85649--85696 Score: 78
Period size: 3 Copynumber: 15.7 Consensus size: 3
85639 AATATATATT
*
85649 TAA TAA TAAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
85695 TA
1 TA
85697 TGGATAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:87647 original size:14 final size:14
Alignment explanation
Indices: 87628--87656 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
87618 TTAATTCTTT
87628 TGATTTATGACAAG
1 TGATTTATGACAAG
87642 TGATTTATGACAAG
1 TGATTTATGACAAG
87656 T
1 T
87657 ACCGATTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (14 bp):
TGATTTATGACAAG
Found at i:92332 original size:11 final size:11
Alignment explanation
Indices: 92318--92403 Score: 57
Period size: 12 Copynumber: 7.4 Consensus size: 11
92308 GAAAAAATGT
*
92318 AAAAAAGAGAG
1 AAAAAAGAAAG
92329 AAAAAAGAAAG
1 AAAAAAGAAAG
* *
92340 AAGAGATGAAAG
1 AA-AAAAGAAAG
*
92352 AAAGCAAAAAAAG
1 AAA--AAAGAAAG
*
92365 AGAAAAGAAAG
1 AAAAAAGAAAG
*
92376 TGAAAAAGAAA-
1 -AAAAAAGAAAG
92387 AAAATGAAGAAAG
1 AAAA--AAGAAAG
92400 AAAA
1 AAAA
92404 CATATCATAT
Statistics
Matches: 57, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
10 3 0.05
11 20 0.35
12 23 0.40
13 11 0.19
ACGTcount: A:0.73, C:0.01, G:0.22, T:0.03
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:92332 original size:20 final size:19
Alignment explanation
Indices: 92307--92384 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 19
92297 TATAGCAAAA
92307 AGAAAAAATGTAAAAAAGAG
1 AGAAAAAA-GTAAAAAAGAG
*
92327 AGAAAAAAG-AAAGAAGAG
1 AGAAAAAAGTAAAAAAGAG
*
92345 ATGAAAGAAAGCAAAAAA-AG
1 A-GAAA-AAAGTAAAAAAGAG
*
92365 AGAAAAGAAAGTGAAAAAGA
1 AG-AAA-AAAGTAAAAAAGA
92385 AAAAAATGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
18 9 0.18
19 6 0.12
20 28 0.57
21 6 0.12
ACGTcount: A:0.71, C:0.01, G:0.23, T:0.05
Consensus pattern (19 bp):
AGAAAAAAGTAAAAAAGAG
Found at i:92401 original size:16 final size:17
Alignment explanation
Indices: 92360--92403 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
92350 AGAAAGCAAA
92360 AAAAGAGAAAAGAAAGTG
1 AAAA-AGAAAAGAAAGTG
92378 AAAAAGAAAA-AAA-TG
1 AAAAAGAAAAGAAAGTG
92393 AAGAAAGAAAA
1 AA-AAAGAAAA
92404 CATATCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.16
16 11 0.44
17 6 0.24
18 4 0.16
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (17 bp):
AAAAAGAAAAGAAAGTG
Found at i:93197 original size:304 final size:303
Alignment explanation
Indices: 92611--93219 Score: 1209
Period size: 304 Copynumber: 2.0 Consensus size: 303
92601 TGTAAGAAGA
92611 TTCAAATGTGACAAAGTAAGATTAAAGATGTTAGCCCAAGTTGATCCTTGGTTTGGTCACCCTTA
1 TTCAAATGTGACAAAGTAAGATTAAAGATGTTAGCCCAAGTTGATCCTTGGTTTGGTCACCCTTA
92676 AACACTTGTTTGGGCCTATTTATCAATTTTTTCATAACCATGAGCCCTAACCTACATTACGTCCC
66 AACACTTGTTTGGGCCTATTTATCAATTTTTTCATAACCATGAGCCCTAACCTACATTACGTCCC
92741 CGAAAAGTCACTCTAATCAATCATGGATTTCTAAGTGGAGATATTATCTTTAGATTTCATCCCGC
131 CGAAAAGTCACTCTAATCAATCATGGATTTCTAAGTGGAGATATTATCTTTAGATTTCATCCCGC
92806 CCCTCAGGGTTAATTTTATTTACAGAAAAAAGTTTTCTAAAATCTTTAATACATGATAGGGAAAA
196 CCCTCAGGGTTAATTTTATTTACAGAAAAAAGTTTTCTAAAATCTTTAATACATGATAGGGAAAA
92871 ATAACAAAATGAGGGTTCAAGACGTAAAATTTTAGATGACATC
261 ATAACAAAATGAGGGTTCAAGACGTAAAATTTTAGATGACATC
92914 TTCAAATGTGACAAAGTAAGATTAAAGATGTTAGCCCAAGTTGATCCTTGGTTTGGTCACCCTTA
1 TTCAAATGTGACAAAGTAAGATTAAAGATGTTAGCCCAAGTTGATCCTTGGTTTGGTCACCCTTA
92979 AACACTTGTTTGGGCCTATTTATCAATTTTTTCATAACCATGAGCCCTAACCTACATTACGTCCC
66 AACACTTGTTTGGGCCTATTTATCAATTTTTTCATAACCATGAGCCCTAACCTACATTACGTCCC
93044 CGAAAAGTCACTTCTAATCAATCATGGATTTCTAAGTGGAGATATTATCTTTAGATTTCATCCCG
131 CGAAAAGTCAC-TCTAATCAATCATGGATTTCTAAGTGGAGATATTATCTTTAGATTTCATCCCG
93109 CCCCTCAGGGTTAATTTTATTTACAGAAAAAAGTTTTCTAAAATCTTTAATACATGATAGGGAAA
195 CCCCTCAGGGTTAATTTTATTTACAGAAAAAAGTTTTCTAAAATCTTTAATACATGATAGGGAAA
93174 AATAACAAAATGAGGGTTCAAGACGTAAAATTTTAGATGACATC
260 AATAACAAAATGAGGGTTCAAGACGTAAAATTTTAGATGACATC
93218 TT
1 TT
93220 AAAACCAAAG
Statistics
Matches: 305, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
303 141 0.46
304 164 0.54
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (303 bp):
TTCAAATGTGACAAAGTAAGATTAAAGATGTTAGCCCAAGTTGATCCTTGGTTTGGTCACCCTTA
AACACTTGTTTGGGCCTATTTATCAATTTTTTCATAACCATGAGCCCTAACCTACATTACGTCCC
CGAAAAGTCACTCTAATCAATCATGGATTTCTAAGTGGAGATATTATCTTTAGATTTCATCCCGC
CCCTCAGGGTTAATTTTATTTACAGAAAAAAGTTTTCTAAAATCTTTAATACATGATAGGGAAAA
ATAACAAAATGAGGGTTCAAGACGTAAAATTTTAGATGACATC
Found at i:94838 original size:54 final size:54
Alignment explanation
Indices: 94769--95209 Score: 514
Period size: 54 Copynumber: 8.1 Consensus size: 54
94759 CTAAACAATA
94769 TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
1 TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* * * *
94823 TGATATTTTCAAATGAATTTTTAAAGGAGCTAAGCCTAATTTTTAGGGGTTTTT
1 TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* * *
94877 TTATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTAACTTTTAGGAGTTTCT
1 TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
*
94931 TGATGTTTTCAAATAAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
1 TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* * * *
94985 TGATGTCTTT-AAATGAATGTTT-AAAGAATCTAAGCATGATTTTTAGGGGTTTAT
1 TGATGT-TTTCAAATGAAT-TTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* * * **
95039 TGATGTTTTCAAATGATTTTTTTTAAAGGAGCTAAGCC-CGTTTTTAGGGGTTTCT
1 TGATGTTTTCAAATGA--ATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* * * *
95094 TCATGTTTACAAATGGA-TTTGAAAAGAAGCCAAGCCTAATTTTTAGGGGTTTCT
1 TGATGTTTTCAAATGAATTTTG-AAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* * * * * * *
95148 TGATGATAACTGT-AAATGGATTTTTAAAGAAGCTAAGCCTGATTTTCATGAGTTTCT
1 TGATG-T---TTTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
95205 TGATG
1 TGATG
95210 ATAATTGTAA
Statistics
Matches: 329, Mismatches: 45, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
52 3 0.01
53 15 0.05
54 219 0.67
55 37 0.11
56 12 0.04
57 39 0.12
58 4 0.01
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.41
Consensus pattern (54 bp):
TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
Found at i:95262 original size:58 final size:57
Alignment explanation
Indices: 95104--95228 Score: 144
Period size: 57 Copynumber: 2.2 Consensus size: 57
95094 TCATGTTTAC
** * * * ***
95104 AAATGGATTTGAAAAGAAGCCAAGCCTAATTTTTAGGGGTTTCTTGATGATAACTGT
1 AAATGGATTTTTAAAGAAGCTAAGCCTGATTTTCAAAAGTTTCTTGATGATAACTGT
** *
95161 AAATGGATTTTTAAAGAAGCTAAGCCTGATTTTCATGAGTTTCTTGATGATAATTGT
1 AAATGGATTTTTAAAGAAGCTAAGCCTGATTTTCAAAAGTTTCTTGATGATAACTGT
95218 AAAT-GATTTTT
1 AAATGGATTTTT
95229 TTTAAGAAGA
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
56 7 0.12
57 53 0.88
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (57 bp):
AAATGGATTTTTAAAGAAGCTAAGCCTGATTTTCAAAAGTTTCTTGATGATAACTGT
Found at i:95971 original size:18 final size:18
Alignment explanation
Indices: 95950--95987 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
95940 CTAGAAAGAG
*
95950 AATGAGGACTACTCTTGC
1 AATGAAGACTACTCTTGC
*
95968 AATGAAGACTGCTCTTGC
1 AATGAAGACTACTCTTGC
95986 AA
1 AA
95988 CCATTCCCAA
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:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (18 bp):
AATGAAGACTACTCTTGC
Found at i:97078 original size:281 final size:281
Alignment explanation
Indices: 96602--97302 Score: 888
Period size: 281 Copynumber: 2.5 Consensus size: 281
96592 ATTCCATCGT
* * * * * *
96602 ATAAAGAGTTGGAACAAC-CCTAACCTTAGCTCATCTATCACATAAATAGTTGGATCATCATCAT
1 ATAACGAGTTGAAACAACACC-GACCTTGGCTCATCCATCACATAAAAAGTTGGATCATCATCAT
* * * * * *
96666 CACTTTGTTTGAATCTATCACAGAAA-AAGGTGGATCAATATTTTCAATGAAGAAGTTCCTAATG
65 CACTTTG-TT-CATCCATCACA-AAAGGAGGTGGATCAACATTTCCAATGAAGAAGTTCTTAATG
* ** * * *
96730 AGAAGAACTTGTTCAACATTTCGTTCGATTCCATCACAGAATGATGTGGATCAAAACATCTAATG
127 AGAAGAACTTATTCAACATTTCACTCGATTCCATCACACAAGGATGTGGATCAAAACATCCAATG
* * * *
96795 GAAAGGTCCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAATTTATAACGAGAAGAACTTG
192 GAAAGGTCCATAATAAGAAGAACTAATCCAATGAGGGAGAAGAAATTCATAACGAGAAGAACTTG
* * *
96860 TTCAGCCTTAGCTCGATTCCATCAA
257 TTCAACATTAGCTCGATTCAATCAA
* * * * *** *
96885 ATAACGAGTTGAAATAGCATCGACCTTGGCTCATCCATCATATAAGGGGTTGGATCAACATCATC
1 ATAACGAGTTGAAACAACACCGACCTTGGCTCATCCATCACATAAAAAGTTGGATCATCATCATC
96950 ACTTTGTTCATCCATCACAAAAGGAGGTGGATCAACATTTCCAATGAAGAAGTTCTTAATGAGAA
66 ACTTTGTTCATCCATCACAAAAGGAGGTGGATCAACATTTCCAATGAAGAAGTTCTTAATGAGAA
* *
97015 GAACTTATTCAACATTTCACTCGATTCTATCACACAAGGA-GATGGATCAACACATCCAATGGAA
131 GAACTTATTCAACATTTCACTCGATTCCATCACACAAGGATG-TGGATCAAAACATCCAATGGAA
* * * *
97079 GGGTCCTTAATAAGAAGAACTAATCCAATGAGGGAGAAGATATTCATAATGAGAAGAACTTGTTC
195 AGGTCCATAATAAGAAGAACTAATCCAATGAGGGAGAAGAAATTCATAACGAGAAGAACTTGTTC
* * * *
97144 AATATTTGCTCGATTCAATTAC
260 AACATTAGCTCGATTCAATCAA
* * * *
97166 ATAAGGAGTTGGAACAACACCGACCTTGGCTCATCCATCGCATAAAAAGTTGGACCATCATCATC
1 ATAACGAGTTGAAACAACACCGACCTTGGCTCATCCATCACATAAAAAGTTGGATCATCATCATC
*
97231 ACTTTGTTCATCCATCACAGAAGGAGGTGGATCAACATTTCCAATGAAGAAGTT-TCTAATGAGA
66 ACTTTGTTCATCCATCACAAAAGGAGGTGGATCAACATTTCCAATGAAGAAGTTCT-TAATGAGA
97295 AGAACTTA
130 AGAACTTA
97303 ATGTGAACCG
Statistics
Matches: 359, Mismatches: 55, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
280 5 0.01
281 295 0.82
282 2 0.01
283 56 0.16
284 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (281 bp):
ATAACGAGTTGAAACAACACCGACCTTGGCTCATCCATCACATAAAAAGTTGGATCATCATCATC
ACTTTGTTCATCCATCACAAAAGGAGGTGGATCAACATTTCCAATGAAGAAGTTCTTAATGAGAA
GAACTTATTCAACATTTCACTCGATTCCATCACACAAGGATGTGGATCAAAACATCCAATGGAAA
GGTCCATAATAAGAAGAACTAATCCAATGAGGGAGAAGAAATTCATAACGAGAAGAACTTGTTCA
ACATTAGCTCGATTCAATCAA
Found at i:110168 original size:20 final size:20
Alignment explanation
Indices: 110143--110196 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
110133 GACCAACAAA
110143 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
* *
110163 TTCGCAAC-CCAGTTTCCAAT
1 TTCGCAACGCGA-ATTCCAAT
110183 TTCGCAACGCGAAT
1 TTCGCAACGCGAAT
110197 ATGTAAATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:110233 original size:21 final size:21
Alignment explanation
Indices: 110204--110270 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
110194 AATATGTAAA
*
110204 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATATTCCAAAT
*
110225 TCGCGTTGCGATATTCCAAAT
1 TCGCATTGCGATATTCCAAAT
* *
110246 TCGCAATGCGATAGT-CAAAT
1 TCGCATTGCGATATTCCAAAT
110266 TCGCA
1 TCGCA
110271 ACGCGAAAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
20 10 0.24
21 31 0.76
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (21 bp):
TCGCATTGCGATATTCCAAAT
Found at i:110266 original size:20 final size:20
Alignment explanation
Indices: 110220--110285 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
110210 TGCGATTTTC
** *
110220 CAAATTCGCGTTGCGATATT
1 CAAATTCGCAATGCGATAGT
110240 CCAAATTCGCAATGCGATAGT
1 -CAAATTCGCAATGCGATAGT
* *
110261 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAATGCGATAGT
110281 CAAAT
1 CAAAT
110286 GTTTTTACGC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
20 23 0.57
21 17 0.43
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (20 bp):
CAAATTCGCAATGCGATAGT
Found at i:110438 original size:22 final size:22
Alignment explanation
Indices: 110413--110463 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
110403 CTACGGCAGC
110413 ATCCGTCCCCATCTCCGACAAA
1 ATCCGTCCCCATCTCCGACAAA
* *
110435 ATCCGTCCCCATGTCCGACGAA
1 ATCCGTCCCCATCTCCGACAAA
110457 ATCCGTC
1 ATCCGTC
110464 TATCTCCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.43, G:0.14, T:0.20
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACAAA
Found at i:110749 original size:20 final size:20
Alignment explanation
Indices: 110724--110776 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
110714 AACACCAAAT
110724 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
110744 TCGCAACACGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
110764 TCGCAACGCGAAA
1 TCGCAACGCGAAA
110777 CTAAAACCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.49, C:0.23, G:0.19, T:0.09
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:110824 original size:20 final size:20
Alignment explanation
Indices: 110784--110824 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
110774 AAACTAAAAC
* *
110784 CGCGTTGCGAATTTTATTTT
1 CGCGTTGCGAATTTAAGTTT
110804 CGCGTTGCGAATTTAAGTTT
1 CGCGTTGCGAATTTAAGTTT
110824 C
1 C
110825 AGAAACTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (20 bp):
CGCGTTGCGAATTTAAGTTT
Found at i:112608 original size:21 final size:21
Alignment explanation
Indices: 112584--112633 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
112574 TGGTACATGG
112584 CGTGATGAGGTTCGA-TCTTTA
1 CGTGATGAGG-TCGATTCTTTA
* * *
112605 CGTGGTGAGGTGGATTTTTTA
1 CGTGATGAGGTCGATTCTTTA
112626 CGTGATGA
1 CGTGATGA
112634 CAATGGTGCG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.18, C:0.10, G:0.34, T:0.38
Consensus pattern (21 bp):
CGTGATGAGGTCGATTCTTTA
Found at i:112736 original size:21 final size:21
Alignment explanation
Indices: 112710--112762 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
112700 TTTATTGTTG
112710 CATAATGAGGTTAATACTCTA
1 CATAATGAGGTTAATACTCTA
112731 CATAATGAGGTTAATACTCTA
1 CATAATGAGGTTAATACTCTA
*
112752 CACAATGAGGT
1 CATAATGAGGT
112763 AAATTTGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
CATAATGAGGTTAATACTCTA
Found at i:112819 original size:4 final size:4
Alignment explanation
Indices: 112810--112851 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
112800 TTTTTTGGCA
* * *
112810 TTAT TTAT TTAT TTAT TTAC TTAT TTAT ATAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
112852 TCAGCGGCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:113086 original size:21 final size:21
Alignment explanation
Indices: 113018--113086 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
113008 GGTGCCTCCT
113018 ATCGTTCAAGAGGCCCCTATC
1 ATCGTTCAAGAGGCCCCTATC
* * **
113039 ATC-ATCGAAGAAGCCCCTCCC
1 ATCGTTC-AAGAGGCCCCTATC
* * *
113060 ACCGTTCAAGAGGCCACTGTC
1 ATCGTTCAAGAGGCCCCTATC
113081 ATCGTT
1 ATCGTT
113087 TAAGTGGTCC
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
20 2 0.06
21 31 0.89
22 2 0.06
ACGTcount: A:0.25, C:0.35, G:0.19, T:0.22
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCCTATC
Found at i:114533 original size:61 final size:64
Alignment explanation
Indices: 114464--114604 Score: 173
Period size: 66 Copynumber: 2.2 Consensus size: 64
114454 TTTTACATTG
114464 AAAGTTGATTTGTTACAATTGATGAGGAAATAAG-A-T-TTATTTT-TTGATTAATTGATTTGTA
1 AAAGTTGATTTGTTA-AATTGATGAGGAAATAAGAATTATTATTTTCTTGATTAATTGATTTGTA
* ** * * *
114525 AAAGTTGATTTGTTTAATTTGATTTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGT
1 AAAGTTGATTTG-TTAAATTGATGAGGAAATAAGAATTATTATTTT-CTTGATTAATTGATTTGT
114590 A
64 A
114591 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
114605 GTTTCTAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
61 26 0.38
62 4 0.06
63 1 0.01
64 6 0.09
65 2 0.03
66 29 0.43
ACGTcount: A:0.31, C:0.01, G:0.17, T:0.50
Consensus pattern (64 bp):
AAAGTTGATTTGTTAAATTGATGAGGAAATAAGAATTATTATTTTCTTGATTAATTGATTTGTA
Found at i:114534 original size:14 final size:14
Alignment explanation
Indices: 114515--114554 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
114505 TTTTGATTAA
114515 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
** *
114529 TTGATTTGTTTAAT
1 TTGATTTGTAAAAG
114543 TTGATTTGTAAA
1 TTGATTTGTAAA
114555 TAAGAATTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:114733 original size:20 final size:20
Alignment explanation
Indices: 114708--114746 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
114698 GATTATCGGT
*
114708 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTTGACTATCGCG
114728 TTGCGAATTTGACTATCGC
1 TTGCGAATTTGACTATCGC
114747 AACGCTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (20 bp):
TTGCGAATTTGACTATCGCG
Found at i:115013 original size:39 final size:39
Alignment explanation
Indices: 114959--115045 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
114949 TCAAGTTGTA
114959 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
* *
114998 GATTTTGATTTCCTTTTGCTTGGCAGCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
115037 GATTTTGAT
1 GATTTTGAT
115046 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.22, T:0.47
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:115335 original size:19 final size:19
Alignment explanation
Indices: 115313--115350 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
115303 CGAAATTTAT
115313 ATTGAAATTCAAAATCAAA
1 ATTGAAATTCAAAATCAAA
* *
115332 ATTGAAATTTAAATTCAAA
1 ATTGAAATTCAAAATCAAA
115351 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.32
Consensus pattern (19 bp):
ATTGAAATTCAAAATCAAA
Found at i:115771 original size:25 final size:25
Alignment explanation
Indices: 115737--115786 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
115727 ATTATTTTTC
115737 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
*
115762 CAAATAATGTACCCACAATAATGTT
1 CAAATAATGTACCCACAACAATGTT
115787 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:115783 original size:14 final size:14
Alignment explanation
Indices: 115739--115785 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
115729 TATTTTTCCA
115739 AATAATGTACCCAC
1 AATAATGTACCCAC
* *
115753 AACAATGT--TCA-
1 AATAATGTACCCAC
115764 AATAATGTACCCAC
1 AATAATGTACCCAC
115778 AATAATGT
1 AATAATGT
115786 TTAATTGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
11 7 0.27
12 2 0.08
13 2 0.08
14 15 0.58
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.26
Consensus pattern (14 bp):
AATAATGTACCCAC
Found at i:115905 original size:20 final size:20
Alignment explanation
Indices: 115882--115938 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
115872 GCGTTGTGAT
*
115882 AGTCAAATTTGCAACGCGAA
1 AGTCAAATTCGCAACGCGAA
* * * *
115902 AGTCAAATTCACTACACGAT
1 AGTCAAATTCGCAACGCGAA
115922 AGTCAAATTCGCAACGC
1 AGTCAAATTCGCAACGC
115939 TTATTTCGCG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.21
Consensus pattern (20 bp):
AGTCAAATTCGCAACGCGAA
Found at i:116278 original size:18 final size:18
Alignment explanation
Indices: 116255--116290 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
116245 AAGCCGGTTG
116255 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
116273 TGATTGTGATTTTGATTT
1 TGATTGAGATTTTGATTT
116291 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.58
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:118579 original size:24 final size:24
Alignment explanation
Indices: 118552--118605 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
118542 CCATCACATC
** *
118552 ATCAAAATTTGAGTATTGATCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
118576 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
118600 ATCAAA
1 ATCAAA
118606 TTTCGAATAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:118752 original size:12 final size:12
Alignment explanation
Indices: 118731--118764 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
118721 GGTTGTGGGT
*
118731 TTTGAGATTGTG
1 TTTGATATTGTG
118743 TTTGATATTGTG
1 TTTGATATTGTG
*
118755 TTTGGTATTG
1 TTTGATATTG
118765 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:119353 original size:16 final size:16
Alignment explanation
Indices: 119316--119354 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
119306 AGAAATCATT
*
119316 AAAAAATTATATATAA
1 AAAAAATTATATAAAA
* *
119332 ATAAAATTATGTAAAA
1 AAAAAATTATATAAAA
119348 AAAAAAT
1 AAAAAAT
119355 AGAGATGGGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (16 bp):
AAAAAATTATATAAAA
Found at i:119640 original size:19 final size:19
Alignment explanation
Indices: 119511--119640 Score: 102
Period size: 19 Copynumber: 6.6 Consensus size: 19
119501 ACTAAAACCT
* *
119511 GTTGCGAAATTAAATTCGC
1 GTTGCGAATTTGAATTCGC
*
119530 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTG-AATTCGC
* *
119549 GTTGTGAATTTGACTATCGC
1 GTTGCGAATTTGAAT-TCGC
*
119569 GTTGCGAATTTGGAAAATCGC
1 GTTGCGAATTT-G-AATTCGC
** *
119590 AATGCG-ATTTACATATTCGC
1 GTTGCGAATTT-GA-ATTCGC
*
119610 GTTGCGAATTTGAATTCGT
1 GTTGCGAATTTGAATTCGC
119629 GTTGCGAATTTG
1 GTTGCGAATTTG
119641 TTGGTCATTT
Statistics
Matches: 86, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
18 2 0.02
19 41 0.48
20 29 0.34
21 13 0.15
22 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (19 bp):
GTTGCGAATTTGAATTCGC
Found at i:119814 original size:15 final size:16
Alignment explanation
Indices: 119796--119825 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
119786 ATTAATTATG
119796 ATATAA-TTATAATAA
1 ATATAATTTATAATAA
119811 ATATAATTTATAATA
1 ATATAATTTATAATA
119826 TTTTATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATAATTTATAATAA
Found at i:122623 original size:25 final size:26
Alignment explanation
Indices: 122594--122652 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
122584 GGTTCATAGC
*
122594 ATGAAA-TTCTTCT-TCTTCTTATTTT
1 ATGAAACTT-TTCTGTCGTCTTATTTT
* *
122619 TTGAAACTTTTCTGTCGTGTTATTTT
1 ATGAAACTTTTCTGTCGTCTTATTTT
122645 ATGAAACT
1 ATGAAACT
122653 AATTTTTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.54
Consensus pattern (26 bp):
ATGAAACTTTTCTGTCGTCTTATTTT
Found at i:127133 original size:85 final size:85
Alignment explanation
Indices: 127044--127257 Score: 279
Period size: 85 Copynumber: 2.5 Consensus size: 85
127034 AATGGCGTGT
* * * *
127044 GCTTCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACGCAAATGTATGT
1 GCTTCAATGACGCTCAATGTAAGTCATACATGCGAGTCATAAATTTATGACACACAAATGTATGT
*
127109 CAAGTAGATTTATGACGGGG
66 CAACTAGATTTATGACGGGG
* * * *
127129 GCTTCAATGACGTTCAATGTAAGTCATACATGCGAGTTATAAATTTATGACACATAAATGTGTGT
1 GCTTCAATGACGCTCAATGTAAGTCATACATGCGAGTCATAAATTTATGACACACAAATGTATGT
* **
127194 CATCTTTATTTATGACGGGG
66 CAACTAGATTTATGACGGGG
*
127214 GCTTCAATGACGCTCAATG-AACGTCATAAATGC-ACGTCATAAAT
1 GCTTCAATGACGCTCAATGTAA-GTCATACATGCGA-GTCATAAAT
127258 GCGCGTCATA
Statistics
Matches: 112, Mismatches: 15, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
84 3 0.03
85 109 0.97
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (85 bp):
GCTTCAATGACGCTCAATGTAAGTCATACATGCGAGTCATAAATTTATGACACACAAATGTATGT
CAACTAGATTTATGACGGGG
Found at i:127250 original size:13 final size:13
Alignment explanation
Indices: 127229--127267 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
127219 AATGACGCTC
*
127229 AATGAACGTCATA
1 AATGCACGTCATA
127242 AATGCACGTCATA
1 AATGCACGTCATA
*
127255 AATGCGCGTCATA
1 AATGCACGTCATA
127268 GATTTATGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (13 bp):
AATGCACGTCATA
Found at i:127509 original size:13 final size:14
Alignment explanation
Indices: 127491--127522 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
127481 GTTGTTAGTA
127491 TTTCTTTATTTT-T
1 TTTCTTTATTTTCT
127504 TTTCTTTATTTTCT
1 TTTCTTTATTTTCT
127518 TTTCT
1 TTTCT
127523 CGTTTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTCTTTATTTTCT
Found at i:133864 original size:60 final size:59
Alignment explanation
Indices: 133734--133865 Score: 158
Period size: 60 Copynumber: 2.2 Consensus size: 59
133724 TTTTTAAATG
* * *
133734 ATCCTTAAACTACAACTATCGTTCTAAATTATTCTTCAAACTTTTGAACATTTCAATTCC
1 ATCC-TAAACTACAACTATCGTTCTAAATTAATCCTCAAACTTTTGAACATTCCAATTCC
* * * *
133794 ACCCCCAAACTACAAC-ATTCGTTCTAAATTAATCCTCAAACTTTTTGAACATTCCGATTTC
1 A-TCCTAAACTACAACTA-TCGTTCTAAATTAATCCTCAAAC-TTTTGAACATTCCAATTCC
133855 ATCCTAAACTA
1 ATCCTAAACTA
133866 TATGTATATA
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
59 1 0.02
60 40 0.67
61 19 0.32
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.36
Consensus pattern (59 bp):
ATCCTAAACTACAACTATCGTTCTAAATTAATCCTCAAACTTTTGAACATTCCAATTCC
Found at i:141448 original size:32 final size:32
Alignment explanation
Indices: 141402--141480 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 32
141392 TATGTGTAAC
* * * *
141402 GTCA-CTAATGTGATGGTATGTCATGTGTCAT
1 GTCACCTAAAGTGATGGTATATCAAGTATCAT
* * * *
141433 GTTACTTAAAGTGATGTTATATCAAGTATTAT
1 GTCACCTAAAGTGATGGTATATCAAGTATCAT
141465 GTCACCTAAAGTGATG
1 GTCACCTAAAGTGATG
141481 ATGTTGCACA
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
31 3 0.08
32 34 0.92
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (32 bp):
GTCACCTAAAGTGATGGTATATCAAGTATCAT
Found at i:142116 original size:22 final size:22
Alignment explanation
Indices: 142038--142117 Score: 99
Period size: 21 Copynumber: 3.6 Consensus size: 22
142028 TAAACCCCAG
*
142038 ACCAGATTTTTTCCCGGATAAAAA
1 ACCAG-TTTTTTTCCGGAT-AAAA
**
142062 ACCAGTTTTTTTTTGGATAAAA
1 ACCAGTTTTTTTCCGGATAAAA
142084 ACCAG-TTTTTTCCGGATAAAA
1 ACCAGTTTTTTTCCGGATAAAA
*
142105 ATCAGTTTTTTTC
1 ACCAGTTTTTTTC
142118 AAACCGGTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
21 18 0.37
22 16 0.33
23 10 0.20
24 5 0.10
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.40
Consensus pattern (22 bp):
ACCAGTTTTTTTCCGGATAAAA
Found at i:145246 original size:169 final size:169
Alignment explanation
Indices: 144967--145300 Score: 668
Period size: 169 Copynumber: 2.0 Consensus size: 169
144957 AATACCAAAT
144967 AAATAGAATAGCTTGATAATTCTCACTATGGCAACCTAACATAATAGAATGCCACGACATCTCCT
1 AAATAGAATAGCTTGATAATTCTCACTATGGCAACCTAACATAATAGAATGCCACGACATCTCCT
145032 CTCGGTCTCAACTATGGCAACCTACACTATTAAAAATGCATTACCCCTTTCAGTAGTTGAAATTC
66 CTCGGTCTCAACTATGGCAACCTACACTATTAAAAATGCATTACCCCTTTCAGTAGTTGAAATTC
145097 TAGCTTAGTCTCTCTCAATTACTAAGGGATTAGGCCCAA
131 TAGCTTAGTCTCTCTCAATTACTAAGGGATTAGGCCCAA
145136 AAATAGAATAGCTTGATAATTCTCACTATGGCAACCTAACATAATAGAATGCCACGACATCTCCT
1 AAATAGAATAGCTTGATAATTCTCACTATGGCAACCTAACATAATAGAATGCCACGACATCTCCT
145201 CTCGGTCTCAACTATGGCAACCTACACTATTAAAAATGCATTACCCCTTTCAGTAGTTGAAATTC
66 CTCGGTCTCAACTATGGCAACCTACACTATTAAAAATGCATTACCCCTTTCAGTAGTTGAAATTC
145266 TAGCTTAGTCTCTCTCAATTACTAAGGGATTAGGC
131 TAGCTTAGTCTCTCTCAATTACTAAGGGATTAGGC
145301 TATAGTGATT
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
169 165 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (169 bp):
AAATAGAATAGCTTGATAATTCTCACTATGGCAACCTAACATAATAGAATGCCACGACATCTCCT
CTCGGTCTCAACTATGGCAACCTACACTATTAAAAATGCATTACCCCTTTCAGTAGTTGAAATTC
TAGCTTAGTCTCTCTCAATTACTAAGGGATTAGGCCCAA
Found at i:149288 original size:23 final size:23
Alignment explanation
Indices: 149261--149313 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
149251 GAGGTATCGA
*
149261 GGTTCCCATTCAAAGGGGGAATC
1 GGTTCCCATGCAAAGGGGGAATC
* * *
149284 GGTTCCCCTGCAAGGGGGGTATC
1 GGTTCCCATGCAAAGGGGGAATC
*
149307 GATTCCC
1 GGTTCCC
149314 TCTGCACTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.19, C:0.26, G:0.32, T:0.23
Consensus pattern (23 bp):
GGTTCCCATGCAAAGGGGGAATC
Found at i:149301 original size:22 final size:24
Alignment explanation
Indices: 149275--149319 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
149265 CCCATTCAAA
*
149275 GGGGGAATCGGTTCCC-CTGCAAG
1 GGGGGAATCGATTCCCTCTGCAAG
*
149298 GGGGGTATCGATTCCCTCTGCA
1 GGGGGAATCGATTCCCTCTGCA
149320 CTAAAACTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.16, C:0.27, G:0.36, T:0.22
Consensus pattern (24 bp):
GGGGGAATCGATTCCCTCTGCAAG
Found at i:156237 original size:29 final size:29
Alignment explanation
Indices: 156195--156262 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
156185 AATGAATGTC
156195 ATGAGCTAAGGAAATAATATGCAAAGCTA
1 ATGAGCTAAGGAAATAATATGCAAAGCTA
156224 ATGAGCTAAGGAAATAATATGCAAAGCTA
1 ATGAGCTAAGGAAATAATATGCAAAGCTA
156253 ATGAGCTAAG
1 ATGAGCTAAG
156263 TTAAATGCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.21
Consensus pattern (29 bp):
ATGAGCTAAGGAAATAATATGCAAAGCTA
Found at i:174359 original size:36 final size:35
Alignment explanation
Indices: 174308--174445 Score: 159
Period size: 36 Copynumber: 3.9 Consensus size: 35
174298 TGAATAAGAA
* * *
174308 GAACGAAAGGAAGCATTAACACTTTCGATTCAAAGT
1 GAACGGAAGGAAGCATCAGCACTTTCGATTC-AAGT
* * *
174344 GGACGGAAGGAAGCATCGGCACTTTCGATTCAAGAA
1 GAACGGAAGGAAGCATCAGCACTTTCGATTCAAG-T
* * *
174380 GAACGAAAGGAAGCATCGGCACTTTTGATTCAAGT
1 GAACGGAAGGAAGCATCAGCACTTTCGATTCAAGT
* *
174415 GAACGGAAAGAAGCGTCAGCACTTTCGATTC
1 GAACGGAAGGAAGCATCAGCACTTTCGATTC
174446 GATTGTTCAT
Statistics
Matches: 86, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
35 29 0.34
36 57 0.66
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (35 bp):
GAACGGAAGGAAGCATCAGCACTTTCGATTCAAGT
Found at i:175872 original size:30 final size:30
Alignment explanation
Indices: 175838--175903 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
175828 TTGAATGACC
* * * *
175838 TGATTGTAACAATCGATTAATTGAGTGATT
1 TGATTGTAACAATCGATAAATAGAATGAAT
* *
175868 TGATTGTTATAATCGATAAATAGAATGAAT
1 TGATTGTAACAATCGATAAATAGAATGAAT
175898 TGATTG
1 TGATTG
175904 CAATTAAAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (30 bp):
TGATTGTAACAATCGATAAATAGAATGAAT
Found at i:181507 original size:6 final size:7
Alignment explanation
Indices: 181485--181521 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
181475 GTCAAAGAAA
*
181485 GTCAACA
1 GTCAACG
181492 GTCAACG
1 GTCAACG
181499 GTC-ACG
1 GTCAACG
181505 GTCAACG
1 GTCAACG
181512 GTCAACG
1 GTCAACG
181519 GTC
1 GTC
181522 GGGTCAACAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
6 6 0.21
7 22 0.79
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:181510 original size:13 final size:14
Alignment explanation
Indices: 181485--181521 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
181475 GTCAAAGAAA
*
181485 GTCAACAGTCAACG
1 GTCAACGGTCAACG
181499 GTC-ACGGTCAACG
1 GTCAACGGTCAACG
181512 GTCAACGGTC
1 GTCAACGGTC
181522 GGGTCAACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (14 bp):
GTCAACGGTCAACG
Found at i:181510 original size:20 final size:19
Alignment explanation
Indices: 181485--181550 Score: 73
Period size: 17 Copynumber: 3.5 Consensus size: 19
181475 GTCAAAGAAA
181485 GTCAACAGTCAACGGTCACG
1 GTCAACAGTCAACGGTC-CG
* *
181505 GTCAACGGTCAACGGTCGG
1 GTCAACAGTCAACGGTCCG
* *
181524 GTCAACAGTC--GGGTCGG
1 GTCAACAGTCAACGGTCCG
181541 GTCAACAGTC
1 GTCAACAGTC
181551 GGGTCGGGTC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
17 16 0.38
19 10 0.24
20 16 0.38
ACGTcount: A:0.24, C:0.27, G:0.32, T:0.17
Consensus pattern (19 bp):
GTCAACAGTCAACGGTCCG
Done.