Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004010.1 Hibiscus syriacus cultivar Beakdansim tig00008743_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: 89933
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Found at i:471 original size:20 final size:20
Alignment explanation
Indices: 448--500 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
438 CAATCTTTCG
* *
448 GTATGGGGACCAGTTCTTCA
1 GTATGGAGACCAGTCCTTCA
*
468 GTATGGAGACCAGTCCTTCG
1 GTATGGAGACCAGTCCTTCA
*
488 GTATAGAGACCAG
1 GTATGGAGACCAG
501 CCAGCTTGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (20 bp):
GTATGGAGACCAGTCCTTCA
Found at i:6241 original size:27 final size:27
Alignment explanation
Indices: 6202--6273 Score: 126
Period size: 27 Copynumber: 2.7 Consensus size: 27
6192 CAACATGGTA
**
6202 TCTACCCTGACATGCTTTTATAATAGT
1 TCTACCCAAACATGCTTTTATAATAGT
6229 TCTACCCAAACATGCTTTTATAATAGT
1 TCTACCCAAACATGCTTTTATAATAGT
6256 TCTACCCAAACATGCTTT
1 TCTACCCAAACATGCTTT
6274 GTTATTTACA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (27 bp):
TCTACCCAAACATGCTTTTATAATAGT
Found at i:7193 original size:11 final size:12
Alignment explanation
Indices: 7169--7209 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
7159 GTCGAATACC
7169 TAAAATACATTT
1 TAAAATACATTT
7181 TAAAATA-ATTT
1 TAAAATACATTT
7192 TAAAAAATAC-TTT
1 T--AAAATACATTT
7205 TAAAA
1 TAAAA
7210 GATAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
11 9 0.35
12 7 0.27
13 10 0.38
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (12 bp):
TAAAATACATTT
Found at i:9281 original size:23 final size:23
Alignment explanation
Indices: 9249--9306 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
9239 TAAGCTACCA
*
9249 AAAGGCAGAGAAAAACGTGTCAT
1 AAAGGCAGAGAAAAACGTATCAT
* * *
9272 AAAGGTAGAGATAAATGTATCAT
1 AAAGGCAGAGAAAAACGTATCAT
*
9295 AAAAGCAGAGAA
1 AAAGGCAGAGAA
9307 CATGTCACAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.52, C:0.09, G:0.24, T:0.16
Consensus pattern (23 bp):
AAAGGCAGAGAAAAACGTATCAT
Found at i:12126 original size:27 final size:28
Alignment explanation
Indices: 12093--12159 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 28
12083 CACTCATTTA
* * *
12093 TATTATTTATTTATTTTGATTATCAATT
1 TATTATTTATTTATTTTAATAACCAATT
12121 T-TTATTTATTTATTTTAATAACCAATT
1 TATTATTTATTTATTTTAATAACCAATT
*
12148 TATTTTTTATTT
1 TATTATTTATTT
12160 TTTGAGAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 24 0.71
28 10 0.29
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.66
Consensus pattern (28 bp):
TATTATTTATTTATTTTAATAACCAATT
Found at i:13064 original size:36 final size:36
Alignment explanation
Indices: 13024--13261 Score: 239
Period size: 36 Copynumber: 6.9 Consensus size: 36
13014 CCCTGTTTAT
* * *
13024 AAGTCTCCTCCTCCTCCCAAAGAGACATACAAGTAC
1 AAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTAC
*
13060 AAGTCTCCTCCTCCCCCCAAGGAGGCATATAAGTAC
1 AAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTAC
13096 AAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTAC
1 AAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTAC
* * ***
13132 AAGTCTCCACCT-CCACC-A-G-TTTATA-AA-TAC
1 AAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTAC
*
13162 AAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTAC
1 AAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTAC
* * **
13198 AAGTCTCCACCT-CCACC----A-GTTTACAAGTAC
1 AAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTAC
* * *
13228 AAATCTCCTCCTCCTCCCAAGGAAGCATACAAGT
1 AAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGT
13262 CTCCACCTCC
Statistics
Matches: 163, Mismatches: 27, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
30 33 0.20
31 10 0.06
32 4 0.02
33 2 0.01
34 4 0.02
35 11 0.07
36 99 0.61
ACGTcount: A:0.31, C:0.37, G:0.13, T:0.20
Consensus pattern (36 bp):
AAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTAC
Found at i:13115 original size:72 final size:67
Alignment explanation
Indices: 13024--13601 Score: 399
Period size: 66 Copynumber: 8.7 Consensus size: 67
13014 CCCTGTTTAT
* * * * *
13024 AAGTCTCCTCCTCCTCCCAAAGAGACATACAAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATA
1 AAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCCACC----A-GCATA
*
13089 TAAGTAC
61 TAAATAC
**
13096 AAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCT-CCACCAGTTTATAAAT
1 AAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCCACCAGCATATAAAT
13160 AC
66 AC
* ** * *
13162 AAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCT-CCACCAGTTTACAAGT
1 AAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCCACCAGCATATAAAT
13226 AC
66 AC
* * * * * *
13228 AAATCTCCTCCTCCTCCCAAGGA---A-GC-A-TACAAGTCTCCACCT-CCACCGGTC-TACAAG
1 AAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCCACCAG-CATATAAA
13285 TAC
65 TAC
* * * * ** * *
13288 AAATCTCCTCCTCCCCCCAAGAAGGAATACAAGTACGAGTCTCCACCT-CCACCAGTTTACAAGT
1 AAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCCACCAGCATATAAAT
13352 AC
66 AC
* * ** *
13354 AAATCTCCTCC-CCCTCCCAAGGA-G---AC-A-TACAAGTCTCCACCT-CCACCGGTTTATAAG
1 AAGTCTCCTCCTCCC-CCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCCACCAGCATATAAA
13411 TAC
65 TAC
* * * ** * * ** * *
13414 AAATCTGCTCCTCCCCCTAAGGATTCATACAAGTACAAGTCTCCACGT-CCTCCAGTTTACAAGT
1 AAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCCACCAGCATATAAAT
13478 AC
66 AC
* *** * *
13480 AAATCTCCTCC-CCCTCCCAAGGAGATGTACAAGTACAAGTCTCCACCTCCTCCTCCTA-CAGTT
1 AAGTCTCCTCCTCCC-CCCAAGGAGGCATACAAGTACAAGTCTCCACCT-C-CCACC-AGCA-TA
13543 TACAAGTAC
61 TA-AA-TAC
* * * *
13552 AAGTCTCCTCCTCCTCCTAAGGAGCCATATAAGTACAAGTCTCCACCTCC
1 AAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCC
13602 ACCTCCACCT
Statistics
Matches: 430, Mismatches: 51, Indels: 52
0.81 0.10 0.10
Matches are distributed among these distances:
60 98 0.23
61 5 0.01
62 3 0.01
63 2 0.00
64 3 0.01
65 9 0.02
66 207 0.48
67 1 0.00
69 5 0.01
70 4 0.01
71 6 0.01
72 85 0.20
73 2 0.00
ACGTcount: A:0.29, C:0.37, G:0.12, T:0.22
Consensus pattern (67 bp):
AAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCCACCAGCATATAAAT
AC
Found at i:13129 original size:30 final size:32
Alignment explanation
Indices: 13053--13321 Score: 119
Period size: 30 Copynumber: 8.3 Consensus size: 32
13043 AAGAGACATA
13053 CAAGTACAAGTCTCCTCCTCCCCCCAAGGAGG
1 CAAGTACAAGTCTCCTCCTCCCCCCAAGGAGG
13085 CATATAAGTACAAGTCTCCTCCTCCCCCCAAGGAGG
1 C----AAGTACAAGTCTCCTCCTCCCCCCAAGGAGG
* * ****
13121 CATACAAGTACAAGTCTCCACCT-CCACC-AGTTTA
1 ----CAAGTACAAGTCTCCTCCTCCCCCCAAGGAGG
* * *
13155 TAAATACAAATCTCCTCCTCCCCCCAAGGAGG
1 CAAGTACAAGTCTCCTCCTCCCCCCAAGGAGG
* * ****
13187 CATACAAGTACAAGTCTCCACCT-CCACC-AGTTTA
1 ----CAAGTACAAGTCTCCTCCTCCCCCCAAGGAGG
* * *
13221 CAAGTACAAATCTCCTCCTCCTCCCAAGGAAG
1 CAAGTACAAGTCTCCTCCTCCCCCCAAGGAGG
* * ***
13253 C-A-TACAAGTCTCCACCT-CCACC--GGTCTA
1 CAAGTACAAGTCTCCTCCTCCCCCCAAGG-AGG
* *
13281 CAAGTACAAATCTCCTCCTCCCCCCAAGAAGG
1 CAAGTACAAGTCTCCTCCTCCCCCCAAGGAGG
13313 -AA-TACAAGT
1 CAAGTACAAGT
13322 ACGAGTCTCC
Statistics
Matches: 168, Mismatches: 47, Indels: 46
0.64 0.18 0.18
Matches are distributed among these distances:
27 2 0.01
28 1 0.01
29 4 0.02
30 64 0.38
31 14 0.08
32 6 0.04
33 1 0.01
34 4 0.02
35 8 0.05
36 63 0.38
40 1 0.01
ACGTcount: A:0.30, C:0.37, G:0.13, T:0.20
Consensus pattern (32 bp):
CAAGTACAAGTCTCCTCCTCCCCCCAAGGAGG
Found at i:13308 original size:126 final size:127
Alignment explanation
Indices: 13129--13604 Score: 641
Period size: 126 Copynumber: 3.7 Consensus size: 127
13119 GGCATACAAG
* *
13129 TACAAGTCTCCACCTCCACCAGTTTATAAATACAAATCTCCTCCTCCCCCCAAGGAGGCATACAA
1 TACAAGTCTCCACCTCCACCAGTTTACAAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAA
*
13194 GTACAAGTCTCCACCTCCACCAGTTTACAAGTACAAATCTCCTCCTCCTCCCAAGGAAG-CA
66 GTACAAGTCTCCACCTCCACCAGTTTACAAGTACAAATCTCCTCCCCCTCCCAAGGAAGACA
* * * *
13255 TACAAGTCTCCACCTCCACCGGTCTACAAGTACAAATCTCCTCCTCCCCCCAAGAAGGAATACAA
1 TACAAGTCTCCACCTCCACCAGTTTACAAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAA
*
13320 GTACGAGTCTCCACCTCCACCAGTTTACAAGTACAAATCTCCTCCCCCTCCCAAGG-AGACA
66 GTACAAGTCTCCACCTCCACCAGTTTACAAGTACAAATCTCCTCCCCCTCCCAAGGAAGACA
* * * * **
13381 TACAAGTCTCCACCTCCACCGGTTTATAAGTACAAATCTGCTCCTCCCCCTAAGGATTCATACAA
1 TACAAGTCTCCACCTCCACCAGTTTACAAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAA
* *
13446 GTACAAGTCTCCACGTCCTCCAGTTTACAAGTACAAATCTCCTCCCCCTCCCAAGGAGATGTACA
66 GTACAAGTCTCCACCTCCACCAGTTTACAAGTACAAATCTCCTCCCCCTCCCAAGGA-A-G-AC-
13511 A
127 A
* * * * *
13512 GTACAAGTCTCCACCTCCTCCTCCTACAGTTTACAAGTACAAGTCTCCTCCTCCTCCTAAGGAGC
1 -TACAAGTCTCCA---CCTCC-AC--CAGTTTACAAGTACAAATCTCCTCCTCCCCCCAAGGAGG
*
13577 CATATAAGTACAAGTCTCCACCTCCACC
59 CATACAAGTACAAGTCTCCACCTCCACC
13605 TCCACCTCCT
Statistics
Matches: 307, Mismatches: 30, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
125 2 0.01
126 225 0.73
128 1 0.00
129 1 0.00
130 2 0.01
131 1 0.00
132 12 0.04
135 5 0.02
136 1 0.00
138 57 0.19
ACGTcount: A:0.29, C:0.37, G:0.11, T:0.22
Consensus pattern (127 bp):
TACAAGTCTCCACCTCCACCAGTTTACAAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAA
GTACAAGTCTCCACCTCCACCAGTTTACAAGTACAAATCTCCTCCCCCTCCCAAGGAAGACA
Found at i:13351 original size:30 final size:30
Alignment explanation
Indices: 13123--13487 Score: 164
Period size: 30 Copynumber: 11.6 Consensus size: 30
13113 CAAGGAGGCA
13123 TACAAGTACAAGTCTCCACCTCCACCAGTT
1 TACAAGTACAAGTCTCCACCTCCACCAGTT
* * * * * **
13153 TATAAATACAAATCTCCTCCTCCCCCCAAGGAGGCA
1 TACAAGTACAAGTCTCCACCT-CCACC----A-GTT
13189 TACAAGTACAAGTCTCCACCTCCACCAGTT
1 TACAAGTACAAGTCTCCACCTCCACCAGTT
* * * *
13219 TACAAGTACAAATCTCCTCCTCCTCCCAAG-G
1 TACAAGTACAAGTCTCCACCTCC-ACC-AGTT
* * *
13250 AAGC-A-TACAAGTCTCCACCTCCACCGGTC
1 TA-CAAGTACAAGTCTCCACCTCCACCAGTT
* * * **
13279 TACAAGTACAAATCTCCTCCTCCCCCCAAGAAGGAA
1 TACAAGTACAAGTCTCCACCT-CCACC----A-GTT
*
13315 TACAAGTACGAGTCTCCACCTCCACCAGTT
1 TACAAGTACAAGTCTCCACCTCCACCAGTT
* * * * **
13345 TACAAGTACAAATCTCCTCCCCCTCCCAAGGA
1 TACAAGTACAAGTCTCCACCTCC-ACC-AGTT
* *
13377 GAC-A-TACAAGTCTCCACCTCCACCGGTT
1 TACAAGTACAAGTCTCCACCTCCACCAGTT
* * * * *
13405 TATAAGTACAAATCTGCTCCTCCCCCTAAGGATT
1 TACAAGTACAAGTCTCCACCTCCACC--A-G-TT
* *
13439 CATACAAGTACAAGTCTCCACGTCCTCCAGTT
1 --TACAAGTACAAGTCTCCACCTCCACCAGTT
*
13471 TACAAGTACAAATCTCC
1 TACAAGTACAAGTCTCC
13488 TCCCCCTCCC
Statistics
Matches: 241, Mismatches: 66, Indels: 56
0.66 0.18 0.15
Matches are distributed among these distances:
28 4 0.02
29 7 0.03
30 133 0.55
31 17 0.07
32 9 0.04
33 2 0.01
34 3 0.01
35 9 0.04
36 57 0.24
ACGTcount: A:0.30, C:0.36, G:0.11, T:0.22
Consensus pattern (30 bp):
TACAAGTACAAGTCTCCACCTCCACCAGTT
Found at i:13511 original size:36 final size:35
Alignment explanation
Indices: 13024--13601 Score: 231
Period size: 36 Copynumber: 17.4 Consensus size: 35
13014 CCCTGTTTAT
* **
13024 AAGTCTCCTCCTCCTCCCAAAGAGACATACAAGTAC
1 AAGTCTCCTCCTCCTCCCAAGGAG-TGTACAAGTAC
* *
13060 AAGTCTCCTCCTCCCCCCAAGGAG-GCATATAAGTAC
1 AAGTCTCCTCCTCCTCCCAAGGAGTG--TACAAGTAC
*
13096 AAGTCTCCTCCTCCCCCCAAGGAG-GCATACAAGTAC
1 AAGTCTCCTCCTCCTCCCAAGGAGTG--TACAAGTAC
* * * * *
13132 AAGTCTCCACCTCC-ACC----AGTTTATAAATAC
1 AAGTCTCCTCCTCCTCCCAAGGAGTGTACAAGTAC
* *
13162 AAATCTCCTCCTCCCCCCAAGGAG-GCATACAAGTAC
1 AAGTCTCCTCCTCCTCCCAAGGAGTG--TACAAGTAC
* * *
13198 AAGTCTCCACCTCC-ACC----AGTTTACAAGTAC
1 AAGTCTCCTCCTCCTCCCAAGGAGTGTACAAGTAC
* *
13228 AAATCTCCTCCTCCTCCCAAGGA-AG--C-A-TAC
1 AAGTCTCCTCCTCCTCCCAAGGAGTGTACAAGTAC
* * *
13258 AAGTCTCCACCTCC-ACC---G-GTCTACAAGTAC
1 AAGTCTCCTCCTCCTCCCAAGGAGTGTACAAGTAC
* * *
13288 AAATCTCCTCCTCCCCCCAAGAAG-GAATACAAGTAC
1 AAGTCTCCTCCTCCTCCCAAGGAGTG--TACAAGTAC
* * * *
13324 GAGTCTCCACCTCC-ACC----AGTTTACAAGTAC
1 AAGTCTCCTCCTCCTCCCAAGGAGTGTACAAGTAC
* *
13354 AAATCTCCTCCCCCTCCCAAGGA--G-AC-A-TAC
1 AAGTCTCCTCCTCCTCCCAAGGAGTGTACAAGTAC
* * * *
13384 AAGTCTCCACCTCC-ACC---G-GTTTATAAGTAC
1 AAGTCTCCTCCTCCTCCCAAGGAGTGTACAAGTAC
* * * *
13414 AAATCTGCTCCTCC-CCCTAAGGATTCATACAAGTAC
1 AAGTCTCCTCCTCCTCCC-AAGGAGT-GTACAAGTAC
* * *
13450 AAGTCTCCACGTCCT-CC----AGTTTACAAGTAC
1 AAGTCTCCTCCTCCTCCCAAGGAGTGTACAAGTAC
* *
13480 AAATCTCCTCCCCCTCCCAAGGAGATGTACAAGTAC
1 AAGTCTCCTCCTCCTCCCAAGGAG-TGTACAAGTAC
* * * *
13516 AAGTCTCCACCTCCTCCTCCTA-CAGTTTACAAGTAC
1 AAGTCTCCTCCTCCT-C-CCAAGGAGTGTACAAGTAC
* ** *
13552 AAGTCTCCTCCTCCTCCTAAGGAGCCATATAAGTAC
1 AAGTCTCCTCCTCCTCCCAAGGAG-TGTACAAGTAC
*
13588 AAGTCTCCACCTCC
1 AAGTCTCCTCCTCC
13602 ACCTCCACCT
Statistics
Matches: 402, Mismatches: 84, Indels: 112
0.67 0.14 0.19
Matches are distributed among these distances:
26 2 0.00
28 2 0.00
29 6 0.01
30 139 0.35
31 20 0.05
32 3 0.01
34 3 0.01
35 17 0.04
36 204 0.51
37 3 0.01
38 3 0.01
ACGTcount: A:0.29, C:0.37, G:0.12, T:0.22
Consensus pattern (35 bp):
AAGTCTCCTCCTCCTCCCAAGGAGTGTACAAGTAC
Found at i:13560 original size:30 final size:30
Alignment explanation
Indices: 13315--13566 Score: 82
Period size: 30 Copynumber: 7.8 Consensus size: 30
13305 CAAGAAGGAA
* *
13315 TACAAGTACGAGTCTCCACCTCC-ACCAGTT
1 TACAAGTACAAGTCTCCTCCTCCTA-CAGTT
* * * **
13345 TACAAGTACAAATCTCCTCCCCCTCCCAAGGA
1 TACAAGTACAAGTCTCCTCCTCCT-AC-AGTT
* * *
13377 GAC-A-TACAAGTCTCCACCTCC-ACCGGTT
1 TACAAGTACAAGTCTCCTCCTCCTA-CAGTT
* * *
13405 TATAAGTACAAATCTGCTCCTCCCCCTA-AGGATT
1 TACAAGTAC-AA-GT-CTCCTCCTCCTACA-G-TT
* * *
13439 CATACAAGTACAAGTCTCCACGTCCTCCAGTT
1 --TACAAGTACAAGTCTCCTCCTCCTACAGTT
* * * *
13471 TACAAGTACAAATCTCCTCCCCCTCCCAAGGAGATG
1 TACAAGTACAAGTCTCCT---CCT-CCTA-CAG-TT
13507 TACAAGTACAAGTCTCCACCTCCTCCTCCTACAGTT
1 TACAAGTACAAG--T----CTCCTCCTCCTACAGTT
13543 TACAAGTACAAGTCTCCTCCTCCT
1 TACAAGTACAAGTCTCCTCCTCCT
13567 CCTAAGGAGC
Statistics
Matches: 157, Mismatches: 38, Indels: 54
0.63 0.15 0.22
Matches are distributed among these distances:
28 2 0.01
29 2 0.01
30 63 0.40
31 4 0.03
32 7 0.04
33 20 0.13
34 8 0.05
35 4 0.03
36 33 0.21
37 2 0.01
38 4 0.03
39 3 0.02
42 5 0.03
ACGTcount: A:0.28, C:0.37, G:0.12, T:0.24
Consensus pattern (30 bp):
TACAAGTACAAGTCTCCTCCTCCTACAGTT
Found at i:14523 original size:16 final size:16
Alignment explanation
Indices: 14502--14535 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14492 TAAAAGTTCA
*
14502 AATTTTATTTATGTAT
1 AATTTTATATATGTAT
*
14518 AATTTTATATATTTAT
1 AATTTTATATATGTAT
14534 AA
1 AA
14536 ATGTTTACCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
AATTTTATATATGTAT
Found at i:15377 original size:2 final size:2
Alignment explanation
Indices: 15370--15477 Score: 216
Period size: 2 Copynumber: 54.0 Consensus size: 2
15360 TTAGGGTTGG
15370 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15412 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15454 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
15478 GTTTTGTCTA
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 106 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18303 original size:24 final size:24
Alignment explanation
Indices: 18276--18337 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
18266 CGTTCGTGAA
*
18276 CGTTCGGTTATGTTCGTTTATATG
1 CGTTCAGTTATGTTCGTTTATATG
* *
18300 CGTTTAGTTATGTTCGTTTATGTG
1 CGTTCAGTTATGTTCGTTTATATG
*
18324 CGTTCATTTATGTT
1 CGTTCAGTTATGTT
18338 TAACCTAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.13, C:0.11, G:0.23, T:0.53
Consensus pattern (24 bp):
CGTTCAGTTATGTTCGTTTATATG
Found at i:19878 original size:16 final size:16
Alignment explanation
Indices: 19853--19917 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
19843 CCAACGTTTA
*
19853 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
19869 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
19885 TGTTCGTTTATGTTTG
1 TGTTCGTTTATGTTCG
*
19901 TGCTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
19917 T
1 T
19918 TTATTTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:19895 original size:32 final size:32
Alignment explanation
Indices: 19853--19925 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 32
19843 CCAACGTTTA
*
19853 TGTTCATTTATGTTCGTGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCGTGCTCGTTTATGTTCG
* *
19885 TGTTCGTTTATGTTTGTGCTCGTTTATGTTCG
1 TGTTCATTTATGTTCGTGCTCGTTTATGTTCG
19917 T-TT-ATTTAT
1 TGTTCATTTAT
19926 TAAATGAACG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 5 0.14
31 2 0.05
32 30 0.81
ACGTcount: A:0.10, C:0.11, G:0.21, T:0.59
Consensus pattern (32 bp):
TGTTCATTTATGTTCGTGCTCGTTTATGTTCG
Found at i:20008 original size:16 final size:16
Alignment explanation
Indices: 19987--20018 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
19977 AAAAAAATTT
19987 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
20003 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
20019 CTTATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.12, G:0.25, T:0.56
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:20548 original size:63 final size:63
Alignment explanation
Indices: 20377--20571 Score: 236
Period size: 64 Copynumber: 3.1 Consensus size: 63
20367 TTTTATACTT
*
20377 TCTTTTGAAAGAAAGATAAATTAGTCATTTAGGTTTTTAATTTAATA-TTTTTCCAATATAGC
1 TCTTTTGAAAGAAAGATAAATTAATCATTTAGGTTTTTAATTTAATATTTTTTCCAATATAGC
**** * * *
20439 TC--TT-AAATGATTTTTTTAATTCATATCAATTTAGGGTTTTAATTTAATATTTTTTCCATTAT
1 TCTTTTGAAA-GA-AAGATAAATT-A-ATC-ATTTAGGTTTTTAATTTAATATTTTTTCCAATAT
20501 AGC
61 AGC
20504 TCTTTTGAAAGAAAGATAAATTAATCATTTAGGTTTTTAATTTAATATTTTTTTCCAATATAGC
1 TCTTTTGAAAGAAAGATAAATTAATCATTTAGGTTTTTAATTTAATA-TTTTTTCCAATATAGC
20568 TCTT
1 TCTT
20572 AAATGATTTA
Statistics
Matches: 108, Mismatches: 15, Indels: 18
0.77 0.11 0.13
Matches are distributed among these distances:
59 3 0.03
60 4 0.04
61 5 0.05
62 3 0.03
63 22 0.20
64 42 0.39
65 17 0.16
66 5 0.05
67 4 0.04
68 3 0.03
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (63 bp):
TCTTTTGAAAGAAAGATAAATTAATCATTTAGGTTTTTAATTTAATATTTTTTCCAATATAGC
Found at i:21968 original size:36 final size:36
Alignment explanation
Indices: 21928--22220 Score: 397
Period size: 36 Copynumber: 8.4 Consensus size: 36
21918 CCATGTTTAT
*
21928 AAGTCTCCTCCTCCTCCCAAGGAGACATACAAGTAC
1 AAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTAC
* *
21964 AAGTCTCCTCCTTCTCCCAAGGAGACATACAAGTAC
1 AAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTAC
22000 AAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTAC
1 AAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTAC
22036 AAG--T-CTCCTCCTCCCAAGGAGGCATACAAGTAC
1 AAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTAC
*
22069 AAGTCCCCTCCTCCTCCCAAGGAGGCATACAAGTAC
1 AAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTAC
* * *
22105 AAGTCCCCTCCTCCTCCCAAGGAAGAATACAAGTAC
1 AAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTAC
* * **
22141 AAGTCTCCACCTCC-ACC----A-GTTTACAAGTAC
1 AAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTAC
* *
22171 AAGTCTCCTCCCCCTCCTAAGGAGGCATACAAGTAC
1 AAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTAC
*
22207 AAGTCTCCGCCTCC
1 AAGTCTCCTCCTCC
22221 ACCTCCTCCA
Statistics
Matches: 229, Mismatches: 19, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.10
31 2 0.01
33 32 0.14
34 1 0.00
35 3 0.01
36 169 0.74
ACGTcount: A:0.29, C:0.37, G:0.15, T:0.19
Consensus pattern (36 bp):
AAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTAC
Found at i:22056 original size:105 final size:104
Alignment explanation
Indices: 21935--22220 Score: 414
Period size: 105 Copynumber: 2.8 Consensus size: 104
21925 TATAAGTCTC
* *
21935 CTCCTCCTCCCAAGGAGACATACAAGTACAAGTCTCCTCCTTCTCCCAAGGAGACATACAAGTAC
1 CTCCTCCTCCCAAGGAG-CATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTAC
* *
22000 AAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTACAAGT
65 AAGTCTCCTCCTCCTCCCAAGGAAGAATACAAGTACAAGT
*
22040 CTCCTCCTCCCAAGGAGGCATACAAGTACAAGTCCCCTCCTCCTCCCAAGGAGGCATACAAGTAC
1 CTCCTCCTCCCAAGGA-GCATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTAC
*
22105 AAGTCCCCTCCTCCTCCCAAGGAAGAATACAAGTACAAGT
65 AAGTCTCCTCCTCCTCCCAAGGAAGAATACAAGTACAAGT
* ** ** * *
22145 CTCCACCT-CC-ACCAGTTTACAAGTACAAGTCTCCTCCCCCTCCTAAGGAGGCATACAAGTACA
1 CTCCTCCTCCCAAGGAGCATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTACA
*
22208 AGTCTCCGCCTCC
66 AGTCTCCTCCTCC
22221 ACCTCCTCCA
Statistics
Matches: 164, Mismatches: 16, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
102 55 0.34
103 2 0.01
104 2 0.01
105 104 0.63
106 1 0.01
ACGTcount: A:0.29, C:0.37, G:0.15, T:0.19
Consensus pattern (104 bp):
CTCCTCCTCCCAAGGAGCATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTACA
AGTCTCCTCCTCCTCCCAAGGAAGAATACAAGTACAAGT
Found at i:22221 original size:72 final size:70
Alignment explanation
Indices: 21955--22322 Score: 328
Period size: 72 Copynumber: 5.3 Consensus size: 70
21945 CAAGGAGACA
** * * *
21955 TACAAGTACAAGTCTCCTCCTTCTCCCAAGGAGACATACAAGTACAAGTCTCCTCCTCCTCCCAA
1 TACAAGTACAAGTCTCCTCCCCCTCCCAAGGAGGCATACAAGTACAAGTCTCC-CCTCCACCCCA
** **
22020 GGAGGCA
65 CCA-GTT
* * *
22027 TACAAGTACAAGTCTCCT---CCTCCCAAGGAGGCATACAAGTACAAGTCCCCTCCTCCTCCCAA
1 TACAAGTACAAGTCTCCTCCCCCTCCCAAGGAGGCATACAAGTACAAGTCTCC-CCTCCACCCCA
** **
22089 GGAGGCA
65 CCA-GTT
* * * *
22096 TACAAGTACAAGTCCCCTCCTCCTCCCAAGGAAGAATACAAGTACAAG--T---CTCCACCTCCA
1 TACAAGTACAAGTCTCCTCCCCCTCCCAAGGAGGCATACAAGTACAAGTCTCCCCTCCACC-CCA
22156 CCAGTT
65 CCAGTT
*
22162 TACAAGTACAAGTCTCCTCCCCCTCCTAAGGAGGCATACAAGTACAAGTCTCCGCCTCCACCTCC
1 TACAAGTACAAGTCTCCTCCCCCTCCCAAGGAGGCATACAAGTACAAGTCTCC-CCTCCACC-CC
*
22227 TCCAGTT
64 ACCAGTT
* * * * * * *
22234 TATAAGTACATGTCTCCTCCACCTCCTAAGGAGGCATACAAATACAAATCT-CCAT---CCCCAC
1 TACAAGTACAAGTCTCCTCCCCCTCCCAAGGAGGCATACAAGTACAAGTCTCCCCTCCACCCCAC
22295 CAGTT
66 CAGTT
22300 TACAAGTACAAGTCTCCTCCCCC
1 TACAAGTACAAGTCTCCTCCCCC
22323 ACCACCACCT
Statistics
Matches: 257, Mismatches: 29, Indels: 26
0.82 0.09 0.08
Matches are distributed among these distances:
66 78 0.30
67 5 0.02
68 1 0.00
69 65 0.25
70 2 0.01
71 1 0.00
72 105 0.41
ACGTcount: A:0.29, C:0.36, G:0.14, T:0.21
Consensus pattern (70 bp):
TACAAGTACAAGTCTCCTCCCCCTCCCAAGGAGGCATACAAGTACAAGTCTCCCCTCCACCCCAC
CAGTT
Found at i:22265 original size:138 final size:138
Alignment explanation
Indices: 22027--22322 Score: 368
Period size: 138 Copynumber: 2.2 Consensus size: 138
22017 CAAGGAGGCA
* *
22027 TACAAGTACAAGTCTCCT---CCTCCCAAGGAGGCATACAAGTACAAGTCCCCTCCTCCTCCCAA
1 TACAAGTACAAGTCTCCTCCCCCTCCCAAGGAGGCATACAAGTACAAGTCCCCGCCTCCACCCAA
** * * *
22089 GGAGGCATACAAGTACAAGTCCCCTCCTCCTCCCAAGGAAGAATACAAGTACAAGTCTCCA-CCT
66 CCAGGCATACAAGTACAAGTCCCCTCCACCTCCCAAGGAAGAATACAAATACAAATCTCCATCC-
22153 CCACCAGTT
130 CCACCAGTT
* * *
22162 TACAAGTACAAGTCTCCTCCCCCTCCTAAGGAGGCATACAAGTACAAGTCTCCGCCTCCACCTCC
1 TACAAGTACAAGTCTCCTCCCCCTCCCAAGGAGGCATACAAGTACAAGTCCCCGCCTCCACC-CA
* ** * * * * * *
22227 TCCA-GTTTATAAGTACATGTCTCCTCCACCTCCTAAGGAGGCATACAAATACAAATCTCCATCC
65 ACCAGGCATACAAGTACAAGTCCCCTCCACCTCCCAAGGAAGAATACAAATACAAATCTCCATCC
22291 CCACCAGTT
130 CCACCAGTT
22300 TACAAGTACAAGTCTCCTCCCCC
1 TACAAGTACAAGTCTCCTCCCCC
22323 ACCACCACCT
Statistics
Matches: 137, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
135 18 0.13
138 115 0.84
139 4 0.03
ACGTcount: A:0.29, C:0.37, G:0.13, T:0.21
Consensus pattern (138 bp):
TACAAGTACAAGTCTCCTCCCCCTCCCAAGGAGGCATACAAGTACAAGTCCCCGCCTCCACCCAA
CCAGGCATACAAGTACAAGTCCCCTCCACCTCCCAAGGAAGAATACAAATACAAATCTCCATCCC
CACCAGTT
Found at i:22304 original size:30 final size:30
Alignment explanation
Indices: 22270--22326 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
22260 TAAGGAGGCA
22270 TACAAATACAAATCTCCAT-CCCCACCAGTT
1 TACAAATACAAATCTCC-TCCCCCACCAGTT
* *
22300 TACAAGTACAAGTCTCCTCCCCCACCA
1 TACAAATACAAATCTCCTCCCCCACCA
22327 CCACCTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.33, C:0.40, G:0.05, T:0.21
Consensus pattern (30 bp):
TACAAATACAAATCTCCTCCCCCACCAGTT
Found at i:24386 original size:3 final size:3
Alignment explanation
Indices: 24378--24408 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
24368 GGTCTCAAAA
24378 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
24409 TTATTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24413 original size:3 final size:3
Alignment explanation
Indices: 24407--24437 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
24397 ATAATAATAA
24407 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
24438 ACAAAATTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:24679 original size:36 final size:35
Alignment explanation
Indices: 24632--24859 Score: 190
Period size: 36 Copynumber: 6.7 Consensus size: 35
24622 ATTTGCTAGC
*
24632 ATACAATTACAAGTCTCCTCCTCCTCCCAAGGAGGA
1 ATACAAGTACAAGTCTCCTCCTCCTCCCAAGGA-GA
* * *
24668 ATACAAGTACAAGTCTCCACCTCC-ACC----AGT
1 ATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGA
* * * *
24698 TTACAAGTACAAGTCCCCTCCTCCCCCCAAGGAGGC
1 ATACAAGTACAAGTCTCCTCCTCCTCCCAAGGA-GA
*
24734 ATACAAGTACAAGTCTCCTCCTCCTCCCAAAGAGGA
1 ATACAAGTACAAGTCTCCTCCTCCTCCCAAGGA-GA
* *
24770 ATACAAGTACAAGTCTCCACCTCCAT--C----AGT
1 ATACAAGTACAAGTCTCCTCCTCC-TCCCAAGGAGA
* * *
24800 TTACAAGTACAAGTCTCCTCCCCCTCCTAAGGAGA
1 ATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGA
* *
24835 CATACAAGTATAAGTCTCCACCTCC
1 -ATACAAGTACAAGTCTCCTCCTCC
24860 ACCTTCTCCC
Statistics
Matches: 153, Mismatches: 25, Indels: 28
0.74 0.12 0.14
Matches are distributed among these distances:
29 1 0.01
30 44 0.29
31 4 0.03
35 6 0.04
36 97 0.63
37 1 0.01
ACGTcount: A:0.31, C:0.36, G:0.13, T:0.21
Consensus pattern (35 bp):
ATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGA
Found at i:24739 original size:66 final size:66
Alignment explanation
Indices: 24633--24757 Score: 205
Period size: 66 Copynumber: 1.9 Consensus size: 66
24623 TTTGCTAGCA
* * *
24633 TACAATTACAAGTCTCCTCCTCCTCCCAAGGAGGAATACAAGTACAAGTCTCCACCTCCACCAGT
1 TACAAGTACAAGTCCCCTCCTCCCCCCAAGGAGGAATACAAGTACAAGTCTCCACCTCCACCAGT
24698 T
66 T
* *
24699 TACAAGTACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCC
1 TACAAGTACAAGTCCCCTCCTCCCCCCAAGGAGGAATACAAGTACAAGTCTCCACCTCC
24758 TCCCAAAGAG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.29, C:0.38, G:0.13, T:0.21
Consensus pattern (66 bp):
TACAAGTACAAGTCCCCTCCTCCCCCCAAGGAGGAATACAAGTACAAGTCTCCACCTCCACCAGT
T
Found at i:24805 original size:66 final size:66
Alignment explanation
Indices: 24735--24958 Score: 261
Period size: 66 Copynumber: 3.3 Consensus size: 66
24725 CAAGGAGGCA
* * *
24735 TACAAGTACAAGTCTCCTCCTCCTCCCAAAGAGGAATACAAGTACAAGTCTCCACCTCCATCAGT
1 TACAAGTACAAGTCTCCTCCACCTCCTAAGGAGGAATACAAGTACAAGTCTCCACCTCCATCAGT
24800 T
66 T
* *
24801 TACAAGTACAAGTCTCCTCCCCCTCCTAAGGA-GACATACAAGTATAAGTCTCCACCTCCACCTT
1 TACAAGTACAAGTCTCCTCCACCTCCTAAGGAGGA-ATACAAGTACAAGTCTCCACCTCCA----
*
24865 CTCCCGTT
61 -T-CAGTT
* * * * * * *
24873 TATAAGTACATGTCTCCTCCACCTCCTAAGGAGGCATACAAATACAAATCTCCACCCCCACCAGT
1 TACAAGTACAAGTCTCCTCCACCTCCTAAGGAGGAATACAAGTACAAGTCTCCACCTCCATCAGT
24938 T
66 T
24939 TACAAGTACAAGTCTCCTCC
1 TACAAGTACAAGTCTCCTCC
24959 CCCACCACCA
Statistics
Matches: 133, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
65 2 0.02
66 75 0.56
71 1 0.01
72 54 0.41
73 1 0.01
ACGTcount: A:0.30, C:0.35, G:0.11, T:0.24
Consensus pattern (66 bp):
TACAAGTACAAGTCTCCTCCACCTCCTAAGGAGGAATACAAGTACAAGTCTCCACCTCCATCAGT
T
Found at i:24806 original size:102 final size:102
Alignment explanation
Indices: 24630--24859 Score: 372
Period size: 102 Copynumber: 2.3 Consensus size: 102
24620 TGATTTGCTA
* *
24630 GCATACAATTACAAGTCTCCTCCTCCTCCCAAGGAGGAATACAAGTACAAGTCTCCACCTCCACC
1 GCATACAAGTACAAGTCTCCTCCTCCTCCCAAAGAGGAATACAAGTACAAGTCTCCACCTCCACC
24695 AGTTTACAAGTACAAGTCCCCTCCTCCC-CCCAAGGAG
66 AGTTTACAAGTACAAGTCCCCTCC-CCCTCCCAAGGAG
*
24732 GCATACAAGTACAAGTCTCCTCCTCCTCCCAAAGAGGAATACAAGTACAAGTCTCCACCTCCATC
1 GCATACAAGTACAAGTCTCCTCCTCCTCCCAAAGAGGAATACAAGTACAAGTCTCCACCTCCACC
* *
24797 AGTTTACAAGTACAAGTCTCCTCCCCCTCCTAAGGAG
66 AGTTTACAAGTACAAGTCCCCTCCCCCTCCCAAGGAG
* * *
24834 ACATACAAGTATAAGTCTCCACCTCC
1 GCATACAAGTACAAGTCTCCTCCTCC
24860 ACCTTCTCCC
Statistics
Matches: 119, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
101 3 0.03
102 116 0.97
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (102 bp):
GCATACAAGTACAAGTCTCCTCCTCCTCCCAAAGAGGAATACAAGTACAAGTCTCCACCTCCACC
AGTTTACAAGTACAAGTCCCCTCCCCCTCCCAAGGAG
Found at i:24949 original size:30 final size:30
Alignment explanation
Indices: 24909--24965 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
24899 TAAGGAGGCA
24909 TACAAATACAAATCTCCACCCCCACCAGTT
1 TACAAATACAAATCTCCACCCCCACCAGTT
* * *
24939 TACAAGTACAAGTCTCCTCCCCCACCA
1 TACAAATACAAATCTCCACCCCCACCA
24966 CCACCTCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.42, G:0.05, T:0.19
Consensus pattern (30 bp):
TACAAATACAAATCTCCACCCCCACCAGTT
Found at i:27206 original size:20 final size:22
Alignment explanation
Indices: 27170--27211 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
27160 ATAAAAAGAG
*
27170 AAAATAATTTATTTTAATTAAT
1 AAAATAATTTATTTTAAATAAT
27192 AAAAT-ATTT-TTTTAAATAAT
1 AAAATAATTTATTTTAAATAAT
27212 TTTTAGTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 4 0.21
22 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AAAATAATTTATTTTAAATAAT
Found at i:27579 original size:17 final size:17
Alignment explanation
Indices: 27557--27605 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
27547 AACGTTTGAA
27557 TTATATTATATAAACAT
1 TTATATTATATAAACAT
* **
27574 TTATATGTTTATAAATTT
1 TTATAT-TATATAAACAT
*
27592 TTATTTTATATAAA
1 TTATATTATATAAA
27606 TTCTTATCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
TTATATTATATAAACAT
Found at i:29199 original size:13 final size:13
Alignment explanation
Indices: 29181--29215 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
29171 CTATATTTAT
29181 AATAATTTTATTA
1 AATAATTTTATTA
*
29194 AATAATTATATTA
1 AATAATTTTATTA
29207 AATAATTTT
1 AATAATTTT
29216 TTACATCGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AATAATTTTATTA
Found at i:29694 original size:8 final size:8
Alignment explanation
Indices: 29689--29773 Score: 122
Period size: 8 Copynumber: 10.6 Consensus size: 8
29679 ATGCATGAGA
29689 GTATGAAT
1 GTATGAAT
29697 GTATGAAT
1 GTATGAAT
29705 GTATGAGA-
1 GTATGA-AT
29713 GTATGAAT
1 GTATGAAT
29721 GTATGAAT
1 GTATGAAT
29729 GTATGAGA-
1 GTATGA-AT
29737 GTATGAAT
1 GTATGAAT
29745 GTATGAGA-
1 GTATGA-AT
29753 GTATGAAT
1 GTATGAAT
29761 GTATGAAT
1 GTATGAAT
29769 GTATG
1 GTATG
29774 CGTGAGTTAG
Statistics
Matches: 71, Mismatches: 0, Indels: 12
0.86 0.00 0.14
Matches are distributed among these distances:
7 3 0.04
8 65 0.92
9 3 0.04
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.34
Consensus pattern (8 bp):
GTATGAAT
Found at i:29710 original size:24 final size:24
Alignment explanation
Indices: 29683--29773 Score: 150
Period size: 24 Copynumber: 3.8 Consensus size: 24
29673 TTAGCTATGC
29683 ATGAGAGTATGAATGTATGAATGT
1 ATGAGAGTATGAATGTATGAATGT
29707 ATGAGAGTATGAATGTATGAATGT
1 ATGAGAGTATGAATGTATGAATGT
29731 ATGAGAGTATGAATGTATGAGA-GT
1 ATGAGAGTATGAATGTATGA-ATGT
29755 ATGA-ATGTATGAATGTATG
1 ATGAGA-GTATGAATGTATG
29774 CGTGAGTTAG
Statistics
Matches: 65, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
23 1 0.02
24 63 0.97
25 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (24 bp):
ATGAGAGTATGAATGTATGAATGT
Found at i:38679 original size:29 final size:29
Alignment explanation
Indices: 38624--38680 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
38614 ATTAGATCAC
* *
38624 TAACCGTTAAATCGTTAACATCGATGACA
1 TAACCGTTAAATCGTTAACAGCAATGACA
*
38653 TAACCGTTAAATCGTTAACGGCAATGAC
1 TAACCGTTAAATCGTTAACAGCAATGAC
38681 GTGGCTGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (29 bp):
TAACCGTTAAATCGTTAACAGCAATGACA
Found at i:38875 original size:32 final size:32
Alignment explanation
Indices: 38836--38905 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
38826 AGATACAATG
*
38836 CCTAAAGTTTAATGGTATCTAGTGTAGTTTAT
1 CCTAAAGTTTAATGGTATCTAGTGTAGTTTAC
*
38868 CCTAAAGTTTAGTGGTATCTAGTGTAGTTTAC
1 CCTAAAGTTTAATGGTATCTAGTGTAGTTTAC
38900 CCTAAA
1 CCTAAA
38906 TTTGATTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.40
Consensus pattern (32 bp):
CCTAAAGTTTAATGGTATCTAGTGTAGTTTAC
Found at i:40196 original size:23 final size:23
Alignment explanation
Indices: 40163--40242 Score: 97
Period size: 23 Copynumber: 3.5 Consensus size: 23
40153 ACGAACGGAT
*
40163 GTAAATGAACACAATAAAAGAAC
1 GTAAACGAACACAATAAAAGAAC
* ** *
40186 GTTAACGAACACAACGAACGAAC
1 GTAAACGAACACAATAAAAGAAC
*
40209 GTAAACGAACACAATAAATGAAC
1 GTAAACGAACACAATAAAAGAAC
*
40232 ATAAACGAACA
1 GTAAACGAACA
40243 TAAATGAAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.56, C:0.19, G:0.14, T:0.11
Consensus pattern (23 bp):
GTAAACGAACACAATAAAAGAAC
Found at i:40213 original size:46 final size:47
Alignment explanation
Indices: 40141--40246 Score: 142
Period size: 46 Copynumber: 2.3 Consensus size: 47
40131 CGAACACAAA
* * * *
40141 TAACGAACATAAACGAACGGATGTAAATGAACACAATAAAAGAACGT
1 TAACGAACATAAACGAACGAACGTAAACGAACACAATAAAAGAACAT
* *
40188 TAACGAACA-CAACGAACGAACGTAAACGAACACAATAAATGAACAT
1 TAACGAACATAAACGAACGAACGTAAACGAACACAATAAAAGAACAT
*
40234 AAACGAACATAAA
1 TAACGAACATAAA
40247 TGAAAATATT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
46 39 0.78
47 11 0.22
ACGTcount: A:0.56, C:0.18, G:0.14, T:0.12
Consensus pattern (47 bp):
TAACGAACATAAACGAACGAACGTAAACGAACACAATAAAAGAACAT
Found at i:41475 original size:12 final size:12
Alignment explanation
Indices: 41458--41482 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41448 TATCAAAACG
41458 ATTAAAAATAAA
1 ATTAAAAATAAA
41470 ATTAAAAATAAA
1 ATTAAAAATAAA
41482 A
1 A
41483 ATATGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
ATTAAAAATAAA
Found at i:42309 original size:18 final size:18
Alignment explanation
Indices: 42286--42328 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
42276 TTATTTAATA
*
42286 TGTCAAAATTAAATTTAT
1 TGTCAAAAATAAATTTAT
42304 TGTCAAAAATAAATTTAT
1 TGTCAAAAATAAATTTAT
42322 TGTCAAA
1 TGTCAAA
42329 CGATCATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (18 bp):
TGTCAAAAATAAATTTAT
Found at i:42858 original size:17 final size:17
Alignment explanation
Indices: 42838--42896 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
42828 TATATTATTT
*
42838 ATTTATTTTGATAATCA
1 ATTTATTTTAATAATCA
* * **
42855 ATTTATTTTTAT-TTTT
1 ATTTATTTTAATAATCA
*
42871 ATTTATTTTAATAACCA
1 ATTTATTTTAATAATCA
42888 ATTTATTTT
1 ATTTATTTT
42897 TATTTTTTGA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
16 12 0.38
17 20 0.62
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (17 bp):
ATTTATTTTAATAATCA
Found at i:42877 original size:33 final size:33
Alignment explanation
Indices: 42825--42903 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
42815 CAAAACACTA
* * *
42825 ATTTATATTATTTATTTATTTTGATAATCAATTT
1 ATTTTTATT-TTTATTTATTTTAATAACCAATTT
42859 ATTTTTATTTTTATTTATTTTAATAACCAATTT
1 ATTTTTATTTTTATTTATTTTAATAACCAATTT
42892 ATTTTTATTTTT
1 ATTTTTATTTTT
42904 TGAGAAAGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 34 0.81
34 8 0.19
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (33 bp):
ATTTTTATTTTTATTTATTTTAATAACCAATTT
Found at i:43809 original size:36 final size:36
Alignment explanation
Indices: 43769--43980 Score: 136
Period size: 36 Copynumber: 6.4 Consensus size: 36
43759 CCCTGTTTAT
*
43769 AAGTCTCCTCCTCCTCCCAAAGAGACATACAAGTAC
1 AAGTCTCCTCCTCCCCCCAAAGAGACATACAAGTAC
* * *
43805 AAGTCTCCTCCTCCCCCCAAGGAGGCATATAAGTAC
1 AAGTCTCCTCCTCCCCCCAAAGAGACATACAAGTAC
* * *
43841 AAGTCTCCACCT-CCACC---G-G---T----TTAC
1 AAGTCTCCTCCTCCCCCCAAAGAGACATACAAGTAC
* *
43865 AAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTAC
1 AAGTCTCCTCCTCCCCCCAAAGAGACATACAAGTAC
* * ***
43901 AAGTCTCCACCT-CCACC--AG-TTTATA-AA-TAC
1 AAGTCTCCTCCTCCCCCCAAAGAGACATACAAGTAC
* * *
43931 AAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTAC
1 AAGTCTCCTCCTCCCCCCAAAGAGACATACAAGTAC
*
43967 AAGTCTCCACCTCC
1 AAGTCTCCTCCTCC
43981 ACCAGTTTAC
Statistics
Matches: 133, Mismatches: 25, Indels: 36
0.69 0.13 0.19
Matches are distributed among these distances:
24 14 0.11
25 4 0.03
28 2 0.02
29 1 0.01
30 13 0.10
31 7 0.05
32 5 0.04
33 2 0.02
34 3 0.02
35 10 0.08
36 72 0.54
ACGTcount: A:0.29, C:0.38, G:0.13, T:0.20
Consensus pattern (36 bp):
AAGTCTCCTCCTCCCCCCAAAGAGACATACAAGTAC
Found at i:43866 original size:66 final size:66
Alignment explanation
Indices: 43796--44238 Score: 573
Period size: 66 Copynumber: 6.9 Consensus size: 66
43786 CAAAGAGACA
* * *
43796 TACAAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATATAAGTACAAGTCTCCACCTCCACCGGT
1 TACAAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGT
43861 T
66 T
43862 TACAAG------TCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGT
1 TACAAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGT
43921 T
66 T
* *
43922 TATAAATACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGT
1 TACAAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGT
43987 T
66 T
* *
43988 TACATGTACAAATCTCCTCCTCCTCCTCCCAAGGA---A-GC-A-TACAAGTCTCCACCTCCACC
1 TACAAGTACAAATCTCCTCCT-C-CC-CCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACC
* *
44047 GGTC
63 AGTT
* * * *
44051 TATAAGTACAAATCTCCTCCTCCCCCCAAGAAGGAATACAAGTACGAGTCTCCACCTCCACCAGT
1 TACAAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGT
44116 T
66 T
44117 TACAAGTACAAATCTCCTCC-CCCTCCCAAGGA-G---AC-A-TACAAGTCTCCACCTCCACCAG
1 TACAAGTACAAATCTCCTCCTCCC-CCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAG
44175 TT
65 TT
* * *
44177 TATAAGTACAAATCTCCTCCTCCCCCTAAGGAGTCATACAAGTACAAGTCTCCACCTCCACC
1 TACAAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACC
44239 TCCACCTCCT
Statistics
Matches: 331, Mismatches: 23, Indels: 46
0.83 0.06 0.12
Matches are distributed among these distances:
60 112 0.34
61 6 0.02
62 3 0.01
63 42 0.13
64 4 0.01
65 7 0.02
66 146 0.44
67 1 0.00
68 2 0.01
69 8 0.02
ACGTcount: A:0.29, C:0.38, G:0.12, T:0.21
Consensus pattern (66 bp):
TACAAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGT
T
Found at i:43896 original size:30 final size:30
Alignment explanation
Indices: 43802--43898 Score: 74
Period size: 30 Copynumber: 3.2 Consensus size: 30
43792 GACATACAAG
43802 TACAAGTCTCCTCCTCCCCCCAAGGAGGCA
1 TACAAGTCTCCTCCTCCCCCCAAGGAGGCA
* *** ** **
43832 TATAAGTACAAGT-CTCCACCTCC-A-CCGGTT
1 TACAAGT-CTCCTCCTCC-CC-CCAAGGAGGCA
43862 TACAAGTCTCCTCCTCCCCCCAAGGAGGCA
1 TACAAGTCTCCTCCTCCCCCCAAGGAGGCA
43892 TACAAGT
1 TACAAGT
43899 ACAAGTCTCC
Statistics
Matches: 45, Mismatches: 16, Indels: 12
0.62 0.22 0.16
Matches are distributed among these distances:
28 2 0.04
29 5 0.11
30 31 0.69
31 5 0.11
32 2 0.04
ACGTcount: A:0.26, C:0.38, G:0.15, T:0.21
Consensus pattern (30 bp):
TACAAGTCTCCTCCTCCCCCCAAGGAGGCA
Found at i:43938 original size:30 final size:30
Alignment explanation
Indices: 43898--44199 Score: 77
Period size: 30 Copynumber: 9.6 Consensus size: 30
43888 GGCATACAAG
*
43898 TACAAGTCTCCACCTCCACCAGTTTATAAA
1 TACAAATCTCCACCTCCACCAGTTTATAAA
* * ***
43928 TACAAATCTCCTCCTCCCCCCAAGGAGGCATACAA
1 TACAAATCTCCACCT-CCACC-A-G-TTTATA-AA
* * **
43963 GTACAAGTCTCCACCTCCACCAGTTTACATG
1 -TACAAATCTCCACCTCCACCAGTTTATAAA
* * ***** *
43994 TACAAATCTCCTCCTCCTCCTCCCAAGGAAGCA
1 TACAAATCTCCACCTCCACCAGTTTA-TAA--A
* * * *
44027 TACAAGTCTCCACCTCCACCGGTCTATAAG
1 TACAAATCTCCACCTCCACCAGTTTATAAA
* * ***
44057 TACAAATCTCCTCCTCCCCCCAAGAAGGAATACAA
1 TACAAATCTCCACCT-CCACC-AG--TTTATA-AA
* * * *
44092 GTACGAGTCTCCACCTCCACCAGTTTACAAG
1 -TACAAATCTCCACCTCCACCAGTTTATAAA
* * * * * *
44123 TACAAATCTCCTCCCCCTCCCAAG--GAGACA
1 TACAAATCTCCACCTCC-ACC-AGTTTATAAA
* *
44153 TACAAGTCTCCACCTCCACCAGTTTATAAG
1 TACAAATCTCCACCTCCACCAGTTTATAAA
*
44183 TACAAATCTCCTCCTCC
1 TACAAATCTCCACCTCC
44200 CCCTAAGGAG
Statistics
Matches: 182, Mismatches: 71, Indels: 38
0.63 0.24 0.13
Matches are distributed among these distances:
28 2 0.01
29 2 0.01
30 90 0.49
31 12 0.07
32 10 0.05
33 21 0.12
34 9 0.05
35 11 0.06
36 25 0.14
ACGTcount: A:0.29, C:0.38, G:0.10, T:0.22
Consensus pattern (30 bp):
TACAAATCTCCACCTCCACCAGTTTATAAA
Found at i:44070 original size:129 final size:126
Alignment explanation
Indices: 43799--44238 Score: 617
Period size: 126 Copynumber: 3.5 Consensus size: 126
43789 AGAGACATAC
* * *
43799 AAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATATAAGTACAAGTCTCCACCTCCACCGGTTTA
1 AAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTA
43864 CAAG------TCTCCTCCTCCC-CCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTT
66 CAAGTACAAATCTCCTCC-CCCTCCCAAGGA-G---AC-A-TACAAGTCTCCACCTCCACCAGTT
43922 TAT
124 TAT
*
43925 AAATACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTA
1 AAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTA
* * *
43990 CATGTACAAATCTCCTCCTCCTCCTCCCAAGGA-AGCATACAAGTCTCCACCTCCACCGGTCTAT
66 CAAGTACAAATCTCCT-C-CC-CCTCCCAAGGAGA-CATACAAGTCTCCACCTCCACCAGTTTAT
* * *
44054 AAGTACAAATCTCCTCCTCCCCCCAAGAAGGAATACAAGTACGAGTCTCCACCTCCACCAGTTTA
1 AAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTA
44119 CAAGTACAAATCTCCTCCCCCTCCCAAGGAGACATACAAGTCTCCACCTCCACCAGTTTAT
66 CAAGTACAAATCTCCTCCCCCTCCCAAGGAGACATACAAGTCTCCACCTCCACCAGTTTAT
* *
44180 AAGTACAAATCTCCTCCTCCCCCTAAGGAGTCATACAAGTACAAGTCTCCACCTCCACC
1 AAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACC
44239 TCCACCTCCT
Statistics
Matches: 283, Mismatches: 19, Indels: 24
0.87 0.06 0.07
Matches are distributed among these distances:
126 156 0.55
127 3 0.01
128 1 0.00
129 101 0.36
130 2 0.01
131 1 0.00
132 6 0.02
133 2 0.01
134 3 0.01
135 8 0.03
ACGTcount: A:0.29, C:0.38, G:0.12, T:0.21
Consensus pattern (126 bp):
AAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTA
CAAGTACAAATCTCCTCCCCCTCCCAAGGAGACATACAAGTCTCCACCTCCACCAGTTTAT
Found at i:44270 original size:84 final size:86
Alignment explanation
Indices: 44160--44325 Score: 246
Period size: 84 Copynumber: 1.9 Consensus size: 86
44150 ACATACAAGT
* *
44160 CTCCACCTCCACCAGTTTATAAGTACAAATCTCCTCCT-CCCCCTA-AGGAGTCATACAAGTACA
1 CTCCACCTCCACCAGTTTATAAGTACAAATCTCCTCCTCCCCCCAAGAGGAGGCATACAAGTACA
* *
44223 AGTCTCCACCTCCACCTCCAC
66 AATCTCCACCCCCACCTCCAC
* * *
44244 CTCCTCCTCCTCCAGTTTATAAGTACAAGTCTCCTCCTCCCCCCAAGGAGGAGGCATACAAGTAC
1 CTCCACCTCCACCAGTTTATAAGTACAAATCTCCTCCTCCCCCCAA-GAGGAGGCATACAAGTAC
44309 AAATCTCCACCCCCACC
65 AAATCTCCACCCCCACC
44326 CGTTTACAAG
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
84 35 0.49
85 6 0.08
87 31 0.43
ACGTcount: A:0.27, C:0.42, G:0.10, T:0.22
Consensus pattern (86 bp):
CTCCACCTCCACCAGTTTATAAGTACAAATCTCCTCCTCCCCCCAAGAGGAGGCATACAAGTACA
AATCTCCACCCCCACCTCCAC
Found at i:45168 original size:16 final size:16
Alignment explanation
Indices: 45147--45180 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45137 TAAAAGTTCA
*
45147 AATTTTATTTATGTAT
1 AATTTTATATATGTAT
*
45163 AATTTTATATATTTAT
1 AATTTTATATATGTAT
45179 AA
1 AA
45181 ATGTTTACCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
AATTTTATATATGTAT
Found at i:46209 original size:2 final size:2
Alignment explanation
Indices: 46202--46311 Score: 220
Period size: 2 Copynumber: 55.0 Consensus size: 2
46192 TTAGGGTTGG
46202 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46244 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46286 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
46312 GTTTTGTCTA
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 108 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48503 original size:27 final size:27
Alignment explanation
Indices: 48469--48539 Score: 128
Period size: 26 Copynumber: 2.7 Consensus size: 27
48459 TCGGTGGTTT
48469 AAATATAAATATATATTTTTTTATTAA
1 AAATATAAATATATATTTTTTTATTAA
48496 AAATATAAATATATA-TTTTTTATTAA
1 AAATATAAATATATATTTTTTTATTAA
48522 AAATATAAATATAT-TTTT
1 AAATATAAATATATATTTT
48540 ATATGTGTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
26 28 0.65
27 15 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
AAATATAAATATATATTTTTTTATTAA
Found at i:48884 original size:19 final size:18
Alignment explanation
Indices: 48852--48887 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
48842 TCTATTTCCT
*
48852 TTTATTTTTTTATTTTAA
1 TTTATTTTTATATTTTAA
48870 TTTAGTTTTTATATTTTA
1 TTTA-TTTTTATATTTTA
48888 TAATTATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTATTTTTATATTTTAA
Found at i:51608 original size:29 final size:29
Alignment explanation
Indices: 51563--51618 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
51553 ATTAGACCAC
* *
51563 TAACCGTTAAATTGTTAACGGCGATGACG
1 TAACCGTTAAATCGTTAACGACGATGACG
51592 TAACCGTTAAATCGTTAACGACGATGA
1 TAACCGTTAAATCGTTAACGACGATGA
51619 TGTGGCTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (29 bp):
TAACCGTTAAATCGTTAACGACGATGACG
Found at i:51815 original size:32 final size:32
Alignment explanation
Indices: 51776--51845 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
51766 CGATACAATG
*
51776 CCTAAAGTTTAGTGGTATCTAGTGTAGTTTAT
1 CCTAAAGTTTAGTGGTATCTAGTGTAGTTTAC
51808 CCTAAAGTTTAGTGGTATCTAGTGTAGTTTAC
1 CCTAAAGTTTAGTGGTATCTAGTGTAGTTTAC
51840 CCTAAA
1 CCTAAA
51846 TTTGATTATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (32 bp):
CCTAAAGTTTAGTGGTATCTAGTGTAGTTTAC
Found at i:53196 original size:24 final size:24
Alignment explanation
Indices: 53120--53231 Score: 102
Period size: 23 Copynumber: 4.8 Consensus size: 24
53110 CGAACACAAA
* * * *
53120 TAAACGAACATAAACGAACGGATG
1 TAAACGAACACAAATGAACGAACG
* * *
53144 TAAATGAACAC-AATAAAAGAACG
1 TAAACGAACACAAATGAACGAACG
*
53167 TTAACGAACACAAATGAACGAACG
1 TAAACGAACACAAATGAACGAACG
* * *
53191 TAAACGAACAC-AATAAATGAACA
1 TAAACGAACACAAATGAACGAACG
*
53214 TAAACGAACATAAATGAA
1 TAAACGAACACAAATGAA
53232 AATATATTTT
Statistics
Matches: 69, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
23 35 0.51
24 34 0.49
ACGTcount: A:0.56, C:0.16, G:0.14, T:0.13
Consensus pattern (24 bp):
TAAACGAACACAAATGAACGAACG
Found at i:53229 original size:47 final size:47
Alignment explanation
Indices: 53119--53231 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
53109 ACGAACACAA
* * * *
53119 ATAAACGAACATAAACGAACGGATGTAAATGAACACAATAAAAGAAC
1 ATAAACGAACATAAATGAACGAACGTAAACGAACACAATAAAAGAAC
* * * *
53166 GTTAACGAACACAAATGAACGAACGTAAACGAACACAATAAATGAAC
1 ATAAACGAACATAAATGAACGAACGTAAACGAACACAATAAAAGAAC
53213 ATAAACGAACATAAATGAA
1 ATAAACGAACATAAATGAA
53232 AATATATTTT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.57, C:0.16, G:0.14, T:0.13
Consensus pattern (47 bp):
ATAAACGAACATAAATGAACGAACGTAAACGAACACAATAAAAGAAC
Found at i:53420 original size:14 final size:14
Alignment explanation
Indices: 53401--53448 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
53391 TGAGCTAAAC
53401 ATAAACGAACGCAA
1 ATAAACGAACGCAA
53415 ATAAACGAA--C--
1 ATAAACGAACGCAA
53425 ATAAACGAACG-AA
1 ATAAACGAACGCAA
53438 TATAAACGAAC
1 -ATAAACGAAC
53449 ATAAATGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
10 9 0.31
12 1 0.03
14 19 0.66
ACGTcount: A:0.58, C:0.19, G:0.12, T:0.10
Consensus pattern (14 bp):
ATAAACGAACGCAA
Found at i:53430 original size:24 final size:24
Alignment explanation
Indices: 53398--53467 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
53388 GATTGAGCTA
53398 AACATAAACGAACGCAA-ATAAACG
1 AACATAAACGAACG-AATATAAACG
53422 AACATAAACGAACGAATATAAACG
1 AACATAAACGAACGAATATAAACG
* * *
53446 AACATAAATGAATGAACATAAA
1 AACATAAACGAACGAATATAAA
53468 TGAATGAACA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
23 2 0.05
24 40 0.95
ACGTcount: A:0.60, C:0.16, G:0.11, T:0.13
Consensus pattern (24 bp):
AACATAAACGAACGAATATAAACG
Found at i:53462 original size:14 final size:14
Alignment explanation
Indices: 53445--53479 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
53435 GAATATAAAC
53445 GAACATAAATGAAT
1 GAACATAAATGAAT
53459 GAACATAAATGAAT
1 GAACATAAATGAAT
53473 GAACATA
1 GAACATA
53480 TTACCGAACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.57, C:0.09, G:0.14, T:0.20
Consensus pattern (14 bp):
GAACATAAATGAAT
Found at i:54714 original size:11 final size:11
Alignment explanation
Indices: 54698--54726 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
54688 TTAAATAATC
54698 AAATCTTAGCA
1 AAATCTTAGCA
54709 AAATCTTAGCA
1 AAATCTTAGCA
54720 AAATCTT
1 AAATCTT
54727 TAAATTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (11 bp):
AAATCTTAGCA
Found at i:57125 original size:29 final size:29
Alignment explanation
Indices: 57070--57126 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
57060 ATTAGATCAC
* *
57070 TAACCGTTAAATCGTTAACATCGATGACA
1 TAACCGTTAAATCGTTAACAGCAATGACA
*
57099 TAACCGTTAAATCGTTAACGGCAATGAC
1 TAACCGTTAAATCGTTAACAGCAATGAC
57127 GTGGCTGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (29 bp):
TAACCGTTAAATCGTTAACAGCAATGACA
Found at i:57322 original size:32 final size:32
Alignment explanation
Indices: 57283--57357 Score: 114
Period size: 32 Copynumber: 2.3 Consensus size: 32
57273 AGATACAATG
*
57283 CCTAAAGTTTAATGGTATCTAGTGTAGTTTAT
1 CCTAAAGTTTAATGGTATCTAGTGTAGTTTAC
**
57315 CCTAAAGTTTGGTGGTATCTAGTGTAGTTTAC
1 CCTAAAGTTTAATGGTATCTAGTGTAGTTTAC
*
57347 CCTAAATTTTA
1 CCTAAAGTTTA
57358 TTATAAATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.43
Consensus pattern (32 bp):
CCTAAAGTTTAATGGTATCTAGTGTAGTTTAC
Found at i:57852 original size:21 final size:23
Alignment explanation
Indices: 57828--57871 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
57818 TAAAAAAAGG
*
57828 TAAGC-TACCA-AAATACAGAGA
1 TAAGCGTACCATAAAGACAGAGA
57849 TAAGCGTACCATAAAGACAGAGA
1 TAAGCGTACCATAAAGACAGAGA
57872 ACATGTCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 5 0.25
23 10 0.50
ACGTcount: A:0.50, C:0.18, G:0.18, T:0.14
Consensus pattern (23 bp):
TAAGCGTACCATAAAGACAGAGA
Found at i:58660 original size:14 final size:14
Alignment explanation
Indices: 58612--58650 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
58602 CATTTAAATG
58612 ATAAACGAACACAA
1 ATAAACGAACACAA
58626 ATAAACGAACACAA
1 ATAAACGAACACAA
58640 ATAAACGAACA
1 ATAAACGAACA
58651 TAAACGAACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.64, C:0.21, G:0.08, T:0.08
Consensus pattern (14 bp):
ATAAACGAACACAA
Found at i:58697 original size:23 final size:23
Alignment explanation
Indices: 58664--58744 Score: 92
Period size: 23 Copynumber: 3.5 Consensus size: 23
58654 ACGAACGGAT
*
58664 GTAAATGAACACAATAAAAGAAC
1 GTAAACGAACACAATAAAAGAAC
* *
58687 GTTAACGAACACAA-ACGAACGAAC
1 GTAAACGAACACAATA--AAAGAAC
*
58711 GTAAACGAACACAATAAATGAAC
1 GTAAACGAACACAATAAAAGAAC
*
58734 ATAAACGAACA
1 GTAAACGAACA
58745 TAAATGAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
22 1 0.02
23 28 0.57
24 19 0.39
25 1 0.02
ACGTcount: A:0.57, C:0.19, G:0.14, T:0.11
Consensus pattern (23 bp):
GTAAACGAACACAATAAAAGAAC
Found at i:58722 original size:24 final size:24
Alignment explanation
Indices: 58641--58724 Score: 91
Period size: 24 Copynumber: 3.5 Consensus size: 24
58631 CGAACACAAA
* * *
58641 TAAACGAACATAAACGAACGGATG
1 TAAACGAACACAAACGAACGAACG
* *
58665 TAAATGAACACAATA--AAAGAACG
1 TAAACGAACACAA-ACGAACGAACG
*
58688 TTAACGAACACAAACGAACGAACG
1 TAAACGAACACAAACGAACGAACG
58712 TAAACGAACACAA
1 TAAACGAACACAA
58725 TAAATGAACA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
22 1 0.02
23 16 0.33
24 30 0.62
25 1 0.02
ACGTcount: A:0.55, C:0.19, G:0.15, T:0.11
Consensus pattern (24 bp):
TAAACGAACACAAACGAACGAACG
Found at i:58941 original size:14 final size:14
Alignment explanation
Indices: 58922--58969 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
58912 TGAGCTAAAC
58922 ATAAACGAACGCAA
1 ATAAACGAACGCAA
58936 ATAAACGAA--C--
1 ATAAACGAACGCAA
58946 ATAAACGAACG-AA
1 ATAAACGAACGCAA
58959 TATAAACGAAC
1 -ATAAACGAAC
58970 ATAAATGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
10 9 0.31
12 1 0.03
14 19 0.66
ACGTcount: A:0.58, C:0.19, G:0.12, T:0.10
Consensus pattern (14 bp):
ATAAACGAACGCAA
Found at i:58951 original size:24 final size:24
Alignment explanation
Indices: 58919--58974 Score: 96
Period size: 24 Copynumber: 2.3 Consensus size: 24
58909 GATTGAGCTA
58919 AACATAAACGAACGCAA-ATAAACG
1 AACATAAACGAACG-AATATAAACG
58943 AACATAAACGAACGAATATAAACG
1 AACATAAACGAACGAATATAAACG
58967 AACATAAA
1 AACATAAA
58975 TGAATGAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 2 0.06
24 29 0.94
ACGTcount: A:0.61, C:0.18, G:0.11, T:0.11
Consensus pattern (24 bp):
AACATAAACGAACGAATATAAACG
Found at i:60839 original size:18 final size:18
Alignment explanation
Indices: 60816--60858 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
60806 TTATTTAATA
*
60816 TGTCAAAATTAAATTTAT
1 TGTCAAAAATAAATTTAT
60834 TGTCAAAAATAAATTTAT
1 TGTCAAAAATAAATTTAT
60852 TGTCAAA
1 TGTCAAA
60859 CGATCATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (18 bp):
TGTCAAAAATAAATTTAT
Found at i:61388 original size:17 final size:17
Alignment explanation
Indices: 61368--61426 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
61358 TATATTATTT
*
61368 ATTTATTTTGATAATCA
1 ATTTATTTTAATAATCA
* * **
61385 ATTTATTTTTAT-TTTT
1 ATTTATTTTAATAATCA
*
61401 ATTTATTTTAATAACCA
1 ATTTATTTTAATAATCA
61418 ATTTATTTT
1 ATTTATTTT
61427 TATTTTTTGA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
16 12 0.38
17 20 0.62
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (17 bp):
ATTTATTTTAATAATCA
Found at i:61407 original size:33 final size:33
Alignment explanation
Indices: 61355--61433 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
61345 CAAAACACTA
* * *
61355 ATTTATATTATTTATTTATTTTGATAATCAATTT
1 ATTTTTATT-TTTATTTATTTTAATAACCAATTT
61389 ATTTTTATTTTTATTTATTTTAATAACCAATTT
1 ATTTTTATTTTTATTTATTTTAATAACCAATTT
61422 ATTTTTATTTTT
1 ATTTTTATTTTT
61434 TGAGAAAGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 34 0.81
34 8 0.19
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (33 bp):
ATTTTTATTTTTATTTATTTTAATAACCAATTT
Found at i:62335 original size:36 final size:36
Alignment explanation
Indices: 62295--62506 Score: 136
Period size: 36 Copynumber: 6.4 Consensus size: 36
62285 CCCTGTTTAT
*
62295 AAGTCTCCTCCTCCTCCCAAAGAGACATACAAGTAC
1 AAGTCTCCTCCTCCCCCCAAAGAGACATACAAGTAC
* * *
62331 AAGTCTCCTCCTCCCCCCAAGGAGGCATATAAGTAC
1 AAGTCTCCTCCTCCCCCCAAAGAGACATACAAGTAC
* * *
62367 AAGTCTCCACCT-CCACC---G-G---T----TTAC
1 AAGTCTCCTCCTCCCCCCAAAGAGACATACAAGTAC
* *
62391 AAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTAC
1 AAGTCTCCTCCTCCCCCCAAAGAGACATACAAGTAC
* * ***
62427 AAGTCTCCACCT-CCACC--AG-TTTATA-AA-TAC
1 AAGTCTCCTCCTCCCCCCAAAGAGACATACAAGTAC
* * *
62457 AAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTAC
1 AAGTCTCCTCCTCCCCCCAAAGAGACATACAAGTAC
*
62493 AAGTCTCCACCTCC
1 AAGTCTCCTCCTCC
62507 ACCAGTTTAC
Statistics
Matches: 133, Mismatches: 25, Indels: 36
0.69 0.13 0.19
Matches are distributed among these distances:
24 14 0.11
25 4 0.03
28 2 0.02
29 1 0.01
30 13 0.10
31 7 0.05
32 5 0.04
33 2 0.02
34 3 0.02
35 10 0.08
36 72 0.54
ACGTcount: A:0.29, C:0.38, G:0.13, T:0.20
Consensus pattern (36 bp):
AAGTCTCCTCCTCCCCCCAAAGAGACATACAAGTAC
Found at i:62392 original size:66 final size:66
Alignment explanation
Indices: 62322--62902 Score: 698
Period size: 66 Copynumber: 8.9 Consensus size: 66
62312 CAAAGAGACA
* * *
62322 TACAAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATATAAGTACAAGTCTCCACCTCCACCGGT
1 TACAAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGT
62387 T
66 T
62388 TACAAG------TCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGT
1 TACAAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGT
62447 T
66 T
* *
62448 TATAAATACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGT
1 TACAAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGT
62513 T
66 T
* *
62514 TACATGTACAAATCTCCTCCTCCTCCTCCCAAGGA---A-GC-A-TACAAGTCTCCACCTCCACC
1 TACAAGTACAAATCTCCTCCT-C-CC-CCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACC
* *
62573 GGTC
63 AGTT
* * * *
62577 TATAAGTACAAATCTCCTCCTCCCCCCAAGAAGGAATACAAGTACGAGTCTCCACCTCCACCAGT
1 TACAAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGT
62642 T
66 T
62643 TACAAGTACAAATCTCCTCC-CCCTCCCAAGGA-G---AC-A-TACAAGTCTCCACCTCCACCAG
1 TACAAGTACAAATCTCCTCCTCCC-CCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAG
62701 TT
65 TT
* * *
62703 TATAAGTACAAATCTCCTCCTCCCCCTAAGGAGGCATACAAGTACAAGTCTCCACCTCCTCCAGT
1 TACAAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGT
62768 T
66 T
*** *
62769 TACAAGTACAAATCTCCTCC-CCCTCCCAAGGAGATGTACAAGTACAAGTCTCCACCTCCTCCTC
1 TACAAGTACAAATCTCCTCCTCCC-CCCAAGGAGGCATACAAGTACAAGTCTCCA---CCTCC-A
62833 CTACAGTT
61 C--CAGTT
* * * * *
62841 TACAAGTACAACTCTCCTCCTCCTCCTAAGGAGCCATATAAGTACAAGTCTCCACCTCCACC
1 TACAAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACC
62903 TCCTCCTCCT
Statistics
Matches: 447, Mismatches: 37, Indels: 62
0.82 0.07 0.11
Matches are distributed among these distances:
60 112 0.25
61 7 0.02
62 3 0.01
63 42 0.09
64 4 0.01
65 10 0.02
66 195 0.44
67 1 0.00
68 3 0.01
69 18 0.04
70 1 0.00
72 49 0.11
73 2 0.00
ACGTcount: A:0.29, C:0.38, G:0.12, T:0.22
Consensus pattern (66 bp):
TACAAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGT
T
Found at i:62422 original size:30 final size:30
Alignment explanation
Indices: 62328--62424 Score: 74
Period size: 30 Copynumber: 3.2 Consensus size: 30
62318 GACATACAAG
62328 TACAAGTCTCCTCCTCCCCCCAAGGAGGCA
1 TACAAGTCTCCTCCTCCCCCCAAGGAGGCA
* *** ** **
62358 TATAAGTACAAGT-CTCCACCTCC-A-CCGGTT
1 TACAAGT-CTCCTCCTCC-CC-CCAAGGAGGCA
62388 TACAAGTCTCCTCCTCCCCCCAAGGAGGCA
1 TACAAGTCTCCTCCTCCCCCCAAGGAGGCA
62418 TACAAGT
1 TACAAGT
62425 ACAAGTCTCC
Statistics
Matches: 45, Mismatches: 16, Indels: 12
0.62 0.22 0.16
Matches are distributed among these distances:
28 2 0.04
29 5 0.11
30 31 0.69
31 5 0.11
32 2 0.04
ACGTcount: A:0.26, C:0.38, G:0.15, T:0.21
Consensus pattern (30 bp):
TACAAGTCTCCTCCTCCCCCCAAGGAGGCA
Found at i:62464 original size:126 final size:124
Alignment explanation
Indices: 62325--62902 Score: 673
Period size: 126 Copynumber: 4.5 Consensus size: 124
62315 AGAGACATAC
* * *
62325 AAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATATAAGTACAAGTCTCCACCTCCACCGGTTTA
1 AAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTA
62390 CAAGT-C-TCCTCCT-CCC-CCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTAT
66 CAAGTACAT-CTCCTCCCCTCCCAAGGA-G-A-AC-A-TACAAGTCTCCACCTCCACCAGTTTAT
*
62451 AAATACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTA
1 AAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTA
* * * *
62516 CATGTACAAATCTCCTCCTCCTCCTCCCAAGGA-AGCATACAAGTCTCCACCTCCACCGGTCTAT
66 CAAGTAC--A--T-CTCCTCC-CCTCCCAAGGAGAACATACAAGTCTCCACCTCCACCAGTTTAT
* * *
62580 AAGTACAAATCTCCTCCTCCCCCCAAGAAGGAATACAAGTACGAGTCTCCACCTCCACCAGTTTA
1 AAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTA
62645 CAAGTACAAATCTCCTCCCCCTCCCAAGGAG-ACATACAAGTCTCCACCTCCACCAGTTTAT
66 CAAGTAC--ATCTCCT-CCCCTCCCAAGGAGAACATACAAGTCTCCACCTCCACCAGTTTAT
* *
62706 AAGTACAAATCTCCTCCTCCCCCTAAGGAGGCATACAAGTACAAGTCTCCACCTCCTCCAGTTTA
1 AAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTA
*
62771 CAAGTACAAATCTCCTCCCCCTCCCAAGGAGATGTACAAGTACAAGTCTCCACCTCCTCCTCCTA
66 CAAGTAC--ATCTCCT-CCCCTCCCAAGGAGA---AC-A-TACAAGTCTCCA---CCTCC-AC--
*
62836 CAGTTTAC
117 CAGTTTAT
* * * * *
62844 AAGTACAACTCTCCTCCTCCTCCTAAGGAGCCATATAAGTACAAGTCTCCACCTCCACC
1 AAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACC
62903 TCCTCCTCCT
Statistics
Matches: 401, Mismatches: 28, Indels: 34
0.87 0.06 0.07
Matches are distributed among these distances:
126 199 0.50
127 4 0.01
129 95 0.24
130 3 0.01
131 2 0.00
132 20 0.05
133 1 0.00
134 2 0.00
135 13 0.03
136 1 0.00
138 61 0.15
ACGTcount: A:0.29, C:0.38, G:0.12, T:0.22
Consensus pattern (124 bp):
AAGTACAAATCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTA
CAAGTACATCTCCTCCCCTCCCAAGGAGAACATACAAGTCTCCACCTCCACCAGTTTAT
Found at i:62755 original size:36 final size:36
Alignment explanation
Indices: 62706--62899 Score: 145
Period size: 36 Copynumber: 5.6 Consensus size: 36
62696 ACCAGTTTAT
* * *
62706 AAGTACAAATCTCCTCCTCCCCCTAAGGAGGCATAC
1 AAGTACAAGTCTCCTCCTCCTCCTAAGGAGGTATAC
* *
62742 AAGTACAAGTCTCCACCTCCTCC-----A-GTTTAC
1 AAGTACAAGTCTCCTCCTCCTCCTAAGGAGGTATAC
* * * * *
62772 AAGTACAAATCTCCTCCCCCTCCCAAGGAGATGTAC
1 AAGTACAAGTCTCCTCCTCCTCCTAAGGAGGTATAC
* *
62808 AAGTACAAGTCTCCACCTCCTCCTCCT-A-CA-GTTTAC
1 AAGTACAAGTCT---CCTCCTCCTCCTAAGGAGGTATAC
* ** *
62844 AAGTACAACTCTCCTCCTCCTCCTAAGGAGCCATAT
1 AAGTACAAGTCTCCTCCTCCTCCTAAGGAGGTATAC
*
62880 AAGTACAAGTCTCCACCTCC
1 AAGTACAAGTCTCCTCCTCC
62900 ACCTCCTCCT
Statistics
Matches: 122, Mismatches: 24, Indels: 24
0.72 0.14 0.14
Matches are distributed among these distances:
30 24 0.20
31 1 0.01
33 12 0.10
34 1 0.01
35 2 0.02
36 70 0.57
37 1 0.01
38 1 0.01
39 10 0.08
ACGTcount: A:0.28, C:0.37, G:0.11, T:0.23
Consensus pattern (36 bp):
AAGTACAAGTCTCCTCCTCCTCCTAAGGAGGTATAC
Found at i:62775 original size:30 final size:30
Alignment explanation
Indices: 62418--62866 Score: 137
Period size: 30 Copynumber: 13.9 Consensus size: 30
62408 CAAGGAGGCA
*
62418 TACAAGTACAAGTCTCCACCTCCACCAGTT
1 TACAAGTACAAGTCTCCACCTCCTCCAGTT
* * * * * **
62448 TATAAATACAAATCTCCTCCTCCCCCCAAGGAGGCA
1 TACAAGTACAAGTCTCCACCT-CCTCC----A-GTT
*
62484 TACAAGTACAAGTCTCCACCTCCACCAGTT
1 TACAAGTACAAGTCTCCACCTCCTCCAGTT
* * * ****
62514 TACATGTACAAATCTCCTCCTCCTCCTCCC
1 TACAAGTACAAGTCTCCACCTCCTCCAGTT
* * * * *
62544 AAGGAAGCATACAAGTCTCCACCTCCACCGGTC
1 TA-CAAG--TACAAGTCTCCACCTCCTCCAGTT
* * * * **
62577 TATAAGTACAAATCTCCTCCTCCCCCCAAGAAGGAA
1 TACAAGTACAAGTCTCCACCT-CCTCC----A-GTT
* *
62613 TACAAGTACGAGTCTCCACCTCCACCAGTT
1 TACAAGTACAAGTCTCCACCTCCTCCAGTT
* * * **
62643 TACAAGTACAAATCTCCTCCCCCTCCCAAGGA
1 TACAAGTACAAGTCTCCACCTCCT-CC-AGTT
* *
62675 GAC-A-TACAAGTCTCCACCTCCACCAGTT
1 TACAAGTACAAGTCTCCACCTCCTCCAGTT
* * * * **
62703 TATAAGTACAAATCTCCTCCTCCCCCTAAGGAGGCA
1 TACAAGTACAAGTCTCCACCTCCTCC-----A-GTT
62739 TACAAGTACAAGTCTCCACCTCCTCCAGTT
1 TACAAGTACAAGTCTCCACCTCCTCCAGTT
* * * *
62769 TACAAGTACAAATCTCCTCCCCCTCCCAAGGAGATG
1 TACAAGTACAAGTCTCCACCTCCT-CC----AG-TT
62805 TACAAGTACAAGTCTCCACCTCCTCCTCCTACAGTT
1 TACAAGTACAAGTCTCCA---CCTCCT-C--CAGTT
* *
62841 TACAAGTACAACTCTCCTCCTCCTCC
1 TACAAGTACAAGTCTCCACCTCCTCC
62867 TAAGGAGCCA
Statistics
Matches: 300, Mismatches: 83, Indels: 72
0.66 0.18 0.16
Matches are distributed among these distances:
28 3 0.01
29 3 0.01
30 128 0.43
31 18 0.06
32 8 0.03
33 25 0.08
35 12 0.04
36 93 0.31
37 2 0.01
39 7 0.02
41 1 0.00
ACGTcount: A:0.29, C:0.38, G:0.11, T:0.22
Consensus pattern (30 bp):
TACAAGTACAAGTCTCCACCTCCTCCAGTT
Found at i:63782 original size:16 final size:16
Alignment explanation
Indices: 63761--63794 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
63751 TAAAAGTTCA
*
63761 AATTTTATTTATGTAT
1 AATTTTATATATGTAT
*
63777 AATTTTATATATTTAT
1 AATTTTATATATGTAT
63793 AA
1 AA
63795 ATGTTTACCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
AATTTTATATATGTAT
Found at i:70351 original size:2 final size:2
Alignment explanation
Indices: 70344--70388 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
70334 TACTTACCTC
70344 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70386 AT A
1 AT A
70389 ATTTATAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:70453 original size:19 final size:18
Alignment explanation
Indices: 70421--70456 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
70411 TCTATTTCCT
*
70421 TTTATTTTTTTATTTTAA
1 TTTATTTTTATATTTTAA
70439 TTTAGTTTTTATATTTTA
1 TTTA-TTTTTATATTTTA
70457 TAATTATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTATTTTTATATTTTAA
Found at i:71454 original size:16 final size:15
Alignment explanation
Indices: 71421--71464 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
71411 AATTCAAATA
71421 TTAATTAATATTTAATT
1 TTAATTAATA--TAATT
71438 TTAATTTAATATAATT
1 TTAA-TTAATATAATT
*
71454 TTTATTAATAT
1 TTAATTAATAT
71465 CTTTCATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 7 0.28
16 8 0.32
17 4 0.16
18 6 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTAATTAATATAATT
Found at i:72252 original size:66 final size:67
Alignment explanation
Indices: 72184--73365 Score: 503
Period size: 66 Copynumber: 17.7 Consensus size: 67
72174 GACCTATAAA
* * *
72184 TACAAGTCTCCTCCTCCTCCTAAGGAGACATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGA
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGGAGGA
72249 A-
66 AG
* * * ** ** *
72250 TACAAGTATAAATCTCCACCT-CC-A-CCGGTTTACAAGTACAAGTCCCCTCCTCCCCCCAAGGA
1 TACAAGTCT---CCTCCTCCTCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGGA
72312 GGCATATAAG
63 GG-----AAG
* * * * *
72322 TACAAGTCTCCTCCTCCTCCCAAGGAGGAATACAAGTACAAGTCCCCACCT-CCACC-AGTTTA-
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAG--GAG
*
72384 CAAG
64 GAAG
* *
72388 TACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGGAGGC
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGGAGG-
72453 ATACAAG
65 ----AAG
* * ** * *
72460 TACAAGTCTCCACCTCC-ACC----A-GTTTACAAGTATAAGTCCCCTCCTCCCCCCAAGGAGGC
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGGAGG-
72519 ATACAAG
65 ----AAG
* * * *
72526 TACAAGTCTCCTCCTCCTCCCAAGGAGGAATACAAGTACAAGTCTCCACCT-CCACC-AGTTTA-
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAG--GAG
*
72588 CAAG
64 GAAG
* * *
72592 TACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAA-T-T-CTCCTCCTCCCAAGGAGGA
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGGAGGA
72654 A-
66 AG
* ** ** *
72655 TACAAGTACAAGT-CTCCACCT-CC-ACCA-GTTTACAAGTACAAGTCCCCTCCTCCCCCCAAGG
1 TACAAGT-C---TCCTCCTCCTCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGG
72716 AGGCATACAAG
62 AGG-----AAG
* * * * *
72727 TACAAGTCTCCTCCTCCCCCCAAGGAGGTATACAAGTACAAGTCTCCACCT-CCACC-AGTTTA-
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAG--GAG
*
72789 CAAG
64 GAAG
* *
72793 TATAAGTCTCCTCCTCC-CTCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCC-------
1 TACAAGTCTCCTCCTCCTC-CCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGGAGG
72850 AAG
65 AAG
** * ** ** * *
72853 T-C--CCCTCCTCC-CC-CCAAGAAGGCATACA-AGTA-CA-A-GTCTCCTCCTCCTCCCAA-GA
1 TACAAGTCTCCTCCTCCTCC--CAAGG-AGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGGA
72908 GGAA-
63 GGAAG
*** * ** ** * *
72912 TACAAGTACAAGT-CTCCACTCC-ACCA-GTTTACAAGTACAAGTCCCCTCCTCCCCCCATGGAG
1 TACAAGT-CTCCTCCTCCTC-CCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGGAG
72974 GCATACAAG
64 G-----AAG
* * * *
72983 TACAAGTCTCCTCCTCCTCCCAAGGAGGAATACAAGTACAAGTCTCCACCT-CCACC-AGTTTA-
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAG--GAG
*
73045 CAAG
64 GAAG
* * *
73049 TACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGA
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGGAGGA
73114 A-
66 AG
* ** ** *
73115 TACAAGTACAAGT-CTCCACCT-CC-ACCA-GTTTACAAGTACAAGTCCCCTCCTCCCCCCAAGG
1 TACAAGT-C---TCCTCCTCCTCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGG
73176 AGGCATACAAG
62 AGG-----AAG
* * * *
73187 TACAAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCT-CCACC-AGTTTA-
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAG--GAG
*
73249 CAAG
64 GAAG
* * * * * *
73253 TATAAGTCCCCTCCTCC-CCCGAAGGAGGTATACAAGTACAAGTCTCCACCT-CCTCC-AGTTTA
1 TACAAGTCTCCTCCTCCTCCC-AAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAG--GA
*
73315 -TAAG
63 GGAAG
* * * * *
73319 TACATGTCTCCTCCACCTCCTAAGGAGGCATACAAATACAAATCTCC
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTACAAGTCTCC
73366 ACCCCCACCA
Statistics
Matches: 849, Mismatches: 160, Indels: 214
0.69 0.13 0.17
Matches are distributed among these distances:
54 16 0.02
55 2 0.00
56 4 0.00
57 13 0.02
58 3 0.00
59 1 0.00
60 7 0.01
61 3 0.00
62 3 0.00
63 29 0.03
64 26 0.03
65 14 0.02
66 448 0.53
67 21 0.02
68 9 0.01
69 32 0.04
70 21 0.02
71 50 0.06
72 147 0.17
ACGTcount: A:0.29, C:0.37, G:0.14, T:0.20
Consensus pattern (67 bp):
TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGGAGGA
AG
Found at i:72290 original size:102 final size:102
Alignment explanation
Indices: 72184--72852 Score: 1164
Period size: 102 Copynumber: 6.6 Consensus size: 102
72174 GACCTATAAA
* * * *
72184 TACAAGTCTCCTCCTCCTCCTAAGGAGACATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGA
1 TACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGA
* * *
72249 ATACAAGTATAAATCTCCACCTCCACCGGTTTACAAG
66 ATACAAGTACAAGTCTCCACCTCCACCAGTTTACAAG
*
72286 TACAAGTCCCCTCCTCCCCCCAAGGAGGCATATAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGA
1 TACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGA
*
72351 ATACAAGTACAAGTCCCCACCTCCACCAGTTTACAAG
66 ATACAAGTACAAGTCTCCACCTCCACCAGTTTACAAG
* *
72388 TACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGGAGGC
1 TACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGA
72453 ATACAAGTACAAGTCTCCACCTCCACCAGTTTACAAG
66 ATACAAGTACAAGTCTCCACCTCCACCAGTTTACAAG
*
72490 TATAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGA
1 TACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGA
72555 ATACAAGTACAAGTCTCCACCTCCACCAGTTTACAAG
66 ATACAAGTACAAGTCTCCACCTCCACCAGTTTACAAG
72592 TACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAA-T-T-CTCCTCCTCCCAAGGAGGA
1 TACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGA
72654 ATACAAGTACAAGTCTCCACCTCCACCAGTTTACAAG
66 ATACAAGTACAAGTCTCCACCTCCACCAGTTTACAAG
* *
72691 TACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGGAGGT
1 TACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGA
72756 ATACAAGTACAAGTCTCCACCTCCACCAGTTTACAAG
66 ATACAAGTACAAGTCTCCACCTCCACCAGTTTACAAG
* * *
72793 TATAAGTCTCCTCCTCCCTCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAAG
1 TACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAAG
72853 TCCCCTCCTC
Statistics
Matches: 541, Mismatches: 23, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
99 97 0.18
100 2 0.00
101 2 0.00
102 440 0.81
ACGTcount: A:0.29, C:0.37, G:0.14, T:0.20
Consensus pattern (102 bp):
TACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGA
ATACAAGTACAAGTCTCCACCTCCACCAGTTTACAAG
Found at i:72852 original size:18 final size:18
Alignment explanation
Indices: 72831--72870 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
72821 CATACAAGTA
* *
72831 CAAGTCTCCTCCTCCTCC
1 CAAGTCCCCTCCTCCCCC
72849 CAAGTCCCCTCCTCCCCC
1 CAAGTCCCCTCCTCCCCC
72867 CAAG
1 CAAG
72871 AAGGCATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.57, G:0.07, T:0.20
Consensus pattern (18 bp):
CAAGTCCCCTCCTCCCCC
Found at i:72852 original size:36 final size:36
Alignment explanation
Indices: 72148--73365 Score: 845
Period size: 36 Copynumber: 35.3 Consensus size: 36
72138 AACCCCTGTT
* * * * * *
72148 TACAAGTCTCCTCCTTCTCCTAAGGAGACCTATAAA
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
* *
72184 TACAAGTCTCCTCCTCCTCCTAAGGAGACATACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
*
72220 TACAAGTCTCCTCCTCCTCCCAAGGAGGAATACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
* * * * **
72256 TATAAATCTCCACCTCC-ACC-----GGTTTACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
* * *
72286 TACAAGTCCCCTCCTCCCCCCAAGGAGGCATATAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
*
72322 TACAAGTCTCCTCCTCCTCCCAAGGAGGAATACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
* ** **
72358 TACAAG--TCC-CCACCT-CC-ACCA-GTTTACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
* *
72388 TACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
*
72424 TACAAGTCTCCTCCTCCCCCCAAGGAGGCATACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
* * **
72460 TACAAGTCTCCACCTCC-ACC----A-GTTTACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
* * *
72490 TATAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
*
72526 TACAAGTCTCCTCCTCCTCCCAAGGAGGAATACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
* * **
72562 TACAAGTCTCCACCTCC-ACC----A-GTTTACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
* *
72592 TACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
*
72628 TACAA-T-T-CTCCTCCTCCCAAGGAGGAATACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
* * **
72661 TACAAGTCTCCACCTCC-ACC----A-GTTTACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
* *
72691 TACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
* *
72727 TACAAGTCTCCTCCTCCCCCCAAGGAGGTATACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
* * **
72763 TACAAGTCTCCACCTCC-ACC----A-GTTTACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
*
72793 TATAAGTCTCCTCCTCC-CTCCAAGGAGGCATACAAG
1 TACAAGTCTCCTCCTCCTC-CCAAGGAGGCATACAAG
**** * *
72829 TACAAGTCTCCTCCTCCTCCCAAGTCCCCTCCTCCCCCCAAGAAGG
1 TACAAGTCTCCTCCTCCTCCCAAG--GAGGCAT-------ACAA-G
*
72875 CATACAAGTACAAGTCTCCTCCTCCTCCCAA-GAGGAATACAAG
1 --TACAAGT------CTCCTCCTCCTCCCAAGGAGGCATACAAG
* * **
72918 TACAAGTCTCC-ACTCC-ACC----A-GTTTACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
* * *
72947 TACAAGTCCCCTCCTCCCCCCATGGAGGCATACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
*
72983 TACAAGTCTCCTCCTCCTCCCAAGGAGGAATACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
* * **
73019 TACAAGTCTCCACCTCC-ACC----A-GTTTACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
* *
73049 TACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
*
73085 TACAAGTCTCCTCCTCCTCCCAAGGAGGAATACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
* * **
73121 TACAAGTCTCCACCTCC-ACC----A-GTTTACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
* *
73151 TACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
*
73187 TACAAGTCTCCTCCTCCCCCCAAGGAGGCATACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
* * **
73223 TACAAGTCTCCACCTCC-ACC----A-GTTTACAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
* * *
73253 TATAAGTCCCCTCCTCC-CCCGAAGGAGGTATACAAG
1 TACAAGTCTCCTCCTCCTCCC-AAGGAGGCATACAAG
* ** *
73289 TACAAGTCTCCACCTCCT-CC----A-GTTTATAAG
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
* * * *
73319 TACATGTCTCCTCCACCTCCTAAGGAGGCATACAAA
1 TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
*
73355 TACAAATCTCC
1 TACAAGTCTCC
73366 ACCCCCACCA
Statistics
Matches: 936, Mismatches: 156, Indels: 180
0.74 0.12 0.14
Matches are distributed among these distances:
29 17 0.02
30 216 0.23
31 27 0.03
32 4 0.00
33 40 0.04
34 10 0.01
35 33 0.04
36 547 0.58
37 1 0.00
38 2 0.00
41 7 0.01
43 1 0.00
44 3 0.00
45 3 0.00
46 1 0.00
48 7 0.01
51 1 0.00
54 16 0.02
ACGTcount: A:0.29, C:0.37, G:0.14, T:0.20
Consensus pattern (36 bp):
TACAAGTCTCCTCCTCCTCCCAAGGAGGCATACAAG
Found at i:72878 original size:54 final size:54
Alignment explanation
Indices: 72796--72906 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 54
72786 TTACAAGTAT
* * *
72796 AAGTCTCCTCCTCCCTCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCC
1 AAGTCCCCTCCTCCCCCCAAGAAGGCATACAAGTACAAGTCTCCTCCTCCTCCC
72850 AAGTCCCCTCCTCCCCCCAAGAAGGCATACAAGTACAAGTCTCCTCCTCCTCCC
1 AAGTCCCCTCCTCCCCCCAAGAAGGCATACAAGTACAAGTCTCCTCCTCCTCCC
72904 AAG
1 AAG
72907 AGGAATACAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.24, C:0.43, G:0.13, T:0.20
Consensus pattern (54 bp):
AAGTCCCCTCCTCCCCCCAAGAAGGCATACAAGTACAAGTCTCCTCCTCCTCCC
Found at i:72992 original size:154 final size:156
Alignment explanation
Indices: 72693--73308 Score: 577
Period size: 138 Copynumber: 4.0 Consensus size: 156
72683 TTTACAAGTA
* *
72693 CAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGGAGGTAT
1 CAAGTCCCCTCCTCCCCCCAAGAAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGGAGGAAT
* * *
72758 ACAAGTACAAGTCTCCACCTCCACCAGTTTACAAGTATAAGTCTCCTCCTCCCTCCAAGGAGGCA
66 ACAAGTACAAGTCTCCACCTCCACCAGTTTACAAGTACAAGTCCCCTCCTCCCCCCAAGGAGGCA
72823 TACAAGTACAAGTCTCCTCCTCCTCC
131 TACAAGTACAAGTCTCCTCCTCCTCC
*
72849 CAAGTCCCCTCCTCCCCCCAAGAAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAA-GAGGAAT
1 CAAGTCCCCTCCTCCCCCCAAGAAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGGAGGAAT
*
72913 ACAAGTACAAGTCTCCA-CTCCACCAGTTTACAAGTACAAGTCCCCTCCTCCCCCCATGGAGGCA
66 ACAAGTACAAGTCTCCACCTCCACCAGTTTACAAGTACAAGTCCCCTCCTCCCCCCAAGGAGGCA
72977 TACAAGTACAAGTCTCCTCCTCCTCC
131 TACAAGTACAAGTCTCCTCCTCCTCC
*** ** ** *
73003 CAAGGAGGAATACAAGTACAAGTCTCCACCTCC-ACCA-GTTTACAAGTACAAGTCCCCTCCTCC
1 C-A--A-G--T-CCCCT-C----CTCC-CC-CCAAGAAGGCATACAAGTACAAGTCTCCTCCTCC
* * * ** *
73066 CCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGAATACAAGTACAAGTCTC
52 CCCCAAGGAGGAATACAAGTACAAGTCTCCACCTCC-ACC----A-GTTTACAAGTACAAGTCCC
* * **
73131 CACCT-CCACC----A-GTTTACAAGTACAA---------------
111 CTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCC
* *
73156 ---GTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCAT
1 CAAGTCCCCTCCTCCCCCCAAGAAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGGAGGAAT
* * *
73218 ACAAGTACAAGTCTCCACCTCCACCAGTTTACAAGTATAAGTCCCCTCCTCCCCCGAAGGAGGTA
66 ACAAGTACAAGTCTCCACCTCCACCAGTTTACAAGTACAAGTCCCCTCCTCCCCCCAAGGAGGCA
*
73283 TACAAGTACAAGTCTCCACCTCCTCC
131 TACAAGTACAAGTCTCCTCCTCCTCC
73309 AGTTTATAAG
Statistics
Matches: 371, Mismatches: 44, Indels: 93
0.73 0.09 0.18
Matches are distributed among these distances:
132 19 0.05
133 4 0.01
136 2 0.01
137 7 0.02
138 75 0.20
142 1 0.00
143 2 0.01
144 1 0.00
146 1 0.00
154 70 0.19
155 24 0.06
156 55 0.15
157 1 0.00
158 1 0.00
160 1 0.00
161 2 0.01
162 1 0.00
166 32 0.09
167 26 0.07
168 18 0.05
169 3 0.01
173 5 0.01
174 20 0.05
ACGTcount: A:0.28, C:0.38, G:0.14, T:0.19
Consensus pattern (156 bp):
CAAGTCCCCTCCTCCCCCCAAGAAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGGAGGAAT
ACAAGTACAAGTCTCCACCTCCACCAGTTTACAAGTACAAGTCCCCTCCTCCCCCCAAGGAGGCA
TACAAGTACAAGTCTCCTCCTCCTCC
Found at i:73068 original size:102 final size:102
Alignment explanation
Indices: 72849--73308 Score: 834
Period size: 102 Copynumber: 4.5 Consensus size: 102
72839 CTCCTCCTCC
*
72849 CAAGTCCCCTCCTCCCCCCAAGAAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAA-GAGGAAT
1 CAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGAAT
72913 ACAAGTACAAGTCTCCA-CTCCACCAGTTTACAAGTA
66 ACAAGTACAAGTCTCCACCTCCACCAGTTTACAAGTA
*
72949 CAAGTCCCCTCCTCCCCCCATGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGAAT
1 CAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGAAT
73014 ACAAGTACAAGTCTCCACCTCCACCAGTTTACAAGTA
66 ACAAGTACAAGTCTCCACCTCCACCAGTTTACAAGTA
73051 CAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGAAT
1 CAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGAAT
73116 ACAAGTACAAGTCTCCACCTCCACCAGTTTACAAGTA
66 ACAAGTACAAGTCTCCACCTCCACCAGTTTACAAGTA
* *
73153 CAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCAT
1 CAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGAAT
73218 ACAAGTACAAGTCTCCACCTCCACCAGTTTACAAGTA
66 ACAAGTACAAGTCTCCACCTCCACCAGTTTACAAGTA
* * * *
73255 TAAGTCCCCTCCTCCCCCGAAGGAGGTATACAAGTACAAGTCTCCACCTCCTCC
1 CAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCC
73309 AGTTTATAAG
Statistics
Matches: 348, Mismatches: 10, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
100 55 0.16
101 24 0.07
102 269 0.77
ACGTcount: A:0.29, C:0.38, G:0.14, T:0.19
Consensus pattern (102 bp):
CAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAAGGAGGAAT
ACAAGTACAAGTCTCCACCTCCACCAGTTTACAAGTA
Found at i:73366 original size:66 final size:66
Alignment explanation
Indices: 72319--73398 Score: 749
Period size: 66 Copynumber: 16.3 Consensus size: 66
72309 GGAGGCATAT
* * *
72319 AAGTACAAGTCTCCTCCTCCTCCCAAGGAGGAATACAAGTACAAGTCCCCACCTCCACCAGTTTA
1 AAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTA
72384 C
66 C
* * *
72385 AAGTACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCCCCCAAGGA
1 AAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCT-CCACC----A
**
72450 GGCATAC
61 -GTTTAC
* * ** * * * *
72457 AAGTACAAGTCTCCACCT-CCACC----A-GTTTACAAGTATAAGTCCCCTCCTCCCCCCAAGGA
1 AAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCT-CCACC----A
**
72516 GGCATAC
61 -GTTTAC
* *
72523 AAGTACAAGTCTCCTCCTCCTCCCAAGGAGGAATACAAGTACAAGTCTCCACCTCCACCAGTTTA
1 AAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTA
72588 C
66 C
* * * ** *
72589 AAGTACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAATTCTCCTCCTCCCAAGGAGGA
1 AAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCT-CC-ACCA-GT
*
72654 ATAC
63 TTAC
* * ** * * *
72658 AAGTACAAGTCTCCACCT-CCACC----A-GTTTACAAGTACAAGTCCCCTCCTCCCCCCAAGGA
1 AAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCT-CCACC----A
**
72717 GGCATAC
61 -GTTTAC
*
72724 AAGTACAAGTCTCCTCCTCCCCCCAAGGAGGTATACAAGTACAAGTCTCCACCTCCACCAGTTTA
1 AAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTA
72789 C
66 C
* * * *
72790 AAGTATAAGTCTCCTCCTCCCTCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCC------
1 AAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTA
72849 C
66 C
* * *
72850 AAGT-C----C-CCTCCTCCCCCCAAGAAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAAGAG
1 AAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCC-ACC---A-
**
72909 GAATAC
61 GTTTAC
* * ** * * *
72915 AAGTACAAGTCTCC-ACT-CCACC----A-GTTTACAAGTACAAGTCCCCTCCTCCCCCCATGGA
1 AAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCT-CCACC----A
**
72973 GGCATAC
61 -GTTTAC
* *
72980 AAGTACAAGTCTCCTCCTCCTCCCAAGGAGGAATACAAGTACAAGTCTCCACCTCCACCAGTTTA
1 AAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTA
73045 C
66 C
* * *
73046 AAGTACAAGTCCCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCTCCTCCTCCCAAGGA
1 AAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCC-ACC----A
**
73111 GGAATAC
61 -GTTTAC
* * ** * * *
73118 AAGTACAAGTCTCCACCT-CCACC----A-GTTTACAAGTACAAGTCCCCTCCTCCCCCCAAGGA
1 AAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCT-CCACC----A
**
73177 GGCATAC
61 -GTTTAC
73184 AAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTA
1 AAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTA
73249 C
66 C
* * * * *
73250 AAGTATAAGTCCCCTCCTCCCCCGAAGGAGGTATACAAGTACAAGTCTCCACCTCCTCCAGTTTA
1 AAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTA
*
73315 T
66 C
* * * * * * *
73316 AAGTACATGTCTCCTCCACCTCCTAAGGAGGCATACAAATACAAATCTCCACCCCCACCAGTTTA
1 AAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTA
73381 C
66 C
73382 AAGTACAAGTCTCCTCC
1 AAGTACAAGTCTCCTCC
73399 CCCACCACCA
Statistics
Matches: 827, Mismatches: 123, Indels: 128
0.77 0.11 0.12
Matches are distributed among these distances:
54 42 0.05
55 3 0.00
60 5 0.01
63 23 0.03
64 25 0.03
65 30 0.04
66 484 0.59
67 30 0.04
68 6 0.01
69 24 0.03
70 3 0.00
71 32 0.04
72 120 0.15
ACGTcount: A:0.29, C:0.37, G:0.14, T:0.20
Consensus pattern (66 bp):
AAGTACAAGTCTCCTCCTCCCCCCAAGGAGGCATACAAGTACAAGTCTCCACCTCCACCAGTTTA
C
Found at i:76192 original size:17 final size:17
Alignment explanation
Indices: 76170--76218 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
76160 AACGTTTGAA
76170 TTATATTATATAAACAT
1 TTATATTATATAAACAT
* **
76187 TTATATGTTTATAAATTT
1 TTATAT-TATATAAACAT
*
76205 TTATTTTATATAAA
1 TTATATTATATAAA
76219 TTCTTATCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
TTATATTATATAAACAT
Found at i:78415 original size:29 final size:30
Alignment explanation
Indices: 78360--78417 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
78350 AGAAAATATC
*
78360 TCATTTAACGATTCAATTGTAACTAAAATT
1 TCATTTAACCATTCAATTGTAACTAAAATT
* * *
78390 TCATTTTACCATT-AATTTTAATTAAAAT
1 TCATTTAACCATTCAATTGTAACTAAAAT
78418 AAATTCTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (30 bp):
TCATTTAACCATTCAATTGTAACTAAAATT
Found at i:80094 original size:20 final size:20
Alignment explanation
Indices: 80065--80135 Score: 133
Period size: 20 Copynumber: 3.5 Consensus size: 20
80055 TGACTGTAGG
80065 GTATCGATACTACAAATAGA
1 GTATCGATACTACAAATAGA
*
80085 GTATCCATACTACAAATAGA
1 GTATCGATACTACAAATAGA
80105 GTATCGATACTACAAATAGA
1 GTATCGATACTACAAATAGA
80125 GTATCGATACT
1 GTATCGATACT
80136 GCTCATTTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (20 bp):
GTATCGATACTACAAATAGA
Found at i:81483 original size:28 final size:28
Alignment explanation
Indices: 81407--81531 Score: 111
Period size: 28 Copynumber: 4.6 Consensus size: 28
81397 TGTATATTAT
* *
81407 TCCATAC-AGAACAGACCGGGGAACAAA
1 TCCATACTAGAATAGATCGGGGAACAAA
* * * *
81434 TCC--AC-AAAACATATCGAGGAACAAA
1 TCCATACTAGAATAGATCGGGGAACAAA
81459 TACCATACTA-AATAGATCGGGGAACAAA
1 T-CCATACTAGAATAGATCGGGGAACAAA
*
81487 TCCTATA-TAGAATAGATCGGGGGACAAA
1 TCC-ATACTAGAATAGATCGGGGAACAAA
81515 TCCCATAC-AGAATAGAT
1 T-CCATACTAGAATAGAT
81532 TAGGAACACA
Statistics
Matches: 82, Mismatches: 8, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
25 19 0.23
26 2 0.02
27 7 0.09
28 51 0.62
29 3 0.04
ACGTcount: A:0.45, C:0.21, G:0.18, T:0.16
Consensus pattern (28 bp):
TCCATACTAGAATAGATCGGGGAACAAA
Found at i:81529 original size:56 final size:53
Alignment explanation
Indices: 81408--81531 Score: 133
Period size: 56 Copynumber: 2.3 Consensus size: 53
81398 GTATATTATT
* * *
81408 CCATACAGAACAGACCGGGGAACAAATCCACAAAACATATCGAGGAACAAATA
1 CCATACAGAATAGATCGGGGAACAAATCCACAAAACAGATCGAGGAACAAATA
* * * * *
81461 CCATACTA-AATAGATCGGGGAACAAATCCTATATAGAATAGATCGGGGGACAAATC
1 CCATAC-AGAATAGATCGGGGAACAAATCC-ACA-A-AACAGATCGAGGAACAAATA
81517 CCATACAGAATAGAT
1 CCATACAGAATAGAT
81532 TAGGAACACA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
53 25 0.43
54 3 0.05
55 2 0.03
56 28 0.48
ACGTcount: A:0.45, C:0.21, G:0.19, T:0.15
Consensus pattern (53 bp):
CCATACAGAATAGATCGGGGAACAAATCCACAAAACAGATCGAGGAACAAATA
Found at i:82215 original size:13 final size:13
Alignment explanation
Indices: 82197--82224 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
82187 GTTTTCAGAA
82197 AAAGTCAACGGTC
1 AAAGTCAACGGTC
82210 AAAGTCAACGGTC
1 AAAGTCAACGGTC
82223 AA
1 AA
82225 CAGTTAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (13 bp):
AAAGTCAACGGTC
Found at i:84991 original size:17 final size:17
Alignment explanation
Indices: 84969--85003 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
84959 CTTAAATCAC
84969 TTGTTTATATAGTACAA
1 TTGTTTATATAGTACAA
84986 TTGTTTATATAGTACAA
1 TTGTTTATATAGTACAA
85003 T
1 T
85004 AAGAAAGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (17 bp):
TTGTTTATATAGTACAA
Found at i:85262 original size:16 final size:17
Alignment explanation
Indices: 85229--85264 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
85219 AACCTTGCTT
85229 AATTTTTCTCTTATTGA
1 AATTTTTCTCTTATTGA
85246 AATTTTTCTCTTA-TGA
1 AATTTTTCTCTTATTGA
85262 AAT
1 AAT
85265 GACAATCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.28, C:0.11, G:0.06, T:0.56
Consensus pattern (17 bp):
AATTTTTCTCTTATTGA
Done.